Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 26 of 345
Found at i:7568756 original size:12 final size:12
Alignment explanation
Indices: 7568739--7568763 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7568729 TCCTTTCCTT
7568739 TCTTTTCTTTTC
1 TCTTTTCTTTTC
7568751 TCTTTTCTTTTC
1 TCTTTTCTTTTC
7568763 T
1 T
7568764 ATTTGCTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTCTTTTC
Found at i:7569424 original size:15 final size:15
Alignment explanation
Indices: 7569395--7569431 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7569385 TTCTTCTTCT
**
7569395 TCTTCTTCTTCCTCA
1 TCTTCTTCTAACTCA
7569410 TCTTCTTCTAACTCA
1 TCTTCTTCTAACTCA
7569425 TCTTCTT
1 TCTTCTT
7569432 GTTCCCAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.35, G:0.00, T:0.54
Consensus pattern (15 bp):
TCTTCTTCTAACTCA
Found at i:7569431 original size:3 final size:3
Alignment explanation
Indices: 7569354--7569418 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
7569344 GACTCAACAG
7569354 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* *
7569402 CTT CCT CAT CTT CTT CT
1 CTT CTT CTT CTT CTT CT
7569419 AACTCATCTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:7575599 original size:15 final size:14
Alignment explanation
Indices: 7575578--7575620 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
7575568 TAACTAAAGC
7575578 ACTATTCTGAACAT
1 ACTATTCTGAACAT
7575592 AGCTATTCTTGAACA-
1 A-CTATTC-TGAACAT
*
7575607 ATTATTCTGAACAT
1 ACTATTCTGAACAT
7575621 GATAGCTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 6 0.24
14 6 0.24
15 7 0.28
16 6 0.24
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (14 bp):
ACTATTCTGAACAT
Found at i:7575930 original size:7 final size:7
Alignment explanation
Indices: 7575920--7575956 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
7575910 ATATATTATA
*
7575920 TTGTATT
1 TTGTACT
7575927 TTGTACT
1 TTGTACT
7575934 TTGTACT
1 TTGTACT
7575941 TTGTACT
1 TTGTACT
7575948 TTGTACT
1 TTGTACT
7575955 TT
1 TT
7575957 TTCATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.11, G:0.14, T:0.62
Consensus pattern (7 bp):
TTGTACT
Found at i:7577692 original size:22 final size:20
Alignment explanation
Indices: 7577642--7577698 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
7577632 AGCCCACTCA
7577642 TATTATTTTATTTTAATATT
1 TATTATTTTATTTTAATATT
* *
7577662 TAATAATTTTATATTTTATATT
1 T-ATTATTTTAT-TTTAATATT
7577684 TATTGATTTT-TTTTA
1 TATT-ATTTTATTTTA
7577699 TACACTCATC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.13
21 12 0.40
22 14 0.47
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTATTTTATTTTAATATT
Found at i:7584578 original size:19 final size:19
Alignment explanation
Indices: 7584534--7584577 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
7584524 TTAGTACAAT
* *
7584534 AATTTTTATATTTTTTTAC
1 AATTTTTAAATTTCTTTAC
*
7584553 AAATTTTAAATTTCTTTAC
1 AATTTTTAAATTTCTTTAC
7584572 -ATTTTT
1 AATTTTT
7584578 TTATAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTTTTAAATTTCTTTAC
Found at i:7584592 original size:21 final size:21
Alignment explanation
Indices: 7584556--7584598 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
7584546 TTTTTACAAA
7584556 TTTTAAATTTCTTTAC-ATTT
1 TTTTAAATTTCTTTACGATTT
7584576 TTTTATAATTT-TCTTACGATTT
1 TTTTA-AATTTCT-TTACGATTT
7584598 T
1 T
7584599 ACAAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTAAATTTCTTTACGATTT
Found at i:7584616 original size:19 final size:19
Alignment explanation
Indices: 7584594--7584668 Score: 53
Period size: 20 Copynumber: 3.8 Consensus size: 19
7584584 TTTTCTTACG
7584594 ATTTTACAAAATTTTATAT
1 ATTTTACAAAATTTTATAT
* * *
7584613 ATTTTTTCTATATTTCTATAT
1 A-TTTTACAAAATTT-TATAT
* **
7584634 ATTTTATAATTTTTTATGAT
1 ATTTTACAAAATTTTAT-AT
*
7584654 -TTTTATAAAATTTTA
1 ATTTTACAAAATTTTA
7584669 CAATTTTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 17 0.39
20 21 0.48
21 6 0.14
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (19 bp):
ATTTTACAAAATTTTATAT
Found at i:7584619 original size:21 final size:21
Alignment explanation
Indices: 7584595--7584638 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
7584585 TTTCTTACGA
*
7584595 TTTTACAAAATTT-TATATAT
1 TTTTTCAAAATTTCTATATAT
* *
7584615 TTTTTCTATATTTCTATATAT
1 TTTTTCAAAATTTCTATATAT
7584636 TTT
1 TTT
7584639 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTCAAAATTTCTATATAT
Found at i:7584647 original size:9 final size:9
Alignment explanation
Indices: 7584603--7584770 Score: 58
Period size: 9 Copynumber: 17.8 Consensus size: 9
7584593 GATTTTACAA
7584603 AATTTTATAT
1 AATTTT-TAT
* *
7584613 ATTTTTTCT
1 AATTTTTAT
*
7584622 ATATTTCTAT
1 A-ATTTTTAT
7584632 -ATATTTTAT
1 AAT-TTTTAT
7584641 AATTTTTTAT
1 AA-TTTTTAT
*
7584651 GATTTTTAT
1 AATTTTTAT
* *
7584660 AAAATTTTAC
1 -AATTTTTAT
7584670 AATTTTTTTAT
1 AA--TTTTTAT
*
7584681 AATTTTTTTCT
1 AA--TTTTTAT
7584692 AA-TTTT-T
1 AATTTTTAT
7584699 AATTTTTAAAT
1 AATTTTT--AT
*
7584710 ATTTTTTATT
1 AATTTTTA-T
* *
7584720 AAATTTAAT
1 AATTTTTAT
*
7584729 CATTTTTAT
1 AATTTTTAT
*
7584738 AACTTTTATT
1 AATTTTTA-T
*
7584748 GATTTTTAT
1 AATTTTTAT
7584757 --TTTTTAT
1 AATTTTTAT
*
7584764 CATTTTT
1 AATTTTT
7584771 TTCCACATGT
Statistics
Matches: 119, Mismatches: 24, Indels: 31
0.68 0.14 0.18
Matches are distributed among these distances:
7 10 0.08
8 10 0.08
9 37 0.31
10 37 0.31
11 25 0.21
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
AATTTTTAT
Found at i:7584677 original size:30 final size:30
Alignment explanation
Indices: 7584576--7584705 Score: 117
Period size: 30 Copynumber: 4.4 Consensus size: 30
7584566 CTTTACATTT
* * *
7584576 TTTTATAATTTTCTTACGA-TTTTACAAAA
1 TTTTATAATTTTTTTATGATTTTTATAAAA
* *
7584605 TTTTATATATTTTTTCTAT-ATTTCTAT-ATA
1 TTTTATA-ATTTTTT-TATGATTTTTATAAAA
7584635 TTTTATAA-TTTTTTATGATTTTTATAAAA
1 TTTTATAATTTTTTTATGATTTTTATAAAA
* * * **
7584664 TTTTACAATTTTTTTATAATTTTTTTCTAA
1 TTTTATAATTTTTTTATGATTTTTATAAAA
7584694 TTTT-TAATTTTT
1 TTTTATAATTTTT
7584706 AAATATTTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
27 3 0.04
28 12 0.15
29 24 0.29
30 37 0.45
31 6 0.07
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (30 bp):
TTTTATAATTTTTTTATGATTTTTATAAAA
Found at i:7584702 original size:29 final size:28
Alignment explanation
Indices: 7584634--7584772 Score: 81
Period size: 29 Copynumber: 4.9 Consensus size: 28
7584624 ATTTCTATAT
* **
7584634 ATTTTATAA-TTTTTTATGATTTTTATAAA
1 ATTTT-TAATTTTTTTATAATTTTT-TTTA
*
7584663 ATTTTACAATTTTTTTATAATTTTTTTCTA
1 ATTTT-TAATTTTTTTATAATTTTTTT-TA
**
7584693 ATTTTTAATTTTTAAAT-ATTTTTTATTA
1 ATTTTTAATTTTTTTATAATTTTTT-TTA
* * * * *
7584721 A-ATTTAATCATTTTTATAACTTTTATTG
1 ATTTTTAAT-TTTTTTATAATTTTTTTTA
*
7584749 ATTTTT-A-TTTTTTATCATTTTTTT
1 ATTTTTAATTTTTTTATAATTTTTTT
7584773 CCACATGTCA
Statistics
Matches: 85, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
26 13 0.15
27 6 0.07
28 19 0.22
29 27 0.32
30 20 0.24
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (28 bp):
ATTTTTAATTTTTTTATAATTTTTTTTA
Found at i:7584947 original size:89 final size:90
Alignment explanation
Indices: 7584836--7585042 Score: 231
Period size: 90 Copynumber: 2.3 Consensus size: 90
7584826 GGGGCGATTT
* * * * * *
7584836 AAGTATCCAATTTAGTGAAAAAAAAAACATGGGTTTAATTACT-TTTTTTGAAAAA-GTTT-TAG
1 AAGTACCCAATTGAGTGAAAAAAAAAACAT-AGCTTAACTACTATTTTTTGAAAAACGTTTGAAG
*
7584898 TGCCTTTTTTATGCATTCTAAAAGTTC
65 -GCCTTTTTGATGCATTCTAAAAGTTC
* *
7584925 AAGTACCCAATTGAGTGTAAAAAAAAACATAGCTTAACTACTATTTTTTTAAAAACGTTTGAAGG
1 AAGTACCCAATTGAGTGAAAAAAAAAACATAGCTTAACTACTATTTTTTGAAAAACGTTTGAAGG
* * *
7584990 TCTTTTTGATGCATTGTGAAAGTTC
66 CCTTTTTGATGCATTCTAAAAGTTC
* * *
7585015 AAGTACCCAAGTAAATGAAAAAACAAAA
1 AAGTACCCAATTGAGTGAAAAAA-AAAA
7585043 GTAGGGACTT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
88 9 0.09
89 38 0.39
90 45 0.46
91 6 0.06
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (90 bp):
AAGTACCCAATTGAGTGAAAAAAAAAACATAGCTTAACTACTATTTTTTGAAAAACGTTTGAAGG
CCTTTTTGATGCATTCTAAAAGTTC
Found at i:7589287 original size:31 final size:31
Alignment explanation
Indices: 7589250--7589396 Score: 224
Period size: 31 Copynumber: 4.7 Consensus size: 31
7589240 TGTGTACAAT
7589250 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
7589281 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
7589312 GTGAAAAGTAGTAGCTTCGGCTTCCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
7589343 GTGAAAAGTGGTAGC-TCTAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTC-GGCTACCTGATCA
* *
7589374 GTGAATAGTGATAGCTTCGGCTA
1 GTGAAAAGTGGTAGCTTCGGCTA
7589397 TCGAATGTGA
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
30 2 0.02
31 100 0.96
32 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:7589415 original size:29 final size:29
Alignment explanation
Indices: 7589374--7589440 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
7589364 TACCTGATCA
* * * *
7589374 GTGAATAGTGATAGCTTCGGCTATCGAAT
1 GTGAAAAGGGATAGCTTCAGCTATCAAAT
7589403 GTGAAAAGGGATAGCTTCAGCTATCAAAT
1 GTGAAAAGGGATAGCTTCAGCTATCAAAT
7589432 -TGAGAAAGG
1 GTGA-AAAGG
7589441 AAAGGTATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (29 bp):
GTGAAAAGGGATAGCTTCAGCTATCAAAT
Found at i:7589485 original size:33 final size:33
Alignment explanation
Indices: 7589431--7589628 Score: 243
Period size: 33 Copynumber: 6.0 Consensus size: 33
7589421 AGCTATCAAA
* *
7589431 TTGAGAAAGGAAAGGTATACTTTGTGTATACTAT
1 TTGA-AAAGGTAAGGTATACTTTGTGTATACCAT
* *
7589465 TTGAAAATGTTAGGTATACTTTGTGTATACCAT
1 TTGAAAAGGTAAGGTATACTTTGTGTATACCAT
* *
7589498 TTGAAAAGGAAATGTATACTTTGTGTATACCAT
1 TTGAAAAGGTAAGGTATACTTTGTGTATACCAT
*
7589531 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
1 TTGAAAAGGTAAGGTATACTTTGTGTATACCAT
* * * * *
7589564 ATGAAAAGGGAAGGTATACTTTTTGGATATCAT
1 TTGAAAAGGTAAGGTATACTTTGTGTATACCAT
* * * *
7589597 ATGAAAAGGAAAGGTATATTTTGTGTGTACCA
1 TTGAAAAGGTAAGGTATACTTTGTGTATACCA
7589629 CTCGGAAAGA
Statistics
Matches: 141, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 137 0.97
34 4 0.03
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (33 bp):
TTGAAAAGGTAAGGTATACTTTGTGTATACCAT
Found at i:7589515 original size:66 final size:66
Alignment explanation
Indices: 7589431--7589628 Score: 270
Period size: 66 Copynumber: 3.0 Consensus size: 66
7589421 AGCTATCAAA
* *
7589431 TTGAGAAAGGAAAGGTATACTTTGTGTATACTATTTGAAAATGTTAGGTATACTTTGTGTATACC
1 TTGA-AAAGGAAAGGTATACTTTGTGTATACCATTTGAAAAGGTTAGGTATACTTTGTGTATACC
7589496 AT
65 AT
*
7589498 TTGAAAAGGAAATGTATACTTTGTGTATACCATTTGAAAAGGTTAGGTATACTTTGTGTATACCA
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCATTTGAAAAGGTTAGGTATACTTTGTGTATACCA
