Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 18 of 335
Found at i:6688268 original size:31 final size:31
Alignment explanation
Indices: 6688230--6688288 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
6688220 AAAATTTGTA
6688230 TTAAATATTAAAAAAT-TAATATTTTTATTTT
1 TTAAATATTAAAAAATATAAT-TTTTTATTTT
*
6688261 TTAAATATTAAAATATATAATTTTTTAT
1 TTAAATATTAAAAAATATAATTTTTTAT
6688289 CAAATATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TTAAATATTAAAAAATATAATTTTTTATTTT
Found at i:6689237 original size:14 final size:14
Alignment explanation
Indices: 6689218--6689246 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6689208 TAGGTAAAAA
6689218 TACCAACATAATAG
1 TACCAACATAATAG
6689232 TACCAACATAATAG
1 TACCAACATAATAG
6689246 T
1 T
6689247 GAAAAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (14 bp):
TACCAACATAATAG
Found at i:6689266 original size:22 final size:21
Alignment explanation
Indices: 6689232--6689276 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
6689222 AACATAATAG
* *
6689232 TACCAACATAATAGTGAAAAAA
1 TACCAACAAAATAG-CAAAAAA
*
6689254 TACCAAGAAAATAGCAAAAAA
1 TACCAACAAAATAGCAAAAAA
6689275 TA
1 TA
6689277 AAATAGTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.62, C:0.13, G:0.09, T:0.16
Consensus pattern (21 bp):
TACCAACAAAATAGCAAAAAA
Found at i:6690928 original size:30 final size:31
Alignment explanation
Indices: 6690887--6690944 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
6690877 TTGTTTTATC
6690887 ATTAAACTATTTA-AAATTTTTATTTAAGTT
1 ATTAAACTATTTATAAATTTTTATTTAAGTT
* * *
6690917 ATTAAATTATTTATAAGTTTTTGTTTAA
1 ATTAAACTATTTATAAATTTTTATTTAA
6690945 ATCACTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (31 bp):
ATTAAACTATTTATAAATTTTTATTTAAGTT
Found at i:6691724 original size:27 final size:29
Alignment explanation
Indices: 6691668--6691728 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
6691658 TTTGCTTATG
* *
6691668 TTTT-ATTTTTTCATATAATTTCAACTTA
1 TTTTCATTTTTTCATAAAATTTCAACATA
*
6691696 TTTTCATTTTTTC-TAAAATTTTAA-ATA
1 TTTTCATTTTTTCATAAAATTTCAACATA
6691723 TTTTCA
1 TTTTCA
6691729 AGTAATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 8 0.28
28 13 0.45
29 8 0.28
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTCATTTTTTCATAAAATTTCAACATA
Found at i:6693128 original size:2 final size:2
Alignment explanation
Indices: 6693121--6693157 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6693111 GAATAATCCT
6693121 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6693158 GGCCTTCTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6694472 original size:25 final size:25
Alignment explanation
Indices: 6694425--6694472 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6694415 TTTGGTGGTC
* * *
6694425 AAATCATGTTTTTAACGCCAAAAGG
1 AAATCACGTTTTTAACACAAAAAGG
6694450 AAATCACGTTTTTAACACAAAAA
1 AAATCACGTTTTTAACACAAAAA
6694473 CCCTCGTCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (25 bp):
AAATCACGTTTTTAACACAAAAAGG
Found at i:6697765 original size:28 final size:29
Alignment explanation
Indices: 6697702--6697768 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
6697692 TTTAACTTAT
*
6697702 ATTTTTATAATTTTTAAAAGATTAAATTTA
1 ATTTTTATAATTTTT-AAAGATTAAATGTA
*
6697732 ATTTTTATTATTTTT-AAGATTAAAATGTA
1 ATTTTTATAATTTTTAAAGATT-AAATGTA
6697761 ATTTTTAT
1 ATTTTTAT
6697769 CATTATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 6 0.18
29 14 0.41
30 14 0.41
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (29 bp):
ATTTTTATAATTTTTAAAGATTAAATGTA
Found at i:6697782 original size:28 final size:29
Alignment explanation
Indices: 6697714--6697785 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 29
6697704 TTTTATAATT
* * *
6697714 TTTAAAAGATT-AAATTTAATTTTTATTA
1 TTTATAAGATTAAAATGTAATTTTTATCA
*
6697742 TTTTTAAGATTAAAATGTAATTTTTATCA
1 TTTATAAGATTAAAATGTAATTTTTATCA
6697771 -TTATAA-ATTTAAAAT
1 TTTATAAGA-TTAAAAT
6697786 TTTATAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.03
28 21 0.57
29 15 0.41
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTATAAGATTAAAATGTAATTTTTATCA
Found at i:6698636 original size:6 final size:7
Alignment explanation
Indices: 6698621--6698645 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6698611 CTATCTTTAT
6698621 AAAAGAA
1 AAAAGAA
6698628 AAAAGAA
1 AAAAGAA
6698635 AAAAGAA
1 AAAAGAA
6698642 AAAA
1 AAAA
6698646 AATCTATAAA
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:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:6714782 original size:20 final size:21
Alignment explanation
Indices: 6714737--6714784 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
6714727 TCAATCAAAC
*
6714737 AAAA-GAAATCCTAAAAAGGA
1 AAAATGAAATCCTAAAAAAGA
* *
6714757 ATAATGAAATCC-AAAAAATA
1 AAAATGAAATCCTAAAAAAGA
6714777 AAAATGAA
1 AAAATGAA
6714785 GATGAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATGAAATCCTAAAAAAGA
Found at i:6715171 original size:25 final size:24
Alignment explanation
Indices: 6715119--6715178 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
6715109 TTTCTTTTCC
* * *
6715119 CATTTTATTTTTTAATATTATATC
1 CATTTTATTTATTAATATTACATA
*
6715143 CATTTTATTATATTATTATTACATA
1 CATTTTATT-TATTAATATTACATA
6715168 CATTTTTATTT
1 CA-TTTTATTT
6715179 TTATAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 9 0.30
25 14 0.47
26 7 0.23
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (24 bp):
CATTTTATTTATTAATATTACATA
Found at i:6718491 original size:3 final size:3
Alignment explanation
Indices: 6718485--6718530 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6718475 ACTCCTCCTG
6718485 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
6718531 CTTACCTCCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:6719864 original size:38 final size:38
Alignment explanation
Indices: 6719813--6719890 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
6719803 GTTGAGGAAC
6719813 TTACTTCAAGTTCTTCTTTGCAAAGGTTAGTGAAATCA
1 TTACTTCAAGTTCTTCTTTGCAAAGGTTAGTGAAATCA
6719851 TTACTTCAAGTTCTTCTTTGCAAAGGTTAGTGAAATCA
1 TTACTTCAAGTTCTTCTTTGCAAAGGTTAGTGAAATCA
6719889 TT
1 TT
6719891 CTTTCTAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (38 bp):
TTACTTCAAGTTCTTCTTTGCAAAGGTTAGTGAAATCA
Found at i:6722578 original size:33 final size:33
Alignment explanation
Indices: 6722541--6722604 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
6722531 ATAAATTTAA
6722541 AAAATATAATACATC-AAATAAATTAAAAATATT
1 AAAATA-AATACATCAAAATAAATTAAAAATATT
**
6722574 AAAATAAATATTTCAAAATAAATTAAAAATA
1 AAAATAAATACATCAAAATAAATTAAAAATA
6722605 AAATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (33 bp):
AAAATAAATACATCAAAATAAATTAAAAATATT
Found at i:6722604 original size:11 final size:11
Alignment explanation
Indices: 6722556--6722613 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
6722546 ATAATACATC
6722556 AAATAAATTAA
1 AAATAAATTAA
6722567 AAAT--ATT-A
1 AAATAAATTAA
*
6722575 AAATAAATATTTCA
1 AAAT-AA-A-TTAA
6722589 AAATAAATTAA
1 AAATAAATTAA
*
6722600 AAATAAAATAA
1 AAATAAATTAA
6722611 AAA
1 AAA
6722614 ATATTTATAC
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
8 5 0.13
9 3 0.08
11 20 0.51
12 2 0.05
13 4 0.10
14 5 0.13
