Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold344
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: 1758742
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 4 of 11
Found at i:582595 original size:12 final size:13
Alignment explanation
Indices: 582580--582629 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
582570 ACTGTGCAGC
582580 CAATTTTG-AATT
1 CAATTTTGAAATT
582592 CAA-TTTGAAATAGT
1 CAATTTTGAAAT--T
*
582606 TAATTTTGAAATT
1 CAATTTTGAAATT
582619 CAA-TTTGAAAT
1 CAATTTTGAAAT
582630 AGTAAAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 4 0.12
12 14 0.44
13 3 0.09
14 3 0.09
15 8 0.25
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (13 bp):
CAATTTTGAAATT
Found at i:582623 original size:27 final size:26
Alignment explanation
Indices: 582581--582632 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
582571 CTGTGCAGCC
582581 AATTTTGAATTCAATTTGAAATAGTT
1 AATTTTGAATTCAATTTGAAATAGTT
582607 AATTTTGAAATTCAATTTGAAATAGT
1 AATTTTG-AATTCAATTTGAAATAGT
582633 AAAAGTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (26 bp):
AATTTTGAATTCAATTTGAAATAGTT
Found at i:582705 original size:9 final size:9
Alignment explanation
Indices: 582691--582723 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
582681 AGAAGGCTCA
582691 AGCAGAGAC
1 AGCAGAGAC
582700 AGCAGAGAC
1 AGCAGAGAC
*
582709 AGCAGAGAT
1 AGCAGAGAC
582718 AGCAGA
1 AGCAGA
582724 AAGAGAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.45, C:0.18, G:0.33, T:0.03
Consensus pattern (9 bp):
AGCAGAGAC
Found at i:583451 original size:13 final size:14
Alignment explanation
Indices: 583426--583455 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
583416 TTTTAAACAT
583426 ACAAAACGTTCTAA
1 ACAAAACGTTCTAA
583440 ACAAAA-GTTCTAA
1 ACAAAACGTTCTAA
583453 ACA
1 ACA
583456 GAAGCTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (14 bp):
ACAAAACGTTCTAA
Found at i:583494 original size:15 final size:16
Alignment explanation
Indices: 583468--583505 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
583458 AGCTAGTACA
583468 AACAAGAATTGTTTCG
1 AACAAGAATTGTTTCG
*
583484 AACAA-AATTGTTTTG
1 AACAAGAATTGTTTCG
583499 AACAAGA
1 AACAAGA
583506 GTTTTTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (16 bp):
AACAAGAATTGTTTCG
Found at i:583791 original size:15 final size:15
Alignment explanation
Indices: 583771--583800 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
583761 AGCCGAACAG
583771 CATTTCCCAGTTCAA
1 CATTTCCCAGTTCAA
583786 CATTTCCCAGTTCAA
1 CATTTCCCAGTTCAA
583801 GGTTAGGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.07, T:0.33
Consensus pattern (15 bp):
CATTTCCCAGTTCAA
Found at i:586721 original size:22 final size:21
Alignment explanation
Indices: 586656--586722 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
586646 AAAAGGAATC
** *
586656 TTTGGATGAAATGATGCAATG
1 TTTGGATGAAAAAATGCAATT
* * *
586677 GTTGGATGAAAGAATGCATTT
1 TTTGGATGAAAAAATGCAATT
586698 TTTGGATGAAAAAAATGCAATT
1 TTTGGATG-AAAAAATGCAATT
586720 TTT
1 TTT
586723 AATAACCAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
21 23 0.62
22 14 0.38
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (21 bp):
TTTGGATGAAAAAATGCAATT
Found at i:594033 original size:157 final size:157
Alignment explanation
Indices: 593747--594060 Score: 619
Period size: 157 Copynumber: 2.0 Consensus size: 157
593737 ATAAAACAAC
593747 GCGGTTCCAAATACAACATCACGTTCAACGACGCTTCCCCTCAGGTAACTATGTATCGAATTCCC
1 GCGGTTCCAAATACAACATCACGTTCAACGACGCTTCCCCTCAGGTAACTATGTATCGAATTCCC
593812 GTGATCAATTGCACCAAGGTAGGAGCAAGGTGAAAATACACCAGCCATTGTTATTTTATCAGGTT
66 GTGATCAATTGCACCAAGGTAGGAGCAAGGTGAAAATACACCAGCCATTGTTATTTTATCAGGTT
593877 TAACATAGCATTACTTAAATTCTGTTT
131 TAACATAGCATTACTTAAATTCTGTTT
593904 GCGGTTCCAAATACAACATCACGTTCAACGACGCTTCCCCTCAGGTAACTATGTATCGAATTCCC
1 GCGGTTCCAAATACAACATCACGTTCAACGACGCTTCCCCTCAGGTAACTATGTATCGAATTCCC
*
593969 GTGATCAATTGCACCAAGGTAGGAGCAAGGTGAAAATACACCAGCCATTGTTATTTTATGAGGTT
66 GTGATCAATTGCACCAAGGTAGGAGCAAGGTGAAAATACACCAGCCATTGTTATTTTATCAGGTT
594034 TAACATAGCATTACTTAAATTCTGTTT
131 TAACATAGCATTACTTAAATTCTGTTT
594061 TTCATGGAAC
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (157 bp):
GCGGTTCCAAATACAACATCACGTTCAACGACGCTTCCCCTCAGGTAACTATGTATCGAATTCCC
GTGATCAATTGCACCAAGGTAGGAGCAAGGTGAAAATACACCAGCCATTGTTATTTTATCAGGTT
TAACATAGCATTACTTAAATTCTGTTT
Found at i:600060 original size:23 final size:24
Alignment explanation
Indices: 600011--600061 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
600001 AAGTTAAAGA
** * *
600011 TTTTAAATTTTAATTTAATTAATT
1 TTTTAAATTTTAATAAAATCAAAT
600035 TTTTAAA-TTTAATAAAATCAAAT
1 TTTTAAATTTTAATAAAATCAAAT
600058 TTTT
1 TTTT
600062 TTATATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTAAATTTTAATAAAATCAAAT
Found at i:600718 original size:2 final size:2
Alignment explanation
Indices: 600711--600735 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