7589563 T
66 T
* * * * * * ** * *
7589564 ATGAAAAGGGAAGGTATACTTTTTGGATATCATATGAAAAGGAAAGGTATATTTTGTGTGTACCA
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCATTTGAAAAGGTTAGGTATACTTTGTGTATACCA
7589629 CTCGGAAAGA
Statistics
Matches: 117, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
66 113 0.97
67 4 0.03
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (66 bp):
TTGAAAAGGAAAGGTATACTTTGTGTATACCATTTGAAAAGGTTAGGTATACTTTGTGTATACCA
T
Found at i:7594959 original size:3 final size:3
Alignment explanation
Indices: 7594944--7594985 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
7594934 TATTTCAATT
*
7594944 TTA TTA CTA 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
7594986 GTGTATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:7594993 original size:153 final size:154
Alignment explanation
Indices: 7594816--7595287 Score: 648
Period size: 140 Copynumber: 3.2 Consensus size: 154
7594806 TTTTTACTTT
*
7594816 TATTATTATTATTAT-TAGT-T-TATATTTTTATTGTATATGTATATGTATATATATTTATACAT
1 TATTATTATTATTATCTATTATGTATATTTTTATTGTATATGTATATGTATATATATTTATACAT
7594878 AGTATTA-TTTTTAATTACTTTATTTTAATATTTTATTATATTATATTTGCCTTTTGTATTTCAA
66 AGTATTATTTTTTAATTACTTTATTTTAATATTTTATTATATTATATTTGCCTTTTGTATTTCAA
*
7594942 TTTTATTACTATTATTATTATTAT
131 TATTATTACTATTATTATTATTAT
7594966 TATTATTATTATTAT-TATTAGTGTATATTTTTATTGTATATGTATATGTATATATATTTATACA
1 TATTATTATTATTATCTATTA-TGTATATTTTTATTGTATATGTATATGTATATATATTTATACA
*
7595030 TAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTC
65 TAGTATTATTTTTTAATTACTTTATTTTAATA-TTTTATTATATTATATTTGCCTTTTGTATTTC
7595095 AATATTATTAC------------TAT
129 AATATTATTACTATTATTATTATTAT
* *
7595109 TATTATTATTATTAT-TA--GTGTATATCTTTATTGTATATGTATATGTATATATATTTATACAT
1 TATTATTATTATTATCTATTATGTATATTTTTATTGTATATGTATATGTATATATATTTATACAT
* *
7595171 AGTATTATTTTTTAATTATTTTATTTTAATATTTTATTATATTATATGTGCCTTTTGTATTTCAA
66 AGTATTATTTTTTAATTACTTTATTTTAATATTTTATTATATTATATTTGCCTTTTGTATTTCAA
* *
7595236 TATTATTATTATTAATATTAGTGTA-
131 TATTATTACTATTATTATTA-T-TAT
*
7595261 TATT-TTATTATATATGTA-TATGTATAT
1 TATTATTATTAT-TATCTATTATGTATAT
7595288 ATATTTATAC
Statistics
Matches: 290, Mismatches: 10, Indels: 40
0.85 0.03 0.12
Matches are distributed among these distances:
139 40 0.14
140 73 0.25
143 20 0.07
150 18 0.06
151 7 0.02
152 8 0.03
153 53 0.18
154 30 0.10
155 41 0.14
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (154 bp):
TATTATTATTATTATCTATTATGTATATTTTTATTGTATATGTATATGTATATATATTTATACAT
AGTATTATTTTTTAATTACTTTATTTTAATATTTTATTATATTATATTTGCCTTTTGTATTTCAA
TATTATTACTATTATTATTATTAT
Found at i:7595121 original size:140 final size:140
Alignment explanation
Indices: 7594957--7595533 Score: 774
Period size: 140 Copynumber: 4.2 Consensus size: 140
7594947 TTACTATTAT
* *
7594957 TATTATTATTATTATTATTATTATTATTAGTGTATATTTTTATTGTATATGTATATGTATATATA
1 TATTATTACTATTATTATTATTATTATTAGTGTATATTTTTATTATATATGTATATGTATATATA
7595022 TTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTT
66 TTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTT
7595087 TGTATTTCAA
131 TGTATTTCAA
* *
7595097 TATTATTACTATTATTATTATTATTATTAGTGTATATCTTTATTGTATATGTATATGTATATATA
1 TATTATTACTATTATTATTATTATTATTAGTGTATATTTTTATTATATATGTATATGTATATATA
* * *
7595162 TTTATACATAGTATTATTTTTTAATTATTTTATTTTAATA-TTTTATTATATTATATGTGCCTTT
66 TTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTT
7595226 TGTATTTC-A
131 TGTATTTCAA
7595235 -A-TA-T--TATTATTATTA--A-TATTAGTGTATA-TTTTATTATATATGTATATGTATATATA
1 TATTATTACTATTATTATTATTATTATTAGTGTATATTTTTATTATATATGTATATGTATATATA
*
7595291 TTTATACATAGTATTATTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGATTT
66 TTTATACATAGTATTA-TTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTT
* *
7595356 TTATATTTTAA
130 TTGTATTTCAA
* * * * *
7595367 TACTATTACTATTATTATTGTTAATATTAGTGTATATTTTTTATTATAAATGTAT-T-TATATTT
1 TATTATTACTATTATTATTATTATTATTAGTGTATA-TTTTTATTATATATGTATATGTATATAT
* * *
7595430 A-TTAT--ATAGTACTA-TTTTTAATTACTTTATTTTAACATTATTATTATATTATATTTGCTTT
65 ATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGC---
*
7595491 TTTTTGTGTATTTCAT
127 -TTTT-TGTATTTCAA
* * *
7595507 TATTATTGCTAGTATTATTATCATTAT
1 TATTATTACTATTATTATTATTATTAT
7595534 CATCATTGTT
Statistics
Matches: 390, Mismatches: 29, Indels: 36
0.86 0.06 0.08
Matches are distributed among these distances:
129 42 0.11
130 35 0.09
131 28 0.07
132 1 0.00
133 12 0.03
134 2 0.01
135 43 0.11
136 2 0.01
137 19 0.05
138 1 0.00
139 39 0.10
140 149 0.38
141 1 0.00
142 16 0.04
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.60
Consensus pattern (140 bp):
TATTATTACTATTATTATTATTATTATTAGTGTATATTTTTATTATATATGTATATGTATATATA
TTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTT
TGTATTTCAA
Found at i:7595205 original size:13 final size:14
Alignment explanation
Indices: 7595180--7595208 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7595170 TAGTATTATT
7595180 TTTTAATTATTTTA
1 TTTTAATTATTTTA
7595194 TTTTAA-TATTTTA
1 TTTTAATTATTTTA
7595207 TT
1 TT
7595209 ATATTATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTAATTATTTTA
Found at i:7595326 original size:270 final size:266
Alignment explanation
Indices: 7594966--7595492 Score: 817
Period size: 270 Copynumber: 2.0 Consensus size: 266
7594956 TTATTATTAT
* *
7594966 TATTATTATTATTATTATTAGTGTATATTTTTATTGTATATGTATATGTATATATATTTATACAT
1 TATTATTATTATTAATATTAGTGTATATTTTTATTATATATGTATATGTATATATATTTATACAT
* *
7595031 AGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTCA
66 AGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGATTTTTATATTTCA
* * * *
7595096 ATATTATTACTATTATTATTATTATTATTAGTGTATATCTTTATTGTATATGTATATGTATATAT
131 ATACTATTACTATTATTATTATTAATATTAGTGTATA--TTT-TT-TAT-TATAAATGTATATAT
* * *
7595161 ATTTA-TACATAGTATTATTTTTTAATTATTTTATTTTAATATT-TTATTATATTATATGTGCCT
191 ATTTATTACATAGTACTA-TTTTTAATTACTTTATTTTAACATTATTATTATATTATATGTGCCT
7595224 TTTGTATTTCAA
255 TTTGTATTTCAA
7595236 TATTATTATTATTAATATTAGTGTATA-TTTTATTATATATGTATATGTATATATATTTATACAT
1 TATTATTATTATTAATATTAGTGTATATTTTTATTATATATGTATATGTATATATATTTATACAT
*
7595300 AGTATTATTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGATTTTTATATTTT
66 AGTATTA-TTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGATTTTTATATTTC
* *
7595365 AATACTATTACTATTATTATTGTTAATATTAGTGTATATTTTTTATTATAAATGTATTTATATTT
130 AATACTATTACTATTATTATTATTAATATTAGTGTATATTTTTTATTATAAATGTATATATATTT
* * *
7595430 ATTATATAGTACTATTTTTAATTACTTTATTTTAACATTATTATTATATTATATTTGCTTTTT
195 ATTACATAGTACTATTTTTAATTACTTTATTTTAACATTATTATTATATTATATGTGCCTTTT
7595493 TTTGTGTATT
Statistics
Matches: 237, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
265 40 0.17
266 34 0.14
267 2 0.01
268 3 0.01
269 43 0.18
270 115 0.49
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (266 bp):
TATTATTATTATTAATATTAGTGTATATTTTTATTATATATGTATATGTATATATATTTATACAT
AGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGATTTTTATATTTCA
ATACTATTACTATTATTATTATTAATATTAGTGTATATTTTTTATTATAAATGTATATATATTTA
TTACATAGTACTATTTTTAATTACTTTATTTTAACATTATTATTATATTATATGTGCCTTTTGTA
TTTCAA
Found at i:7595373 original size:29 final size:30
Alignment explanation
Indices: 7595323--7595394 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
7595313 TAATTACTTT
*
7595323 ATTTTAATATTTTTATTATATTA-TATTTG
1 ATTTTAATATTTTTAATATATTACTATTTG
* *
7595352 ATTTTTATA-TTTTAATACTATTACTATTATT
1 ATTTTAATATTTTTAATA-TATTACTATT-TG
7595383 ATTGTTAATATT
1 ATT-TTAATATT
7595395 AGTGTATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 7 0.21
29 13 0.38
30 4 0.12
31 4 0.12
32 5 0.15
33 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (30 bp):
ATTTTAATATTTTTAATATATTACTATTTG
Found at i:7595443 original size:72 final size:70
Alignment explanation
Indices: 7595236--7595445 Score: 173
Period size: 72 Copynumber: 3.0 Consensus size: 70
7595226 TGTATTTCAA
* * * *
7595236 TATTATTATTATTAATATTAGTGTATA--TTTTATTATATATGTATATGTATATATATTTATAC-
1 TATTATTATTATTAATATTAGTGTATATTTTTTATTATAAATGTATTTATATTTATATTTATACT
*
7595298 A-TAG
66 ATTAC
* * * * * *
7595302 TATTATT-TTTTTAATTACTTTATTTTA-ATATTTTTATTAT-ATTATATTTGATTTTTATATTT
1 TATTATTATTATTAA-TA--TTAGTGTATAT-TTTTTATTATAAATGTATTT-ATATTTATA-TT
7595364 TAATACTATTAC
60 T-ATACTATTAC
* *
7595376 TATTATTATTGTTAATATTAGTGTATATTTTTTATTATAAATGTATTTATATTTATTATATAGTA
1 TATTATTATTATTAATATTAGTGTATATTTTTTATTATAAATGTATTTATATTTA-TATTTA-TA
7595441 CTATT
64 CTATT
7595446 TTTAATTACT
Statistics
Matches: 110, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
65 6 0.05
66 9 0.08
67 1 0.01
68 6 0.05
69 5 0.05
70 15 0.14
71 4 0.04
72 35 0.32
73 12 0.11
74 11 0.10
75 6 0.05
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (70 bp):
TATTATTATTATTAATATTAGTGTATATTTTTTATTATAAATGTATTTATATTTATATTTATACT
ATTAC
Found at i:7607937 original size:78 final size:78
Alignment explanation
Indices: 7607571--7608708 Score: 1241
Period size: 78 Copynumber: 14.8 Consensus size: 78
7607561 GGTATCCTGA
* *
7607571 TATTTTT-ATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGG
1 TATTTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
7607634 TCACACGCCGAGG
66 TCACACACTGAGG
* *
7607647 TATTTTCAATTTAC-G--TTTC-AAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAG
1 TATTTTTAATTT-CTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
7607708 GTCACACGCTGAGG
65 GTCACACACTGAGG
* * * **
7607722 TATTTTTAGTCTCTATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAA
1 TATTTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
7607786 TCACGCACTGAGG
66 TCACACACTGAGG
* *
7607799 TATTTTCAATTTATG--TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TATTTTTAATTTCTGTTTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
**
7607862 GTCACATGCTGAGG
65 GTCACACACTGAGG
* * **
7607876 TATTTTTAGTTTCTGTTTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAA
1 TATTTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
7607941 TCACACACT-AAG
66 TCACACACTGAGG
* * *
7607953 TATTTTCAATTTAC-G--TTTCAAAAAAAAATTAACTCATATTGAGA-AGGTGAGTTGAGCCTC-
1 TATTTTTAATTT-CTGTTTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
7608013 GAGTCACACGCTGAGG
64 G-GTCACACACTGAGG
* * **
7608029 TATTTTTAGTCTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAA
1 TATTTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
7608093 TCACGCACTGAGA
66 TCACACACTGAGG
* ***
7608106 TATTTTCAATTTAC-GTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
1 TATTTTTAATTT-CTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
7608169 AGTCACACATTGAGG
65 -GTCACACACTGAGG
* * * * * * *
7608184 TAATTTTAGTTTCTATTTTTCAAAAAAAGTCAACTCTTATTACGAGAGGTGAGTTGACCCTC-GG