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.28
Consensus pattern (11 bp):
AAATAAATTAA
Found at i:6722616 original size:33 final size:33
Alignment explanation
Indices: 6722556--6722619 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
6722546 ATAATACATC
* *
6722556 AAATAAATTAAAAATATTAAAATAAATATTTCA
1 AAATAAATTAAAAATATAAAAAAAAATATTTCA
6722589 AAATAAATTAAAAATA-AAATAAAAAATATTT
1 AAATAAATTAAAAATATAAA-AAAAAATATTT
6722620 ATACTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (33 bp):
AAATAAATTAAAAATATAAAAAAAAATATTTCA
Found at i:6731540 original size:34 final size:34
Alignment explanation
Indices: 6731502--6731570 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
6731492 AGAAAACAAA
6731502 GATCATATCAATGATTATATCAATGCACCAAGAT
1 GATCATATCAATGATTATATCAATGCACCAAGAT
*
6731536 GATCATATCAATGTTTATATCAATGCACCAAGAT
1 GATCATATCAATGATTATATCAATGCACCAAGAT
6731570 G
1 G
6731571 GTAATGTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (34 bp):
GATCATATCAATGATTATATCAATGCACCAAGAT
Found at i:6735429 original size:19 final size:19
Alignment explanation
Indices: 6735407--6735461 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 19
6735397 AAAGATAAAA
6735407 TATAATTAATGTAATAATT
1 TATAATTAATGTAATAATT
*
6735426 TATAA--AAGGTAA-AA--
1 TATAATTAATGTAATAATT
*
6735440 TATAATTAATGTACTAATT
1 TATAATTAATGTAATAATT
6735459 TAT
1 TAT
6735462 TCCTTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 10
0.68 0.07 0.24
Matches are distributed among these distances:
14 5 0.18
16 7 0.25
17 8 0.29
19 8 0.29
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (19 bp):
TATAATTAATGTAATAATT
Found at i:6735439 original size:33 final size:33
Alignment explanation
Indices: 6735394--6735461 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
6735384 AAATTTTAAC
6735394 ATAAAAGATAAAATATAATTAATGTAATAATTT
1 ATAAAAGATAAAATATAATTAATGTAATAATTT
* *
6735427 ATAAAAGGTAAAATATAATTAATGTACTAATTT
1 ATAAAAGATAAAATATAATTAATGTAATAATTT
6735460 AT
1 AT
6735462 TCCTTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (33 bp):
ATAAAAGATAAAATATAATTAATGTAATAATTT
Found at i:6737569 original size:23 final size:22
Alignment explanation
Indices: 6737543--6737593 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6737533 TTGAGAAGAA
* *
6737543 AGAAAACTGGGAACACAACACAG
1 AGAAAACTAGG-ACAAAACACAG
* *
6737566 AGAAAATTATGACAAAACACAG
1 AGAAAACTAGGACAAAACACAG
6737588 AGAAAA
1 AGAAAA
6737594 TTATATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.59, C:0.16, G:0.18, T:0.08
Consensus pattern (22 bp):
AGAAAACTAGGACAAAACACAG
Found at i:6740037 original size:26 final size:26
Alignment explanation
Indices: 6740006--6740083 Score: 156
Period size: 26 Copynumber: 3.0 Consensus size: 26
6739996 AGATGTTCTA
6740006 AAAGATTGTCTTAAATTTAATTCATT
1 AAAGATTGTCTTAAATTTAATTCATT
6740032 AAAGATTGTCTTAAATTTAATTCATT
1 AAAGATTGTCTTAAATTTAATTCATT
6740058 AAAGATTGTCTTAAATTTAATTCATT
1 AAAGATTGTCTTAAATTTAATTCATT
6740084 TCCTCTTTCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (26 bp):
AAAGATTGTCTTAAATTTAATTCATT
Found at i:6757229 original size:15 final size:15
Alignment explanation
Indices: 6757209--6757241 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6757199 ATAATAAATA
6757209 ATTATTTAAATTTAT
1 ATTATTTAAATTTAT
*
6757224 ATTATTTATATTTAT
1 ATTATTTAAATTTAT
6757239 ATT
1 ATT
6757242 TGCCATTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATTTAAATTTAT
Found at i:6757373 original size:3 final size:3
Alignment explanation
Indices: 6757365--6757401 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6757355 TTGTTTAAAC
6757365 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6757402 ATTATTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6758695 original size:9 final size:9
Alignment explanation
Indices: 6758681--6758760 Score: 50
Period size: 8 Copynumber: 9.6 Consensus size: 9
6758671 ATTATTTTAG
6758681 AAAATTTTT
1 AAAATTTTT
6758690 AAAA-TTTT
1 AAAATTTTT
6758698 --AATTTTT
1 AAAATTTTT
**
6758705 -TTATTTTT
1 AAAATTTTT
*
6758713 AAAA-ATTT
1 AAAATTTTT
6758721 AAAA--TTT
1 AAAATTTTT
*
6758728 GAAATTTTT
1 AAAATTTTT
6758737 ATAAATATTTT
1 A-AAAT-TTTT
6758748 -AAATTTTT
1 AAAATTTTT
6758756 AAAAT
1 AAAAT
6758761 AATTTTTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
6 2 0.04
7 10 0.18
8 21 0.37
9 16 0.28
10 4 0.07
11 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (9 bp):
AAAATTTTT
Found at i:6758751 original size:19 final size:19
Alignment explanation
Indices: 6758720--6758772 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
6758710 TTTAAAAATT
*
6758720 TAAA-ATTTGAAATTTTTA
1 TAAATATTTTAAATTTTTA
6758738 TAAATATTTTAAATTTTTA
1 TAAATATTTTAAATTTTTA
*
6758757 -AAATAATTTTTAATTT
1 TAAAT-ATTTTAAATTT
6758773 ATTTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 8 0.26
19 23 0.74
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TAAATATTTTAAATTTTTA
Found at i:6758754 original size:18 final size:17
Alignment explanation
Indices: 6758682--6758772 Score: 64
Period size: 19 Copynumber: 5.4 Consensus size: 17
6758672 TTATTTTAGA
6758682 AAATTTTTAAA-ATTTT
1 AAATTTTTAAATATTTT
**
6758698 -AATTTTTTTAT-TTTT
1 AAATTTTTAAATATTTT
** *
6758713 AAAAATTTAAA-ATTTG
1 AAATTTTTAAATATTTT
6758729 AAATTTTTATAAATATTTT
1 AAA-TTTT-TAAATATTTT
6758748 AAATTTTTAAAATAATTTT
1 AAATTTTT-AAAT-ATTTT
*
6758767 TAATTT
1 AAATTT
6758773 ATTTTGTAAC
Statistics
Matches: 56, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
15 12 0.21
16 12 0.21
17 3 0.05
18 12 0.21
19 17 0.30
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (17 bp):
AAATTTTTAAATATTTT
Found at i:6759310 original size:11 final size:11
Alignment explanation
Indices: 6759294--6759318 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6759284 AACTTTAACG
6759294 AATTATAAAAT
1 AATTATAAAAT
6759305 AATTATAAAAT
1 AATTATAAAAT
6759316 AAT
1 AAT
6759319 AGTTATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:6764944 original size:17 final size:18
Alignment explanation
Indices: 6764924--6764965 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6764914 GATATTTTTG
6764924 ATATAAAAATA-TATATT
1 ATATAAAAATATTATATT
**
6764941 ATAT-ATTATATTATATT
1 ATATAAAAATATTATATT
6764958 ATATAAAA
1 ATATAAAA
6764966 CATAAGTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 3
0.73 0.15 0.12
Matches are distributed among these distances:
16 4 0.21
17 14 0.74
18 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATAAAAATATTATATT
Found at i:6768243 original size:51 final size:50
Alignment explanation
Indices: 6768084--6768240 Score: 233
Period size: 51 Copynumber: 3.1 Consensus size: 50
6768074 ACTTCTGATC
* *
6768084 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
6768135 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
* * *
6768185 AGTGATAAGTGATAAGTGGTAGTTTTAGCTGCACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
6768236 AGTGA
1 AGTGA
6768241 TAAATGTGAT
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 45 0.47
51 51 0.53
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:6769812 original size:2 final size:2
Alignment explanation
Indices: 6769805--6769840 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6769795 ATCATTCAAT