600701 CCTTTATCAT
600711 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
600736 TGATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:614087 original size:18 final size:19
Alignment explanation
Indices: 614050--614088 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
614040 TATATATTAT
*
614050 AATTTAAATTAATTTTTAA
1 AATTTAAATTAATTTGTAA
614069 AATTTAAATT-ATTTGTAA
1 AATTTAAATTAATTTGTAA
614087 AA
1 AA
614089 ATATAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AATTTAAATTAATTTGTAA
Found at i:614089 original size:19 final size:18
Alignment explanation
Indices: 614050--614101 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
614040 TATATATTAT
*
614050 AATTTAAATTAATTTTTAA
1 AATTTAAATT-ATTTTAAA
614069 AATTTAAATTATTTGTAAA
1 AATTTAAATTATTT-TAAA
* *
614088 AATATAAAATATTT
1 AATTTAAATTATTT
614102 ATTTACATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTTAAATTATTTTAAA
Found at i:614101 original size:148 final size:140
Alignment explanation
Indices: 613881--614150 Score: 357
Period size: 148 Copynumber: 1.9 Consensus size: 140
613871 ATACAAAGTA
*
613881 AAATAAATAATAATTTATACTATATTTAAATTAATTTTATAAAATTTAAATAATTAATAAATATA
1 AAATAAATAATAATATATACTATATTTAAATTAATTTTATAAAATTTAAATAATTAATAAATATA
* *
613946 AATTATTTATTAACATTAATTTTATAAAAATATTATTTACTTTCCTTT-CTTATCTTTTTTTCCC
66 AAATATTTATTAACATTAAATTTATAAAAATATT-TTTA-TTT--TTTAC-TATCTTTTTTTCCC
614010 TTTTCTCTTCTTTAT
126 TTTTCTCTTCTTTAT
* *
614025 AAATAAATAATAAAATATATATTATAATTTAAATTAATTTT-TAAAATTTAAATTATTTGTAA-A
1 AAATAAATAAT--AATATATACTAT-ATTTAAATTAATTTTATAAAATTTAAA-TA-AT-TAATA
* *
614088 AATATAAAATATTTATTTACATTAAATTTATAAAGATATTTTTATTTTTTACTATCTTTTTTT
60 AATATAAAATATTTATTAACATTAAATTTATAAAAATATTTTTATTTTTTACTATCTTTTTTT
614151 TCATTTTTTA
Statistics
Matches: 112, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
144 25 0.22
145 1 0.01
146 24 0.21
147 21 0.19
148 38 0.34
149 3 0.03
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (140 bp):
AAATAAATAATAATATATACTATATTTAAATTAATTTTATAAAATTTAAATAATTAATAAATATA
AAATATTTATTAACATTAAATTTATAAAAATATTTTTATTTTTTACTATCTTTTTTTCCCTTTTC
TCTTCTTTAT
Found at i:614272 original size:166 final size:161
Alignment explanation
Indices: 614027--614328 Score: 396
Period size: 164 Copynumber: 1.8 Consensus size: 161
614017 TTCTTTATAA
* * * *
614027 ATAAATAATAAAATATATATTATAATTTAAATTAATTTTTAAAATTTAAATTATTTGTAAAAATA
1 ATAAATAAT-AAATATATATTATAATGTAAAATAATTTTTAAAAATTAAATTATTTATAAAAATA
* **
614092 TAAAATATTTATTTACATTAAATTTAT-AAAGATATTTTTATTTTTTACTATCTTTTTTTTCATT
65 TAAAATATTTATTTACATTAAATTTATAAAAGATA-TGTTACCTTTT-C-AT-TTTTTTTT-ATT
614156 TTTTATTTTTCTATTTCATAAATAAATACAAAGAAAT
125 TTTTATTTTTCTATTTCATAAATAAATACAAAGAAAT
*
614193 ATAAATAAT-AATTTATATTATAATGTAAAATAATTTTTGAAAAATTAAA-TAGTTTATAAAAAT
1 ATAAATAATAAATATATATTATAATGTAAAATAATTTTT-AAAAATTAAATTA-TTTATAAAAAT
*
614256 A-AGAAATATTTTATTTACTTTAAATTTATAAAAAGATATGTTACCTTTTCATTTTTTTTTATTT
64 ATA-AAATA-TTTATTTACATTAAATTTAT-AAAAGATATGTTACCTTTTCATTTTTTTTTATTT
614320 TTTATTTTT
126 TTTATTTTT
614329 ATAAAAAGTA
Statistics
Matches: 121, Mismatches: 9, Indels: 15
0.83 0.06 0.10
Matches are distributed among these distances:
163 13 0.11
164 37 0.31
165 27 0.22
166 29 0.24
167 8 0.07
168 7 0.06
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (161 bp):
ATAAATAATAAATATATATTATAATGTAAAATAATTTTTAAAAATTAAATTATTTATAAAAATAT
AAAATATTTATTTACATTAAATTTATAAAAGATATGTTACCTTTTCATTTTTTTTTATTTTTTAT
TTTTCTATTTCATAAATAAATACAAAGAAAT
Found at i:614589 original size:18 final size:19
Alignment explanation
Indices: 614568--614608 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
614558 AAGCAGTAAT
*
614568 TTTATATTT-TATAAATTA
1 TTTATATTTCTATAAAATA
*
614586 TTTA-ATTTCTTTAAAATA
1 TTTATATTTCTATAAAATA
614604 TTTAT
1 TTTAT
614609 GTATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATATTTCTATAAAATA
Found at i:615797 original size:5 final size:5
Alignment explanation
Indices: 615787--615812 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
615777 TTGTGTTCCA
615787 TCTCT TCTCT TCTCT TCTCT TCTCT T
1 TCTCT TCTCT TCTCT TCTCT TCTCT T
615813 GTATTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TCTCT
Found at i:616719 original size:16 final size:16
Alignment explanation
Indices: 616700--616741 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
616690 AGTTTGAGCC
616700 TTTTCGAGTTCAAGCT
1 TTTTCGAGTTCAAGCT
* *
616716 TTTTCGAATTCGAGCT
1 TTTTCGAGTTCAAGCT
*
616732 TTTTTGAGTT
1 TTTTCGAGTT
616742 TAGACTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTTCGAGTTCAAGCT
Found at i:616930 original size:14 final size:15
Alignment explanation
Indices: 616869--616942 Score: 50
Period size: 16 Copynumber: 5.0 Consensus size: 15
616859 TATTAAATTA
*
616869 TTATTTTTAATTAAAT
1 TTATTTTTAA-TATAT
*
616885 TT-TTATT-ATGATAT
1 TTATTTTTAAT-ATAT
616899 GTTATTTTTAATATAT
1 -TTATTTTTAATATAT
616915 TTATTTATTAA-A-AT
1 TTATTT-TTAATATAT
*
616929 TTATATTT-ATATAT