1 TATTTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
7608248 ATCACACGCTGAGG
66 -TCACACACTGAGG
* * * **
7608262 TATTTTTAGTCTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAA
1 TATTTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
7608326 TCACGCACTGAGA
66 TCACACACTGAGG
* *
7608339 TATTTTCAATTTAC-G--TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTAATTT-CTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
7608401 GTCACACATTGAGG
65 GTCACACACTGAGG
* * * * * *
7608415 TAATTTTAGTTTCTATTTTTCAAAAAAAGTCAACTCATATTACGAGAGGTGAGTTGACCCTCAGG
1 TATTTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
**
7608480 TCACACGTTGAGG
66 TCACACACTGAGG
* * * * * * *
7608493 CATTTTTAGTTTCTATCTTTCAAAAAAAGTCAACTCATATTACGAGAGGTGAGTTGACCCTC-GA
1 TATTTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-
* *
7608557 TTCACACGCTGAGG
65 GTCACACACTGAGG
* * * *
7608571 TATCTTCAATTTATG--TTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
1 TATTTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
**
7608633 TCACGTACTGAGG
66 TCACACACTGAGG
* * * *
7608646 TATTTTTAATTTATGTTTTTTTCGAAAAAAATCAACTCATTTTGCGAGAAGTGAGTTGAGCCT
1 TATTTTTAATTTCTG--TTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
7608709 TTTAGTCTCT
Statistics
Matches: 895, Mismatches: 131, Indels: 68
0.82 0.12 0.06
Matches are distributed among these distances:
74 1 0.00
75 164 0.18
76 122 0.14
77 243 0.27
78 321 0.36
79 7 0.01
80 37 0.04
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (78 bp):
TATTTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
TCACACACTGAGG
Found at i:7608132 original size:307 final size:308
Alignment explanation
Indices: 7607571--7608708 Score: 1453
Period size: 307 Copynumber: 3.7 Consensus size: 308
7607561 GGTATCCTGA
* * * * **
7607571 TATTTTTA-TTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGG
1 TATTTTTAGTTTCTATTTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGACCCTCGAA
* *
7607634 TCACACGCCGAGGTATTTTCAATTTACGTTTC-AAAAAAATCAACTCATATTGCGAGATGTGAGT
66 TCACACGCTGAGGTATTTTCAATTTACGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
7607698 TGAGCCTCAGGTCACACGCTGAGGTATTTTTAGTCTCTATTTTTC-AAAAAAATCAACTCATATT
131 TGAGCCTCA-GTCACACACTGAGGTATTTTTAATCTCTGTTTTTCAAAAAAAATCAACTCATATT
7607762 GCGAGAGGTGAGTTGAGCCTCAAATCACGCACTGAGGTATTTTCAATTTATGTTTCAAAAAAAAA
195 GCGAGAGGTGAGTTGAGCCTCAAATCACGCACTGAGGTATTTTCAATTTATGTTTCAAAAAAAAA
* *
7607827 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGG
260 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTTGAGG
* * * * *
7607876 TATTTTTAGTTTCTGTTTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAA
1 TATTTTTAGTTTCTATTTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGACCCTCGAA
* * * *
7607941 TCACACACT-AAGTATTTTCAATTTACGTTTCAAAAAAAAATTAACTCATATTGAGA-AGGTGAG
66 TCACACGCTGAGGTATTTTCAATTTACGTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAG
* *
7608004 TTGAGCCTCGAGTCACACGCTGAGGTATTTTTAGTCTCTGTTTTTC-AAAAAAATCAACTCATAT
130 TTGAGCCTC-AGTCACACACTGAGGTATTTTTAATCTCTGTTTTTCAAAAAAAATCAACTCATAT
* *
7608068 TGCGAGAGGTGAGTTGAGCCTCAAATCACGCACTGAGATATTTTCAATTTACGTTTCAAAAAAAA
194 TGCGAGAGGTGAGTTGAGCCTCAAATCACGCACTGAGGTATTTTCAATTTATGTTTC-AAAAAAA
*
7608133 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGTCACACATTGAGG
258 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GTCACACGTTGAGG
* * * *
7608184 TAATTTTAGTTTCTATTTTTCAAAAAAAGTCAACTCTTATTACGAGAGGTGAGTTGACCCTCGGA
1 TATTTTTAGTTTCTATTTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGACCCTCGAA
* * * *
7608249 TCACACGCTGAGGTATTTTTAGTCT-CTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTA
66 TCACACGCTGAGGTATTTTCAATTTAC-G--TTTCAAAAAAAATCAACTCATATTGCGAGAGGTG
* * * * *
7608312 AGTTGAGCCTCAAATCACGCACTGAGATATTTTCAATTTAC-G--TTTCAAAAAAAATCAACTCA
128 AGTTGAGCCTC-AGTCACACACTGAGGTATTTTTAATCT-CTGTTTTTCAAAAAAAATCAACTCA
*** * * * *
7608374 TATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACATTGAGGTAATTTT-AGTTTCTATTTTTC-A
191 TATTGCGAGAGGTGAGTTGAGCCTCAAATCACGCACTGAGGT-ATTTTCA-ATT-TATGTTTCAA
* * *
7608437 AAAAAAGTCAACTCATATTACGAGAGGTGAGTTGACCCTCAGGTCACACGTTGAGG
253 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTTGAGG
* * * *
7608493 CATTTTTAGTTTCTATCTTTCAAAAAAAGTCAACTCATATTACGAGAGGTGAGTTGACCCTCGAT
1 TATTTTTAGTTTCTATTTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGACCCTCGAA
* *
7608558 TCACACGCTGAGGTATCTTCAATTTATGTTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGT
66 TCACACGCTGAGGTATTTTCAATTTACGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
** * * * *
7608622 TGAGCCTCAGATCACGTACTGAGGTATTTTTAATTTATGTTTTTTTCGAAAAAAATCAACTCATT
131 TGAGCCTCAG-TCACACACTGAGGTATTTTTAATCTCTG--TTTTTCAAAAAAAATCAACTCATA
*
7608687 TTGCGAGAAGTGAGTTGAGCCT
193 TTGCGAGAGGTGAGTTGAGCCT
7608709 TTTAGTCTCT
Statistics
Matches: 732, Mismatches: 75, Indels: 46
0.86 0.09 0.05
Matches are distributed among these distances:
305 8 0.01
306 34 0.05
307 233 0.32
308 144 0.20
309 217 0.30
310 44 0.06
311 52 0.07
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (308 bp):
TATTTTTAGTTTCTATTTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGACCCTCGAA
TCACACGCTGAGGTATTTTCAATTTACGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGTCACACACTGAGGTATTTTTAATCTCTGTTTTTCAAAAAAAATCAACTCATATTG
CGAGAGGTGAGTTGAGCCTCAAATCACGCACTGAGGTATTTTCAATTTATGTTTCAAAAAAAAAT
CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTTGAGG
Found at i:7608420 original size:231 final size:230
Alignment explanation
Indices: 7607571--7608704 Score: 1403
Period size: 231 Copynumber: 4.9 Consensus size: 230
7607561 GGTATCCTGA
* ***
7607571 TATTTTTA-TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGGT
1 TATTTTTAGTTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAT
* *
7607635 CACACGCCGAGGTATTTTCAATTTACGTTTC-AAAAAAATCAACTCATATTGCGAGATGTGAGTT
66 CACACGCTGAGGTATTTTCAATTTACGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * *
7607699 GAGCCTCAGGTCACACGCTGAGGTATTTTTAGTCTCTATTTTTCAAAAAAATCAACTCATATTGC
131 GAGCCTCAGGTCACACACTGAGGTAATTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTAC
* ** * *
7607764 GAGAGGTGAGTTGAGCCTCAAATCACGCACTGAGG
196 GAGAGGTGAGTTGACCCTCGGATCACACGCTGAGG
* * * *** **
7607799 TATTTTCAATTTATGTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
1 TATTTTTAGTTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAT
* * * *
7607864 CACATGCTGAGGTATTTTTAGTTT-CTGTTTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGA
66 CACACGCTGAGGTATTTTCAATTTAC-G--TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGA
** * * ** *
7607928 GTTGAGCCTCAAATCACACACT-AAGT-ATTTTCA-ATT-TACGTTTCAAAAAAAAATTAACTCA
128 GTTGAGCCTCAGGTCACACACTGAGGTAATTTT-AGTTTCTATTTTTC--AAAAAAATCAACTCA
*
7607989 TATT--GAGAAGGTGAGTTGAGCCTC-GAGTCACACGCTGAGG
190 TATTACGAG-AGGTGAGTTGACCCTCGGA-TCACACGCTGAGG
*
7608029 TATTTTTAGTCTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAT
1 TATTTTTAGTTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAT
* * *
7608094 CACGCACTGAGATATTTTCAATTTACGTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
66 CACACGCTGAGGTATTTTCAATTTACGTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAG
* *
7608159 TTGAGCCTC-GAGTCACACATTGAGGTAATTTTAGTTTCTATTTTTCAAAAAAAGTCAACTCTTA
129 TTGAGCCTCAG-GTCACACACTGAGGTAATTTTAGTTTCTATTTTTCAAAAAAA-TCAACTCATA
7608223 TTACGAGAGGTGAGTTGACCCTCGGATCACACGCTGAGG
192 TTACGAGAGGTGAGTTGACCCTCGGATCACACGCTGAGG
* *
7608262 TATTTTTAGTCTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAAT
1 TATTTTTAGTTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAT
* * *
7608327 CACGCACTGAGATATTTTCAATTTACGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
66 CACACGCTGAGGTATTTTCAATTTACGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
7608392 GAGCCTCGGGTCACACATTGAGGTAATTTTAGTTTCTATTTTTCAAAAAAAGTCAACTCATATTA
131 GAGCCTCAGGTCACACACTGAGGTAATTTTAGTTTCTATTTTTCAAAAAAA-TCAACTCATATTA
*
7608457 CGAGAGGTGAGTTGACCCTCAGG-TCACACGTTGAGG
195 CGAGAGGTGAGTTGACCCTC-GGATCACACGCTGAGG
* * * * * * *
7608493 CATTTTTAGTTTCTATCTTTCAAAAAAAGTCAACTCATATTACGAGAGGTGAGTTGACCCTCGAT
1 TATTTTTAGTTTCTGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAA
* *
7608558 TCACACGCTGAGGTATCTTCAATTTATGTTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGT
65 TCACACGCTGAGGTATTTTCAATTTACGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* ** * * * * *
7608622 TGAGCCTCAGATCACGTACTGAGGTATTTTTAATTTATGTTTTTTTCGAAAAAAATCAACTCATT
130 TGAGCCTCAGGTCACACACTGAGGTAATTTT-AGTT-TCTATTTTTC-AAAAAAATCAACTCATA
* *
7608687 TTGCGAGAAGTGAGTTGA
192 TTACGAGAGGTGAGTTGA
7608705 GCCTTTTAGT
Statistics
Matches: 797, Mismatches: 81, Indels: 51
0.86 0.09 0.05
Matches are distributed among these distances:
228 12 0.02
229 81 0.10
230 155 0.19
231 248 0.31
232 127 0.16
233 162 0.20
234 12 0.02
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (230 bp):
TATTTTTAGTTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAT
CACACGCTGAGGTATTTTCAATTTACGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCAGGTCACACACTGAGGTAATTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTAC
GAGAGGTGAGTTGACCCTCGGATCACACGCTGAGG
Found at i:7609349 original size:24 final size:26
Alignment explanation
Indices: 7609316--7609385 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 26
7609306 AAACCCCAAA
7609316 CCTAACTATCCATTAAAACCCAATAT-
1 CCTAA-TATCCATTAAAACCCAATATC
7609342 CC-AATATCC---AAAACCCAA-ATC
1 CCTAATATCCATTAAAACCCAATATC
*
7609363 CCTAA-ACCCATTAAAACCCAATA
1 CCTAATATCCATTAAAACCCAATA
7609386 CTCAAAACCC
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
20 2 0.05
21 14 0.38
22 2 0.05
24 14 0.38
25 3 0.08
26 2 0.05
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (26 bp):
CCTAATATCCATTAAAACCCAATATC
Found at i:7610642 original size:131 final size:132
Alignment explanation
Indices: 7610494--7611027 Score: 675
Period size: 131 Copynumber: 3.9 Consensus size: 132
7610484 TTATTACGTT
7610494 TATTATTATTATTATTATTAGTGTATATTTTTATTGTATATGTATATGTATATATATTTATACAT
1 TATTATTATTATTATTATTAGTGTATATTTTTATTGTATATGTATATGTATATATATTTATACAT
*
7610559 AATATTA-TTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCCTTTTGTATTTC
66 AATATTACTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTC
7610623 AA
131 AA
7610625 TATTATTATTATTATTATTAGTGTATATTTTTATTGTATATGTATATGTATATATATTTATACAT
1 TATTATTATTATTATTATTAGTGTATATTTTTATTGTATATGTATATGTATATATATTTATACAT
*
7610690 AGTATTA-TTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTC
66 AATATTACTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTC
7610754 AATATTATTACTA
131 ---------A--A
* *
7610767 TTATTATTATTATTATTAATATTAGTGTATA-TTTTATTATATATGTATATGTATATATGTTTAT