6769805 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6769841 CACCATTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6770083 original size:6 final size:6
Alignment explanation
Indices: 6770072--6770102 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
6770062 ACAAATCCGA
*
6770072 AACAGT AACAGT AACAGT AACGGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
6770103 TTCGACACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:6771230 original size:5 final size:5
Alignment explanation
Indices: 6771220--6771268 Score: 66
Period size: 5 Copynumber: 10.0 Consensus size: 5
6771210 TGTTTCTTTT
*
6771220 ATATA ATATA ATATA ATAATA ATAT- A-AGA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA
6771269 CTTAATTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
3 1 0.03
4 2 0.05
5 31 0.79
6 5 0.13
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:6773566 original size:26 final size:26
Alignment explanation
Indices: 6773519--6773571 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
6773509 TTGAAAGGAA
* *
6773519 ATTTTAAAAATGTTCTAAATATATTTT
1 ATTTAAAAAATATTCTAAATAT-TTTT
*
6773546 ATTTAAAAAATATTC-ATATATTTTT
1 ATTTAAAAAATATTCTAAATATTTTT
6773571 A
1 A
6773572 ATAATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 5 0.22
27 13 0.57
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (26 bp):
ATTTAAAAAATATTCTAAATATTTTT
Found at i:6773661 original size:11 final size:11
Alignment explanation
Indices: 6773645--6773674 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6773635 TTCACTTTCA
6773645 ATTATTTTAAC
1 ATTATTTTAAC
*
6773656 ATTATTTTAAT
1 ATTATTTTAAC
6773667 ATTATTTT
1 ATTATTTT
6773675 TTCGTACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTATTTTAAC
Found at i:6773847 original size:20 final size:23
Alignment explanation
Indices: 6773808--6773848 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
6773798 TTTTTAATAT
6773808 TTATTCATTTGTTATTTTGGTCC
1 TTATTCATTTGTTATTTTGGTCC
6773831 TTATTC-TTT-TT-TTTTGGT
1 TTATTCATTTGTTATTTTGGT
6773849 TATTTTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 3 0.17
23 6 0.33
ACGTcount: A:0.10, C:0.10, G:0.12, T:0.68
Consensus pattern (23 bp):
TTATTCATTTGTTATTTTGGTCC
Found at i:6777107 original size:18 final size:18
Alignment explanation
Indices: 6777084--6777121 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6777074 AACTTATTGA
*
6777084 TCATTTCTGCTTTCTGTT
1 TCATTTCTGCTCTCTGTT
6777102 TCATTTCTGCTCTCTGTT
1 TCATTTCTGCTCTCTGTT
6777120 TC
1 TC
6777122 GGATTCTGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.26, G:0.11, T:0.58
Consensus pattern (18 bp):
TCATTTCTGCTCTCTGTT
Found at i:6779645 original size:19 final size:19
Alignment explanation
Indices: 6779621--6779659 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6779611 TCTATATATT
*
6779621 ATTGATTTGCTTAGCACGC
1 ATTGATTTGCTTAACACGC
6779640 ATTGATTTGCTTAACACGC
1 ATTGATTTGCTTAACACGC
6779659 A
1 A
6779660 GACAATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (19 bp):
ATTGATTTGCTTAACACGC
Found at i:6799756 original size:21 final size:22
Alignment explanation
Indices: 6799714--6799758 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
6799704 AGCTGAAATT
6799714 GAGAGTGCAAGAGCAGCAGTTCA
1 GAGAGTGCAAGAG-AGCAGTTCA
* *
6799737 GAGAGTGGAAGAG-GCCGTTCA
1 GAGAGTGCAAGAGAGCAGTTCA
6799758 G
1 G
6799759 GAGCAAGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
23 12 0.60
ACGTcount: A:0.31, C:0.16, G:0.40, T:0.13
Consensus pattern (22 bp):
GAGAGTGCAAGAGAGCAGTTCA
Found at i:6803371 original size:4 final size:4
Alignment explanation
Indices: 6803362--6803388 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6803352 TGCTTCTAAT
6803362 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
6803389 TTCAGTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:6815780 original size:17 final size:17
Alignment explanation
Indices: 6815736--6815785 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
6815726 TAAATTTTTT
* *
6815736 ATATAAAAAATTTAAAA
1 ATATAAAACATTAAAAA
*
6815753 ATATAATACA-TAAAAA
1 ATATAAAACATTAAAAA
6815769 ATACTAAAACATTAAAA
1 ATA-TAAAACATTAAAA
6815786 TAAAAATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 8 0.30
17 14 0.52
18 5 0.19
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAAACATTAAAAA
Found at i:6818867 original size:21 final size:19
Alignment explanation
Indices: 6818842--6818886 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6818832 ATTTCTAATT
6818842 ATTTTTATCTTGAAATAAATA
1 ATTTTT-TCTTGAAATAAA-A
* *
6818863 ATTTTTTTTTGAAATTAAA
1 ATTTTTTCTTGAAATAAAA
6818882 ATTTT
1 ATTTT
6818887 ACTCATCCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTTTTTCTTGAAATAAAA
Found at i:6819548 original size:59 final size:59
Alignment explanation
Indices: 6819484--6819600 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 59
6819474 TTTTACAAAA
* * *
6819484 TTTATATTTCTTTATATTTTGTATAATTTTCTTA-CAACTTTATAAAATTTTATAATTTT
1 TTTATATTTCTATATATTTTATA-AATTTTCTTATCAACTTTATAAAATTTTACAATTTT
* * **
6819543 TTTATATTTCTATATATTTTATAAATTTTTTTATGATTTTTATAAAATTTTACAATTT
1 TTTATATTTCTATATATTTTATAAATTTTCTTATCAACTTTATAAAATTTTACAATTT
6819601 ATATATATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 9 0.18
59 41 0.82
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (59 bp):
TTTATATTTCTATATATTTTATAAATTTTCTTATCAACTTTATAAAATTTTACAATTTT
Found at i:6819570 original size:19 final size:18
Alignment explanation
Indices: 6819522--6819605 Score: 53
Period size: 19 Copynumber: 4.3 Consensus size: 18
6819512 TTCTTACAAC
6819522 TTTATAAAATTTTATAATT
1 TTTAT-AAATTTTATAATT
* *
6819541 TTTTTATATTTCTAT-ATAT
1 TTTATAAATTT-TATAAT-T
*
6819560 TTTATAAATTTTTTTATGATT
1 TTTATAAA---TTTTATAATT
*
6819581 TTTATAAAATTTTACAATT
1 TTTAT-AAATTTTATAATT
*
6819600 TATATA
1 TTTATA
6819606 TATATTTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
18 8 0.16
19 26 0.51
21 9 0.18
22 8 0.16
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (18 bp):
TTTATAAATTTTATAATT
Found at i:6819586 original size:28 final size:28
Alignment explanation
Indices: 6819484--6819600 Score: 92
Period size: 29 Copynumber: 4.0 Consensus size: 28
6819474 TTTTACAAAA
*
6819484 TTTATATTTCTTTATATTTTGTATAATTTT
1 TTTATATTTCTATATA-TTT-TATAATTTT
* * * *
6819514 CTTACAACTT-TATAAAATTTTATAATTTT
1 TTTA-TATTTCTAT-ATATTTTATAATTTT
6819543 TTTATATTTCTATATATTTTATAAATTTT
1 TTTATATTTCTATATATTTTAT-AATTTT
* * *
6819572 TTTATGATTTTTATAAAATTTTACAATTT
1 TTTAT-ATTTCTAT-ATATTTTATAATTT
6819601 ATATATATAT
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
28 11 0.16
29 26 0.38
30 20 0.29
31 12 0.17
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTATATTTCTATATATTTTATAATTTT
Found at i:6819797 original size:53 final size:53
Alignment explanation
Indices: 6819739--6819841 Score: 138
Period size: 53 Copynumber: 1.9 Consensus size: 53
6819729 TTTTTAATGC
* *
6819739 ATTTTGAAAGTTCAAGTATCCAATTGAA-TG-AAAAAAGAGTAGAGATTTAATTA
1 ATTTTGAAAGTTCAAGTAACCAAAT-AAGTGTAAAAAA-AGTAGAGATTTAATTA
* *
6819792 ATTTTGAAAGTTTAAGTAACTAAATAAGTGTAAAAAAAGTAGAGATTTAA
1 ATTTTGAAAGTTCAAGTAACCAAATAAGTGTAAAAAAAGTAGAGATTTAA
