Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 118 of 208
Found at i:35854613 original size:24 final size:24
Alignment explanation
Indices: 35854550--35854613 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
35854540 GCAACAGCAA
*
35854550 CAGCAGCAGCAGCAGCAACTCTCC
1 CAGCTGCAGCAGCAGCAACTCTCC
* *
35854574 CAGCTGCAACAACAGCAGA-TGC-CC
1 CAGCTGCAGCAGCAGCA-ACT-CTCC
*
35854598 CAGTTGCAGCAGCAGC
1 CAGCTGCAGCAGCAGC
35854614 CACAGCTTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
24 30 0.94
25 2 0.06
ACGTcount: A:0.30, C:0.38, G:0.23, T:0.09
Consensus pattern (24 bp):
CAGCTGCAGCAGCAGCAACTCTCC
Found at i:35856896 original size:3 final size:3
Alignment explanation
Indices: 35856888--35856940 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
35856878 CTGTTACTAT
35856888 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35856936 TTA TT
1 TTA TT
35856941 TTGCCATATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:35857639 original size:17 final size:17
Alignment explanation
Indices: 35857614--35857647 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35857604 TTTTATTTAA
35857614 AGATAATATTAAAATAT
1 AGATAATATTAAAATAT
* *
35857631 AGATGATATTAACATAT
1 AGATAATATTAAAATAT
35857648 TTTATGTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (17 bp):
AGATAATATTAAAATAT
Found at i:35860301 original size:3 final size:3
Alignment explanation
Indices: 35860293--35860323 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
35860283 GACTGTTGTG
35860293 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
35860324 GGATCATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:35862294 original size:15 final size:14
Alignment explanation
Indices: 35862266--35862292 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35862256 CAGGTGTCTT
35862266 TTTTTTAATATTTA
1 TTTTTTAATATTTA
35862280 TTTTTTAATATTT
1 TTTTTTAATATTT
35862293 TACAATACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:35862639 original size:3 final size:3
Alignment explanation
Indices: 35862631--35862696 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
35862621 TAGGGTTAGT
*
35862631 GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
35862679 GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA
35862697 AAATGGAGAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:35863074 original size:36 final size:36
Alignment explanation
Indices: 35863055--35863137 Score: 139
Period size: 36 Copynumber: 2.3 Consensus size: 36
35863045 GTAATATTGT
35863055 TGCTGGTATATTGTTGCTTATGTTGTTATACATGGG
1 TGCTGGTATATTGTTGCTTATGTTGTTATACATGGG
* *
35863091 TGCTGGTATATTGTTGCTTATATTGTTATACATGGC
1 TGCTGGTATATTGTTGCTTATGTTGTTATACATGGG
*
35863127 TGATGGTATAT
1 TGCTGGTATAT
35863138 ATGGCTAACC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.47
Consensus pattern (36 bp):
TGCTGGTATATTGTTGCTTATGTTGTTATACATGGG
Found at i:35864609 original size:27 final size:26
Alignment explanation
Indices: 35864580--35864677 Score: 85
Period size: 26 Copynumber: 3.7 Consensus size: 26
35864570 ACACCTACCT
35864580 AAAAAA-AGTCACTACATGCATATTATTAAA
1 AAAAAATAGTCACTACATGC--A-TATT--A
* *
35864610 AAAAAATACTCACTGCATGCATATTA
1 AAAAAATAGTCACTACATGCATATTA
* *
35864636 AAAAAA-AGTCAACAACATGTATATTA
1 AAAAAATAGTC-ACTACATGCATATTA
35864662 AAAAAATAGTCA-TACA
1 AAAAAATAGTCACTACA
35864678 CACCAACAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
25 6 0.10
26 26 0.45
27 4 0.07
28 4 0.07
29 1 0.02
30 6 0.10
31 11 0.19
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.24
Consensus pattern (26 bp):
AAAAAATAGTCACTACATGCATATTA
Found at i:35864623 original size:31 final size:28
Alignment explanation
Indices: 35864580--35864642 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 28
35864570 ACACCTACCT
*
35864580 AAAAAAAGTCACTACATGCATATTATTAAA
1 AAAAAAACTCACTACATGCATATTA--AAA
*
35864610 AAAAAATACTCACTGCATGCATATTAAAA
1 AAAAAA-ACTCACTACATGCATATTAAAA
35864639 AAAA
1 AAAA
35864643 GTCAACAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 7 0.23
30 6 0.20
31 17 0.57
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.24
Consensus pattern (28 bp):
AAAAAAACTCACTACATGCATATTAAAA
Found at i:35864724 original size:96 final size:97
Alignment explanation
Indices: 35864588--35864809 Score: 349
Period size: 96 Copynumber: 2.3 Consensus size: 97
35864578 CTAAAAAAAG
*
35864588 TCACTACATGCATATTATTAAAAAAAAATACTCACTGCATGCATATTAAAAAAAAGTCAACAACA
1 TCACTGCATGCATATTATT---AAAAAATACTCACTGCATGCATATTAAAAAAAAGTCAACAACA
*
35864653 TGTATATT-AAAAAAATAGTCATACACACCAACAA
63 TGTATATTAAAAAAAACAGTCATACACACCAACAA
* *
35864687 TCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAGAAATAGTCAACAACATGT
1 TCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAAAAGTCAACAACATGT
*
35864752 ATATTAAAAAAAACAGTCATACACACTAACAA
66 ATATTAAAAAAAACAGTCATACACACCAACAA
*
35864784 TCACTGCATGCATATTA-AAAAAAATA
1 TCACTGCATGCATATTATTAAAAAATA
35864810 GTCATAGACA
Statistics
Matches: 116, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
96 57 0.49
97 41 0.35
99 18 0.16
ACGTcount: A:0.50, C:0.18, G:0.07, T:0.25
Consensus pattern (97 bp):
TCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAAAAGTCAACAACATGT
ATATTAAAAAAAACAGTCATACACACCAACAA
Found at i:35864737 original size:25 final size:27
Alignment explanation
Indices: 35864687--35864738 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
35864677 ACACCAACAA
35864687 TCACTGCATGCATATTATTAAAAAATAC
1 TCACTGCATGCA-ATTATTAAAAAATAC
*
35864715 TCACTGCATGC-A-TATTAAGAAATA
1 TCACTGCATGCAATTATTAAAAAATA
35864739 GTCAACAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 1 0.04
28 11 0.48
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (27 bp):
TCACTGCATGCAATTATTAAAAAATAC
Found at i:35866746 original size:61 final size:61
Alignment explanation
Indices: 35866670--35866804 Score: 225
Period size: 61 Copynumber: 2.2 Consensus size: 61
35866660 CATTTCTATA
* * *
35866670 AGACAATAACTAATACAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGC
1 AGACAATAACCAATACAAAATAATTTAATACAAACACAACCATTTCTGTCAAGCACATGAC
*
35866731 AGACAATAACCAATACAAAGTAATTTAATACAAACACAACCATTTCTGTCAAGCACATGAC
1 AGACAATAACCAATACAAAATAATTTAATACAAACACAACCATTTCTGTCAAGCACATGAC
*
35866792 AAACAATAACCAA
1 AGACAATAACCAA
35866805 ACACTTTAAC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 69 1.00
ACGTcount: A:0.49, C:0.22, G:0.07, T:0.21
Consensus pattern (61 bp):
AGACAATAACCAATACAAAATAATTTAATACAAACACAACCATTTCTGTCAAGCACATGAC
Found at i:35867112 original size:6 final size:6
Alignment explanation
Indices: 35867103--35867190 Score: 79
Period size: 6 Copynumber: 14.7 Consensus size: 6
35867093 AATAAAACCA
* * * * *
35867103 AAATTG AAATCA AAATCG AAATCG AAATCA AAATTG AAATCA AAATCG
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
* * * *
35867151 AAATCG AAATCA AAATC- AGAATCA AAATCA AAATTG AAAT
1 AAATCG AAATCG AAATCG A-AATCG AAATCG AAATCG AAAT
35867191 TTAAATAACC
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
5 1 0.01
6 66 0.97
7 1 0.01
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.20
Consensus pattern (6 bp):
AAATCG
Found at i:35867118 original size:12 final size:12
Alignment explanation
Indices: 35867109--35867258 Score: 97
Period size: 12 Copynumber: 12.3 Consensus size: 12
35867099 ACCAAAATTG
* *
35867109 AAATCAAAATCG
1 AAATCGAAATCA
35867121 AAATCGAAATCA
1 AAATCGAAATCA
*
35867133 AAATTGAAATCA
1 AAATCGAAATCA
*
35867145 AAATCGAAATCG
1 AAATCGAAATCA
*
35867157 AAATCAAAATCA
1 AAATCGAAATCA
* *
35867169 GAATCAAAATCA
1 AAATCGAAATCA
* **
35867181 AAATTGAAATTT
1 AAATCGAAATCA
**
35867193 AAAT--AACCCA
1 AAATCGAAATCA
* *
35867203 AAATAACCCTAAATCG
1 AAAT----CGAAATCA
*
35867219 AAATCAAAATCA
1 AAATCGAAATCA
35867231 AAATCGAAATCA
1 AAATCGAAATCA
* *
35867243 AAATTGAAATCG
1 AAATCGAAATCA
35867255 AAAT
1 AAAT
35867259 AACCAAAATA
Statistics
Matches: 107, Mismatches: 25, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
10 6 0.06
12 94 0.88
16 7 0.07
ACGTcount: A:0.57, C:0.15, G:0.07, T:0.20
Consensus pattern (12 bp):
AAATCGAAATCA
Found at i:35867124 original size:18 final size:18
Alignment explanation
Indices: 35867109--35867258 Score: 120
Period size: 18 Copynumber: 7.9 Consensus size: 18
35867099 ACCAAAATTG
*
35867109 AAATCAAAATCGAAATCG
1 AAATCAAAATCGAAATCA
*
35867127 AAATCAAAATTGAAATCA
1 AAATCAAAATCGAAATCA
*
35867145 AAATCGAAATCGAAATCA
1 AAATCAAAATCGAAATCA
* *
35867163 AAATCAGAATCAAAATCA
1 AAATCAAAATCGAAATCA
** **
35867181 AAATTGAAATTTAAATAACCCA
1 AAATCAAAATCGAAAT----CA
*
35867203 AAATAACCCTAAATCGAAATCA
1 AAAT----CAAAATCGAAATCA
35867225 AAATCAAAATCGAAATCA
1 AAATCAAAATCGAAATCA
**
35867243 AAATTGAAATCGAAAT
1 AAATCAAAATCGAAAT
35867259 AACCAAAATA
Statistics
Matches: 105, Mismatches: 19, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
18 85 0.81
22 12 0.11
26 8 0.08
ACGTcount: A:0.57, C:0.15, G:0.07, T:0.20
Consensus pattern (18 bp):
AAATCAAAATCGAAATCA
Found at i:35867135 original size:30 final size:30
Alignment explanation