1 -TATTATTATTATTA-T--TATTAGTGTATATTTTTATTGTATATGTATATGTATATATATTTAT
* * *
7610831 ACATAGTATTATTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTATA
62 ACATAATATTACTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTA
7610896 TTTCAA
127 TTTCAA
* * * * * * *
7610902 TACTATTACTATTATTATTA-T-TATTATTATTAGTGTATATTTTTAT-TATATATGTATATATA
1 TATTATTATTATTATTATTAGTGTA-TATTTTTATTGTATATGTATATGTATATA--TATTTATA
* * * *
7610964 TTATATATAGTACTATTTTTAATTACTTTATTTTAACATTATTATTATATTATATTTGCTTTTT
63 -CATA-ATATTACT-TTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTT
7611028 TTGTGTATTT
Statistics
Matches: 360, Mismatches: 20, Indels: 42
0.85 0.05 0.10
Matches are distributed among these distances:
129 2 0.01
130 9 0.03
131 146 0.41
132 6 0.02
133 4 0.01
134 17 0.05
135 48 0.13
137 1 0.00
140 1 0.00
142 1 0.00
143 14 0.04
144 1 0.00
145 42 0.12
146 68 0.19
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (132 bp):
TATTATTATTATTATTATTAGTGTATATTTTTATTGTATATGTATATGTATATATATTTATACAT
AATATTACTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTC
AA
Found at i:7610662 original size:13 final size:13
Alignment explanation
Indices: 7610624--7610682 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 13
7610614 TTGTATTTCA
*
7610624 ATATTATTATTAT
1 ATATTATTATTGT
*
7610637 -TATTATTAGTGT
1 ATATTATTATTGT
*
7610649 ATATTTTTATTGT
1 ATATTATTATTGT
7610662 ATATGTA-TA-TGT
1 ATAT-TATTATTGT
7610674 ATATATATT
1 ATAT-TATT
7610683 TATACATAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 19 0.51
13 17 0.46
14 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.59
Consensus pattern (13 bp):
ATATTATTATTGT
Found at i:7610771 original size:3 final size:3
Alignment explanation
Indices: 7610756--7610790 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
7610746 TGTATTTCAA
* *
7610756 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7610791 GTGTATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:7610799 original size:146 final size:144
Alignment explanation
Indices: 7610625--7611067 Score: 636
Period size: 146 Copynumber: 3.1 Consensus size: 144
7610615 TGTATTTCAA
7610625 TATTATTATTATTATTATTAGTGTATATTTTTATTGTATATGTATATGTATATATATTTATACAT
1 TATTATTATTATTA-TATTAGTGTATATTTTTATT-TATATGTATATGTATATATATTTATACAT
7610690 AGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTCA
64 AGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTCA
7610755 ATATTATTACTATTAT
129 ATATTATTACTATTAT
*
7610771 TATTATTATTATTAATATTAGTGTATA-TTTTATTATATATGTATATGTATATATGTTTATACAT
1 TATTATTATTATT-ATATTAGTGTATATTTTTATT-TATATGTATATGTATATATATTTATACAT
*
7610835 AGTATTATTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTATATTTC
64 AGTATTA-TTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTC
*
7610900 AATACTATTACTATTAT
128 AATATTATTACTATTAT
*
7610917 TATTATTATTA-T-TATTAGTGTATATTTTTA--T-TA--TATATGTATATATA-TTATATATAG
1 TATTATTATTATTATATTAGTGTATATTTTTATTTATATGTATATGTATATATATTTATACATAG
* * *
7610974 TACTA-TTTTTAATTACTTTATTTTAACATTATTATTATATTATATTTGCTTTTTTTGTGTATTT
66 TATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGC---TTTT-TGTATTT
* * *
7611038 CATTATTATTGCTAGTAT
127 CAATATTATTACTATTAT
*
7611056 TATTATCATTAT
1 TATTATTATTAT
7611068 CATCATTATT
Statistics
Matches: 274, Mismatches: 15, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
135 42 0.15
137 13 0.05
138 17 0.06
139 30 0.11
140 2 0.01
141 1 0.00
143 12 0.04
144 5 0.02
145 43 0.16
146 108 0.39
147 1 0.00
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.60
Consensus pattern (144 bp):
TATTATTATTATTATATTAGTGTATATTTTTATTTATATGTATATGTATATATATTTATACATAG
TATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTCAAT
ATTATTACTATTAT
Found at i:7610972 original size:19 final size:19
Alignment explanation
Indices: 7610920--7610971 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
7610910 CTATTATTAT
7610920 TATTATTATTAT-TAGTGTA
1 TATTATTATTATATA-TGTA
*
7610939 TATTTTTATTATATATGTA
1 TATTATTATTATATATGTA
7610958 TA-TA-TATTATATAT
1 TATTATTATTATATAT
7610972 AGTACTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 10 0.33
18 1 0.03
19 17 0.57
20 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TATTATTATTATATATGTA
Found at i:7613902 original size:31 final size:31
Alignment explanation
Indices: 7613867--7614039 Score: 192
Period size: 31 Copynumber: 5.6 Consensus size: 31
7613857 GTACAATGTA
* *
7613867 AAAAGTGGTAGCTTTGGCTACCTAATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
*
7613898 AAAAGTGGTAGCTTCGGCTTCCTGATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
* * *
7613929 AAAAGTAGTAGCTTCGGCTACTTGATTAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
* * *
7613960 AAAAGTGGTAGCTCCAGTTACCTGATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
* * *
7613991 AATAGTGATAGCTTCGGCTATC-GA--ATGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCA-GTG
7614020 AAAAG-GGATAGCTTCGGCTA
1 AAAAGTGG-TAGCTTCGGCTA
7614040 TCAAATTTGG
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
28 2 0.02
29 19 0.16
30 2 0.02
31 96 0.81
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
Found at i:7614053 original size:29 final size:29
Alignment explanation
Indices: 7613988--7614054 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
7613978 TACCTGATCA
* * *
7613988 GTGAATAGTGATAGCTTCGGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCAAAT
7614017 GTGAAAAGGGATAGCTTCGGCTATCAAAT
1 GTGAAAAGGGATAGCTTCGGCTATCAAAT
* *
7614046 TTGGAAAGG
1 GTGAAAAGG
7614055 AAAGGTATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (29 bp):
GTGAAAAGGGATAGCTTCGGCTATCAAAT
Found at i:7614081 original size:33 final size:33
Alignment explanation
Indices: 7614044--7614206 Score: 245
Period size: 33 Copynumber: 4.9 Consensus size: 33
7614034 CGGCTATCAA
* * *
7614044 ATTTGGAAAGGAAAGGTATATTTTGTGTATACT
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
* ** *
7614077 ATTTGAAAATGTTAGGTATACTTTGTCTATACC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
*
7614110 ATTTGAAAAGGAAATGTATACTTTGTGTATACC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
*
7614143 ATTTGAAAAGGAAATGTATACTTTGTGTATACC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
7614176 ATTTGAAAAGGAAAGGTATACTTTGTGTATA
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATA
7614207 TGTGACAGCC
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 117 1.00
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (33 bp):
ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
Found at i:7616169 original size:39 final size:39
Alignment explanation
Indices: 7616115--7616293 Score: 261
Period size: 39 Copynumber: 4.5 Consensus size: 39
7616105 TAATGGAGAA
* *
7616115 TTATATCCTGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
7616154 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
7616193 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
7616232 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
7616271 TTATATCCAGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
7616294 CATGCTTTGT
Statistics
Matches: 130, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 108 0.83
40 22 0.17
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:7617944 original size:33 final size:33
Alignment explanation
Indices: 7617901--7617974 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
7617891 GAGTGTTACA
*
7617901 GTATACCATATGAAAAGGGAAGGTATACTTTGT
1 GTATACCATATGAAAAGGAAAGGTATACTTTGT
*
7617934 GTATATCATATGAAAAGGAAAGGTATACTTTGT
1 GTATACCATATGAAAAGGAAAGGTATACTTTGT
*
7617967 GTGTACCA
1 GTATACCA
7617975 CTCGGAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.31
Consensus pattern (33 bp):
GTATACCATATGAAAAGGAAAGGTATACTTTGT
Found at i:7623788 original size:16 final size:16
Alignment explanation
Indices: 7623752--7623789 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7623742 AATTATATTC
7623752 AATAATTTTATAGATT
1 AATAATTTTATAGATT
*
7623768 TATAATTTTATTA-ATT
1 AATAATTTTA-TAGATT
7623784 AATAAT
1 AATAAT
7623790 ATATTATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AATAATTTTATAGATT
Found at i:7627345 original size:18 final size:18
Alignment explanation
Indices: 7627319--7627367 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
7627309 AATTAATTTT
*
7627319 AAAATTATAAAAATATTC
1 AAAAATATAAAAATATTC
*
7627337 AAAAATAT-AAAATGTTC
1 AAAAATATAAAAATATTC
*
7627354 ATAAAATTTAAAAA
1 A-AAAATATAAAAA
7627368 AAGTAGCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 9 0.35
18 13 0.50
19 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAATATAAAAATATTC
Found at i:7629656 original size:17 final size:17
Alignment explanation
Indices: 7629620--7629652 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7629610 TAAAATTGAA
*
7629620 ATAATTAATAATAATAT
1 ATAATTAATAATAACAT
7629637 ATAATTAA-AATAACAT
1 ATAATTAATAATAACAT
7629653 TATATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAATTAATAATAACAT
Found at i:7629922 original size:20 final size:18
Alignment explanation
Indices: 7629879--7629922 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
7629869 TTGTTTTTGT
*
7629879 AATTTTATATTTTTATTA
1 AATTTTATATTTTTAATA
*
7629897 AGTTTTATAATATTTTAATA
1 AATTTTAT-AT-TTTTAATA
7629917 AATTTT
1 AATTTT
7629923 TAAAGATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 7 0.33
19 2 0.10
20 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
AATTTTATATTTTTAATA
Found at i:7629923 original size:21 final size:20
Alignment explanation
Indices: 7629885--7629932 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
7629875 TTGTAATTTT
* *
7629885 ATATTTTTATTAAGTTTTATA
1 ATATTTTAATAAAGTTTTA-A
*
7629906 ATATTTTAATAAATTTTTAA
1 ATATTTTAATAAAGTTTTAA
*
7629926 AGATTTT
1 ATATTTT
7629933 TTTAGATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
ATATTTTAATAAAGTTTTAA
Found at i:7630372 original size:25 final size:25
Alignment explanation
Indices: 7630333--7630380 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
7630323 TAAACTTAAA
7630333 TAAGTAAAATGTCAT-TTGCTCCATT
1 TAAGTAAAATGTCATCTT-CTCCATT
7630358 TAAGT-AAATGATCATCTTCTCCA
1 TAAGTAAAATG-TCATCTTCTCCA
7630381 AAGAGTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 14 0.67
26 2 0.10
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (25 bp):
TAAGTAAAATGTCATCTTCTCCATT
Found at i:7631188 original size:26 final size:24
Alignment explanation
Indices: 7631155--7631203 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
7631145 AATTAATTAT
7631155 TTTTTAAAATTAAAAAAATATAAAAA
1 TTTTTAAAA-TAAAAAAAT-TAAAAA
*
7631181 TTTTTAAAATAAAAATATTAAAA
1 TTTTTAAAATAAAAAAATTAAAA