6819842 AAATATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 2 0.05
53 36 0.82
54 6 0.14
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.32
Consensus pattern (53 bp):
ATTTTGAAAGTTCAAGTAACCAAATAAGTGTAAAAAAAGTAGAGATTTAATTA
Found at i:6823013 original size:21 final size:21
Alignment explanation
Indices: 6822989--6823031 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
6822979 AAGTTTGCTT
6822989 TCATGAGTTAATTGAAACAAA
1 TCATGAGTTAATTGAAACAAA
6823010 TCATGAGTTAATTGAAACAAA
1 TCATGAGTTAATTGAAACAAA
6823031 T
1 T
6823032 GCTTATTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (21 bp):
TCATGAGTTAATTGAAACAAA
Found at i:6827700 original size:84 final size:84
Alignment explanation
Indices: 6827602--6827773 Score: 344
Period size: 84 Copynumber: 2.0 Consensus size: 84
6827592 AAACAGTGAG
6827602 GTTTAATTAGTAGAACTTCAGCGTAAATAGTTTCATAACGTAAACTGTATTAATCATGTTTTGTT
1 GTTTAATTAGTAGAACTTCAGCGTAAATAGTTTCATAACGTAAACTGTATTAATCATGTTTTGTT
6827667 GCCTTAAGAAGGAAAAAGA
66 GCCTTAAGAAGGAAAAAGA
6827686 GTTTAATTAGTAGAACTTCAGCGTAAATAGTTTCATAACGTAAACTGTATTAATCATGTTTTGTT
1 GTTTAATTAGTAGAACTTCAGCGTAAATAGTTTCATAACGTAAACTGTATTAATCATGTTTTGTT
6827751 GCCTTAAGAAGGAAAAAGA
66 GCCTTAAGAAGGAAAAAGA
6827770 GTTT
1 GTTT
6827774 GTAAAATCTT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (84 bp):
GTTTAATTAGTAGAACTTCAGCGTAAATAGTTTCATAACGTAAACTGTATTAATCATGTTTTGTT
GCCTTAAGAAGGAAAAAGA
Found at i:6831984 original size:135 final size:134
Alignment explanation
Indices: 6831743--6832015 Score: 501
Period size: 135 Copynumber: 2.0 Consensus size: 134
6831733 TGTCTGCTGA
6831743 AGAGTTGAAACTCAATAATCTTAGTATGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTCTG
1 AGAGTTGAAACTCAATAATCTTAGTATGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTCTG
*
6831808 TAGGAGGTTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
66 TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
6831873 GAAC
131 GAAC
* * *
6831877 AGAGTTGAAACTCAATAATTTTATTATTGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTT
1 AGAGTTGAAACTCAATAATCTTAGTA-TGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTCT
6831942 GTAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAA
65 GTAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAA
6832007 AGAAC
130 AGAAC
6832012 AGAG
1 AGAG
6832016 GTACGTCTTC
Statistics
Matches: 134, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
134 24 0.18
135 110 0.82
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (134 bp):
AGAGTTGAAACTCAATAATCTTAGTATGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTCTG
TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
GAAC
Found at i:6843109 original size:25 final size:24
Alignment explanation
Indices: 6843056--6843110 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
6843046 TATTTTTATT
**
6843056 TTAATTTATAAAAAAATATTCTTC
1 TTAATTTATAAAAAAATATTCAAC
*
6843080 GTAATTTATAAAAAAATAAGTT-AAC
1 TTAATTTATAAAAAAAT-A-TTCAAC
6843105 TTAATT
1 TTAATT
6843111 ATTAGTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 16 0.64
25 7 0.28
26 2 0.08
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (24 bp):
TTAATTTATAAAAAAATATTCAAC
Found at i:6849106 original size:19 final size:19
Alignment explanation
Indices: 6849082--6849125 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6849072 ACTAAATATT
*
6849082 TTAATATTTTATTATCTT-A
1 TTAATATATTATTA-CTTAA
6849101 TTAATATATTATTACTTAA
1 TTAATATATTATTACTTAA
6849120 TTAATA
1 TTAATA
6849126 ATAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAATATATTATTACTTAA
Found at i:6864447 original size:17 final size:18
Alignment explanation
Indices: 6864425--6864464 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6864415 AATTTGTAGC
6864425 AAAAATATT-TTAAATTA
1 AAAAATATTGTTAAATTA
* *
6864442 AAAAATGTTGTTGAATTA
1 AAAAATATTGTTAAATTA
6864460 AAAAA
1 AAAAA
6864465 AAGATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (18 bp):
AAAAATATTGTTAAATTA
Found at i:6865651 original size:2 final size:2
Alignment explanation
Indices: 6865644--6865697 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
6865634 TTCACCATCC
6865644 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -T
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6865685 CT CT CT CT CT CT C
1 CT CT CT CT CT CT C
6865698 CCTTCCACCA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6869416 original size:3 final size:3
Alignment explanation
Indices: 6869408--6869437 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6869398 AACTGAAGAA
*
6869408 ATC ATC ATC ATC ATC ATC ATC ATC AAC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
6869438 TTGTTGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (3 bp):
ATC
Found at i:6878263 original size:26 final size:27
Alignment explanation
Indices: 6878229--6878282 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
6878219 AGAAGGAAAA
6878229 ATTAAAAATAAAAGAAAAA-TGAAACC
1 ATTAAAAATAAAAGAAAAACTGAAACC
6878255 ATTAAAAATAAAAGAAAAACTGAAACC
1 ATTAAAAATAAAAGAAAAACTGAAACC
6878282 A
1 A
6878283 ACAATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.15
Consensus pattern (27 bp):
ATTAAAAATAAAAGAAAAACTGAAACC
Found at i:6878293 original size:26 final size:26
Alignment explanation
Indices: 6878231--6878300 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
6878221 AAGGAAAAAT
6878231 TAAAAATAAAAGAAAAA-TGAAACCA
1 TAAAAATAAAAGAAAAACTGAAACCA
6878256 TTAAAAATAAAAGAAAAACTGAAACCA
1 -TAAAAATAAAAGAAAAACTGAAACCA
* * *
6878283 -ACAATTAAAAAAAAAACT
1 TAAAAATAAAAGAAAAACT
6878301 AGTAGGAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 15 0.38
26 17 0.43
27 8 0.20
ACGTcount: A:0.70, C:0.10, G:0.06, T:0.14
Consensus pattern (26 bp):
TAAAAATAAAAGAAAAACTGAAACCA
Found at i:6891328 original size:16 final size:14
Alignment explanation
Indices: 6891307--6891341 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
6891297 CAACTCTAAT
6891307 ATAAAATTATATATA
1 ATAAAATTA-ATATA
6891322 CATAAAATTAATATA
1 -ATAAAATTAATATA
6891337 ATAAA
1 ATAAA
6891342 TTCAGTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 5 0.26
16 9 0.47
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAAAATTAATATA
Found at i:6896544 original size:20 final size:20
Alignment explanation
Indices: 6896519--6896557 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6896509 TATGTATTTT
*
6896519 TAATTTTTTAATTTTTTTAA
1 TAATTTTTTAATTTATTTAA
6896539 TAATTTTTTAATTTATTTA
1 TAATTTTTTAATTTATTTA
6896558 TTTTAATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TAATTTTTTAATTTATTTAA
Found at i:6896545 original size:11 final size:11
Alignment explanation
Indices: 6896519--6896550 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6896509 TATGTATTTT
6896519 TAATTTTTTAA
1 TAATTTTTTAA
6896530 T--TTTTTTAA
1 TAATTTTTTAA
6896539 TAATTTTTTAA
1 TAATTTTTTAA
6896550 T
1 T
6896551 TTATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.47
11 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TAATTTTTTAA
Found at i:6896875 original size:21 final size:21
Alignment explanation
Indices: 6896851--6896900 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
6896841 GGTGGCTGTG
* *
6896851 AGATTAGTTACTGTAGCGGTA