1 TTATTTTTAATATAT
616943 AAAATTAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
12 1 0.02
13 4 0.09
14 13 0.28
15 13 0.28
16 14 0.30
17 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTATTTTTAATATAT
Found at i:616935 original size:20 final size:19
Alignment explanation
Indices: 616910--616966 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 19
616900 TTATTTTTAA
*
616910 TATATTTATTTATTAAAATT
1 TATATTTATATA-TAAAATT
616930 TATATTTATATATAAAA-T
1 TATATTTATATATAAAATT
*
616948 TA-ATTTGTTATATAAAATT
1 TATATTT-ATATATAAAATT
616967 AATTTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 4 0.12
18 12 0.36
19 6 0.18
20 11 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TATATTTATATATAAAATT
Found at i:617894 original size:22 final size:22
Alignment explanation
Indices: 617869--617912 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
617859 TAAAGCTTTT
617869 GATATAATTTACA-TTTTGATAA
1 GATATAATTTA-ATTTTTGATAA
617891 GATATAATTTAATTTTTGATAA
1 GATATAATTTAATTTTTGATAA
617913 ATTACTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (22 bp):
GATATAATTTAATTTTTGATAA
Found at i:618307 original size:25 final size:22
Alignment explanation
Indices: 618279--618331 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
618269 AAGTTCGAAC
618279 TTAAAATCATATTTATGAATAATAA
1 TTAAAATCATA-TTA--AATAATAA
*
618304 TTAAAATTATATTAAATAATAA
1 TTAAAATCATATTAAATAATAA
*
618326 TAAAAA
1 TTAAAA
618332 AAATATCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 13 0.50
24 3 0.12
25 10 0.38
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TTAAAATCATATTAAATAATAA
Found at i:618337 original size:22 final size:22
Alignment explanation
Indices: 618296--618337 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
618286 CATATTTATG
* **
618296 AATAATAATTAAAATTATATTA
1 AATAATAATAAAAAAAATATTA
618318 AATAATAATAAAAAAAATAT
1 AATAATAATAAAAAAAATAT
618338 CAACCAATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAATAATAAAAAAAATATTA
Found at i:618852 original size:13 final size:13
Alignment explanation
Indices: 618831--618868 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
618821 AATTTTAATA
*
618831 TTATTATATATTT
1 TTATCATATATTT
618844 TTATCATAT-TTT
1 TTATCATATATTT
618856 TATATCATATATT
1 T-TATCATATATT
618869 ATATTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 4 0.18
13 16 0.73
14 2 0.09
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATCATATATTT
Found at i:618854 original size:11 final size:10
Alignment explanation
Indices: 618813--618860 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
618803 AATAATTTAC
*
618813 TTTATATTAAT
1 TTTATA-TATT
618824 TTTA-ATATT
1 TTTATATATT
*
618833 ATTATATATT
1 TTTATATATT
618843 TTTATCATATT
1 TTTAT-ATATT
618854 TTTATAT
1 TTTATAT
618861 CATATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 6 0.19
10 12 0.38
11 14 0.44
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTATATATT
Found at i:619301 original size:2 final size:2
Alignment explanation
Indices: 619294--619319 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
619284 CCTCAAAATA
619294 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
619320 GAAAGTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:621045 original size:15 final size:16
Alignment explanation
Indices: 621014--621055 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
621004 GAACGAATCG
621014 AATTAGTTTT-AGATTA
1 AATTA-TTTTAAGATTA
621030 AATTATTTTAAG-TTA
1 AATTATTTTAAGATTA
621045 AATTATTTTAA
1 AATTATTTTAA
621056 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (16 bp):
AATTATTTTAAGATTA
Found at i:621955 original size:16 final size:15
Alignment explanation
Indices: 621934--622003 Score: 59
Period size: 16 Copynumber: 4.4 Consensus size: 15
621924 TATTCGAATT
621934 ATTTCAAGTTCAAATC
1 ATTTCAA-TTCAAATC
**
621950 ATTTCAAGTTCGGATC
1 ATTTCAA-TTCAAATC
**
621966 ATTTTTTATTCAAATC
1 A-TTTCAATTCAAATC
*
621982 ATTTCGAATTCAGATC
1 ATTTC-AATTCAAATC
621998 ATTTCA
1 ATTTCA
622004 GATTTGAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
15 4 0.09
16 35 0.81
17 4 0.09
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (15 bp):
ATTTCAATTCAAATC
Found at i:622018 original size:48 final size:49
Alignment explanation
Indices: 621923--622037 Score: 137
Period size: 48 Copynumber: 2.4 Consensus size: 49
621913 TTTAAATTAA
*
621923 TTATTCGAATTATTTC-AAGTTCAAATCATTTCAAGTTCGGATCATTTT
1 TTATTCGAATTATTTCGAAGTTCAAATCATTTCAAGTTCGAATCATTTT
* * * * *
621971 TTATTCAAATCATTTCGAA-TTCAGATCATTTC-AGATTTGAATTATTTT
1 TTATTCGAATTATTTCGAAGTTCAAATCATTTCAAG-TTCGAATCATTTT
622019 TTGATTCGAATTATTTCGA
1 TT-ATTCGAATTATTTCGA
622038 GATTAAATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.04
48 38 0.68
49 16 0.29
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (49 bp):
TTATTCGAATTATTTCGAAGTTCAAATCATTTCAAGTTCGAATCATTTT
Found at i:622359 original size:15 final size:16
Alignment explanation