7631204 TTCTAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 8 0.36
26 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TTTTTAAAATAAAAAAATTAAAAA
Found at i:7631212 original size:23 final size:23
Alignment explanation
Indices: 7631168--7631212 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7631158 TTAAAATTAA
* *
7631168 AAAAATATAAAAATTTTTAAAAT
1 AAAAATATAAAAATTCTAAAAAT
*
7631191 AAAAATATTAAAATTCTAAAAA
1 AAAAATATAAAAATTCTAAAAA
7631213 GTATTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAAATATAAAAATTCTAAAAAT
Found at i:7640913 original size:40 final size:40
Alignment explanation
Indices: 7640868--7640953 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
7640858 TCAAATACAT
7640868 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * * *
7640908 TTAAAACAATTCTTAAAACAATACACAAGTTAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
7640948 ATAAAA
1 TTAAAA
7640954 ATTAATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.23
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:7640990 original size:23 final size:22
Alignment explanation
Indices: 7640951--7641010 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
7640941 AAATATAATA
* *
7640951 AAAAT-TAATTATATTAAAATT
1 AAAATATAAATATATTAAAAAT
7640972 AAAATATAAATATGATTAAAAAT
1 AAAATATAAATAT-ATTAAAAAT
* *
7640995 AAAAAATATATATATT
1 AAAATATAAATATATT
7641011 TAGTATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 5 0.15
22 9 0.27
23 19 0.58
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAATATAAATATATTAAAAAT
Found at i:7641541 original size:6 final size:6
Alignment explanation
Indices: 7641515--7641548 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
7641505 TATGTTGGGA
* *
7641515 GTTTGA GTTTGG GTTTGG GTTTAG GTTTGG GTTT
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTT
7641549 TAAGTGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (6 bp):
GTTTGG
Found at i:7644336 original size:76 final size:76
Alignment explanation
Indices: 7644249--7644439 Score: 238
Period size: 76 Copynumber: 2.5 Consensus size: 76
7644239 AAATAAACCA
* * * * * *
7644249 ACAATGTTTTGCGCCTAGCGCTAGTCGGATAAATCGACGATATCAAATGTGTGCCCAGTACAAAT
1 ACAATGATTTGCACCCAGCGCTAGTCGGATAAACCGACGATATCAAATGTATGCCCAGCACAAAT
*
7644314 CAGATAGACTG
66 CAGATAGACCG
* * * * *
7644325 ACAATGATTTGCACCCAGCACTAGTTGGATAAACCGACGATATCAAATGTATGCCTAGCACTAGT
1 ACAATGATTTGCACCCAGCGCTAGTCGGATAAACCGACGATATCAAATGTATGCCCAGCACAAAT
**
7644390 TGGATAGACCG
66 CAGATAGACCG
*
7644401 ACAATGATTTGCACCCAGCGCTAGTCAGATAAAACCGAC
1 ACAATGATTTGCACCCAGCGCTAGTCGGAT-AAACCGAC
7644440 AATTACATGC
Statistics
Matches: 97, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
76 89 0.92
77 8 0.08
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (76 bp):
ACAATGATTTGCACCCAGCGCTAGTCGGATAAACCGACGATATCAAATGTATGCCCAGCACAAAT
CAGATAGACCG
Found at i:7663096 original size:46 final size:46
Alignment explanation
Indices: 7663028--7663427 Score: 579
Period size: 46 Copynumber: 8.7 Consensus size: 46
7663018 GACAGAAAAT
* *
7663028 GTGTAAGATCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAC
* * *
7663074 ATGTAAGACCATAGTTGAAAGATACCATGGCAACC-GATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAC
*
7663119 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAC
*
7663165 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAC
*
7663211 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAC
*
7663257 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAC
* * *
7663303 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAGGGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACA-TGAAAC
** * * *
7663350 GAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-GAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAAC
* * * *
7663396 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
7663428 TCATGTCGAA
Statistics
Matches: 333, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
45 44 0.13
46 249 0.75
47 40 0.12
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAC
Found at i:7667853 original size:58 final size:58
Alignment explanation
Indices: 7667785--7667984 Score: 223
Period size: 55 Copynumber: 3.6 Consensus size: 58
7667775 TTCAAAAAAT
* * * *
7667785 GATTGCTTATATGTTTAAATCAATTGTTATGGTGGAATACTTCTTCTTCTTTTGAATT
1 GATTGTTTATATGTTTAAATCTATTGTTATGTTGGAATACTTCTTCTTCTTTTGAATC
* * * * *
7667843 GATTGTTTATATGTTTAAATCGACTATTATGTTGGAATGCTGC-T-TT-TTTTGAATC
1 GATTGTTTATATGTTTAAATCTATTGTTATGTTGGAATACTTCTTCTTCTTTTGAATC
* * * *
7667898 AATTGTTTATAAGTTTAAATCTATTGTTATATTGGAATA--T-TACTTCTTTTGAATC
1 GATTGTTTATATGTTTAAATCTATTGTTATGTTGGAATACTTCTTCTTCTTTTGAATC
* *
7667953 GATTGTTTGTATATTTAAATCTATTGTTATGT
1 GATTGTTTATATGTTTAAATCTATTGTTATGT
7667985 AGTATGTCTA
Statistics
Matches: 117, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
54 2 0.02
55 76 0.65
56 2 0.02
57 1 0.01
58 36 0.31
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.51
Consensus pattern (58 bp):
GATTGTTTATATGTTTAAATCTATTGTTATGTTGGAATACTTCTTCTTCTTTTGAATC
Found at i:7670912 original size:22 final size:22
Alignment explanation
Indices: 7670886--7670927 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7670876 TAAGTTAAAC
7670886 AAAAATT-GATAAATAAAAAATA
1 AAAAATTCGAT-AATAAAAAATA
*
7670908 AAAAATTCGGTAATAAAAAA
1 AAAAATTCGATAATAAAAAA
7670928 ACTTAAGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.21
Consensus pattern (22 bp):
AAAAATTCGATAATAAAAAATA
Found at i:7674943 original size:18 final size:19
Alignment explanation
Indices: 7674920--7674969 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
7674910 TTATACTTAA
7674920 AATATTTTAATTTAATTT-
1 AATATTTTAATTTAATTTC
* *
7674938 AATATTTAAATTTAGTTTC
1 AATATTTTAATTTAATTTC
*
7674957 AATA-ATTAATTTA
1 AATATTTTAATTTA
7674970 GTATTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
AATATTTTAATTTAATTTC
Found at i:7675297 original size:58 final size:58
Alignment explanation
Indices: 7675227--7675342 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
7675217 CTTTATAACC
7675227 AAACTAAAATACTAAATAATATATTAACTCTTTACGTATAGATATTTAGTTCAAGTTA
1 AAACTAAAATACTAAATAATATATTAACTCTTTACGTATAGATATTTAGTTCAAGTTA
* *
7675285 AAACTTAAATACTAAATAATATATTAACTCTTTACGTATAGATATTTGGTTCAAGTTA
1 AAACTAAAATACTAAATAATATATTAACTCTTTACGTATAGATATTTAGTTCAAGTTA
7675343 TCCTCTCTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (58 bp):
AAACTAAAATACTAAATAATATATTAACTCTTTACGTATAGATATTTAGTTCAAGTTA
Found at i:7678904 original size:96 final size:94
Alignment explanation
Indices: 7678771--7678945 Score: 217
Period size: 94 Copynumber: 1.8 Consensus size: 94
7678761 CATGGCCCTG
* * * ***
7678771 CCATGGTCTTACATTCGTAGTACCATAACTCATTTATGGTTTGGGATGCCATAGCCCAGCTATGG
1 CCATGGTCTTACATTCGAAGTACCATAACCCAGTTATGG--TAAAATGCCATAGCCCAGCTATGG
7678836 TCTTACACATAAATATACTACCATAGTGCAA
64 TCTTACACATAAATATACTACCATAGTGCAA
* * *
7678867 CCATGGTCTTACGTTC-AAGATGCCATAACCCAGTTATGGTAAAATGTCATAGCCCAGCTATGGT
1 CCATGGTCTTACATTCGAAG-TACCATAACCCAGTTATGGTAAAATGCCATAGCCCAGCTATGGT
**
7678931 CTTACATTTAAATAT
65 CTTACACATAAATAT
7678946 TTTCATGGTC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
94 34 0.51
95 2 0.03
96 31 0.46
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (94 bp):
CCATGGTCTTACATTCGAAGTACCATAACCCAGTTATGGTAAAATGCCATAGCCCAGCTATGGTC
TTACACATAAATATACTACCATAGTGCAA
Found at i:7680400 original size:113 final size:113
Alignment explanation
Indices: 7680192--7680419 Score: 348
Period size: 113 Copynumber: 2.0 Consensus size: 113
7680182 ATAGCTTCCC
* * * *
7680192 TAACTTCATAATTGGCTCATAAGCACTAACTAATAAAATTTACAATCTCACTTATCAGATTTAGT
1 TAACTTCACAATTGGCTCATAAGCACTAAATAATAAAATTTACAAGCTCACTTATCAAATTTAGT
* * * *
7680257 GATCTCGAATCACTGTTTCAGACACCATTGAAAATTGGGTTGTTACAT
66 GATCTCGAATCACTGTTTCAGACACAATTGAAAATTAGGCTATTACAT
* *
7680305 TAACTTCACAATTGGCTCATAAGCACTAAATAATAAAATTTACAAGCTCATTTGTCAAATTTAGT
1 TAACTTCACAATTGGCTCATAAGCACTAAATAATAAAATTTACAAGCTCACTTATCAAATTTAGT
* *
7680370 GATCTCGAATCACTGTTTCCGATACAATTGAAAATTAGGCTATTACAT
66 GATCTCGAATCACTGTTTCAGACACAATTGAAAATTAGGCTATTACAT
7680418 TA
1 TA
7680420 TATGTGTTGT
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
113 103 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (113 bp):
TAACTTCACAATTGGCTCATAAGCACTAAATAATAAAATTTACAAGCTCACTTATCAAATTTAGT
GATCTCGAATCACTGTTTCAGACACAATTGAAAATTAGGCTATTACAT
Found at i:7682145 original size:28 final size:27
Alignment explanation
Indices: 7682103--7682175 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
7682093 CGATTATGAG
7682103 ATTGGCACTAAGTGTGCAAGTTTAATT
1 ATTGGCACTAAGTGTGCAAGTTTAATT
* * *
7682130 GTATGGCACTAAGTGTGCGAGTTTGATT
1 AT-TGGCACTAAGTGTGCAAGTTTAATT
*
7682158 ATTAAGCACTAAGTGTGC
1 ATT-GGCACTAAGTGTGC
7682176 GAACTTACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
ATTGGCACTAAGTGTGCAAGTTTAATT
Found at i:7685171 original size:4 final size:4
Alignment explanation
Indices: 7685146--7685187 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
7685136 AATTAAAATA
* *
7685146 AAAG AAAT AAAG AAATG AAAG AAAG AAA- AAGG AAAG AAAG AA
1 AAAG AAAG AAAG AAA-G AAAG AAAG AAAG AAAG AAAG AAAG AA
7685188 GGCCACGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 2 0.06
4 26 0.81
5 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:7685244 original size:19 final size:19
Alignment explanation
Indices: 7685201--7685245 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7685191 CACGGTTAGC
7685201 AGGG-AAAGAACAAAGAAA
1 AGGGAAAAGAACAAAGAAA
*
7685219 AGAGAAAAGAA-AAAGAAAA
1 AGGGAAAAGAACAAAG-AAA
7685238 AGGGAAAA
1 AGGGAAAA
7685246 CTAGGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (19 bp):
AGGGAAAAGAACAAAGAAA
Found at i:7686283 original size:6 final size:6
Alignment explanation
Indices: 7686272--7686304 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
7686262 TGTGTACCGC
*
7686272 TACTGT TACTGT TACTGT TATTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
7686305 CCTTACGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:7686493 original size:18 final size:18
Alignment explanation
Indices: 7686436--7686495 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
7686426 GACTGTCGAC
* *
7686436 TACTGAATAATTGACTAT
1 TACTGAATAAATGAATAT
** * *
7686454 TACAAAATAAACGATTGA-
1 TACTGAATAAATGAAT-AT
7686472 TACTGAATAAATGAATAT
1 TACTGAATAAATGAATAT
7686490 TACTGA
1 TACTGA
7686496 TTAACCGATT
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
17 1 0.03
18 29 0.94
19 1 0.03
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.32
Consensus pattern (18 bp):
TACTGAATAAATGAATAT
Found at i:7687924 original size:18 final size:18
Alignment explanation