1 AGATTAGATACTGTAGCAGTA
* * *
6896872 AGATTGGATATTGTAGCAGTG
1 AGATTAGATACTGTAGCAGTA
6896893 AGATTAGA
1 AGATTAGA
6896901 AACAATGGTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (21 bp):
AGATTAGATACTGTAGCAGTA
Found at i:6897522 original size:2 final size:2
Alignment explanation
Indices: 6897515--6897551 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6897505 TCTTCACTAC
6897515 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6897552 TTAATTTCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6911984 original size:25 final size:25
Alignment explanation
Indices: 6911949--6912086 Score: 222
Period size: 25 Copynumber: 5.5 Consensus size: 25
6911939 ACAAATGTGC
6911949 TAATCAGAGAGCACTGGCGTGCTAA
1 TAATCAGAGAGCACTGGCGTGCTAA
* *
6911974 TAATCAAAGAGCACTGGCTTGCTAA
1 TAATCAGAGAGCACTGGCGTGCTAA
* **
6911999 TATTCAGAGAGCACTAACGTGCTAA
1 TAATCAGAGAGCACTGGCGTGCTAA
6912024 TAATCAGAGAGCACTGGCGTGCTAA
1 TAATCAGAGAGCACTGGCGTGCTAA
*
6912049 TATTCAGAGAGCACTGGCGTGCTAA
1 TAATCAGAGAGCACTGGCGTGCTAA
6912074 TAATCAGAGAGCA
1 TAATCAGAGAGCA
6912087 TGCTGAGGTC
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 101 1.00
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (25 bp):
TAATCAGAGAGCACTGGCGTGCTAA
Found at i:6917268 original size:23 final size:23
Alignment explanation
Indices: 6917236--6917279 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6917226 AAAATTTCAC
* *
6917236 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
6917259 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
6917280 TATTTTTGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:6917869 original size:27 final size:27
Alignment explanation
Indices: 6917831--6917949 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 27
6917821 AACTTGACAC
6917831 TTTTTCCTAATTTGGTACCTAAACTTT
1 TTTTTCCTAATTTGGTACCTAAACTTT
6917858 TTTTGTCC-AATTTGGTATCC-AAACTTGACACT
1 TTTT-TCCTAATTTGGTA-CCTAAACTT-----T
6917890 TTTTTCCTAATTTGGTACCTAAACTTTT
1 TTTTTCCTAATTTGGTACCTAAAC-TTT
*
6917918 TTTTGTCC-AATTTGGTACCTAATCTTT
1 TTTT-TCCTAATTTGGTACCTAAACTTT
6917945 TTTTT
1 TTTTT
6917950 GTTTGATTTG
Statistics
Matches: 80, Mismatches: 1, Indels: 23
0.77 0.01 0.22
Matches are distributed among these distances:
26 1 0.01
27 26 0.32
28 25 0.31
29 3 0.04
31 5 0.06
32 18 0.22
33 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.51
Consensus pattern (27 bp):
TTTTTCCTAATTTGGTACCTAAACTTT
Found at i:6917902 original size:32 final size:32
Alignment explanation
Indices: 6917821--6917915 Score: 116
Period size: 32 Copynumber: 3.2 Consensus size: 32
6917811 TTGATACTTG
6917821 AACTTGACAC-TTTTTCCTAATTTGGTACCTA
1 AACTTGACACTTTTTTCCTAATTTGGTACCTA
6917852 AACTT-----TTTTTGTCC-AATTTGGTATCC-A
1 AACTTGACACTTTTT-TCCTAATTTGGTA-CCTA
6917879 AACTTGACACTTTTTTCCTAATTTGGTACCTA
1 AACTTGACACTTTTTTCCTAATTTGGTACCTA
6917911 AACTT
1 AACTT
6917916 TTTTTTGTCC
Statistics
Matches: 54, Mismatches: 0, Indels: 19
0.74 0.00 0.26
Matches are distributed among these distances:
27 19 0.35
28 5 0.09
31 10 0.19
32 20 0.37
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.44
Consensus pattern (32 bp):
AACTTGACACTTTTTTCCTAATTTGGTACCTA
Found at i:6917909 original size:59 final size:59
Alignment explanation
Indices: 6917821--6917934 Score: 212
Period size: 59 Copynumber: 1.9 Consensus size: 59
6917811 TTGATACTTG
6917821 AACTTGACACTTTTTCCTAATTTGGTACCTAAAC-TTTTTTTGTCCAATTTGGTATCCA
1 AACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTTGTCCAATTTGGTATCCA
6917879 AACTTGACACTTTTTTCCTAATTTGGTACCTAAACTTTTTTTTGTCCAATTTGGTA
1 AACTTGACAC-TTTTTCCTAATTTGGTACCTAAACTTTTTTTTGTCCAATTTGGTA
6917935 CCTAATCTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
58 10 0.19
59 24 0.44
60 20 0.37
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (59 bp):
AACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTTGTCCAATTTGGTATCCA
Found at i:6917929 original size:28 final size:29
Alignment explanation
Indices: 6917831--6917951 Score: 137
Period size: 28 Copynumber: 4.2 Consensus size: 29
6917821 AACTTGACAC
6917831 TTTT-TCCTAATTTGGTACCTAAAC-TTT
1 TTTTGTCCTAATTTGGTACCTAAACTTTT
*
6917858 TTTTGTCC-AATTTGGTATCC-AAACTTGACACT
1 TTTTGTCCTAATTTGGTA-CCTAAACTT----TT
6917890 TTTT-TCCTAATTTGGTACCTAAACTTTT
1 TTTTGTCCTAATTTGGTACCTAAACTTTT
*
6917918 TTTTGTCC-AATTTGGTACCTAATCTTTT
1 TTTTGTCCTAATTTGGTACCTAAACTTTT
6917946 TTTTGT
1 TTTTGT
6917952 TTGATTTGGT
Statistics
Matches: 81, Mismatches: 3, Indels: 19
0.79 0.03 0.18
Matches are distributed among these distances:
27 17 0.21
28 36 0.44
29 3 0.04
31 5 0.06
32 20 0.25
ACGTcount: A:0.21, C:0.18, G:0.10, T:0.51
Consensus pattern (29 bp):
TTTTGTCCTAATTTGGTACCTAAACTTTT
Found at i:6918109 original size:4 final size:4
Alignment explanation
Indices: 6918093--6918124 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
6918083 TATGTTCAAT
*
6918093 TTAA TTAA CTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA
6918125 AAATAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (4 bp):
TTAA
Found at i:6928398 original size:21 final size:21
Alignment explanation
Indices: 6928374--6928414 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6928364 TCCATTGTTC
6928374 AATAAGTCTTT-AGTTATAGAT
1 AATAAGT-TTTCAGTTATAGAT
*
6928395 AATAAGTTTTCAGTTTTAGA
1 AATAAGTTTTCAGTTATAGA
6928415 ATTTTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (21 bp):
AATAAGTTTTCAGTTATAGAT
Found at i:6929349 original size:14 final size:14
Alignment explanation
Indices: 6929330--6929357 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6929320 CATTATTTAT
6929330 TTAATAATTGTAGA
1 TTAATAATTGTAGA
6929344 TTAATAATTGTAGA
1 TTAATAATTGTAGA
6929358 ATATATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
TTAATAATTGTAGA
Found at i:6929827 original size:6 final size:6
Alignment explanation
Indices: 6929788--6929825 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
6929778 CCATACAGTT
* *
6929788 GAGACA GAGACA GAGACA GAGATA GAGACA GAAACA GA
1 GAGACA GAGACA GAGACA GAGACA GAGACA GAGACA GA
6929826 AAAAGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.53, C:0.13, G:0.32, T:0.03
Consensus pattern (6 bp):
GAGACA
Found at i:6930873 original size:6 final size:6
Alignment explanation
Indices: 6930862--6930891 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
6930852 TGATTAATGC
*
6930862 ATTCAT ATTCAT ATTCAT ATTCTT ATTCAT
1 ATTCAT ATTCAT ATTCAT ATTCAT ATTCAT
6930892 GTTATATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTCAT
Found at i:6931655 original size:21 final size:21
Alignment explanation
Indices: 6931631--6931675 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6931621 TGTTTTAGGG
*
6931631 TTTACGGTTAGCGGTTTAAGA
1 TTTACAGTTAGCGGTTTAAGA
* * *
6931652 TTTATAGTTAGTGGTTTAGGA
1 TTTACAGTTAGCGGTTTAAGA
6931673 TTT
1 TTT
6931676 TAGGGTTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.04, G:0.27, T:0.47
Consensus pattern (21 bp):
TTTACAGTTAGCGGTTTAAGA
Found at i:6931775 original size:19 final size:18
Alignment explanation
Indices: 6931753--6931811 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
6931743 TGGTTAGTTA
6931753 ATTAAATTAGGGTTATTCG
1 ATTAAATTAGGGTTATT-G
* * *
6931772 ATTAAATGAGCGTCAATTG