Indices: 622336--622371 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
622326 AATTCTTTCA
622336 ATTAAT-AAAAAATAT
1 ATTAATAAAAAAATAT
*
622351 ATTACTAAAAAAATAT
1 ATTAATAAAAAAATAT
622367 ATTAA
1 ATTAA
622372 ATTATATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAATAAAAAAATAT
Found at i:623803 original size:5 final size:5
Alignment explanation
Indices: 623793--623821 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
623783 TATTATCACC
623793 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
623822 ATCATACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:626247 original size:11 final size:12
Alignment explanation
Indices: 626226--626280 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
626216 GATATGATAA
626226 TATGTATATTTT
1 TATGTATATTTT
626238 TATG-ATATTTT
1 TATGTATATTTT
* *
626249 TATGTTTATATT
1 TATGTATATTTT
*
626261 TAT-TATTTTTAT
1 TATGTATATTT-T
626273 TAT-TATAT
1 TATGTATAT
626281 ATGTATGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
11 15 0.43
12 20 0.57
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (12 bp):
TATGTATATTTT
Found at i:626344 original size:7 final size:7
Alignment explanation
Indices: 626327--626404 Score: 77
Period size: 7 Copynumber: 11.0 Consensus size: 7
626317 TTAAAATAAT
626327 TAAATATA
1 TAAA-ATA
626335 TAAAATA
1 TAAAATA
626342 TAAAATA
1 TAAAATA
626349 T-AAATA
1 TAAAATA
626355 TAAAATA
1 TAAAATA
*** *
626362 TGTGAGA
1 TAAAATA
*
626369 TAATATA
1 TAAAATA
626376 TAAAATA
1 TAAAATA
626383 TAAAAATA
1 T-AAAATA
*
626391 TAAACTA
1 TAAAATA
626398 TAAAATA
1 TAAAATA
626405 ATATAAAGAG
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
6 6 0.11
7 40 0.70
8 11 0.19
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (7 bp):
TAAAATA
Found at i:626406 original size:34 final size:33
Alignment explanation
Indices: 626334--626409 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
626324 AATTAAATAT
* * *
626334 ATAAAATATAAAATATAAATATAAAATATGTGAG
1 ATAATATATAAAATATAAATATAAAATA-GTAAA
*
626368 ATAATATATAAAATATAAAAATATAAACTA-TAAA
1 ATAATATATAAAATAT--AAATATAAAATAGTAAA
626402 ATAATATA
1 ATAATATA
626410 AAGAGAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 25 0.69
36 11 0.31
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (33 bp):
ATAATATATAAAATATAAATATAAAATAGTAAA
Found at i:626411 original size:17 final size:15
Alignment explanation
Indices: 626328--626402 Score: 64
Period size: 15 Copynumber: 4.7 Consensus size: 15
626318 TAAAATAATT
626328 AAATATATAAAATATA
1 AAATATA-AAAATATA
626344 AAATAT--AAATATA
1 AAATATAAAAATATA
626357 AAATATGTGAGATAATATATA
1 AAATA--T-A-A-AA-ATATA
626378 AAATATAAAAATATA
1 AAATATAAAAATATA
*
626393 AACTATAAAA
1 AAATATAAAA
626403 TAATATAAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
13 12 0.24
15 15 0.30
16 8 0.16
17 1 0.02
18 1 0.02
19 1 0.02
20 2 0.04
21 10 0.20
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (15 bp):
AAATATAAAAATATA
Found at i:626572 original size:12 final size:13
Alignment explanation
Indices: 626560--626614 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 13
626550 TATATTTTTT
626560 ATTTTATTATTTA
1 ATTTTATTATTTA
*
626573 ATTTT-TTATATA
1 ATTTTATTATTTA
*
626585 ATTTT-TTAATTAA
1 ATTTTATT-ATTTA
*
626598 ATTAATATTATTTA
1 ATT-TTATTATTTA
626612 ATT
1 ATT
626615 AATGATATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
12 13 0.38
13 11 0.32
14 8 0.24
15 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTATTATTTA
Found at i:626578 original size:20 final size:20
Alignment explanation
Indices: 626553--626595 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
626543 ATAAATATAT
* *
626553 ATTTTTTATTTTATTATTTA
1 ATTTTTTATATAATTATTTA
*
626573 ATTTTTTATATAATTTTTTA
1 ATTTTTTATATAATTATTTA
626593 ATT
1 ATT
626596 AAATTAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTTTATATAATTATTTA
Found at i:626723 original size:12 final size:13
Alignment explanation
Indices: 626706--626749 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 13
626696 TTTTATTTTA
626706 TTTATATTAT-TT
1 TTTATATTATATT
626718 TTTATATCTCATATAT
1 TTTATAT-T-ATAT-T
626734 TTTATATTATATT
1 TTTATATTATATT
626747 TTT
1 TTT
626750 CATAATTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 7 0.25
13 5 0.18
14 6 0.21
15 2 0.07
16 8 0.29
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATATTATATT
Found at i:632184 original size:29 final size:30
Alignment explanation
Indices: 632152--632210 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
632142 ATTTTAAAAT
*
632152 TTAATCTTT-AATAATTTAATAT-TTTTTTA
1 TTAAT-TTTAAATAACTTAATATATTTTTTA
632181 TTAATTTTAAATAACTTAATATATTTTTTA
1 TTAATTTTAAATAACTTAATATATTTTTTA
632211 AAGTTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 3 0.11
29 17 0.63
30 7 0.26
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (30 bp):
TTAATTTTAAATAACTTAATATATTTTTTA
Found at i:636375 original size:2 final size:2