Indices: 35867101--35867190 Score: 137
Period size: 30 Copynumber: 3.0 Consensus size: 30
35867091 CAAATAAAAC
35867101 CAAAATTGAAATCAAAATCGAAATCGAAAT
1 CAAAATTGAAATCAAAATCGAAATCGAAAT
35867131 CAAAATTGAAATCAAAATCGAAATCGAAAT
1 CAAAATTGAAATCAAAATCGAAATCGAAAT
* * *
35867161 CAAAA-TCAGAATCAAAATCAAAATTGAAAT
1 CAAAATTGA-AATCAAAATCGAAATCGAAAT
35867191 TTAAATAACC
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 2 0.04
30 54 0.96
ACGTcount: A:0.58, C:0.13, G:0.09, T:0.20
Consensus pattern (30 bp):
CAAAATTGAAATCAAAATCGAAATCGAAAT
Found at i:35867227 original size:62 final size:61
Alignment explanation
Indices: 35867151--35867283 Score: 203
Period size: 62 Copynumber: 2.2 Consensus size: 61
35867141 ATCAAAATCG
* ** *
35867151 AAATCGAAATCAAAATCAGAATCAAAATCAAAATTGAAATTTAAATAACCCAAAATAACCCT
1 AAATCGAAATCAAAATCAAAATCAAAATCAAAATTGAAATCGAAATAA-CCAAAATAACCCC
*
35867213 AAATCGAAATCAAAATCAAAATCGAAATCAAAATTGAAATCGAAATAACCAAAATAACCCC
1 AAATCGAAATCAAAATCAAAATCAAAATCAAAATTGAAATCGAAATAACCAAAATAACCCC
*
35867274 AAATCAAAAT
1 AAATCGAAAT
35867284 AACCCTAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
61 21 0.32
62 44 0.68
ACGTcount: A:0.58, C:0.18, G:0.05, T:0.19
Consensus pattern (61 bp):
AAATCGAAATCAAAATCAAAATCAAAATCAAAATTGAAATCGAAATAACCAAAATAACCCC
Found at i:35867252 original size:6 final size:6
Alignment explanation
Indices: 35867213--35867258 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
35867203 AAATAACCCT
* * * *
35867213 AAATCG AAATCA AAATCA AAATCG AAATCA AAATTG AAATCG AAAT
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAAT
35867259 AACCAAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.59, C:0.13, G:0.09, T:0.20
Consensus pattern (6 bp):
AAATCG
Found at i:35867283 original size:16 final size:16
Alignment explanation
Indices: 35867262--35867299 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
35867252 TCGAAATAAC
35867262 CAAAATAACCCCAAAT
1 CAAAATAACCCCAAAT
*
35867278 CAAAATAACCCTAAAT
1 CAAAATAACCCCAAAT
35867294 CTAAAA
1 C-AAAA
35867300 AATAAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (16 bp):
CAAAATAACCCCAAAT
Found at i:35867857 original size:30 final size:31
Alignment explanation
Indices: 35867788--35867858 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
35867778 AAACTGTTAA
* **
35867788 TTAGTGACTATTTTGTCACTTTTTTATAACG
1 TTAGTGACTGTTTTGTCACTTTTCGATAACG
35867819 TTAGTGACTGTTTTGTCACTTTTCGA-AA-G
1 TTAGTGACTGTTTTGTCACTTTTCGATAACG
35867848 TTGAGTGACTG
1 TT-AGTGACTG
35867859 AAATGAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.08
30 10 0.28
31 23 0.64
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.46
Consensus pattern (31 bp):
TTAGTGACTGTTTTGTCACTTTTCGATAACG
Found at i:35867986 original size:20 final size:19
Alignment explanation
Indices: 35867931--35867987 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
35867921 TTTACCCTTA
*
35867931 TAAAAATCATCAAAATTTAT
1 TAAAAATCAT-AAAATTAAT
*
35867951 T-AAAATTATTAGAAATTAAT
1 TAAAAATCA-TA-AAATTAAT
35867971 TAAAAAATCATAAAATT
1 T-AAAAATCATAAAATT
35867988 TTATAGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 7 0.23
20 15 0.50
21 2 0.07
22 6 0.20
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAAATCATAAAATTAAT
Found at i:35868012 original size:41 final size:41
Alignment explanation
Indices: 35867932--35868012 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
35867922 TTACCCTTAT
* * *
35867932 AAAAATCATCAAAATTTATTAAAATTATTAGAAATTAATTA
1 AAAAATCATCAAAATTTATTAAAATTATAAAAAAATAATTA
*
35867973 AAAAATCAT-AAAATTT-TATAGAATTTATAAAAAAATAATT
1 AAAAATCATCAAAATTTAT-TA-AAATTATAAAAAAATAATT
35868013 TATCAAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
39 1 0.03
40 9 0.26
41 24 0.71
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (41 bp):
AAAAATCATCAAAATTTATTAAAATTATAAAAAAATAATTA
Found at i:35868330 original size:9 final size:9
Alignment explanation
Indices: 35868273--35868388 Score: 65
Period size: 10 Copynumber: 12.1 Consensus size: 9
35868263 AATAAATTAT
35868273 TTTTTATAGA
1 TTTTTATA-A
35868283 TTTTTATAAA
1 TTTTTAT-AA
* *
35868293 ATTTTATGA
1 TTTTTATAA
*
35868302 TTTTTAATAT
1 TTTTT-ATAA
35868312 TTTTTAATAA
1 TTTTT-ATAA
35868322 TTTTTATAA
1 TTTTTATAA
**
35868331 AATTTA-AA
1 TTTTTATAA
35868339 GTTCTTTTATAA
1 --T-TTTTATAA
*
35868351 TTTTAATAA
1 TTTTTATAA
*
35868360 TTTTTTTTATA
1 -TTTTTATA-A
*
35868371 TTTTT-TAC
1 TTTTTATAA
35868379 TTTTTATAA
1 TTTTTATAA
35868388 T
1 T
35868389 CCAAGAATGT
Statistics
Matches: 82, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
8 7 0.09
9 25 0.30
10 42 0.51
11 6 0.07
12 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:35868365 original size:19 final size:19
Alignment explanation
Indices: 35868282--35868365 Score: 57
Period size: 19 Copynumber: 4.4 Consensus size: 19
35868272 TTTTTTATAG
* *
35868282 ATTTTTATAAAATTTT-ATG
1 ATTTTT-TATAATTTTAATA
* *
35868301 ATTTTTAATATTTTTTAATA
1 ATTTTTTATA-ATTTTAATA
*
35868321 A-TTTTTATAAAATTTAA-A
1 ATTTTTTAT-AATTTTAATA
*
35868339 GTTCTTTTATAATTTTAATA
1 ATT-TTTTATAATTTTAATA
35868359 ATTTTTT
1 ATTTTTT
35868366 TTATATTTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
18 3 0.06
19 33 0.67
20 13 0.27
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTTTTATAATTTTAATA
Found at i:35869365 original size:12 final size:12
Alignment explanation
Indices: 35869348--35869381 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
35869338 GTTAATAAAA
35869348 TTCTCTTTGAGT
1 TTCTCTTTGAGT
35869360 TTCTCTTTGAGT
1 TTCTCTTTGAGT
*
35869372 TTTTCTTTGA
1 TTCTCTTTGA
35869382 AGGAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.15, G:0.15, T:0.62
Consensus pattern (12 bp):
TTCTCTTTGAGT
Found at i:35871009 original size:13 final size:13
Alignment explanation
Indices: 35870991--35871015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35870981 CCGAAAGTGG
35870991 TAAAGTAAATAAA
1 TAAAGTAAATAAA
35871004 TAAAGTAAATAA
1 TAAAGTAAATAA
35871016 CAAATAAAGT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
TAAAGTAAATAAA
Found at i:35872432 original size:21 final size:20
Alignment explanation
Indices: 35872399--35872442 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
35872389 AAGACGAAAA
*
35872399 TTTAAAATTAAATTATTT-T
1 TTTAAAATTAAATAATTTAT
35872418 TTTATAAATTAAAATAATTTAT
1 TTTA-AAATT-AAATAATTTAT
35872440 TTT
1 TTT
35872443 GTCGTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 5 0.24
21 8 0.38
22 4 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTAAAATTAAATAATTTAT
Found at i:35878178 original size:18 final size:19
Alignment explanation
Indices: 35878149--35878185 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
35878139 GTAGTGCCTA
35878149 CTCTAGAACTTACTAAGTT
1 CTCTAGAACTTACTAAGTT
*
35878168 CTCTA-AACTTACTTAGTT
1 CTCTAGAACTTACTAAGTT
35878186 ACCTTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (19 bp):
CTCTAGAACTTACTAAGTT
Found at i:35879184 original size:4 final size:4
Alignment explanation
Indices: 35879175--35879207 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
35879165 TTCGAACTTC
*
35879175 AATT AATT AATT AATT AATT AATT AAAT AATT A
1 AATT AATT AATT AATT AATT AATT AATT AATT A
35879208 GTAATTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (4 bp):
AATT
Found at i:35881824 original size:57 final size:57
Alignment explanation
Indices: 35881737--35881850 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 57
35881727 AGAAATGGTA
* * * *
35881737 AAAATGGATAAATGAGAAACATTTGGAAATGAATGTGGTTTTCTTCAAAATGGAAATG
1 AAAATGGAGAAATGAGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAAT-GAAATG
35881795 AAAATGGAGAAATG-GAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATGAAATG
1 AAAATGGAGAAATGAGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATGAAATG
35881851 GTTTGGAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 6 0.12
57 33 0.63
58 13 0.25
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (57 bp):
AAAATGGAGAAATGAGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATGAAATG
Found at i:35887915 original size:54 final size:54
Alignment explanation
Indices: 35887857--35887960 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
35887847 TGACTCACTA
* *
35887857 ACTTGGGTCACACGGTCGTGTCGTAGGCCATGTGCCAGACCGTGTAACTCTCTG
1 ACTTGGGCCACACGGTCGTGTCGCAGGCCATGTGCCAGACCGTGTAACTCTCTG
* * * * *
35887911 ACTTGTGCCACATGGTTGTGTCGCAGGCCGTGTGCTAGACCGTGTAACTC
1 ACTTGGGCCACACGGTCGTGTCGCAGGCCATGTGCCAGACCGTGTAACTC
35887961 ATTGAGTTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (54 bp):
ACTTGGGCCACACGGTCGTGTCGCAGGCCATGTGCCAGACCGTGTAACTCTCTG
Found at i:35889603 original size:48 final size:48
Alignment explanation
Indices: 35889536--35889681 Score: 283
Period size: 48 Copynumber: 3.0 Consensus size: 48
35889526 TCATTTTAAC
35889536 TTAAACCCATGATAACTGATTCTTCCCTAAGCTTAAATAATATACATT
1 TTAAACCCATGATAACTGATTCTTCCCTAAGCTTAAATAATATACATT
35889584 TTAAACCCATGATAACTGATTCTTCCCTAAGCTTAAATAATATACATT
1 TTAAACCCATGATAACTGATTCTTCCCTAAGCTTAAATAATATACATT