1 ATTAAATTAGGGT-TATTG
*
6931791 ATTAATTTAGGGTTAATTG
1 ATTAAATTAGGGTT-ATTG
6931810 AT
1 AT
6931812 ACATAATGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
19 28 0.90
20 3 0.10
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (18 bp):
ATTAAATTAGGGTTATTG
Found at i:6932151 original size:126 final size:126
Alignment explanation
Indices: 6931924--6932293 Score: 677
Period size: 126 Copynumber: 2.9 Consensus size: 126
6931914 AGGTTAATTA
6931924 AGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTT
1 AGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTT
* *
6931989 TGGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGTTCGTAGAAAAATAATTCTG
66 CGGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTG
*
6932050 AGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTT
1 AGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTT
* *
6932115 CGGAAAAAAGCTCCCACGTGAACGCGCTTTTTCTACAGTAGTTCGTAGAAAAATAATTCTG
66 CGGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTG
*
6932176 AGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTTAAGCAGGATGCACTGTCAGCAAAATTT
1 AGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTT
*
6932241 CGGAAAAAAGCTCCCACATGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAA
66 CGGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAA
6932294 CTGAGGCTAT
Statistics
Matches: 234, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 234 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (126 bp):
AGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTT
CGGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTCTG
Found at i:6934697 original size:13 final size:14
Alignment explanation
Indices: 6934681--6934716 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
6934671 CAATCTCATA
6934681 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
6934694 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
6934707 TCTC-ATTTCA
1 TCTCAATTTCA
6934717 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:6934706 original size:18 final size:19
Alignment explanation
Indices: 6934668--6934708 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
6934658 TGGTTCATGT
6934668 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
6934687 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
6934705 TTTC
1 TTTC
6934709 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:6936240 original size:19 final size:19
Alignment explanation
Indices: 6936216--6936254 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6936206 AATACTTATT
*
6936216 TATTATTTATACATGTGTA
1 TATTATTAATACATGTGTA
6936235 TATTATTAATACATGTGTA
1 TATTATTAATACATGTGTA
6936254 T
1 T
6936255 CTATTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAATACATGTGTA
Found at i:6936262 original size:19 final size:19
Alignment explanation
Indices: 6936219--6936262 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
6936209 ACTTATTTAT
6936219 TATTT-ATACATGTGTATA
1 TATTTAATACATGTGTATA
*
6936237 T-TATTAATACATGTGTATC
1 TAT-TTAATACATGTGTATA
6936256 TATTTAA
1 TATTTAA
6936263 AACCATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 3 0.14
19 17 0.77
20 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (19 bp):
TATTTAATACATGTGTATA
Found at i:6936554 original size:2 final size:2
Alignment explanation
Indices: 6936547--6936580 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6936537 TACTAACTTC
*
6936547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6936581 TTACTAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6939582 original size:18 final size:18
Alignment explanation
Indices: 6939556--6939598 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
6939546 GACTAGGAAA
* *
6939556 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGAT
*
6939574 AGGATACATATAAGGGAT
1 AGGATACATAAAAGGGAT
6939592 AGGATAC
1 AGGATAC
6939599 GTACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.07, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGAT
Found at i:6939699 original size:30 final size:29
Alignment explanation
Indices: 6939664--6939753 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 29
6939654 TTGGGCCCGG
*
6939664 TGATTGTGGCGGCGCTGTTGATGAGCTTGC
1 TGATTGTGG-GGCGCTGTTGATGAGCCTGC
* *
6939694 TGATTGTATGGGCGCTGTTGATGGGCCTGC
1 TGATTGT-GGGGCGCTGTTGATGAGCCTGC
*
6939724 TGATTGTGTGGGCGCTGTTGATGGGCCTGC
1 TGATTGTG-GGGCGCTGTTGATGAGCCTGC
6939754 GTCGTCGTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
30 53 0.98
31 1 0.02
ACGTcount: A:0.09, C:0.17, G:0.41, T:0.33
Consensus pattern (29 bp):
TGATTGTGGGGCGCTGTTGATGAGCCTGC
Found at i:6939710 original size:15 final size:13
Alignment explanation
Indices: 6939674--6939749 Score: 62
Period size: 15 Copynumber: 5.2 Consensus size: 13
6939664 TGATTGTGGC
6939674 GGCGCTGTTGATG
1 GGCGCTGTTGATG
*
6939687 AGCTTGCTGATTGTATG
1 GGC--GCTG-TTG-ATG
6939704 GGCGCTGTTGATG
1 GGCGCTGTTGATG
*
6939717 GGCCTGCTGATTGTGTG
1 GG-C-GCTG-TTG-ATG
6939734 GGCGCTGTTGATG
1 GGCGCTGTTGATG
6939747 GGC
1 GGC
6939750 CTGCGTCGTC
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
13 12 0.24
14 7 0.14
15 16 0.31
16 7 0.14
17 9 0.18
ACGTcount: A:0.09, C:0.16, G:0.42, T:0.33
Consensus pattern (13 bp):
GGCGCTGTTGATG
Found at i:6941478 original size:13 final size:13
Alignment explanation
Indices: 6941460--6941485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6941450 GCAGGGGAGA
6941460 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
6941473 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
6941486 GGAGAAAAGG
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:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:6943561 original size:21 final size:21
Alignment explanation
Indices: 6943536--6943592 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
6943526 ATGCAAACAT
*
6943536 CATAACTGAAAATTAAATTTG
1 CATAAATGAAAATTAAATTTG
6943557 CATAAATGAAAATTAAATTTG
1 CATAAATGAAAATTAAATTTG
*
6943578 AATAAAT--AAATTAAA
1 CATAAATGAAAATTAAA
6943593 GTATCACTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.24
21 26 0.76
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
CATAAATGAAAATTAAATTTG
Found at i:6944638 original size:30 final size:30
Alignment explanation
Indices: 6944604--6944661 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
6944594 TAATAGAAAT
*
6944604 AATATAGTGACATATA-TTTTAATTTTTTTA
1 AATAT-GTGACATATAGTTATAATTTTTTTA
* *
6944634 AATATGTTAGATATAGTTATAATTTTTT
1 AATATGTGACATATAGTTATAATTTTTT
6944662 CAATAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (30 bp):
AATATGTGACATATAGTTATAATTTTTTTA
Found at i:6946108 original size:15 final size:14
Alignment explanation
Indices: 6946086--6946130 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
6946076 TTATGACAAA
6946086 AAAATATTTTAAAT
1 AAAATATTTTAAAT
6946100 AAAAGTATTATTAAAT
1 AAAA-TATT-TTAAAT
*
6946116 AATATATTTTTAAAT
1 AAAATA-TTTTAAAT
6946131 TTTATAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 4 0.15
15 12 0.44
16 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
AAAATATTTTAAAT
Found at i:6947506 original size:12 final size:12
Alignment explanation
Indices: 6947489--6947514 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6947479 GTCGTCGTCG