Indices: 7687888--7687926 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7687878 GAAATATTTA
*
7687888 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
7687906 TTTTGATGTATTATA-TAT
1 TTTTGATGT-TTATAGTAT
7687924 TTT
1 TTT
7687927 AAAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:7691639 original size:21 final size:21
Alignment explanation
Indices: 7691613--7691653 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7691603 ATCTGCTCAA
* *
7691613 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
7691634 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
7691654 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:7705396 original size:91 final size:89
Alignment explanation
Indices: 7705284--7705463 Score: 231
Period size: 89 Copynumber: 2.0 Consensus size: 89
7705274 TTTAGTTCAA
* * *
7705284 GTTAGGCCCTGGACTTGGCAACTTTTCTC-ACATTTGGGCTTGAACATTTTTGTTGTCCGAA-TT
1 GTTAGGACCTGGACTTGGCAAC-TTTCTCAACATTGGGGCCTGAAC-TTTTT-TTGTCC-AAGTT
* *
7705347 AGGTCCTAAACTTGACAATTATTCTCAC
62 AAGCCCTAAACTTGACAATTATTCTCAC
*
7705375 GTTAGGACTTGGACTCT-GCAACTTTCTCAACATTGGGGCCTGAACTTTTTTTGTCCAAGTTAAG
1 GTTAGGACCTGGACT-TGGCAACTTTCTCAACATTGGGGCCTGAACTTTTTTTGTCCAAGTTAAG
*
7705439 CCCTAAACTTGACAATTGTTCTCAC
65 CCCTAAACTTGACAATTATTCTCAC
7705464 ATTGAACCCT
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
88 2 0.03
89 33 0.42
90 11 0.14
91 32 0.41
92 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (89 bp):
GTTAGGACCTGGACTTGGCAACTTTCTCAACATTGGGGCCTGAACTTTTTTTGTCCAAGTTAAGC
CCTAAACTTGACAATTATTCTCAC
Found at i:7706884 original size:41 final size:41
Alignment explanation
Indices: 7706789--7707072 Score: 324
Period size: 41 Copynumber: 7.0 Consensus size: 41
7706779 TTGTAAAATG
** *
7706789 CAGAGCAATAGCGGCG-TTTTACCAAAAACGCCGTTAAAAA-
1 CAGAGCAATAGCGGCGCTTTTA-GTAAAACGCCGCTAAAAAC
* * *
7706829 TAGAGCAATAGCGGCGCTTTTGGTAAAATGCCGCTAAAAAC
1 CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
** * *
7706870 CAGAGCAATAGCGGCGCTTTCGGTAAAATGCCGTTAAAAAC
1 CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
* *
7706911 CAGAGCAATAGCGGCGCTTTCAGCAAAACGCCGCTAAAAAC
1 CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
* **
7706952 TAGAGCAATAGCGGCGCTTTTAGTAAAACATCGCTAAAAAC
1 CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
* * *
7706993 CAGAGC-ATAATCGGCG-TTTTCGGTAAAACGCCACTAAAAAC
1 CAGAGCAAT-AGCGGCGCTTTT-AGTAAAACGCCGCTAAAAAC
* * *
7707034 CAGAGCATTAGCGGCGCTTTCAATAAAACGCCGCTAAAA
1 CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAA
7707073 GTCATATAAC
Statistics
Matches: 208, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
40 35 0.17
41 169 0.81
42 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
Found at i:7706987 original size:123 final size:122
Alignment explanation
Indices: 7706789--7707072 Score: 392
Period size: 123 Copynumber: 2.3 Consensus size: 122
7706779 TTGTAAAATG
* * * *
7706789 CAGAGCAATAGCGGCG-TTTTACCAAAAACGCCGTTAAAAATAGAGCAATAGCGGCGCTTTTGGT
1 CAGAGCAATAGCGGCGCTTTCAAC-AAAACGCCGCTAAAAATAGAGCAATAGCGGCGCTTTTAGT
** * **
7706853 AAAATGCCGCTAAAAACCAGAGCA-ATAGCGGCGCTTTCGGTAAAATGCCGTTAAAAAC
65 AAAACACCGCTAAAAACCAGAGCATA-AGCGGCGCTTTCGGTAAAACGCCACTAAAAAC
*
7706911 CAGAGCAATAGCGGCGCTTTCAGCAAAACGCCGCTAAAAACTAGAGCAATAGCGGCGCTTTTAGT
1 CAGAGCAATAGCGGCGCTTTCAACAAAACGCCGCTAAAAA-TAGAGCAATAGCGGCGCTTTTAGT
* * *
7706976 AAAACATCGCTAAAAACCAGAGCATAATCGGCGTTTTCGGTAAAACGCCACTAAAAAC
65 AAAACACCGCTAAAAACCAGAGCATAAGCGGCGCTTTCGGTAAAACGCCACTAAAAAC
* *
7707034 CAGAGCATTAGCGGCGCTTTCAATAAAACGCCGCTAAAA
1 CAGAGCAATAGCGGCGCTTTCAACAAAACGCCGCTAAAA
7707073 GTCATATAAC
Statistics
Matches: 144, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
122 31 0.22
123 112 0.78
124 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (122 bp):
CAGAGCAATAGCGGCGCTTTCAACAAAACGCCGCTAAAAATAGAGCAATAGCGGCGCTTTTAGTA
AAACACCGCTAAAAACCAGAGCATAAGCGGCGCTTTCGGTAAAACGCCACTAAAAAC
Found at i:7707306 original size:7 final size:7
Alignment explanation
Indices: 7707294--7707357 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
7707284 TTTATTTTTG
7707294 GGTTTAA
1 GGTTTAA
7707301 GGTTTAA
1 GGTTTAA
**
7707308 TATTTAA
1 GGTTTAA
7707315 GGTTTAA
1 GGTTTAA
* *
7707322 GGTCTAT
1 GGTTTAA
*
7707329 GGTTTAG
1 GGTTTAA
*
7707336 GGTTTTAT
1 GG-TTTAA
7707344 GGTTTAA
1 GGTTTAA
7707351 GGTTTAA
1 GGTTTAA
7707358 TGGCCATGGG
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:7707346 original size:15 final size:15
Alignment explanation
Indices: 7707310--7707360 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
7707300 AGGTTTAATA
*
7707310 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
7707324 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
7707339 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
7707354 TTAATGG
1 TTTATGG
7707361 CCATGGGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:7708008 original size:8 final size:8
Alignment explanation
Indices: 7707943--7708014 Score: 94
Period size: 8 Copynumber: 9.1 Consensus size: 8
7707933 AAATCAAAAT
*
7707943 AAAAATAA
1 AAAAATTA
7707951 AAAAATT-
1 AAAAATTA
7707958 AAAAATT-
1 AAAAATTA
*
7707965 AAAAATAA
1 AAAAATTA
7707973 AAAAATTA
1 AAAAATTA
7707981 AAAAATTA
1 AAAAATTA
7707989 AAAAATTA
1 AAAAATTA
7707997 AAAAAGTTA
1 AAAAA-TTA
*
7708006 AAAATTTA
1 AAAAATTA
7708014 A
1 A
7708015 TATTTTAGTC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
7 13 0.22
8 38 0.66
9 7 0.12
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (8 bp):
AAAAATTA
Found at i:7708128 original size:19 final size:19
Alignment explanation
Indices: 7708098--7708185 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
7708088 TTTGAAAGAA
7708098 AAAAATAAAAAATATATGTT
1 AAAAAT-AAAAATATATGTT
7708118 AAAAATGAAAAA-A-A--TT
1 AAAAAT-AAAAATATATGTT
* * * **
7708134 AAAATTAAACAATAAAAGAA
1 AAAAATAAA-AATATATGTT
7708154 AAAAATAAAAATATATGTT
1 AAAAATAAAAATATATGTT
7708173 AAAAATAAAAATA
1 AAAAATAAAAATA
7708186 AAATAAAATT
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.06
16 9 0.17
17 1 0.02
18 2 0.04
19 20 0.37
20 19 0.35
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.23
Consensus pattern (19 bp):
AAAAATAAAAATATATGTT
Found at i:7708128 original size:27 final size:27
Alignment explanation
Indices: 7708098--7708188 Score: 73
Period size: 27 Copynumber: 3.4 Consensus size: 27
7708088 TTTGAAAGAA
7708098 AAAAATAAAAAATATATGTTAAAAATG
1 AAAAATAAAAAATATATGTTAAAAATG
*** *
7708125 AAAAA-AATTAAAAT-TA-AACAATAAAAG
1 AAAAATAA--AAAATATATGTTAA-AAATG
*
7708152 AAAAAAATAAAAATATATGTTAAAAAT-
1 AAAAATA-AAAAATATATGTTAAAAATG
7708179 AAAAATAAAA
1 AAAAATAAAA
7708189 TAAAATTAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
26 7 0.15
27 27 0.56
28 11 0.23
29 3 0.06
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (27 bp):
AAAAATAAAAAATATATGTTAAAAATG
Found at i:7708178 original size:55 final size:57
Alignment explanation
Indices: 7708092--7708201 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 57
7708082 AAAAAATTTG
* *
7708092 AAAGAAAAAAATAAAAAATATATGTTAAAAATGAAAA-AAATTAAAATTAAACAATA
1 AAAGAAAAAAATAAAAAATATATGTTAAAAATAAAAATAAAATAAAATTAAACAATA
7708148 AAAGAAAAAAAT-AAAAATATATGTTAAAAATAAAAATAAAATAAAATTAAACAA
1 AAAGAAAAAAATAAAAAATATATGTTAAAAATAAAAATAAAATAAAATTAAACAA
7708202 AAAGATTGAG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
55 23 0.45
56 28 0.55
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (57 bp):
AAAGAAAAAAATAAAAAATATATGTTAAAAATAAAAATAAAATAAAATTAAACAATA
Found at i:7711751 original size:43 final size:43
Alignment explanation
Indices: 7711681--7711767 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
7711671 CAAAAATAAT
*
7711681 CAATAGTGAGTAACAGGTAGACAAGGCAAAAAGAAAGTCCAAA
1 CAATAGTGAGTAACAGGCAGACAAGGCAAAAAGAAAGTCCAAA
*
7711724 CAATAGTGAGTAACAGGCAGACGAGGCAAAAAGAAAGTCCAAA
1 CAATAGTGAGTAACAGGCAGACAAGGCAAAAAGAAAGTCCAAA
7711767 C
1 C
7711768 GCCTTAAGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.49, C:0.16, G:0.24, T:0.10
Consensus pattern (43 bp):
CAATAGTGAGTAACAGGCAGACAAGGCAAAAAGAAAGTCCAAA
Found at i:7712468 original size:3 final size:3
Alignment explanation
Indices: 7712460--7712693 Score: 66
Period size: 3 Copynumber: 75.7 Consensus size: 3
7712450 GAATTAAATA
* ** * *
7712460 TAT TAT TAT TAT TAT TAT TAT TCT TGC TGT TAT CT-T TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * *
7712505 TAC TAT TGT TAT TAC TACT TCCAT TAT TTT TAT T-T CTAAC TAT TAT
1 TAT TAT TAT TAT TAT TA-T T--AT TAT TAT TAT TAT -T-AT TAT TAT
* * ** * *
7712551 TTT TAT GTAT ATAT TAT TAT T-T ATAT CAT CGT TAT TAT TAC AAT TAT
1 TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
7712598 TAAA TAT CT-T TAT TAT TAC TAT TAT TTT TGT TCCT T-T TAT TAT TGTT
1 T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT T-AT
* * * * *
7712645 TAT CAT CAT TA- TAT TAT TAT TAT TAC TCT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7712692 TA
1 TA
7712694 CTTCTTTTTT
Statistics
Matches: 168, Mismatches: 45, Indels: 36
0.67 0.18 0.14
Matches are distributed among these distances:
2 8 0.05
3 140 0.83
4 17 0.10
5 2 0.01
6 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:7713214 original size:16 final size:16
Alignment explanation
Indices: 7713195--7713225 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7713185 TTTTTAAGTT
*
7713195 TGTTTATTTTCTTATA
1 TGTTTATTTACTTATA
7713211 TGTTTATTTACTTAT
1 TGTTTATTTACTTAT
7713226 CCTCGATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.68
Consensus pattern (16 bp):
TGTTTATTTACTTATA
Found at i:7715026 original size:30 final size:30
Alignment explanation
Indices: 7714992--7715069 Score: 156
Period size: 30 Copynumber: 2.6 Consensus size: 30
7714982 TTAAAGTTAA
7714992 AATTTTAATAGAAAATTTAATTTGATAATG
1 AATTTTAATAGAAAATTTAATTTGATAATG
7715022 AATTTTAATAGAAAATTTAATTTGATAATG
1 AATTTTAATAGAAAATTTAATTTGATAATG
7715052 AATTTTAATAGAAAATTT
1 AATTTTAATAGAAAATTT
7715070 TTATATATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (30 bp):
AATTTTAATAGAAAATTTAATTTGATAATG
Found at i:7715028 original size:18 final size:18
Alignment explanation
Indices: 7715007--7715060 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
7714997 TAATAGAAAA
7715007 TTTAATTTGATAATGAAT
1 TTTAATTTGATAATGAAT
*
7715025 TTTAA--T-AGAA--AA-
1 TTTAATTTGATAATGAAT
7715037 TTTAATTTGATAATGAAT
1 TTTAATTTGATAATGAAT
7715055 TTTAAT
1 TTTAAT
7715061 AGAAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 5 0.18
13 2 0.07
14 1 0.04
15 6 0.21
16 1 0.04
17 2 0.07
18 11 0.39
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (18 bp):
TTTAATTTGATAATGAAT
Found at i:7715203 original size:43 final size:43
Alignment explanation
Indices: 7715142--7715239 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