*
35889632 GTAAACCCATGATAACTGATTCTTCCCTAAGCTTAAATAATATACATT
1 TTAAACCCATGATAACTGATTCTTCCCTAAGCTTAAATAATATACATT
35889680 TT
1 TT
35889682 TCTATTATTT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 96 1.00
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.36
Consensus pattern (48 bp):
TTAAACCCATGATAACTGATTCTTCCCTAAGCTTAAATAATATACATT
Found at i:35898228 original size:2 final size:2
Alignment explanation
Indices: 35898221--35898260 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
35898211 GTATGATCTG
35898221 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
35898261 TATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:35916476 original size:16 final size:15
Alignment explanation
Indices: 35916451--35916484 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
35916441 ACAGTTGATA
*
35916451 ATAATTAATATATATT
1 ATAATAAATATA-ATT
35916467 ATAATAAATATAATT
1 ATAATAAATATAATT
35916482 ATA
1 ATA
35916485 TACTAGCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:35920380 original size:42 final size:43
Alignment explanation
Indices: 35920303--35920448 Score: 140
Period size: 42 Copynumber: 3.4 Consensus size: 43
35920293 TCCTAGACGT
* *
35920303 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGACAG
* *
35920346 GGTCTTACACG-AATTCATATAT-GATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAA-TCAAATATCGATGCCAATGTCCCAGACAG
* * *
35920388 GGTCTTACATGTTAATCTCAA-GTCGATGCC-ATCGTCCCAGAC-G
1 GGTCTTACACG-TAATC-AAATATCGATGCCAAT-GTCCCAGACAG
*
35920431 TGGTCTTACACGAAATCA
1 -GGTCTTACACGTAATCA
35920449 CATACCGAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 15
0.76 0.11 0.14
Matches are distributed among these distances:
42 30 0.36
43 26 0.31
44 28 0.33
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGACAG
Found at i:35929525 original size:12 final size:12
Alignment explanation
Indices: 35929508--35929537 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35929498 TTAGGCAGTT
35929508 ACACGGCCTAGC
1 ACACGGCCTAGC
*
35929520 ACACGGCCTGGC
1 ACACGGCCTAGC
35929532 ACACGG
1 ACACGG
35929538 GTGTGTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:35935875 original size:26 final size:27
Alignment explanation
Indices: 35935842--35935904 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
35935832 ATAAAAAATA
35935842 ACCAAAATATTAT-AACTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTATTT
*
35935868 ACCAAAATATTATAAATTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTATTT
35935895 ACCAAAATAT
1 ACCAAAATAT
35935905 ACCAAAAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (27 bp):
ACCAAAATATTATAAACTTTTTTATTT
Found at i:35935973 original size:27 final size:27
Alignment explanation
Indices: 35935935--35936011 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
35935925 AAAAACTTAG
*
35935935 TGGCGTCACCAAAGGTGCCAAAGAGAT
1 TGGCGGCACCAAAGGTGCCAAAGAGAT
* * *
35935962 TGGCGGCACCAATGGTGCCAAATATAT
1 TGGCGGCACCAAAGGTGCCAAAGAGAT
35935989 TGGCGGCACCAATA-GTGCCAAAG
1 TGGCGGCACCAA-AGGTGCCAAAG
35936012 GACTAAAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.17
Consensus pattern (27 bp):
TGGCGGCACCAAAGGTGCCAAAGAGAT
Found at i:35936605 original size:18 final size:18
Alignment explanation
Indices: 35936584--35936644 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 18
35936574 AGTAATAACT
35936584 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
** ** *
35936602 CTATTCAAGAAGTAATAACT
1 CTATTTTA-ATTTAATAA-A
35936622 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
*
35936640 TTATT
1 CTATT
35936645 CTCATCAAAT
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
18 10 0.33
19 14 0.47
20 6 0.20
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:35936664 original size:45 final size:44
Alignment explanation
Indices: 35936614--35936742 Score: 194
Period size: 40 Copynumber: 3.0 Consensus size: 44
35936604 ATTCAAGAAG
35936614 TAATAACTCTATTTTAATTTAATAAATTATTCTCATCAAATTACT
1 TAATAACTCTATTTTAATTTAATAAA-TATTCTCATCAAATTACT
* *
35936659 TAATAACTCCATTTTAATTTAAT--ACA--CTCATCAAATTACT
1 TAATAACTCTATTTTAATTTAATAAATATTCTCATCAAATTACT
35936699 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTAC
1 TAATAACTCTATTTTAATTTAATAAA-TATTCTCATCAAATTAC
35936743 CAAAAGAGAG
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
40 36 0.48
42 2 0.03
43 2 0.03
45 35 0.47
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.43
Consensus pattern (44 bp):
TAATAACTCTATTTTAATTTAATAAATATTCTCATCAAATTACT
Found at i:35936677 original size:22 final size:22
Alignment explanation
Indices: 35936652--35936717 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 22
35936642 ATTCTCATCA
35936652 AATTACTTAATAACTCCATTTT
1 AATTACTTAATAACTCCATTTT
**
35936674 AA-T--TTAATACACT-CA-TCA
1 AATTACTTAATA-ACTCCATTTT
*
35936692 AATTACTTAATAACTCTATTTT
1 AATTACTTAATAACTCCATTTT
35936714 AATT
1 AATT
35936718 TAATAAACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
18 3 0.09
19 9 0.27
20 6 0.18
21 8 0.24
22 7 0.21
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTACTTAATAACTCCATTTT
Found at i:35936689 original size:40 final size:40
Alignment explanation
Indices: 35936576--35936726 Score: 184
Period size: 40 Copynumber: 3.7 Consensus size: 40
35936566 TCTAATTAAG
*
35936576 TAATAACTCTATTTTAATTTAATAAACT-ATTCAAGA--A-G
1 TAATAACTCTATTTTAATTTAATAAACTCA-TCAA-ATTACT
35936614 TAATAACTCTATTTTAATTTAATAAATTATTCTCATCAAATTACT
1 TAATAACTCTATTTTAATTTAAT-AA--A--CTCATCAAATTACT
* *
35936659 TAATAACTCCATTTTAATTTAATACACTCATCAAATTACT
1 TAATAACTCTATTTTAATTTAATAAACTCATCAAATTACT
35936699 TAATAACTCTATTTTAATTTAATAAACT
1 TAATAACTCTATTTTAATTTAATAAACT
35936727 ATTCTCATCA
Statistics
Matches: 99, Mismatches: 5, Indels: 16
0.82 0.04 0.13
Matches are distributed among these distances:
38 23 0.23
39 2 0.02
40 40 0.40
41 1 0.01
42 2 0.02
43 6 0.06
44 3 0.03
45 22 0.22
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.43
Consensus pattern (40 bp):
TAATAACTCTATTTTAATTTAATAAACTCATCAAATTACT
Found at i:35936730 original size:85 final size:83
Alignment explanation
Indices: 35936576--35936742 Score: 248
Period size: 85 Copynumber: 2.0 Consensus size: 83
35936566 TCTAATTAAG
* *
35936576 TAATAACTCTATTTTAATTTAATAAACTATTCAAGAAGTAATAACTCTATTTTAATTTAATAAAT
1 TAATAACTCCATTTTAATTTAATAAACTATTCAAGAAGTAATAACTCTATTTTAATTTAATAAAC
35936641 TATTCTCATCAAATTACT
66 TATTCTCATCAAATTACT
* *
35936659 TAATAACTCCATTTTAATTTAATACACTCA-TCAA-ATTACTTAATAACTCTATTTTAATTTAAT
1 TAATAACTCCATTTTAATTTAATAAACT-ATTCAAGA--A-GTAATAACTCTATTTTAATTTAAT
35936722 AAACTATTCTCATCAAATTAC
62 AAACTATTCTCATCAAATTAC
35936743 CAAAAGAGAG
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
82 1 0.01
83 30 0.39
84 2 0.03
85 43 0.57
ACGTcount: A:0.41, C:0.15, G:0.01, T:0.43
Consensus pattern (83 bp):
TAATAACTCCATTTTAATTTAATAAACTATTCAAGAAGTAATAACTCTATTTTAATTTAATAAAC
TATTCTCATCAAATTACT
Found at i:35936769 original size:15 final size:15
Alignment explanation
Indices: 35936749--35936797 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
35936739 TTACCAAAAG
35936749 AGAGTTTATTAAATT
1 AGAGTTTATTAAATT
*
35936764 AGAGTTTATTAAATG
1 AGAGTTTATTAAATT
35936779 AGAATAGTTTATTAAATT
1 AG---AGTTTATTAAATT
35936797 A
1 A
35936798 AAATAGAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 16 0.55
18 13 0.45
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (15 bp):
AGAGTTTATTAAATT
Found at i:35936802 original size:18 final size:18
Alignment explanation
Indices: 35936766--35936803 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
35936756 ATTAAATTAG
*
35936766 AGTTTATTAAATGAGAAT
1 AGTTTATTAAATGAAAAT
*
35936784 AGTTTATTAAATTAAAAT
1 AGTTTATTAAATGAAAAT
35936802 AG
1 AG
35936804 AGTTATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.39
Consensus pattern (18 bp):
AGTTTATTAAATGAAAAT
Found at i:35937493 original size:26 final size:28
Alignment explanation
Indices: 35937463--35937526 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
35937453 TTTTTTTAGT
35937463 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
35937489 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
35937517 ATATTTTGGT
1 ATATTTTGGT
35937527 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 14 0.39
27 7 0.19
28 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:35942127 original size:22 final size:22
Alignment explanation
Indices: 35942102--35942143 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
35942092 CCAACCAAAA
35942102 AAAACAAAACAAATAAATAAAT
1 AAAACAAAACAAATAAATAAAT
* * *
35942124 AAAATAAAATACATAAATAA
1 AAAACAAAACAAATAAATAA
35942144 TGAAAGAAAA
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:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAACAAAACAAATAAATAAAT
Found at i:35942255 original size:3 final size:3
Alignment explanation
Indices: 35942242--35942285 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
35942232 TATGTAAATA
*
35942242 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