6947489 TCGTCATCATCA
1 TCGTCATCATCA
6947501 TCGTCATCATCA
1 TCGTCATCATCA
6947513 TC
1 TC
6947515 TTCTTCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.35, G:0.08, T:0.35
Consensus pattern (12 bp):
TCGTCATCATCA
Found at i:6953025 original size:2 final size:2
Alignment explanation
Indices: 6953018--6953050 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6953008 ACAATTTCAA
*
6953018 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6953051 GATTAACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6965010 original size:72 final size:72
Alignment explanation
Indices: 6964893--6965035 Score: 286
Period size: 72 Copynumber: 2.0 Consensus size: 72
6964883 ATTGGTTTGC
6964893 TTCACTGCAGGTTTTAGGCTGTTCAGTGTTGACTATTGGGTGAAGTAACTAAATATAGGAGGTTA
1 TTCACTGCAGGTTTTAGGCTGTTCAGTGTTGACTATTGGGTGAAGTAACTAAATATAGGAGGTTA
6964958 TTCAGGG
66 TTCAGGG
6964965 TTCACTGCAGGTTTTAGGCTGTTCAGTGTTGACTATTGGGTGAAGTAACTAAATATAGGAGGTTA
1 TTCACTGCAGGTTTTAGGCTGTTCAGTGTTGACTATTGGGTGAAGTAACTAAATATAGGAGGTTA
6965030 TTCAGG
66 TTCAGG
6965036 TGGGTTGAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.35
Consensus pattern (72 bp):
TTCACTGCAGGTTTTAGGCTGTTCAGTGTTGACTATTGGGTGAAGTAACTAAATATAGGAGGTTA
TTCAGGG
Found at i:6966912 original size:2 final size:2
Alignment explanation
Indices: 6966905--6966936 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6966895 TTTGATAGTA
6966905 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6966937 GAGCCTGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6971321 original size:15 final size:17
Alignment explanation
Indices: 6971301--6971332 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
6971291 CCATAATTTG
6971301 AAATAAA-ATTG-AAAA
1 AAATAAATATTGTAAAA
6971316 AAATAAATATTGTAAAA
1 AAATAAATATTGTAAAA
6971333 TGAATGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (17 bp):
AAATAAATATTGTAAAA
Found at i:6971907 original size:15 final size:15
Alignment explanation
Indices: 6971881--6971934 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
6971871 ATTAAGATTT
*
6971881 TAAAATTCAAAA-AA
1 TAAAATTAAAAATAA
6971895 TAAGAATTAAAAATAA
1 TAA-AATTAAAAATAA
*
6971911 TCAAATT-AAAAT-A
1 TAAAATTAAAAATAA
6971924 TAAATATTAAA
1 TAAA-ATTAAA
6971935 TTCATAACTC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 4 0.12
14 11 0.33
15 14 0.42
16 4 0.12
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (15 bp):
TAAAATTAAAAATAA
Found at i:6977777 original size:15 final size:15
Alignment explanation
Indices: 6977757--6977796 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
6977747 TTTTATAAAT
*
6977757 TTAAAAATAATTATA
1 TTAAAAATAATAATA
6977772 TTAAAAATAAATAATA
1 TTAAAAAT-AATAATA
*
6977788 TAAAAAATA
1 TTAAAAATA
6977797 TTCAATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAAAATAATAATA
Found at i:6984693 original size:13 final size:13
Alignment explanation
Indices: 6984677--6984701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6984667 TATCATAAAA
6984677 GTTAATAATATTT
1 GTTAATAATATTT
6984690 GTTAATAATATT
1 GTTAATAATATT
6984702 ATTAGCAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
GTTAATAATATTT
Found at i:6987335 original size:21 final size:21
Alignment explanation
Indices: 6987311--6987364 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
6987301 ATTTTGAAAT
6987311 TTAAATATTTAAC-TTCTTAA
1 TTAAATATTTAACTTTCTTAA
* * *
6987331 CTTAATTACTTATCTTTCTTAA
1 -TTAAATATTTAACTTTCTTAA
*
6987353 TTAACTATTTAA
1 TTAAATATTTAA
6987365 ATATTAATGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAATATTTAACTTTCTTAA
Found at i:6989919 original size:3 final size:3
Alignment explanation
Indices: 6989911--6989935 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6989901 GGCTTCTCTT
6989911 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
6989936 CTTTTGTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:7000439 original size:12 final size:11
Alignment explanation
Indices: 7000413--7000437 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7000403 TGATTTTTTT
7000413 AAATATTTTAA
1 AAATATTTTAA
7000424 AAATATTTTAA
1 AAATATTTTAA
7000435 AAA
1 AAA
7000438 ATTAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATATTTTAA
Found at i:7000984 original size:25 final size:25
Alignment explanation
Indices: 7000955--7001006 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
7000945 AGTTTATAGG
*
7000955 TACGATACTCTTGGATTATAAAAAA
1 TACGATACTCTAGGATTATAAAAAA
7000980 TACGATACTCTAGGATTATAAAAAA
1 TACGATACTCTAGGATTATAAAAAA
7001005 TA
1 TA
7001007 TGTTCGCCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (25 bp):
TACGATACTCTAGGATTATAAAAAA
Found at i:7015806 original size:37 final size:38
Alignment explanation
Indices: 7015765--7015854 Score: 93
Period size: 33 Copynumber: 2.5 Consensus size: 38
7015755 TATTACAAAT
* *
7015765 TAAAATACATAATTTATATATTTGAA-ATAAATTTTA-A
1 TAAAATACATAATTTATATA-TTCAATATAAATATTATA
7015802 T-AAA-A-ATAATTT-TATATTCAATATAAATATTATA
1 TAAAATACATAATTTATATATTCAATATAAATATTATA
*
7015836 TAAAATACATTAAATTATA
1 TAAAATACA-TAATTTATA
7015855 AATAAAGGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
32 4 0.09
33 13 0.30
34 9 0.21
35 4 0.09
36 4 0.09
37 2 0.05
38 5 0.12
39 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (38 bp):
TAAAATACATAATTTATATATTCAATATAAATATTATA
Found at i:7015842 original size:18 final size:18
Alignment explanation
Indices: 7015791--7015842 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
7015781 TATATTTGAA
7015791 ATAAATTTTA-ATAAAA-
1 ATAAATTTTATATAAAAT
**
7015807 AT-AATTTTATATTCAAT
1 ATAAATTTTATATAAAAT
*
7015824 ATAAATATTATATAAAAT
1 ATAAATTTTATATAAAAT
7015842 A
1 A
7015843 CATTAAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 2 0.07
18 13 0.46
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATTTTATATAAAAT
Found at i:7031418 original size:33 final size:33
Alignment explanation
Indices: 7031376--7031441 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
7031366 CTCCTTGGAC
7031376 CTTTAATAGTCATCTCTTGATTTTACATAGGAT
1 CTTTAATAGTCATCTCTTGATTTTACATAGGAT
7031409 CTTTAATAGTCATCTCTTGATTTTACATAGGAT
1 CTTTAATAGTCATCTCTTGATTTTACATAGGAT
7031442 TGGGGAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (33 bp):
CTTTAATAGTCATCTCTTGATTTTACATAGGAT
Found at i:7035428 original size:46 final size:46
Alignment explanation
Indices: 7035376--7035551 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
7035366 TGGTTGAGCA
7035376 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
7035422 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * **
7035467 CATCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
7035515 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7035552 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.59
47 25 0.24
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:7035532 original size:93 final size:93
Alignment explanation
Indices: 7035373--7035543 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
7035363 GGATGGTTGA
* ****
7035373 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
7035438 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