7715132 ATTTGAATTT
*
7715142 ATGACCTTTAGCGGCGTTTGT-GAGAAAAGCGCCGCT-AAAGACC
1 ATGACCTTTAGCGACGTTTGTGGA-AAAAGCGCCGCTAAAAG-CC
*
7715185 ATGACCTTTAGCGACGTTTGTGGAAAAAGCGCCGCTAAAAGTC
1 ATGACCTTTAGCGACGTTTGTGGAAAAAGCGCCGCTAAAAGCC
7715228 ATGACCTTTAGC
1 ATGACCTTTAGC
7715240 AGCGTTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
43 45 0.88
44 6 0.12
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (43 bp):
ATGACCTTTAGCGACGTTTGTGGAAAAAGCGCCGCTAAAAGCC
Found at i:7715966 original size:7 final size:7
Alignment explanation
Indices: 7715903--7715965 Score: 81
Period size: 7 Copynumber: 9.0 Consensus size: 7
7715893 TTAAAAAAGT
7715903 AATTGAG
1 AATTGAG
7715910 AATTGAG
1 AATTGAG
7715917 AATTGAG
1 AATTGAG
7715924 AATTGAG
1 AATTGAG
* *
7715931 ACTTGAA
1 AATTGAG
*
7715938 AATTGAA
1 AATTGAG
7715945 AATTGAG
1 AATTGAG
*
7715952 AAATGAG
1 AATTGAG
*
7715959 GATTGAG
1 AATTGAG
7715966 GGTCTAGTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.27
Consensus pattern (7 bp):
AATTGAG
Found at i:7717589 original size:2 final size:2
Alignment explanation
Indices: 7717582--7717611 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7717572 CCATACATAC
7717582 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7717612 GGGTAAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7718714 original size:20 final size:20
Alignment explanation
Indices: 7718689--7718728 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7718679 ATATGAAAGA
7718689 ACAAAAGGGAAGTGGATGAT
1 ACAAAAGGGAAGTGGATGAT
7718709 ACAAAAGGGAAGTGGATGAT
1 ACAAAAGGGAAGTGGATGAT
7718729 TTAATTAGTT
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:0.35, T:0.15
Consensus pattern (20 bp):
ACAAAAGGGAAGTGGATGAT
Found at i:7726489 original size:46 final size:46
Alignment explanation
Indices: 7726315--7726496 Score: 213
Period size: 46 Copynumber: 4.0 Consensus size: 46
7726305 TTTGATATAA
* * * * * *
7726315 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* *** * *
7726361 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTAATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
7726407 TGCTATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
7726453 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
7726497 AGAGCACACT
Statistics
Matches: 118, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 114 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:7726819 original size:24 final size:24
Alignment explanation
Indices: 7726792--7726917 Score: 64
Period size: 24 Copynumber: 5.3 Consensus size: 24
7726782 CTATTTAACA
*
7726792 GGAAGCTCATAAAGAGCAATATCG
1 GGAAGCTCACAAAGAGCAATATCG
** * * *
7726816 GGAAGCT-A-ATCCGGGCTATAACG
1 GGAAGCTCACA-AAGAGCAATATCG
* *
7726839 GGAAGCTCA-ATAGAGCCGAA-ATCA
1 GGAAGCTCACAAAGAG-C-AATATCG
* * * *
7726863 GGTAGTTCACAAAGAACCATATCG
1 GGAAGCTCACAAAGAGCAATATCG
* *
7726887 GGAAGCTCACGAAGAGC-CTATCG
1 GGAAGCTCACAAAGAGCAATATCG
7726910 GGAAGCTC
1 GGAAGCTC
7726918 CGGATAGCCA
Statistics
Matches: 74, Mismatches: 22, Indels: 13
0.68 0.20 0.12
Matches are distributed among these distances:
22 1 0.01
23 32 0.43
24 36 0.49
25 5 0.07
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.16
Consensus pattern (24 bp):
GGAAGCTCACAAAGAGCAATATCG
Found at i:7726912 original size:23 final size:23
Alignment explanation
Indices: 7726882--7726975 Score: 84
Period size: 23 Copynumber: 4.0 Consensus size: 23
7726872 CAAAGAACCA
7726882 TATCGGGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* *
7726905 TATCGGGAAGCTC-CGGATAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* * * *
7726927 ATATTTTGGGAAGTTCAAG-CGAGCAC
1 -TA--TCGGGAAGCTCACGAAGAGC-C
7726953 TATCGGGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
7726976 ATATATCAGA
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
22 7 0.13
23 27 0.50
24 4 0.07
25 14 0.26
26 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.30, T:0.18
Consensus pattern (23 bp):
TATCGGGAAGCTCACGAAGAGCC
Found at i:7726938 original size:48 final size:49
Alignment explanation
Indices: 7726886--7726979 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 49
7726876 GAACCATATC
* * *
7726886 GGGAAGCTCACGAAGAGC-CTATCGGGAAGCTC-CGGATAGCCATATTTT
1 GGGAAGCTCAAG-AGAGCACTATCGGGAAGCTCACGAAGAGCCATATTTT
* *
7726934 GGGAAGTTCAAGCGAGCACTATCGGGAAGCTCACGAAGAGCCATAT
1 GGGAAGCTCAAGAGAGCACTATCGGGAAGCTCACGAAGAGCCATAT
7726980 ATCAGACACT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
47 4 0.10
48 24 0.62
49 11 0.28
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (49 bp):
GGGAAGCTCAAGAGAGCACTATCGGGAAGCTCACGAAGAGCCATATTTT
Found at i:7727092 original size:24 final size:22
Alignment explanation
Indices: 7727033--7727092 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
7727023 GATCACAATC
*
7727033 TATCGGGCCGCTCCGAAGAGCTA
1 TATCGGGACGCT-CGAAGAGCTA
* * *
7727056 TAACGGGAAGCTCGAGAGGGCTAA
1 TATCGGGACGCTCGA-AGAGCT-A
7727080 TATCGGGACGCTC
1 TATCGGGACGCTC
7727093 TTTCGAGTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 3 0.10
23 14 0.48
24 12 0.41
ACGTcount: A:0.25, C:0.25, G:0.33, T:0.17
Consensus pattern (22 bp):
TATCGGGACGCTCGAAGAGCTA
Found at i:7732235 original size:33 final size:31
Alignment explanation
Indices: 7732189--7732250 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 31
7732179 TTTGTCTTTA
* *
7732189 ATTTAATTTAATAATAATAAATAATAAATATCT
1 ATTTAATTAAATAAT--TAAATAAAAAATATCT
7732222 ATTTAATTAAATAATTAAATAAAAAATAT
1 ATTTAATTAAATAATTAAATAAAAAATAT
7732251 TACAATTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 13 0.48
33 14 0.52
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (31 bp):
ATTTAATTAAATAATTAAATAAAAAATATCT
Found at i:7733372 original size:26 final size:26
Alignment explanation
Indices: 7733343--7733393 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
7733333 TATACTCAAT
7733343 TTAGATCAATCTCTCCTCTAAAACTG
1 TTAGATCAATCTCTCCTCTAAAACTG
*
7733369 TTAGATCAATCTCTCCTCTGAAACT
1 TTAGATCAATCTCTCCTCTAAAACT
7733394 CTCCCATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.35
Consensus pattern (26 bp):
TTAGATCAATCTCTCCTCTAAAACTG
Found at i:7733671 original size:30 final size:30
Alignment explanation
Indices: 7733628--7733687 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
7733618 AATTATTTAA
* * *
7733628 TTATTTTATAAAAATAAAATTTAATACTTT
1 TTATTATACAAAAATAAAATTCAATACTTT
7733658 TTATTATACAAAAATAAAATTCAATACTTT
1 TTATTATACAAAAATAAAATTCAATACTTT
7733688 GTTTTTGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (30 bp):
TTATTATACAAAAATAAAATTCAATACTTT
Found at i:7735659 original size:4 final size:4
Alignment explanation
Indices: 7735650--7735708 Score: 118
Period size: 4 Copynumber: 14.8 Consensus size: 4
7735640 TACTCCTCAG
7735650 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
7735698 GTAT GTAT GTA
1 GTAT GTAT GTA
7735709 CAATAATCTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:7741112 original size:51 final size:51
Alignment explanation
Indices: 7741046--7741179 Score: 196
Period size: 51 Copynumber: 2.6 Consensus size: 51
7741036 TAAAAAAACG
* *
7741046 AATACATTTTTTAATATGTGATGTGATGTGATTTTATATAATATTAAAAAT
1 AATATATTTTTTAATATGTGATGTGATGTGATTTTATATAATACTAAAAAT
* * * *
7741097 AATATCTTTTTTAATATGTGATGTAATGTAATTTTATATAATACTAAGAAT
1 AATATATTTTTTAATATGTGATGTGATGTGATTTTATATAATACTAAAAAT
* *
7741148 AATGTATCTTTTAATATGTGATGTGATGTGAT
1 AATATATTTTTTAATATGTGATGTGATGTGAT
7741180 GTGATTTTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (51 bp):
AATATATTTTTTAATATGTGATGTGATGTGATTTTATATAATACTAAAAAT
Found at i:7744980 original size:18 final size:18
Alignment explanation
Indices: 7744953--7744994 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7744943 TTATGTGTTA
* *
7744953 AAAATTATATAGTATAAG
1 AAAATAATATAATATAAG
*
7744971 AAAATAATATAATATAAT
1 AAAATAATATAATATAAG
7744989 AAAATA
1 AAAATA
7744995 GATTACAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATAATATAATATAAG
Found at i:7759390 original size:44 final size:43
Alignment explanation
Indices: 7759323--7759691 Score: 238
Period size: 44 Copynumber: 8.6 Consensus size: 43
7759313 AAAGAATTTC
* *
7759323 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAG
* ** *
7759367 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-AT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAG
* * * *
7759409 AGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG
1 AG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAG
* * * * *
7759451 -GATCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCAG
* * *** * *
7759493 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---G
*
7759537 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAG
* *
7759581 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAG
** * * * ** *
7759624 CTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAA
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCAG
* *
7759667 AGGATCTTATCTCTCTGAGGTTACA
1 A-GATCTTATCTCCCTGAGATTACA
7759692 CCAGAGTAGA
Statistics
Matches: 252, Mismatches: 54, Indels: 38
0.73 0.16 0.11
Matches are distributed among these distances:
38 2 0.01
39 24 0.10
40 1 0.00
41 27 0.11
42 11 0.04
43 32 0.13
44 122 0.48
45 1 0.00
46 31 0.12
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAG
Found at i:7759703 original size:87 final size:87
Alignment explanation
Indices: 7759543--7759704 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 87
7759533 TTTCAGATCT
* * ** * *
7759543 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACACCA
7759608 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
* * * *
7759630 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAGGTTACACC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCTCCCTGAGATTACACC
*
7759694 AGAGTAGATCG
65 AGAGCAGATCG
7759705 CATCAAGTCT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
87 59 0.94
88 4 0.06
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACACCA
GAGCAGATCGAAGACACTATCC
Found at i:7761498 original size:3 final size:3
Alignment explanation
Indices: 7761490--7761528 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
7761480 GATTTAGTCC
7761490 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7761529 CTACTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7761789 original size:58 final size:57
Alignment explanation
Indices: 7761701--7761811 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 57
7761691 CATTTTCATA
* * * * *
7761701 AATATATACATATTTATTTTTTCTTTTATATATTTAAATATACTTATTATATTTTGTT
1 AATATATACATATTTAGTTTATCGTCTATATATATAAATAT-CTTATTATATTTTGTT
* *
7761759 AATATATACATATTTTAGTTTAT-GTCTATATATATATATATCTTTTTATATTT