35942286 GAAAGTCAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:35946969 original size:22 final size:22
Alignment explanation
Indices: 35946901--35946969 Score: 57
Period size: 26 Copynumber: 3.0 Consensus size: 22
35946891 TGTGGACAAG
*
35946901 CCACCACATAGATACCGATGAA
1 CCACCACATAGATACTGATGAA
* * * *
35946923 CGATCACATAACACATCATGGATGAA
1 CCACCACAT-AGATA-C-T-GATGAA
35946949 CCACCACATAGATACTGATGA
1 CCACCACATAGATACTGATGA
35946970 GCTGGCATAT
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
22 12 0.35
23 4 0.12
24 2 0.06
25 3 0.09
26 13 0.38
ACGTcount: A:0.41, C:0.28, G:0.14, T:0.17
Consensus pattern (22 bp):
CCACCACATAGATACTGATGAA
Found at i:35947127 original size:16 final size:17
Alignment explanation
Indices: 35947102--35947134 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
35947092 CATTTAAACA
35947102 CATATGTTTCAC-TATT
1 CATATGTTTCACATATT
*
35947118 CATATTTTTCACATATT
1 CATATGTTTCACATATT
35947135 TATGCTCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.27, C:0.18, G:0.03, T:0.52
Consensus pattern (17 bp):
CATATGTTTCACATATT
Found at i:35950902 original size:28 final size:28
Alignment explanation
Indices: 35950870--35950925 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
35950860 TATAATAGCC
*
35950870 AGCAAGTCCGAGAAAACTCTGAATTTCA
1 AGCAAGTACGAGAAAACTCTGAATTTCA
*
35950898 AGCAAGTATGAGAAAACTCTGAATTTCA
1 AGCAAGTACGAGAAAACTCTGAATTTCA
35950926 CTAACATTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (28 bp):
AGCAAGTACGAGAAAACTCTGAATTTCA
Found at i:35962218 original size:51 final size:50
Alignment explanation
Indices: 35962096--35962229 Score: 135
Period size: 50 Copynumber: 2.7 Consensus size: 50
35962086 AAAGTGATGG
* *
35962096 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTATACCGGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCATACCGGAATGATAGA
* * * * * * * *
35962146 TCGCATGTGTAGTACGATGTGCATGCTACTATGCGTACCGG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCATACCGGAAT-G-ATAGA
**
35962197 TCACGTGTGTAGTACTATGTGCAGAATACTACG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACG
35962230 TGTATCAAAT
Statistics
Matches: 65, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
49 2 0.03
50 35 0.54
51 28 0.43
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCATACCGGAATGATAGA
Found at i:35976477 original size:20 final size:20
Alignment explanation
Indices: 35976452--35976490 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
35976442 TTACTTCTTC
35976452 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
35976472 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
35976491 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:35976757 original size:49 final size:49
Alignment explanation
Indices: 35976700--35976839 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 49
35976690 ACATGCGAAA
*
35976700 GCCATATCCCAGACATGGTCTTACATAGGATGTT-TCCTGAAC-TACCAAT
1 GCCATATCCCAGACATGGTCTTACATAGGA-GTTCTCAT-AACGTACCAAT
* * * * *
35976749 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATATCCCAGACATGGTCTTACATAGGAGTTCTCATAAC-GTACCAAT
* * **
35976799 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAAC
1 GCCATATCCCAGACATGGTCTTACATAGGAGTTCTCATAAC
35976840 CTCAATAATG
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
48 5 0.06
49 31 0.40
50 41 0.53
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
GCCATATCCCAGACATGGTCTTACATAGGAGTTCTCATAACGTACCAAT
Found at i:35980269 original size:30 final size:30
Alignment explanation
Indices: 35980212--35980270 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
35980202 CTGCCTTAAA
* *
35980212 AATATTTACAAAAAGAGACAGCCAATTTTT
1 AATATTTACAAAAAGAGACAACAAATTTTT
*
35980242 AATATTTACAAAAAGA-ATAACTAAATTTT
1 AATATTTACAAAAAGAGACAAC-AAATTTT
35980271 GCAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACAAATTTTT
Found at i:35990650 original size:11 final size:11
Alignment explanation
Indices: 35990620--35990652 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
35990610 ATTTTTCCTA
35990620 GGATGTGAATT
1 GGATGTGAATT
35990631 GGATG-GAATT
1 GGATGTGAATT
35990641 GGATGTGAATT
1 GGATGTGAATT
35990652 G
1 G
35990653 TATTAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.33
Consensus pattern (11 bp):
GGATGTGAATT
Found at i:35990661 original size:21 final size:21
Alignment explanation
Indices: 35990620--35990662 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35990610 ATTTTTCCTA
*
35990620 GGATGTGAATTGGATGGAATT
1 GGATGTGAATTGGATGAAATT
* *
35990641 GGATGTGAATTGTATTAAATT
1 GGATGTGAATTGGATGAAATT
35990662 G
1 G
35990663 AGTTAAATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (21 bp):
GGATGTGAATTGGATGAAATT
Found at i:35991188 original size:25 final size:24
Alignment explanation
Indices: 35991141--35991193 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
35991131 ACATACCGCA
*
35991141 GCTCTTTATGAGCATCCCGATATAG
1 GCTCTTTATGAGCATCCCAATAT-G
* * *
35991166 GCTCTTTGTGAGCTTCCTAATATG
1 GCTCTTTATGAGCATCCCAATATG
35991190 GCTC
1 GCTC
35991194 GCTTGAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (24 bp):
GCTCTTTATGAGCATCCCAATATG
Found at i:35996657 original size:31 final size:30
Alignment explanation
Indices: 35996622--35996681 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
35996612 ATTTTGTCAT
*
35996622 TAAACTATTTGAAAGTTTTTATTTAAGTTAC
1 TAAACTATTCG-AAGTTTTTATTTAAGTTAC
*
35996653 TAAACTATTCGGAGTTTTTATTTAAGTTA
1 TAAACTATTCGAAGTTTTTATTTAAGTTA
35996682 TTGAACAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (30 bp):
TAAACTATTCGAAGTTTTTATTTAAGTTAC
Found at i:36004618 original size:16 final size:15
Alignment explanation
Indices: 36004597--36004626 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
36004587 CTATCTTTTA
36004597 TTTTTATTGTTATTTG
1 TTTTTATT-TTATTTG
36004613 TTTTTATTTTATTT
1 TTTTTATTTTATTT
36004627 TTCAGACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTATTTG
Found at i:36010295 original size:20 final size:21
Alignment explanation
Indices: 36010238--36010295 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
36010228 CTCGTCATAA
36010238 GGGTGTGTGCCTACTTTCACAT
1 GGGTGTGTGCCTAC-TTCACAT
** * *
36010260 GGGCATTTG-CTGCTTCACAT
1 GGGTGTGTGCCTACTTCACAT
36010280 GGGTGTGTGCCT-CTTC
1 GGGTGTGTGCCTACTTC
36010296 CGCATGAGCG
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
20 17 0.61
21 5 0.18
22 6 0.21
ACGTcount: A:0.10, C:0.24, G:0.29, T:0.36
Consensus pattern (21 bp):
GGGTGTGTGCCTACTTCACAT
Found at i:36012259 original size:27 final size:27
Alignment explanation
Indices: 36012229--36012280 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
36012219 ACTACCTTGG
36012229 CAAACTACAC-CATGATTACTATCCTAA
1 CAAACTAC-CTCATGATTACTATCCTAA
* *
36012256 CAAACTACCTCTTGTTTACTATCCT
1 CAAACTACCTCATGATTACTATCCT
36012281 GGTGGACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.33
Consensus pattern (27 bp):
CAAACTACCTCATGATTACTATCCTAA
Found at i:36012289 original size:27 final size:27
Alignment explanation
Indices: 36012259--36012453 Score: 130
Period size: 27 Copynumber: 7.3 Consensus size: 27
36012249 ATCCTAACAA
36012259 ACTACCTCTTGTTTACTATCCTGGTGG
1 ACTACCTCTTGTTTACTATCCTGGTGG
*
36012286 ACTACGT-TGTGTTTACTATCCTGGTGG
1 ACTACCTCT-TGTTTACTATCCTGGTGG
** * ** **
36012313 ACTATAT-TATGTTTACTGTCCCAGCAG
1 ACTACCTCT-TGTTTACTATCCTGGTGG
* * *
36012340 ACTACCTCGTGTTTACTATCTTGGTAG
1 ACTACCTCTTGTTTACTATCCTGGTGG
* * ***
36012367 ACTACCT-TATGTTTAC-GTCCTAGCAT
1 ACTACCTCT-TGTTTACTATCCTGGTGG
* *
36012393 ACTACCTCGTGTTTACTATCCTAGTGG
1 ACTACCTCTTGTTTACTATCCTGGTGG
* * *
36012420 ACTACCTCGTGTTTACTGT-CTCGATGG
1 ACTACCTCTTGTTTACTATCCT-GGTGG
36012447 ACTACCT
1 ACTACCT
36012454 ATGTTATCAT
Statistics
Matches: 131, Mismatches: 31, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
26 22 0.17
27 109 0.83
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (27 bp):
ACTACCTCTTGTTTACTATCCTGGTGG
Found at i:36012423 original size:53 final size:54
Alignment explanation
Indices: 36012285--36012439 Score: 204
Period size: 53 Copynumber: 2.9 Consensus size: 54
36012275 TATCCTGGTG
* * **
36012285 GACTACGTTGTGTTTACTATCCTGGTGGACTATATTATGTTTACTGTCCCAGCA
1 GACTACCTCGTGTTTACTATCCTGGTGGACTACCTTATGTTTACTGTCCCAGCA
* * *
36012339 GACTACCTCGTGTTTACTATCTTGGTAGACTACCTTATGTTTAC-GTCCTAGCA
1 GACTACCTCGTGTTTACTATCCTGGTGGACTACCTTATGTTTACTGTCCCAGCA
* * **
36012392 TACTACCTCGTGTTTACTATCCTAGTGGACTACCTCGTGTTTACTGTC
1 GACTACCTCGTGTTTACTATCCTGGTGGACTACCTTATGTTTACTGTC
36012440 TCGATGGACT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 46 0.53
54 41 0.47
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (54 bp):
GACTACCTCGTGTTTACTATCCTGGTGGACTACCTTATGTTTACTGTCCCAGCA
Found at i:36026819 original size:9 final size:9
Alignment explanation
Indices: 36026805--36026841 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
36026795 TATAGTTTGA
36026805 TATTCGAAT
1 TATTCGAAT
36026814 TATTCGAAT
1 TATTCGAAT
*
36026823 TATTCGAGT
1 TATTCGAAT
36026832 TATTCGAAT
1 TATTCGAAT