7035466 GCATCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
7035531 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
7035544 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:7046112 original size:25 final size:25
Alignment explanation
Indices: 7046084--7046131 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
7046074 TTGCATAATT
*
7046084 ATGTCATGATT-CTATCACTACAATC
1 ATGTCA-GATTACTATCACAACAATC
7046109 ATGTCAGATTACTATCACAACAA
1 ATGTCAGATTACTATCACAACAA
7046132 CCTTCATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (25 bp):
ATGTCAGATTACTATCACAACAATC
Found at i:7046414 original size:24 final size:24
Alignment explanation
Indices: 7046387--7046434 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
7046377 TGGATATAGA
*
7046387 GATTTCCCTTTCGGTTCTATTTAT
1 GATTTCCCTTTCGATTCTATTTAT
*
7046411 GATTTCCCTTTTGATTCTATTTAT
1 GATTTCCCTTTCGATTCTATTTAT
7046435 TCTCACTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.15, C:0.19, G:0.10, T:0.56
Consensus pattern (24 bp):
GATTTCCCTTTCGATTCTATTTAT
Found at i:7047666 original size:22 final size:22
Alignment explanation
Indices: 7047638--7047684 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
7047628 TGTTCTTTTA
7047638 CAGAACATGTTTCTCATGCTAT
1 CAGAACATGTTTCTCATGCTAT
7047660 CAGAACATGTTTCTCATGCTAT
1 CAGAACATGTTTCTCATGCTAT
7047682 CAG
1 CAG
7047685 TATATCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (22 bp):
CAGAACATGTTTCTCATGCTAT
Found at i:7066317 original size:2 final size:2
Alignment explanation
Indices: 7066310--7066348 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7066300 ATTCATCTAC
7066310 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7066349 TATTTTTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7067692 original size:13 final size:11
Alignment explanation
Indices: 7067660--7067702 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
7067650 ACCATCTTTA
*
7067660 AATAAAATAAT
1 AATAAAATATT
7067671 AAT-AAATATCT
1 AATAAAATAT-T
7067682 AAGTAAAATATT
1 AA-TAAAATATT
7067694 AATAAAATA
1 AATAAAATA
7067703 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:7100965 original size:30 final size:29
Alignment explanation
Indices: 7100900--7100969 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
7100890 TCCCTTTTTT
* *
7100900 TTTTGTTTTCTTTTTTTTTCTATTTCAATGG
1 TTTTCTTTTCTTTTTTTTTCTATTTC-A-GC
7100931 TTTTCTTTTCATTTTTTTCTTCTATTTC-GC
1 TTTTCTTTTC-TTTTTTT-TTCTATTTCAGC
7100961 TTTTCTTTT
1 TTTTCTTTT
7100970 TTGAAAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 10 0.29
31 9 0.26
32 7 0.20
33 9 0.26
ACGTcount: A:0.07, C:0.14, G:0.06, T:0.73
Consensus pattern (29 bp):
TTTTCTTTTCTTTTTTTTTCTATTTCAGC
Found at i:7102140 original size:27 final size:28
Alignment explanation
Indices: 7102110--7102176 Score: 109
Period size: 27 Copynumber: 2.4 Consensus size: 28
7102100 TAATATATCG
7102110 AATTTTAAAAAAATATAAAATA-TTTAA
1 AATTTTAAAAAAATATAAAATATTTTAA
7102137 AATTTTAAAAAAATATAAAATATTTTAA
1 AATTTTAAAAAAATATAAAATATTTTAA
*
7102165 ACATTATAAAAA
1 A-ATTTTAAAAA
7102177 TTAAAAATAG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 22 0.59
28 6 0.16
29 9 0.24
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (28 bp):
AATTTTAAAAAAATATAAAATATTTTAA
Found at i:7102540 original size:17 final size:17
Alignment explanation
Indices: 7102518--7102553 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7102508 GACAGCAGAC
* *
7102518 CCCTTTTTTTTTCTTTT
1 CCCTTTTGTTTACTTTT
7102535 CCCTTTTGTTTACTTTT
1 CCCTTTTGTTTACTTTT
7102552 CC
1 CC
7102554 TCTGGTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.28, G:0.03, T:0.67
Consensus pattern (17 bp):
CCCTTTTGTTTACTTTT
Found at i:7102828 original size:12 final size:12
Alignment explanation
Indices: 7102791--7102829 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7102781 AAAGTGATAA
*
7102791 TGATGATGACGA
1 TGATGATGACGG
* *
7102803 CGATGATGATGG
1 TGATGATGACGG
7102815 TGATGATGACGG
1 TGATGATGACGG
7102827 TGA
1 TGA
7102830 ATTAAACAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.08, G:0.38, T:0.26
Consensus pattern (12 bp):
TGATGATGACGG
Found at i:7104589 original size:46 final size:47
Alignment explanation
Indices: 7104529--7104755 Score: 311
Period size: 46 Copynumber: 4.9 Consensus size: 47
7104519 TTTGACGTGA
* * * * * *
7104529 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
** * *
7104575 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
7104621 TTCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
7104667 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
7104713 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCA
7104756 AAGGGCACAC
Statistics
Matches: 167, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 5 0.03
46 162 0.97
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:7106839 original size:11 final size:11
Alignment explanation
Indices: 7106823--7106870 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
7106813 CTTTATATAC
7106823 TAATAAAATAA
1 TAATAAAATAA
*
7106834 TAATAAAATATCT
1 TAATAAAATA--A
* *
7106847 TATTAAAATAT
1 TAATAAAATAA
7106858 TAATAAAATAA
1 TAATAAAATAA
7106869 TA
1 TA
7106871 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:7108120 original size:20 final size:18
Alignment explanation
Indices: 7108084--7108128 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
7108074 AAACCTTGAA
7108084 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
7108102 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
7108122 -TTTCCCT
1 TTTTCCCT
7108129 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:7108363 original size:20 final size:20
Alignment explanation
Indices: 7108340--7108379 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7108330 TATAATTATT
7108340 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATCTTTTA
7108360 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATCTTTTA
7108380 ATACTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTAATAAATATCTTTTA
Found at i:7111876 original size:13 final size:13
Alignment explanation
Indices: 7111860--7111885 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7111850 CCTAATCTAC
7111860 AAATAAACCAAAA
1 AAATAAACCAAAA
7111873 AAATAAACCAAAA
1 AAATAAACCAAAA
7111886 GTTTAAAAAC
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:0.77, C:0.15, G:0.00, T:0.08
Consensus pattern (13 bp):
AAATAAACCAAAA
Found at i:7112803 original size:9 final size:8
Alignment explanation
Indices: 7112788--7112819 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
7112778 AGTATTCCAA
7112788 ATTTTTTT
1 ATTTTTTT
7112796 ATTTTTTT
1 ATTTTTTT
7112804 A--TTTTT
1 ATTTTTTT
7112810 ATTTTTTT
1 ATTTTTTT
7112818 AT
1 AT
7112820 AAAAAATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.27
8 16 0.73
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:7112810 original size:14 final size:14
Alignment explanation
Indices: 7112791--7112819 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7112781 ATTCCAAATT
7112791 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
7112805 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
7112819 T
1 T
7112820 AAAAAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Done.