Alignment explanation
Indices: 636368--636399 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
636358 ATTCCGAATG
636368 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
636400 ACCCATTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:636529 original size:3 final size:3
Alignment explanation
Indices: 636521--636554 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
636511 ATGGAAATAA
*
636521 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
636555 ATGTTGGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:636811 original size:6 final size:6
Alignment explanation
Indices: 636800--636919 Score: 54
Period size: 6 Copynumber: 19.8 Consensus size: 6
636790 AAAAACATAA
* *
636800 TATATT TGTATT TATA-T TATTTTT TATATT TAAAATATT ATATATT TAT-TT
1 TATATT TATATT TATATT TA-TATT TATATT T---ATATT -TATATT TATATT
* * * * **
636851 TATATAT TAATAAT T-TATT T-TATT TCT-TA TATATT TTTATT TATACG
1 TATAT-T T-ATATT TATATT TATATT TATATT TATATT TATATT TATATT
*
636898 TATATT TATA-T TATATT CATAT
1 TATATT TATATT TATATT TATAT
636920 AATTTTCGTA
Statistics
Matches: 86, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
5 25 0.29
6 40 0.47
7 12 0.14
8 3 0.03
9 5 0.06
10 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (6 bp):
TATATT
Found at i:636857 original size:29 final size:28
Alignment explanation
Indices: 636808--636886 Score: 85
Period size: 27 Copynumber: 2.9 Consensus size: 28
636798 AATATATTTG
*
636808 TATTTATA-TTATTTTTTATATTTAAAA
1 TATTTATATTTATTTTATATATTTAAAA
*
636835 TATTATATATTTATTTTATATA-TTAATA
1 TATT-TATATTTATTTTATATATTTAAAA
636863 -ATTTAT-TTTATTTCTTATATATTT
1 TATTTATATTTA-TT-TTATATATTT
636887 TTATTTATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
25 4 0.09
26 5 0.11
27 14 0.31
28 11 0.24
29 11 0.24
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (28 bp):
TATTTATATTTATTTTATATATTTAAAA
Found at i:637271 original size:17 final size:17
Alignment explanation
Indices: 637241--637273 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
637231 AGGCATGGCT
637241 GAAAAAAAAGAAGAAAG
1 GAAAAAAAAGAAGAAAG
637258 GAAAATAAAA-AAGAAA
1 GAAAA-AAAAGAAGAAA
637274 AAGGAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
GAAAAAAAAGAAGAAAG
Found at i:637341 original size:32 final size:33
Alignment explanation
Indices: 637305--637381 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 33
637295 TACGTATTCG
* *
637305 TATTTATGTTATTTTTTATAT-TTAA-AATATTA
1 TATTTATATTATTTTTTACATATTAATAAT-TTA
*
637337 TATTTTTATATATTTTTTACATATTAATAATTTA
1 TATTTATAT-TATTTTTTACATATTAATAATTTA
*
637371 T-TTTATTTTAT
1 TATTTATATTAT
637382 GTATATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
32 10 0.27
33 16 0.43
34 8 0.22
35 3 0.08
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (33 bp):
TATTTATATTATTTTTTACATATTAATAATTTA
Found at i:637920 original size:23 final size:23
Alignment explanation
Indices: 637892--637955 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
637882 CGTTTGCTTA
637892 TTTATATTATATTTATATTATTT
1 TTTATATTATATTTATATTATTT
637915 TTTATACTGTAT-TTTA-ATTATTT
1 TTTATA-T-TATATTTATATTATTT
* *
637938 TTTATATTGTATTCATAT
1 TTTATATTATATTTATAT
637956 CGTATTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
21 2 0.06
22 4 0.11
23 21 0.60
24 5 0.14
25 3 0.09
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (23 bp):
TTTATATTATATTTATATTATTT
Found at i:638217 original size:18 final size:17
Alignment explanation
Indices: 638194--638249 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
638184 TTTTACAAAG
638194 TATTTAAATTTATATAAA
1 TATTT-AATTTATATAAA
*
638212 TATTT-A--TATATTAA
1 TATTTAATTTATATAAA
*
638226 TAATTTATTTTATATAAA
1 T-ATTTAATTTATATAAA
638244 TATTTA
1 TATTTA
638250 CATGTTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
16 1 0.03
17 5 0.16
18 13 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTAATTTATATAAA
Found at i:638431 original size:24 final size:25
Alignment explanation
Indices: 638376--638433 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
638366 TTATATGATT
638376 AAATTTTAAATTTAAATTTATTAATA
1 AAATTTTAAA-TTAAATTTATTAATA
* *
638402 ATATTTTAAA-TAAATTTTATT-TTA
1 AAATTTTAAATTAAA-TTTATTAATA
638426 AAATTTTA
1 AAATTTTA
638434 TAAATATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 13 0.46
25 6 0.21
26 9 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
AAATTTTAAATTAAATTTATTAATA
Found at i:638777 original size:2 final size:2
Alignment explanation
Indices: 638759--638792 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
638749 CAACACGTAC
*
638759 AT AT A- AT AT AT AG AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
638793 CAATCTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:638873 original size:22 final size:20
Alignment explanation
Indices: 638826--638870 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
638816 TTACTAGATA
* *
638826 AATCTGTTTAAATATCAATT