36026841 T
1 T
36026842 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:36026911 original size:9 final size:9
Alignment explanation
Indices: 36026894--36026924 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36026884 TCGAGTTGAT
36026894 TCGAATAAC
1 TCGAATAAC
*
36026903 TCGATTAAC
1 TCGAATAAC
36026912 TCGAATAAC
1 TCGAATAAC
36026921 TCGA
1 TCGA
36026925 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:36027889 original size:31 final size:31
Alignment explanation
Indices: 36027854--36028030 Score: 230
Period size: 31 Copynumber: 5.7 Consensus size: 31
36027844 GTATATGTTT
*
36027854 TATACATTGCCGAATTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
36027885 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
36027916 TATACATTGTCGAATTCGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
36027947 TATTCATTGCCTAATTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
36027978 TGTACATTACCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
36028009 TATATATTTCCTAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
36028031 AGCATTGGAT
Statistics
Matches: 125, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
30 7 0.06
31 118 0.94
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATGGA
Found at i:36034047 original size:41 final size:41
Alignment explanation
Indices: 36033986--36034309 Score: 418
Period size: 41 Copynumber: 7.9 Consensus size: 41
36033976 AAAAGCCTTA
* * * *
36033986 GGGCCTTTAGCGACGTTTTTGAAAAAGCGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTC
*
36034027 TGGCCTTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTC
* * * * *
36034068 AGCCCTTTAGCGGTGCTTTTGGAGAAGCGCCGCTAATTCTC
1 GGGCCTTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTC
*
36034109 GGGCCTTTAGCGGCGCTTTTGGAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTC
* * *
36034150 GGGCCTTTAGCGGCGTTTTTGGATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTC
*
36034191 GGGCCTTTAGCGGC-CTTTTTGTAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGC-TTTTGAAGAAGCGCCGCTAATGCTC
* * *
36034232 GGGCCTTTAGCGGCGTTTTTGAA-AAGGCGTCGCTGATGCTC
1 GGGCCTTTAGCGGCGCTTTTGAAGAA-GCGCCGCTAATGCTC
* * * *
36034273 GAGCCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGCTTTTGAAGAAGCGCCGCTAAT
36034310 AATAATAAAA
Statistics
Matches: 252, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.01
41 248 0.98
42 2 0.01
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:36034955 original size:14 final size:15
Alignment explanation
Indices: 36034927--36034959 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
36034917 AAGGTTTATA
36034927 GATTATGGAATTAGG
1 GATTATGGAATTAGG
36034942 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
36034956 GATT
1 GATT
36034960 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:36035171 original size:33 final size:33
Alignment explanation
Indices: 36035125--36035203 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
36035115 ATTAAATAAT
* * * * *
36035125 GTTTAGGGGTTAGGGATTCGGGGTCATGTTAGG
1 GTTTAAGGATTAGGAATTCAGGGTCAGGTTAGG
* *
36035158 GTTTAAGGATTAGGAATTTAGGGTCGGGTTAGG
1 GTTTAAGGATTAGGAATTCAGGGTCAGGTTAGG
*
36035191 GTTTAAGGTTTAG
1 GTTTAAGGATTAG
36035204 ATTAATTAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.20, C:0.04, G:0.41, T:0.35
Consensus pattern (33 bp):
GTTTAAGGATTAGGAATTCAGGGTCAGGTTAGG
Found at i:36038401 original size:21 final size:20
Alignment explanation
Indices: 36038375--36038420 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
36038365 CTAGTGTGTA
36038375 ATCGAGTCGAGCCCTAATATT
1 ATCGAG-CGAGCCCTAATATT
*
36038396 ATCGAGCTAGCCCTAATATT
1 ATCGAGCGAGCCCTAATATT
36038416 ATCGA
1 ATCGA
36038421 ACTTGAACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (20 bp):
ATCGAGCGAGCCCTAATATT
Found at i:36040797 original size:3 final size:3
Alignment explanation
Indices: 36040791--36040881 Score: 68
Period size: 3 Copynumber: 31.3 Consensus size: 3
36040781 TAATAATGGC
* *
36040791 ATA ATA ATA ATA CTC ATA ATA A-A AT- ATA A-A AGT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* * *
36040833 ATAA ATC ATA ATA CTA AT- ATA CATA ATA A-A ATA ATA ATA ATG ATA
1 AT-A ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
36040878 ATA A
1 ATA A
36040882 CAAAAATGTG
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
2 11 0.16
3 52 0.75
4 6 0.09
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36042587 original size:44 final size:43
Alignment explanation
Indices: 36042532--36042912 Score: 207
Period size: 44 Copynumber: 8.5 Consensus size: 43
36042522 TTAATCCGAC
* * *
36042532 CCACTGTAACTTCAGAGGTATATGATTTGTCGCTTTAATCTATT
1 CCACTGCAACTTCAG-GGTATATGATTTGTAGCTTTAATCTACT
* * * * *
36042576 CCACTGCAACTTCA-GATAGATTAGATTTGTAACCTTAATCTATT
1 CCACTGCAACTTCAGGGTATA-T-GATTTGTAGCTTTAATCTACT
*
36042620 CCACTGCAACTTCAGGGAGATAAT-ATTTGT-GACTTTAATCTACT
1 CCACTGCAACTTCAGGG-TAT-ATGATTTGTAG-CTTTAATCTACT
* * * * * *
36042664 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATTTGCT
1 CCACTGCAACTTCAGGG-TATATGATTTGTAGCTTTAATCTACT
* * * *
36042708 CCACTACAACTTCAGGGACATGAGATTCGTAACTTGTAGCTTTAATCTATT
1 CCACTGCAACTTCAGGG---T-ATA-T-G--ATTTGTAGCTTTAATCTACT
* * *
36042759 CCACTACAACTTCAGAGAG-ATAAT-ATTTGCAGCTTTAATCTGCT
1 CCACTGCAACTTCAG-G-GTAT-ATGATTTGTAGCTTTAATCTACT
* * * * * * *
36042803 CCACTGCAACTTTAGGGAGATAAGATTTGTAACTTCACTCTGCT
1 CCACTGCAACTTCAGGG-TATATGATTTGTAGCTTTAATCTACT
* * * * *
36042847 CCACTGCAACTTCAAAGAG-ATAAGACTCGTAGCTTTAACCTACT
1 CCACTGCAACTTC--AGGGTATATGATTTGTAGCTTTAATCTACT
*
36042891 CCACTGAAACTTCAGGGGTATA
1 CCACTGCAACTTCA-GGGTATA
36042913 GGCATTGTGG
Statistics
Matches: 262, Mismatches: 50, Indels: 50
0.72 0.14 0.14
Matches are distributed among these distances:
42 6 0.02
43 6 0.02
44 203 0.77
45 2 0.01
46 6 0.02
47 3 0.01
48 2 0.01
49 2 0.01
51 30 0.11
52 1 0.00
53 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGTATATGATTTGTAGCTTTAATCTACT
Found at i:36042648 original size:88 final size:88
Alignment explanation
Indices: 36042556--36042907 Score: 312
Period size: 88 Copynumber: 3.9 Consensus size: 88
36042546 GAGGTATATG
* * * * *
36042556 ATTTGTCGCTTTAATCTATTCCACTGCAACTTCAGATAGATTAGATTTGTAACCTTAATCTATTC
1 ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACCTTAATCTACTC
36042621 CACTGCAACTTCAGGGAGATAAT
66 CACTGCAACTTCAGGGAGATAAT
* * * * *
36042644 ATTTGT-GACTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGT-AGCTTCAATTTGC
1 ATTTGTAG-CTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACCTT-AATCTAC
* *
36042707 TCCACTACAACTTCAGGGACATGAGATTCGT
64 TCCACTGCAACTTCAGGGAGAT-A-A----T
* * * * * * * *
36042738 AACTTGTAGCTTTAATCTATTCCACTACAACTTCAGAGAGATAATATTTGCAGCTTTAATCTGCT
1 -ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACCTTAATCTACT
* *
36042803 CCACTGCAACTTTAGGGAGATAAG
65 CCACTGCAACTTCAGGGAGATAAT
* * * * * * * * * *
36042827 ATTTGTAACTTCACTCTGCTCCACTGCAACTTCAAAGAGATAAGACTCGTAGCTTTAACCTACTC
1 ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACCTTAATCTACTC
*
36042892 CACTGAAACTTCAGGG
66 CACTGCAACTTCAGGG
36042908 GTATAGGCAT
Statistics
Matches: 211, Mismatches: 42, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
87 5 0.02
88 132 0.63
89 1 0.00
90 1 0.00
93 1 0.00
94 2 0.01
95 66 0.31
96 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (88 bp):
ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACCTTAATCTACTC
CACTGCAACTTCAGGGAGATAAT
Found at i:36042771 original size:183 final size:183
Alignment explanation
Indices: 36042558--36042907 Score: 459
Period size: 183 Copynumber: 1.9 Consensus size: 183
36042548 GGTATATGAT
* * * * * *
36042558 TTGTCGCTTTAATCTATTCCACTGCAACTTCAGATAGATTAGATTTGTAACCTTAATCTATTCCA
1 TTGTAGCTTTAATCTATTCCACTACAACTTCAGAGAGATAAGATTTGCAACCTTAATCTACTCCA
* * * * **
36042623 CTGCAACTTCAGGGAGATAATATTTGTGACTTTAATCTACTCCACTGCAACTTTAGGGAGATAAG
66 CTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTACTCCACTGCAACTTCAAAGAGATAAG
* * ** *
36042688 ATTTGTAGCTTCAATTTGCTCCACT-ACAACTTCAGGGACATGAGATTCGTAAC
131 ACTCGTAGCTTCAACCTACTCCACTGA-AACTTCAGGGACATGAGATTCGTAAC
* * * *
36042741 TTGTAGCTTTAATCTATTCCACTACAACTTCAGAGAGATAATATTTGCAGCTTTAATCTGCTCCA
1 TTGTAGCTTTAATCTATTCCACTACAACTTCAGAGAGATAAGATTTGCAACCTTAATCTACTCCA
* * *
36042806 CTGCAACTTTAGGGAGATAAGATTTGTAACTTCACTCTGCTCCACTGCAACTTCAAAGAGATAAG
66 CTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTACTCCACTGCAACTTCAAAGAGATAAG
*
36042871 ACTCGTAGCTTTAACCTACTCCACTGAAACTTCAGGG
131 ACTCGTAGCTTCAACCTACTCCACTGAAACTTCAGGG
36042908 GTATAGGCAT
Statistics
Matches: 141, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
183 140 0.99
184 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (183 bp):
TTGTAGCTTTAATCTATTCCACTACAACTTCAGAGAGATAAGATTTGCAACCTTAATCTACTCCA
CTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTACTCCACTGCAACTTCAAAGAGATAAG
ACTCGTAGCTTCAACCTACTCCACTGAAACTTCAGGGACATGAGATTCGTAAC
Found at i:36042795 original size:139 final size:139
Alignment explanation
Indices: 36042610--36042860 Score: 414