1 AATATATACATA-TTTAGTTTATCGTCTATATATATAAATATCTTATTATATTT
7761812 AATTGTATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
57 11 0.24
58 26 0.58
59 8 0.18
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (57 bp):
AATATATACATATTTAGTTTATCGTCTATATATATAAATATCTTATTATATTTTGTT
Found at i:7774457 original size:16 final size:17
Alignment explanation
Indices: 7774427--7774461 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7774417 AATTTTTTAG
*
7774427 ATTAATTTTTATTTAAA
1 ATTAAATTTTATTTAAA
7774444 ATTAAATTTT-TTTAAA
1 ATTAAATTTTATTTAAA
7774460 AT
1 AT
7774462 ATAATACATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTAAATTTTATTTAAA
Found at i:7774713 original size:26 final size:27
Alignment explanation
Indices: 7774680--7774740 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
7774670 TTTTGGATTA
7774680 ATTATTTA-ATATA-AA-TATATATAATT
1 ATTATTTACATATATAATTA-ATATAA-T
7774706 ATTATTTATCATATATAATTAATATAAT
1 ATTATTTA-CATATATAATTAATATAAT
7774734 ATTATTT
1 ATTATTT
7774741 TTTAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.26
28 13 0.42
29 8 0.26
30 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTATTTACATATATAATTAATATAAT
Found at i:7776288 original size:19 final size:19
Alignment explanation
Indices: 7776246--7776290 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7776236 AAATTATAAA
*
7776246 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTAT
*
7776265 TAAAATTCAAAAT-ATTAAT
1 AAAAATTCAAAATAATT-AT
7776284 AAAAATT
1 AAAAATT
7776291 TTAAAAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTAT
Found at i:7785968 original size:27 final size:27
Alignment explanation
Indices: 7785938--7786026 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
7785928 TTCAAAGAGC
*
7785938 CACTATCAATGAGTTGCACTGAAGTGT
1 CACTATCAATGACTTGCACTGAAGTGT
* **
7785965 CACTATCATTGACTTGCACCAAAGTGT
1 CACTATCAATGACTTGCACTGAAGTGT
* * *
7785992 CACTATCACTAATTTGCA-TCGAAGTGT
1 CACTATCAATGACTTGCACT-GAAGTGT
7786019 CACTATCA
1 CACTATCA
7786027 TTATGCACGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (27 bp):
CACTATCAATGACTTGCACTGAAGTGT
Found at i:7806334 original size:50 final size:50
Alignment explanation
Indices: 7806210--7806458 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
7806200 GATAATAACA
* * ** * *
7806210 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
7806261 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
7806311 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
7806361 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
7806416 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
7806459 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:7806388 original size:100 final size:104
Alignment explanation
Indices: 7806209--7806458 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
7806199 TGATAATAAC
**
7806209 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
7806274 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
7806311 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
7806374 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
7806416 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7806459 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:7806574 original size:13 final size:13
Alignment explanation
Indices: 7806553--7806584 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7806543 GCTTGGATCA
*
7806553 TCATCAAATAAAT
1 TCATAAAATAAAT
7806566 TCATAAAATAAAT
1 TCATAAAATAAAT
7806579 TCATAA
1 TCATAA
7806585 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7806831 original size:30 final size:29
Alignment explanation
Indices: 7806796--7806852 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
7806786 CCTCGACTCT
*
7806796 AACTTTTTCAAAATTACAATTTTTCCCCTA
1 AACTTTTACAAAATTAC-ATTTTTCCCCTA
*
7806826 AACTTTTACATAATTACATTTTTCCCC
1 AACTTTTACAAAATTACATTTTTCCCC
7806853 AAGGCTCGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.44
Consensus pattern (29 bp):
AACTTTTACAAAATTACATTTTTCCCCTA
Found at i:7812447 original size:3 final size:3
Alignment explanation
Indices: 7812315--7812434 Score: 96
Period size: 3 Copynumber: 40.0 Consensus size: 3
7812305 TCAGCAACAA
* * * * *
7812315 CAG CAG CAG CAA CAA CAA CAA CAG CAG CAA CAG CAG CAG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * * * * * *
7812363 CAG CAG CAA CAA CAG CAG CAG CAG CAA CAA CAA CAA CAA CAG CAA CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * *
7812411 CAA CAA CAG CAG CCG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG
7812435 TCTCCCCAGC
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 103 1.00
ACGTcount: A:0.45, C:0.34, G:0.21, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:7813224 original size:13 final size:14
Alignment explanation
Indices: 7813191--7813237 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
7813181 GGTAGGTTTG
7813191 TTTGATCTCTTTCA
1 TTTGATCTCTTTCA
7813205 TTTGATCTC-TT-A
1 TTTGATCTCTTTCA
7813217 TATTGATCTCTTTCA
1 T-TTGATCTCTTTCA
7813232 TTTGAT
1 TTTGAT
7813238 GCTTCTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.07
13 10 0.33
14 16 0.53
15 2 0.07
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.57
Consensus pattern (14 bp):
TTTGATCTCTTTCA
Found at i:7814202 original size:6 final size:6
Alignment explanation
Indices: 7814191--7814241 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
7814181 TGGCTCAGTT
* *
7814191 GCAACA GCAACA G---CA GCAACT GCAACA ACAACA GCAACA GCAACA
1 GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA
7814236 G-AACA G
1 GCAACA G
7814242 TAGCTCACAG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
3 3 0.08
5 5 0.13
6 30 0.79
ACGTcount: A:0.49, C:0.31, G:0.18, T:0.02
Consensus pattern (6 bp):
GCAACA
Found at i:7830518 original size:2 final size:2
Alignment explanation
Indices: 7830511--7830544 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7830501 TGGACTAAGG
7830511 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7830545 ACACACACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7857118 original size:69 final size:69
Alignment explanation
Indices: 7857007--7857145 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
7856997 CAAGACTCTA
*
7857007 TCAGCCCTACCACCACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTATTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTATTTTGGAA
7857072 CCTG
66 CCTG
*
7857076 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTATTTTGGAA
7857141 CCTG
66 CCTG
7857145 T
1 T
7857146 TTTTCCTATC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (69 bp):
TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTATTTTGGAA
CCTG
Found at i:7862185 original size:18 final size:18
Alignment explanation
Indices: 7862159--7862193 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7862149 ATAATAACTT
*
7862159 ATTTAGATGTTTATTATA
1 ATTTAGATGTATATTATA
*
7862177 ATTTGGATGTATATTAT
1 ATTTAGATGTATATTAT
7862194 TAAAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTTAGATGTATATTATA
Found at i:7862900 original size:3 final size:3
Alignment explanation
Indices: 7862892--7862926 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7862882 CGGATTGTAA
7862892 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7862927 ATGCTTAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7867422 original size:16 final size:16
Alignment explanation
Indices: 7867401--7867432 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7867391 AGTTATTTCC
*
7867401 TAAAAGGTAAAGATCA
1 TAAAAGATAAAGATCA
7867417 TAAAAGATAAAGATCA
1 TAAAAGATAAAGATCA
7867433 AAAGCATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.19
Consensus pattern (16 bp):
TAAAAGATAAAGATCA
Found at i:7867715 original size:21 final size:23
Alignment explanation
Indices: 7867690--7867736 Score: 80
Period size: 21 Copynumber: 2.1 Consensus size: 23
7867680 ATCTGTTAAA
7867690 AAAACAAGT-AAAAAAA-AGTAT
1 AAAACAAGTAAAAAAAATAGTAT
7867711 AAAACAAGTAAAAAAAATAGTAT
1 AAAACAAGTAAAAAAAATAGTAT
7867734 AAA
1 AAA
7867737 GTTAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.38
22 7 0.29
23 8 0.33
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (23 bp):
AAAACAAGTAAAAAAAATAGTAT
Found at i:7867726 original size:12 final size:11
Alignment explanation
Indices: 7867688--7867725 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
7867678 CAATCTGTTA
7867688 AAAAAACAAGT
1 AAAAAACAAGT
7867699 AAAAAA-AAGT
1 AAAAAACAAGT
*
7867709 ATAAAACAAGT
1 AAAAAACAAGT
7867720 AAAAAA
1 AAAAAA
7867726 AATAGTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (11 bp):
AAAAAACAAGT
Found at i:7867732 original size:12 final size:11
Alignment explanation
Indices: 7867686--7867732 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
7867676 CACAATCTGT
7867686 TAAAAAAACAAG
1 TAAAAAAA-AAG
7867698 T-AAAAAAAAG
1 TAAAAAAAAAG
* *
7867708 TATAAAACAAG
1 TAAAAAAAAAG
7867719 TAAAAAAAATAG
1 TAAAAAAAA-AG
7867731 TA
1 TA
7867733 TAAAGTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 4 0.14
11 20 0.69
12 5 0.17
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (11 bp):
TAAAAAAAAAG
Found at i:7867936 original size:14 final size:12
Alignment explanation
Indices: 7867917--7867965 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 12
7867907 ATTTGGGGAG
7867917 AAGAAAGGAGAGAA
1 AAGAAA-GA-AGAA
7867931 AAGAAAGAAGAA
1 AAGAAAGAAGAA
7867943 AAGAAGAGAAGAA
1 AAGAA-AGAAGAA
7867956 GAAG-AAGAAG
1 -AAGAAAGAAG
7867966 GAACAACCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 14 0.42
13 10 0.30
14 9 0.27
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAGAA
Found at i:7867950 original size:22 final size:22
Alignment explanation
Indices: 7867915--7867964 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
7867905 TCATTTGGGG
*
7867915 AGAAG-AAAGGAGAGAA-AAGAA
1 AGAAGAAAAGAAGAGAAGAAG-A
7867936 AGAAGAAAAGAAGAGAAGAAGA
1 AGAAGAAAAGAAGAGAAGAAGA
7867958 AGAAGAA
1 AGAAGAA
7867965 GGAACAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 5 0.19
22 18 0.69
23 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (22 bp):
AGAAGAAAAGAAGAGAAGAAGA
Found at i:7867965 original size:17 final size:16
Alignment explanation
Indices: 7867915--7867965 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 16
7867905 TCATTTGGGG
*
7867915 AGAAGAAAGGAG-AGA
1 AGAAGAAAGAAGAAGA
7867930 A-AAGAAAGAAGAA-A
1 AGAAGAAAGAAGAAGA
7867944 AGAAGAGAAGAAGAAGA
1 AGAAGA-AAGAAGAAGA
7867961 AGAAG
1 AGAAG
7867966 GAACAACCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 11 0.35
15 6 0.19
16 8 0.26
17 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
AGAAGAAAGAAGAAGA
Done.