1 AATCTATTTAAAAATCAATT
*
638846 AATCTATTTAAAAATTAATT
1 AATCTATTTAAAAATCAATT
638866 AATCT
1 AATCT
638871 CTAGTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (20 bp):
AATCTATTTAAAAATCAATT
Found at i:639127 original size:7 final size:7
Alignment explanation
Indices: 639095--639126 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
639085 AATATGGTTT
639095 ATTTTAA
1 ATTTTAA
639102 ATTTTAA
1 ATTTTAA
639109 ATTTTAA
1 ATTTTAA
639116 ATTTT-A
1 ATTTTAA
639122 ATTTT
1 ATTTT
639127 TTATAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTAA
Found at i:639755 original size:19 final size:18
Alignment explanation
Indices: 639724--639759 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
639714 AATTAAATTA
639724 TTTATTTAAATTTAAAAT
1 TTTATTTAAATTTAAAAT
639742 TTTATTTAATATTTAAAA
1 TTTATTTAA-ATTTAAAA
639760 AAATATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATTTAAATTTAAAAT
Found at i:639813 original size:32 final size:33
Alignment explanation
Indices: 639768--639831 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
639758 AAAAATATGA
639768 ATAAAAATATTAAA-TCTAAAAAATAAATTTAG
1 ATAAAAATATTAAACTCTAAAAAATAAATTTAG
*
639800 ATAAAAGAT-TTAAACCGTTTAAAAAATAAATT
1 ATAAAA-ATATTAAA-C-TCTAAAAAATAAATT
639832 AAGCCTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 11 0.41
33 2 0.07
35 14 0.52
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (33 bp):
ATAAAAATATTAAACTCTAAAAAATAAATTTAG
Found at i:647414 original size:79 final size:78
Alignment explanation
Indices: 647278--647481 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 78
647268 GAGATAATAA
* * * * ** * *
647278 CGGGGTTGGAGTGTCCCCTTGAAAATGACAGGGTTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
647343 -TT-AGAAAAAAAC
65 TTTGAGAAAAAAAC
* *
647355 ATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCAATTATGAGAAATCAAT
1 --CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT
* * *
647420 ATTTTGGGAATAAAGC
64 A-TTTGAGAAAAAAAC
* **
647436 CGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
647482 GATGAAATAA
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
78 1 0.01
79 94 0.90
80 2 0.02
81 7 0.07
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
TTGAGAAAAAAAC
Found at i:647492 original size:28 final size:28
Alignment explanation
Indices: 647436--647512 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
647426 GGAATAAAGC
*** **
647436 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
647464 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
647492 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
647513 TGTGAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:647559 original size:54 final size:53
Alignment explanation
Indices: 647498--647638 Score: 155
Period size: 52 Copynumber: 2.6 Consensus size: 53
647488 ATAACGAGGT
* *
647498 TGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTTGGAAATAAAATCGGAGC
1 TGGAGTATCC-CGATTGTGAAAAAATTGGTGTTTTTTGAAAATAAAACCGGAGC
* * *
647552 TGGAGTATCCCTGA-T-TAAAGGAAAATTGGTG--TTTTGAAAATAAAACCGGGGT
1 TGGAGTATCCC-GATTGTGAA--AAAATTGGTGTTTTTTGAAAATAAAACCGGAGC
*
647604 TGGAGTATTCCCGATTGTGAAAAAATTAGTGTTTT
1 TGGAGTA-TCCCGATTGTGAAAAAATTGGTGTTTT
647639 AGCAATAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
52 38 0.53
53 7 0.10
54 27 0.38
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (53 bp):
TGGAGTATCCCGATTGTGAAAAAATTGGTGTTTTTTGAAAATAAAACCGGAGC
Found at i:647609 original size:52 final size:49
Alignment explanation
Indices: 647495--647672 Score: 151
Period size: 52 Copynumber: 3.4 Consensus size: 49
647485 GAAATAACGA
* * *
647495 GGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCC-CGA-T-TAAAAAAATTGGTG--TTTTGAAAATAAAACCGG
* *
647549 AGCTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCC-GATTAAA--AAAATTGGTGTTTTGAAAATAAAACCGG
* * * *
647601 GGTTGGAGTATTCCCGATTGTGAAAAAATTAGTGTTTT-AGCAATAAAACAGG
1 GGTTGGAGTA-TCCCGA-T-TAAAAAAATTGGTGTTTTGA-AAATAAAACCGG
647653 GGTTGGAGTATCCCCGATTA
1 GGTTGGAGTAT-CCCGATTA
647673 TGAGAAATCA
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
50 1 0.01
51 3 0.03
52 67 0.64
53 7 0.07
54 26 0.25
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (49 bp):
GGTTGGAGTATCCCGATTAAAAAAATTGGTGTTTTGAAAATAAAACCGG
Found at i:647708 original size:51 final size:52
Alignment explanation
Indices: 647590--647718 Score: 163
Period size: 51 Copynumber: 2.5 Consensus size: 52
647580 GTGTTTTGAA
* * * * * *
647590 AATAAAACCGGGGTTGGAGTATTCCCGATTGTGAAAAAATTAGTGTTTTAGC
1 AATAAAACAGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTTAGC
*
647642 AATAAAACAGGGGTTGGAGTATCCCCGATTATG-AGAAATCAATATTTTAAG-
1 AATAAAACAGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTT-AGC
*
647693 AATAAAGCAGGGGTTGGAGTATCCCC
1 AATAAAACAGGGGTTGGAGTATCCCC
647719 TCGGAAATAA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 36 0.53
52 32 0.47
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (52 bp):
AATAAAACAGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTTAGC
Found at i:647764 original size:27 final size:28
Alignment explanation
Indices: 647702--647776 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
647692 GAATAAAGCA
***
647702 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
647730 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
647757 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
647777 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:650251 original size:21 final size:21
Alignment explanation
Indices: 650225--650281 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
650215 GTAAACTTCT
650225 TAGATGTATCGATACAAAGAA
1 TAGATGTATCGATACAAAGAA
*
650246 TAGATGTATCGATACACAGAA
1 TAGATGTATCGATACAAAGAA
*
650267 -AAATGTATCGATACA
1 TAGATGTATCGATACA
650282 TTTCCTTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (21 bp):
TAGATGTATCGATACAAAGAA
Found at i:651951 original size:2 final size:2
Alignment explanation
Indices: 651944--651986 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
651934 CATTGTTCTG
651944 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
651985 TA
1 TA
651987 ATTTTTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:658704 original size:13 final size:13
Alignment explanation
Indices: 658686--658716 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
658676 ACATTTCTTC
658686 ATGTATCGATACA
1 ATGTATCGATACA
658699 ATGTATCGATACA
1 ATGTATCGATACA
*
658712 TTGTA
1 ATGTA
658717 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:658704 original size:33 final size:33
Alignment explanation
Indices: 658666--658732 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
658656 GTTACAAGCT
658666 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
658699 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
658732 A
1 A
658733 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:658800 original size:13 final size:13
Alignment explanation
Indices: 658782--658808 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
658772 ACAATTGTCC
658782 ATGTATCGATACA
1 ATGTATCGATACA
658795 ATGTATCGATACA
1 ATGTATCGATACA
658808 A
1 A
658809 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:661300 original size:13 final size:13
Alignment explanation
Indices: 661282--661307 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
661272 TAAGGAATTT
661282 TGTATCGATACAA
1 TGTATCGATACAA
661295 TGTATCGATACAA
1 TGTATCGATACAA
661308 GGAATTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:661301 original size:33 final size:33
Alignment explanation
Indices: 661259--661326 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
661249 AAATAGTACC
*
661259 CAATGTATCGATATAAGGAATTTTGTATCGATA
1 CAATGTATCGATACAAGGAATTTTGTATCGATA
*
661292 CAATGTATCGATACAAGGAATTTTGTGTCGATA
1 CAATGTATCGATACAAGGAATTTTGTATCGATA
661325 CA
1 CA
661327 TCTGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACAAGGAATTTTGTATCGATA
Found at i:665220 original size:21 final size:21
Alignment explanation
Indices: 665186--665226 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
665176 AACATAAAAA
*
665186 ATTATTTTTCTTAGCTAATTC
1 ATTATTTTTCTTAGCCAATTC
665207 ATTA-TTTTCATTAGCCAATT
1 ATTATTTTTC-TTAGCCAATT
665227 TTTTAATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.27, C:0.15, G:0.05, T:0.54
Consensus pattern (21 bp):
ATTATTTTTCTTAGCCAATTC
Found at i:667464 original size:20 final size:20
Alignment explanation
Indices: 667439--667491 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
667429 GTTACAAGCT
667439 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
667459 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
667479 ATGTATCGATACA
1 ATGTATCGATACA
667492 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:667548 original size:20 final size:20
Alignment explanation
Indices: 667519--667575 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
667509 TACTGCTAGT
*
667519 TTCATGTATCGATACAATTG
1 TTCATATATCGATACAATTG
667539 TTCATATATCGATACAA-TG
1 TTCATATATCGATACAATTG
**
667558 AACATATATCGATACAAT
1 TTCATATATCGATACAAT
667576 GTATCGATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (20 bp):
TTCATATATCGATACAATTG
Found at i:671464 original size:25 final size:25
Alignment explanation
Indices: 671418--671465 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
671408 TTGAAACAAA
* ** *
671418 TTTAAATATAAATTAATCAAAAAAG
1 TTTAAATAAAAACAAATAAAAAAAG
671443 TTTAAATAAAAACAAATAAAAAA
1 TTTAAATAAAAACAAATAAAAAA
671466 TTACTAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (25 bp):
TTTAAATAAAAACAAATAAAAAAAG
Found at i:672488 original size:20 final size:20
Alignment explanation
Indices: 672465--672504 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
672455 ACATTTTGTC
672465 CTTTCCTTTTTTCTTTTTTT
1 CTTTCCTTTTTTCTTTTTTT
**
672485 CTTTTTTTTTTTCTTTTTTT
1 CTTTCCTTTTTTCTTTTTTT