Period size: 139 Copynumber: 1.8 Consensus size: 139
36042600 ATTTGTAACC
* * *
36042610 TTAATCTATTCCACTGCAACTTCAGGGAGATAATATTTGTGACTTTAATCTACTCCACTGCAACT
1 TTAATCTATTCCACTACAACTTCAGAGAGATAATATTTGAGACTTTAATCTACTCCACTGCAACT
* *
36042675 TTAGGGAGATAAGATTTGTAGCTTCAATTTGCTCCACTACAACTTCAGGGACATGAGATTCGTAA
66 TTAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTACAACTTCAGGGACATGAGATTCGTAA
36042740 CTTGTAGCT
131 CTTGTAGCT
*
36042749 TTAATCTATTCCACTACAACTTCAGAGAGATAATATTTGCAG-CTTTAATCTGCTCCACTGCAAC
1 TTAATCTATTCCACTACAACTTCAGAGAGATAATATTTG-AGACTTTAATCTACTCCACTGCAAC
* *
36042813 TTTAGGGAGATAAGATTTGTAACTTCACTCTGCTCCACTGCAACTTCA
65 TTTAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTACAACTTCA
36042861 AAGAGATAAG
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
139 102 0.99
140 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (139 bp):
TTAATCTATTCCACTACAACTTCAGAGAGATAATATTTGAGACTTTAATCTACTCCACTGCAACT
TTAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTACAACTTCAGGGACATGAGATTCGTAA
CTTGTAGCT
Found at i:36056784 original size:3 final size:3
Alignment explanation
Indices: 36056778--36056865 Score: 53
Period size: 3 Copynumber: 30.3 Consensus size: 3
36056768 TAATAATGGC
* * *
36056778 ATA ATA ATA ATA CTC ATA ATA A-A AT- ATA A-A AGT- ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* * *
36056820 ATAA ATC ATA ATA ATA AT- ATGC ATA ATA A-A ATA ATA ATG ATA ATA
1 AT-A ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
36056865 A
1 A
36056866 CAAAATGTGC
Statistics
Matches: 65, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
2 11 0.17
3 49 0.75
4 5 0.08
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:36056865 original size:20 final size:20
Alignment explanation
Indices: 36056829--36056871 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
36056819 AATAAATCAT
* *
36056829 AATAATAATATGCATAATAA
1 AATAATAATATGAATAACAA
36056849 AATAATAATGAT-AATAACAA
1 AATAATAAT-ATGAATAACAA
36056869 AAT
1 AAT
36056872 GTGCAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
AATAATAATATGAATAACAA
Found at i:36056934 original size:4 final size:4
Alignment explanation
Indices: 36056925--36056958 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
36056915 AAAGCGTAAG
36056925 AAAT AAAT AAAT AGAAT AAAT AAAT AGAAT AAAT
1 AAAT AAAT AAAT A-AAT AAAT AAAT A-AAT AAAT
36056959 TTTTTTATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:36056944 original size:9 final size:8
Alignment explanation
Indices: 36056925--36056958 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
36056915 AAAGCGTAAG
36056925 AAATAAAT
1 AAATAAAT
36056933 AAATAGAAT
1 AAATA-AAT
36056942 AAATAAAT
1 AAATAAAT
36056950 AGAATAAAT
1 A-AATAAAT
36056959 TTTTTTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 9 0.38
9 15 0.62
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (8 bp):
AAATAAAT
Found at i:36056944 original size:13 final size:13
Alignment explanation
Indices: 36056926--36056958 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
36056916 AAGCGTAAGA
36056926 AATAAATAAATAG
1 AATAAATAAATAG
36056939 AATAAATAAATAG
1 AATAAATAAATAG
36056952 AATAAAT
1 AATAAAT
36056959 TTTTTTATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (13 bp):
AATAAATAAATAG
Found at i:36067182 original size:20 final size:20
Alignment explanation
Indices: 36067129--36067183 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
36067119 AAAAACTTAT
*
36067129 TTAAAATTTATT-AAGAATGA
1 TTAAAATTT-TTAAAAAATGA
* *
36067149 -TAAGAAATTATAAAAAATGA
1 TTAA-AATTTTTAAAAAATGA
36067169 TTAAAATTTTTAAAA
1 TTAAAATTTTTAAAA
36067184 TTATATATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
19 4 0.15
20 20 0.74
21 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.36
Consensus pattern (20 bp):
TTAAAATTTTTAAAAAATGA
Found at i:36067247 original size:10 final size:10
Alignment explanation
Indices: 36067232--36067265 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
36067222 CATACACAAA
36067232 TATGTATAAT
1 TATGTATAAT
36067242 TATGTATAAT
1 TATGTATAAT
*
36067252 TATTTAATAAT
1 TATGT-ATAAT
36067263 TAT
1 TAT
36067266 TTAGGAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (10 bp):
TATGTATAAT
Found at i:36072771 original size:60 final size:59
Alignment explanation
Indices: 36072619--36072793 Score: 188
Period size: 60 Copynumber: 2.9 Consensus size: 59
36072609 AATTGAACCT
* * ***
36072619 AAAAAAAGCTTAAGTACCAAATTAGAAAAAAAAATGCTAAGTTTAAGTACCAAATTGGCCCC
1 AAAAAAAGTTTAAGTACCAAATT--AAAAAAAAATTC-AAGTTTAAGTACCAAATTGGCAAA
* * ** * *
36072681 CAAAAAAGTTTAGGTACCAAATTAGGAAAAAATTCAAGTTCAAATACCAAATTGTGCAAA
1 AAAAAAAGTTTAAGTACCAAATTAAAAAAAAATTCAAGTTTAAGTACCAAATTG-GCAAA
* *
36072741 AAAAAAAATTTAAGTACCAAATTAAAAAAAAATGTTAAGTTTAAGTACCAAAT
1 AAAAAAAGTTTAAGTACCAAATTAAAAAAAAAT-TCAAGTTTAAGTACCAAAT
36072794 GTTATATTAA
Statistics
Matches: 92, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
59 17 0.18
60 39 0.42
61 16 0.17
62 20 0.22
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.23
Consensus pattern (59 bp):
AAAAAAAGTTTAAGTACCAAATTAAAAAAAAATTCAAGTTTAAGTACCAAATTGGCAAA
Found at i:36080514 original size:22 final size:22
Alignment explanation
Indices: 36080489--36080534 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
36080479 ATTTATTTAT
36080489 AAATCTTAAACATTAAATATTA
1 AAATCTTAAACATTAAATATTA
* * *
36080511 AAATTTTAAACCTTAAATTTTA
1 AAATCTTAAACATTAAATATTA
36080533 AA
1 AA
36080535 GGGCTAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATCTTAAACATTAAATATTA
Found at i:36082729 original size:4 final size:4
Alignment explanation
Indices: 36082701--36082754 Score: 65
Period size: 4 Copynumber: 13.0 Consensus size: 4
36082691 GGTTGATATT
*
36082701 TTTA TTTCA TTT- TTATA TGTTA TTTA TTTA TTTA TTTA TTTA CTTA TTTA
1 TTTA TTT-A TTTA TT-TA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
36082751 TTTA
1 TTTA
36082755 CTAAAATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 2 0.05
4 33 0.75
5 8 0.18
6 1 0.02
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:36083180 original size:89 final size:89
Alignment explanation
Indices: 36083029--36083206 Score: 331
Period size: 89 Copynumber: 2.0 Consensus size: 89
36083019 GGCCATTGAC
*
36083029 CGGCCGATGACCGACCTAGGCCGGACTAGCTGGGTGGGAGAGAACTTTTTTGAGGGTTTTTTTTG
1 CGGCCGATGACCGACCTAGGCCGAACTAGCTGGGTGGGAGAGAACTTTTTTGAGGGTTTTTTTTG
36083094 TTTTTTTAAAACAGAATGAAAATG
66 TTTTTTTAAAACAGAATGAAAATG
36083118 CGGCCGATGACCGACCTAGGCCGAACTAGCTGGG-GGGAAGAGAACTTTTTTGAGGGTTTTTTTT
1 CGGCCGATGACCGACCTAGGCCGAACTAGCTGGGTGGG-AGAGAACTTTTTTGAGGGTTTTTTTT
36083182 GTTTTTTTAAAACAGAATGAAAATG
65 GTTTTTTTAAAACAGAATGAAAATG
36083207 AATTTTTTTA
Statistics
Matches: 87, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
88 3 0.03
89 84 0.97
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (89 bp):
CGGCCGATGACCGACCTAGGCCGAACTAGCTGGGTGGGAGAGAACTTTTTTGAGGGTTTTTTTTG
TTTTTTTAAAACAGAATGAAAATG
Found at i:36083630 original size:25 final size:23
Alignment explanation
Indices: 36083593--36083643 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
36083583 TTTTCTTAAA
*
36083593 ATTAATTAATTTCAATTGTGTAATT
1 ATTAATTAATTTC--TTCTGTAATT
**
36083618 ATTAATTTTTTTCTTCTGTAATT
1 ATTAATTAATTTCTTCTGTAATT
36083641 ATT
1 ATT
36083644 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 12 0.52
25 11 0.48
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (23 bp):
ATTAATTAATTTCTTCTGTAATT
Found at i:36096100 original size:87 final size:88
Alignment explanation
Indices: 36095946--36096114 Score: 268
Period size: 87 Copynumber: 1.9 Consensus size: 88
36095936 GAAACGATAA
* * *
36095946 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTCGTCTTCCTGTATTGGCA
1 CCTTATCTCCCTGAGCAGCAGTGGAGTACGTTGAAAATAGCAGATCTCGCCTTCCTGTACTGGCA
36096011 GTGAAGTAGATCGAAGATACCAG
66 GTGAAGTAGATCGAAGATACCAG
* * * *
36096034 CCTTGTCTCCTTGAGCAGCAGTGGAGTACGTTG-AAGTAGCAGATCTCGCCTTCCTGTGCTGGCA
1 CCTTATCTCCCTGAGCAGCAGTGGAGTACGTTGAAAATAGCAGATCTCGCCTTCCTGTACTGGCA
36096098 GTGAAGTAGATCGAAGA
66 GTGAAGTAGATCGAAGA
36096115 CATTAGTCTT
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 44 0.59
88 30 0.41
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (88 bp):
CCTTATCTCCCTGAGCAGCAGTGGAGTACGTTGAAAATAGCAGATCTCGCCTTCCTGTACTGGCA
GTGAAGTAGATCGAAGATACCAG
Found at i:36096133 original size:87 final size:88
Alignment explanation
Indices: 36095946--36096134 Score: 263
Period size: 87 Copynumber: 2.2 Consensus size: 88
36095936 GAAACGATAA
* * * *
36095946 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTCGTCTTCCTGTATTGGCA
1 CCTTATCTCCTTGAGCAGCAGTGGAGTACGTTGAAAATAGCAGATCTCGCCTTCCTGTACTGGCA
*
36096011 GTGAAGTAGATCGAAGATACCAG
66 GTGAAGTAGATCGAAGACACCAG
* * *
36096034 CCTTGTCTCCTTGAGCAGCAGTGGAGTACGTTG-AAGTAGCAGATCTCGCCTTCCTGTGCTGGCA
1 CCTTATCTCCTTGAGCAGCAGTGGAGTACGTTGAAAATAGCAGATCTCGCCTTCCTGTACTGGCA
**
36096098 GTGAAGTAGATCGAAGACATTAG
66 GTGAAGTAGATCGAAGACACCAG
* *
36096121 TCTTATCGCCTTGA
1 CCTTATCTCCTTGA
36096135 CGTTGCAATG
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 58 0.66
88 30 0.34
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (88 bp):
CCTTATCTCCTTGAGCAGCAGTGGAGTACGTTGAAAATAGCAGATCTCGCCTTCCTGTACTGGCA
GTGAAGTAGATCGAAGACACCAG
Found at i:36096176 original size:50 final size:50
Alignment explanation
Indices: 36096119--36096227 Score: 119
Period size: 50 Copynumber: 2.2 Consensus size: 50
36096109 CGAAGACATT
*
36096119 AGTCTTATCGCCTTGACGTTGCAATGGAAAAGATTAAAGCCACAACGGCG
1 AGTCTTATCGCCTTGACGTTGCAACGGAAAAGATTAAAGCCACAACGGCG
** * * * ** * *
36096169 AGTCTTATTTCCTTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACGGCG
1 AGTCTTATCGCCTTGACGTTGCAACGGAAAAGATTAAAGCCACAACGGCG
*
36096219 AATCTTATC
1 AGTCTTATC
36096228 TCCCTGGCGT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (50 bp):
AGTCTTATCGCCTTGACGTTGCAACGGAAAAGATTAAAGCCACAACGGCG
Found at i:36096532 original size:94 final size:95
Alignment explanation
Indices: 36096327--36096579 Score: 285
Period size: 94 Copynumber: 2.7 Consensus size: 95
36096317 GATTAAAGTT
* * * ** ** * *
36096327 GCAACGACGAATCTTACTCCCCTGGCGGGGTAGTGGAAAAGATTGAAGCTACGACGGTGAATCTT
1 GCAACGGCGAATCTTATTTCCCTGGCGATGTAGTGGAGCAGATTGAAGCTACGACGGCGAATCTC
* ** *
36096392 GTTTACCCCAACATTGTGAAGATTGAAGTC
66 ATTTACCCCAACATTGCAAAGATTGAAGCC
* * * *
36096422 GCAACGGTGAATCTTA-TTCCTCTGGTGATGTAGTGGAGCAGATTAAAGCTACGACGACGAATCT
1 GCAACGGCGAATCTTATTTCC-CTGGCGATGTAGTGGAGCAGATTGAAGCTACGACGGCGAATCT
36096486 CATTT-CCCCAACATTGCAAAGATTGAAGCC
65 CATTTACCCCAACATTGCAAAGATTGAAGCC
* * * * *
36096516 GCAATGGCGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAAATTGAAGCCACGACGGCGAATCT
1 GCAACGGCGAATCTTATTTCCCTGGCGATGTAGTGGAGCAGATTGAAGCTACGACGGCGAATCT
36096580 TATCTCCCTA
Statistics
Matches: 131, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
94 75 0.57
95 56 0.43
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (95 bp):
GCAACGGCGAATCTTATTTCCCTGGCGATGTAGTGGAGCAGATTGAAGCTACGACGGCGAATCTC
ATTTACCCCAACATTGCAAAGATTGAAGCC
Found at i:36097665 original size:4 final size:4
Alignment explanation
Indices: 36097656--36097686 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
36097646 TTTTTATATG
*
36097656 TTAT TTAT TTAT TTAT TTAC TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
36097687 CTGAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:36100269 original size:22 final size:24
Alignment explanation
Indices: 36100221--36100270 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
36100211 CGAAGGAGTA
* *
36100221 TAAAAAAATTATGAGGAAATATAT
1 TAAAAAAATTATGAAGAAATACAT
*
36100245 TAAAAAAA-TATGAAG-AATACCT
1 TAAAAAAATTATGAAGAAATACAT
36100267 TAAA
1 TAAA
36100271 TTATGAGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 9 0.39
23 6 0.26
24 8 0.35
ACGTcount: A:0.60, C:0.04, G:0.10, T:0.26
Consensus pattern (24 bp):
TAAAAAAATTATGAAGAAATACAT
Found at i:36101003 original size:19 final size:18
Alignment explanation
Indices: 36100959--36101019 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
36100949 ATTAAACAAC
36100959 ATAAAAAAATATTAAAA-AT
1 ATAAAAAAA-A-TAAAATAT
* *
36100978 A-AGAAAAAA-AAATTAT
1 ATAAAAAAAATAAAATAT
36100994 ATAGAAAAAAATAAAATAT
1 ATA-AAAAAAATAAAATAT
36101013 ATAAAAA
1 ATAAAAA
36101020 TTCTTAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
15 3 0.09
16 3 0.09
17 2 0.06
18 16 0.47
19 10 0.29
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
ATAAAAAAAATAAAATAT
Found at i:36101012 original size:17 final size:16
Alignment explanation
Indices: 36100972--36101019 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
36100962 AAAAAATATT
36100972 AAAAATA-AGAAAAAA
1 AAAAATATAGAAAAAA
*
36100987 AAATTATATAGAAAAAA
1 AAA-AATATAGAAAAAA
*
36101004 ATAAAATATATAAAAA
1 A-AAAATATAGAAAAA
36101020 TTCTTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.11
16 3 0.11
17 19 0.70
18 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (16 bp):
AAAAATATAGAAAAAA
Found at i:36101051 original size:29 final size:29
Alignment explanation
Indices: 36101006--36101103 Score: 93
Period size: 29 Copynumber: 3.5 Consensus size: 29
36100996 AGAAAAAAAT
36101006 AAAATA-TATAAAAATTC-T-TAAATATTA
1 AAAATATTATAAAAATTCATATAAAT-TTA
*
36101033 AAAATATGTATTAAAATTCATATAAATTTA
1 AAAATAT-TATAAAAATTCATATAAATTTA
*
36101063 TAAATATTATAAAAATT-A-ATAAATTCTA
1 AAAATATTATAAAAATTCATATAAATT-TA
36101091 ATAAAT-TT-TAAAA
1 A-AAATATTATAAAA
36101104 TATTTATAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
27 18 0.30
28 5 0.08
29 23 0.38
30 10 0.16
31 5 0.08
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (29 bp):
AAAATATTATAAAAATTCATATAAATTTA
Found at i:36101096 original size:37 final size:36
Alignment explanation
Indices: 36101017--36101122 Score: 101
Period size: 37 Copynumber: 2.8 Consensus size: 36
36101007 AAATATATAA
*
36101017 AAATTCTTAAATATTA-AAAATATGTATTAAAATTCATAT
1 AAATT-TTAAATATTATAAAA-AT-TAAT-AAATTCATAT
36101056 AAATTTATAAATATTATAAAAATTAATAAATTC-TAAT
1 AAATTT-TAAATATTATAAAAATTAATAAATTCAT-AT
*
36101093 AAATTTTAAAATATT-TATAAAATCAATAAA
1 AAATTTT-AAATATTATA-AAAATTAATAAA
36101123 ACATGTTTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
36 4 0.07
37 32 0.53
38 4 0.07
39 16 0.27
40 4 0.07
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.40
Consensus pattern (36 bp):
AAATTTTAAATATTATAAAAATTAATAAATTCATAT
Found at i:36102279 original size:18 final size:18
Alignment explanation
Indices: 36102253--36102302 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
36102243 CCTAATTGTT
36102253 ACCCTAGCCCAAACAATA
1 ACCCTAGCCCAAACAATA
* **
36102271 ACCCAAGCCCAATTAATA
1 ACCCTAGCCCAAACAATA
36102289 ACCCTAGCCCAAAC
1 ACCCTAGCCCAAAC
36102303 CAACAGCAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.42, C:0.40, G:0.06, T:0.12
Consensus pattern (18 bp):
ACCCTAGCCCAAACAATA
Found at i:36102315 original size:16 final size:17
Alignment explanation
Indices: 36102294--36102328 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
36102284 TAATAACCCT
*
36102294 AGCCCA-AACCAACAGC
1 AGCCCACAACAAACAGC
36102310 AGCCCACAACAAACAGC
1 AGCCCACAACAAACAGC
36102327 AG
1 AG
36102329 AGAAGCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.46, C:0.40, G:0.14, T:0.00
Consensus pattern (17 bp):
AGCCCACAACAAACAGC
Found at i:36115671 original size:138 final size:138
Alignment explanation
Indices: 36115420--36115687 Score: 394
Period size: 138 Copynumber: 1.9 Consensus size: 138
36115410 CAGTGAAACC
* * * *
36115420 ACTAATCCTATTTCCCTGAAGTTGCAGCGGAGCGGATTAAAATGATGAATCCTATACCTCTAAAG
1 ACTAATCCTATCTCCCTGAAGTTGCAACGGAGCGAATTAAAACGATGAATCCTATACCTCTAAAG
* * * * *
36115485 TTGTAGTCGGTCGGATCAAATGTACCATAACAAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGA
66 TTGCAGTAGGTCGGATCAAATCTACCATAACAAGTCTTATCTCCCTGAAATCGCAGTAGAGCAGA
36115550 CTGAAGCT
131 CTGAAGCT
* *
36115558 ACTAATCCTATCTCCCTGAAGTTGCAATGGAGCGAATTAAAACGATGAATCCTATACCTCTGAAG
1 ACTAATCCTATCTCCCTGAAGTTGCAACGGAGCGAATTAAAACGATGAATCCTATACCTCTAAAG
* * *
36115623 TTGCAGTAGGTCGGATTAAATCTACCATAAC-AGATCTTATCTCTCTGAAGTCGCAGTAGAGCAG
66 TTGCAGTAGGTCGGATCAAATCTACCATAACAAG-TCTTATCTCCCTGAAATCGCAGTAGAGCAG
36115687 A
130 A
36115688 TCATATTGAA
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
137 2 0.02
138 113 0.98
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (138 bp):
ACTAATCCTATCTCCCTGAAGTTGCAACGGAGCGAATTAAAACGATGAATCCTATACCTCTAAAG
TTGCAGTAGGTCGGATCAAATCTACCATAACAAGTCTTATCTCCCTGAAATCGCAGTAGAGCAGA
CTGAAGCT
Found at i:36116176 original size:16 final size:17
Alignment explanation
Indices: 36116155--36116190 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
36116145 ATTAATAACC
*
36116155 CAGCCCA-AACCAACAG
1 CAGCCCACAACAAACAG
36116171 CAGCCCACAACAAACAG
1 CAGCCCACAACAAACAG
36116188 CAG
1 CAG
36116191 AGAAGCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.44, C:0.42, G:0.14, T:0.00
Consensus pattern (17 bp):
CAGCCCACAACAAACAG
Found at i:36118481 original size:3 final size:3
Alignment explanation
Indices: 36118473--36118530 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
36118463 CACAGACACA
36118473 AAT AAT AAT AAT AAT AAT AAT 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
36118521 AAT AAT AAT A
1 AAT AAT AAT A
36118531 TAACAAAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:36122612 original size:13 final size:13
Alignment explanation
Indices: 36122594--36122646 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
36122584 TAGAAAAAAT
36122594 TTCTTAATTTATC
1 TTCTTAATTTATC
*
36122607 TTCTTATTTTTTTAT-
1 TTCTTA---ATTTATC
36122622 TTCTTAATTTATC
1 TTCTTAATTTATC
*
36122635 TTCTTCATTTAT
1 TTCTTAATTTAT
36122647 TCGTTACTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.15
13 17 0.52
15 6 0.18
16 5 0.15
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (13 bp):
TTCTTAATTTATC
Found at i:36130406 original size:16 final size:16
Alignment explanation
Indices: 36130387--36130417 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36130377 TATATTCTGA
36130387 CTTATTTTATTTTGTC
1 CTTATTTTATTTTGTC
36130403 CTTATTTTATTTTGT
1 CTTATTTTATTTTGT
36130418 TTTTAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (16 bp):
CTTATTTTATTTTGTC
Found at i:36130452 original size:19 final size:19
Alignment explanation
Indices: 36130404--36130489 Score: 63
Period size: 19 Copynumber: 4.6 Consensus size: 19
36130394 TATTTTGTCC
*
36130404 TTATTTTATTTTGTTT-TTA
1 TTATTTTATTTT-TTTACTA
* *
36130423 GTA-TTTA-TTTTTCA-TA
1 TTATTTTATTTTTTTACTA
*
36130439 TTATTTTATTTTTTTACTG
1 TTATTTTATTTTTTTACTA
*
36130458 TTATTTTATTTCTTTTAGTTA
1 TTATTTTATTT-TTTTA-CTA
*
36130479 TTATATTATTT
1 TTATTTTATTT
36130490 CTTATGTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
16 6 0.11
17 7 0.13
18 10 0.19
19 14 0.26
20 5 0.09
21 11 0.21
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (19 bp):
TTATTTTATTTTTTTACTA
Found at i:36130482 original size:21 final size:20
Alignment explanation
Indices: 36130437--36130492 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
36130427 TTATTTTTCA
36130437 TATTATTTTATTT-TTTTAC
1 TATTATTTTATTTCTTTTAC
* *
36130456 TGTTATTTTATTTCTTTTAGT
1 TATTATTTTATTTCTTTTA-C
*
36130477 TATTATATTATTTCTT
1 TATTATTTTATTTCTT
36130493 ATGTATTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.39
20 5 0.16
21 14 0.45
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (20 bp):
TATTATTTTATTTCTTTTAC
Found at i:36133227 original size:26 final size:25
Alignment explanation
Indices: 36133198--36133280 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 25
36133188 ACATACCGCA
*
36133198 GCTCTTTGTGAGCGTCCCATTATATG
1 GCTCTTTGTGAGCTTCCCATTA-ATG
*
36133224 GCTCTTTGTGAGCTTCCCAATTAAAG
1 GCTCTTTGTGAGCTTCCC-ATTAATG
*
36133250 GCTCTTTGTGAGCTTCCTGATTAATG
1 GCTCTTTGTGAGCTTCC-CATTAATG
36133276 GCTCT
1 GCTCT
36133281 CCGGTGCTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 47 0.92
27 4 0.08
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (25 bp):
GCTCTTTGTGAGCTTCCCATTAATG
Found at i:36133398 original size:24 final size:23
Alignment explanation
Indices: 36133357--36133418 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
36133347 TGGCTTTTCG
* *
36133357 AAGCTACCTATTATTGGCTCGCAT
1 AAGCTTCCCATTA-TGGCTCGCAT
**
36133381 AAGCTTCCCGATTATGGCTCTTAT
1 AAGCTTCCC-ATTATGGCTCGCAT
*
36133405 GAGCTTCCCATTAT
1 AAGCTTCCCATTAT
36133419 ACAGCTTGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 5 0.16
24 23 0.72
25 4 0.12
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (23 bp):
AAGCTTCCCATTATGGCTCGCAT
Found at i:36134049 original size:13 final size:13
Alignment explanation
Indices: 36134031--36134056 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36134021 GAAATATTTT
36134031 CGTTGGAACTAGC
1 CGTTGGAACTAGC
36134044 CGTTGGAACTAGC
1 CGTTGGAACTAGC
36134057 ACATGGGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
CGTTGGAACTAGC
Found at i:36146721 original size:24 final size:23
Alignment explanation
Indices: 36146677--36146721 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
36146667 GTTTTATGGC
*
36146677 TTTTAGGGTTTAGGGTGCAGGCT
1 TTTTAGGGTTTAGGGTCCAGGCT
36146700 TTTTAGGAG-TTAGGGGTCCAGG
1 TTTTAGG-GTTTA-GGGTCCAGG
36146722 AAAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.16, C:0.09, G:0.40, T:0.36
Consensus pattern (23 bp):
TTTTAGGGTTTAGGGTCCAGGCT
Found at i:36162044 original size:29 final size:30
Alignment explanation
Indices: 36161993--36162057 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
36161983 CAGGCCCGAA
36161993 TATATTATGTTATAAAAATATTATAT-TAAT
1 TATA-TATGTTATAAAAATATTATATATAAT
* *
36162023 TATATATGTTA-AATAATAATTATATATATT
1 TATATATGTTATAAAAAT-ATTATATATAAT
36162053 TATAT
1 TATAT
36162058 TGAACACTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.16
29 14 0.45
30 12 0.39
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
TATATATGTTATAAAAATATTATATATAAT
Found at i:36168506 original size:37 final size:36
Alignment explanation
Indices: 36168465--36168536 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
36168455 ATTCCAAAAC
*
36168465 TAATAC-TATTTTAATA-TATTTAATATTAAATTTAATG
1 TAATACTTATCTTAATAGTATTT--TATT-AATTTAATG
36168502 TAATACTTATCTTAATAGTATTTTATTAATTTAAT
1 TAATACTTATCTTAATAGTATTTTATTAATTTAAT
36168537 ATTAAAGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 8 0.25
37 10 0.31
38 9 0.28
39 5 0.16
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (36 bp):
TAATACTTATCTTAATAGTATTTTATTAATTTAATG
Found at i:36168637 original size:14 final size:14
Alignment explanation
Indices: 36168610--36168647 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
36168600 TAATTTAATA
36168610 AAATTTAA--TATT
1 AAATTTAATCTATT
36168622 AAATTTAATCTATT
1 AAATTTAATCTATT
36168636 AAATTTAATCTA
1 AAATTTAATCTA
36168648 ATAATTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 8 0.33
14 16 0.67
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTTAATCTATT
Found at i:36190600 original size:40 final size:40
Alignment explanation
Indices: 36190556--36190684 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 40
36190546 GCGCCTAACG
*
36190556 CTAGTCGGATAAACCAACAAATATAATGGTGTGCCCAGCA
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCCAGCA
** * ** *
36190596 CTAGTCAGATAAACTGA-AGA-A-AAT--TGCACCCAGCG
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCCAGCA
* * *
36190631 CTAATCGGATAAACCAACAAATATAATGGTGTGCCTAGCA
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCCAGCA
36190671 CTAGTCAGATAAAC
1 CTAGTCAGATAAAC
36190685 TGATGAAAGT
Statistics
Matches: 66, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
35 21 0.32
36 2 0.03
37 4 0.06
38 4 0.06
39 2 0.03
40 33 0.50
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (40 bp):
CTAGTCAGATAAACCAACAAATATAATGGTGTGCCCAGCA
Found at i:36190708 original size:75 final size:75
Alignment explanation
Indices: 36190413--36190719 Score: 362
Period size: 75 Copynumber: 4.1 Consensus size: 75
36190403 GCACTAGTTA
* * * * * * *
36190413 GATAAACCGACATATATAATGATGTGCCCAACACTAGTAAGATAAATTGATGAAAGTTGCTCCTA
1 GATAAACCAACAAATATAATGGTGTGCCCAACACTAGTCAGATAAACTGATGAAAGTTGCGCCCA
**
36190478 GTGCTAGTCG
66 ACGCTAGTCG
* * * * * * * *
36190488 GATAAACCGACAGATAAAATGTTGTGCGCAACATTAGTCAGATAAACTAATGAAAGTTGCGCCTA
1 GATAAACCAACAAATATAATGGTGTGCCCAACACTAGTCAGATAAACTGATGAAAGTTGCGCCCA
36190553 ACGCTAGTCG
66 ACGCTAGTCG
* * * *
36190563 GATAAACCAACAAATATAATGGTGTGCCCAGCACTAGTCAGATAAACTGAAGAAAATTGCACCCA
1 GATAAACCAACAAATATAATGGTGTGCCCAACACTAGTCAGATAAACTGATGAAAGTTGCGCCCA
* *
36190628 GCGCTAATCG
66 ACGCTAGTCG
* * *
36190638 GATAAACCAACAAATATAATGGTGTGCCTAGCACTAGTCAGATAAACTGATGAAAGTTACGCCCA
1 GATAAACCAACAAATATAATGGTGTGCCCAACACTAGTCAGATAAACTGATGAAAGTTGCGCCCA
**
36190703 ACGCTAGTAA
66 ACGCTAGTCG
36190713 GATAAAC
1 GATAAAC
36190720 TGACAATATT
Statistics
Matches: 198, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 198 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (75 bp):
GATAAACCAACAAATATAATGGTGTGCCCAACACTAGTCAGATAAACTGATGAAAGTTGCGCCCA
ACGCTAGTCG
Found at i:36194913 original size:25 final size:25
Alignment explanation
Indices: 36194877--36194936 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
36194867 TTGCGGATGC
* *
36194877 TCTATATCTCGTGAGAGAATATCGA
1 TCTATAGCTCGTGAGAGAATACCGA
* *
36194902 TTTATAGCTCGTGAGAGCATACCGA
1 TCTATAGCTCGTGAGAGAATACCGA
*
36194927 TCTACAGCTC
1 TCTATAGCTC
36194937 AAATGAGCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (25 bp):
TCTATAGCTCGTGAGAGAATACCGA
Found at i:36200146 original size:25 final size:26
Alignment explanation
Indices: 36200117--36200172 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
36200107 TCAATTTGCA
* *
36200117 TAAAATAT-GAATAATTTAAT-AAAT
1 TAAAATATCAAATAATTAAATAAAAT
36200141 TGAAAA-ATCAAATAATTAAATAAAAT
1 T-AAAATATCAAATAATTAAATAAAAT
36200167 TAAAAT
1 TAAAAT
36200173 TTAGGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 3 0.12
25 18 0.69
26 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (26 bp):
TAAAATATCAAATAATTAAATAAAAT
Found at i:36201013 original size:27 final size:27
Alignment explanation
Indices: 36200979--36201031 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
36200969 TATAAAAATT
*
36200979 AAATTAAATTAAAAACTTTTATTTTAA
1 AAATTAAATGAAAAACTTTTATTTTAA
36201006 AAATTAAATGAAAAACTTTTATTTTA
1 AAATTAAATGAAAAACTTTTATTTTA
36201032 GCTGCTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (27 bp):
AAATTAAATGAAAAACTTTTATTTTAA
Found at i:36210460 original size:25 final size:28
Alignment explanation
Indices: 36210417--36210480 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
36210407 CTTAAAACTT
*
36210417 AAAAAAAACTAAATATGGTGTGAAC-TGA
1 AAAAAAAAC-AAATATGGTATGAACATGA
36210445 AAAAAAAAC-AAT-TGGTATGAACATGA
1 AAAAAAAACAAATATGGTATGAACATGA
36210471 ACATAAAAAA
1 A-A-AAAAAA
36210481 ATAGCCATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 9 0.28
26 7 0.22
27 1 0.03
28 15 0.47
ACGTcount: A:0.59, C:0.08, G:0.14, T:0.19
Consensus pattern (28 bp):
AAAAAAAACAAATATGGTATGAACATGA
Done.