672505 TATTTCCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
CTTTCCTTTTTTCTTTTTTT
Found at i:672494 original size:11 final size:12
Alignment explanation
Indices: 672473--672510 Score: 58
Period size: 12 Copynumber: 3.0 Consensus size: 12
672463 TCCTTTCCTT
672473 TTTTCTTTTTTTC
1 TTTT-TTTTTTTC
672486 TTTTTTTTTTTC
1 TTTTTTTTTTTC
672498 TTTTTTTTATTTC
1 TTTTTTTT-TTTC
672511 CTCACTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:674676 original size:27 final size:27
Alignment explanation
Indices: 674624--674676 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
674614 TAAATATCAA
* *
674624 TAATATAATAAAATTATATATGTATAG
1 TAATATAATAAAATTATAAATATATAG
674651 TAATA-AATAAAATATATAAATATATA
1 TAATATAATAAAAT-TATAAATATATA
674677 AATATATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (27 bp):
TAATATAATAAAATTATAAATATATAG
Found at i:675719 original size:28 final size:28
Alignment explanation
Indices: 675680--675741 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
675670 TTATTTTAAT
675680 TTATA-ATATTATA-AATATATTTAAAATA
1 TTATATATATTATATAA-AT-TTTAAAATA
*
675708 TTATATAT-TTATATAAATTTTAATATA
1 TTATATATATTATATAAATTTTAAAATA
675735 TT-TATAT
1 TTATATAT
675742 CTAATAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 5 0.16
27 10 0.32
28 12 0.39
29 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATATATATTATATAAATTTTAAAATA
Found at i:675724 original size:20 final size:19
Alignment explanation
Indices: 675684--675741 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
675674 TTTAATTTAT
* * *
675684 AATATTATAAATATATTTAA
1 AATATTATATATTTATAT-A
675704 AATATTATATATTTATATA
1 AATATTATATATTTATATA
*
675723 AATTTTAATATATTTATAT
1 AATATT-ATATATTTATAT
675742 CTAATAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.18
20 27 0.82
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATTATATATTTATATA
Found at i:675732 original size:25 final size:27
Alignment explanation
Indices: 675672--675733 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
675662 TGTCGTATTT
*
675672 ATTTTAAT-TTATAATATTATAAATAT
1 ATTTTAATATTATAATATTATAAATAA
* *
675698 ATTTAAAATATTAT-ATATT-TATATAA
1 ATTT-TAATATTATAATATTATAAATAA
675724 ATTTTAATAT
1 ATTTTAATAT
675734 ATTTATATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 5 0.17
26 13 0.43
27 8 0.27
28 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTTTAATATTATAATATTATAAATAA
Found at i:675740 original size:18 final size:18
Alignment explanation
Indices: 675678--675740 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
675668 ATTTATTTTA
*
675678 ATTTATAATATTATAAATAT
1 ATTTATAA-ATT-TTAATAT
*
675698 ATTTA-AAATATT-ATAT
1 ATTTATAAATTTTAATAT
675714 ATTTATATAAATTTTAATAT
1 A-TT-TATAAATTTTAATAT
675734 ATTTATA
1 ATTTATA
675741 TCTAATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
16 5 0.14
17 3 0.08
18 8 0.22
19 10 0.28
20 10 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTATAAATTTTAATAT
Found at i:675740 original size:26 final size:26
Alignment explanation
Indices: 675698--675754 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
675688 TTATAAATAT
*
675698 ATTTAAAATATTATATATTTATATAAA
1 ATTTAAAATATTATATATCTA-ATAAA
* *
675725 TTTTAATATATT-TATATCTAATAAA
1 ATTTAAAATATTATATATCTAATAAA
675750 ATTTA
1 ATTTA
675755 TAATTATGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 9 0.35
26 7 0.27
27 10 0.38
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTTAAAATATTATATATCTAATAAA
Found at i:675758 original size:27 final size:28
Alignment explanation
Indices: 675680--675758 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 28
675670 TTATTTTAAT
* *
675680 TTATAATATTATAAATATATTTA-AA-ATA
1 TTAT-ATATTA-ATATAAATTTATAATATA
*
675708 TTATATATTTATATAAATTT-TAATATA
1 TTATATATTAATATAAATTTATAATATA
675735 TT-TATATCTAATA-AAATTTATAAT
1 TTATATAT-TAATATAAATTTATAAT
675759 TATGCTATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
26 21 0.49
27 18 0.42
28 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
TTATATATTAATATAAATTTATAATATA
Found at i:682204 original size:12 final size:12
Alignment explanation
Indices: 682187--682221 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
682177 TACATATGCG
682187 CACACACACATA
1 CACACACACATA
*
682199 CACACACACAAA
1 CACACACACATA
*
682211 CACACTCACAT
1 CACACACACAT
682222 CTCTGCATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.49, C:0.43, G:0.00, T:0.09
Consensus pattern (12 bp):
CACACACACATA
Found at i:683221 original size:3 final size:3
Alignment explanation
Indices: 683213--683259 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
683203 GAAAATTAAA
683213 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
683259 A
1 A
683260 TTATAATAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:683400 original size:17 final size:16
Alignment explanation
Indices: 683352--683401 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
683342 AAGTAAAATG
683352 ATAATTAAAAATA-TT
1 ATAATTAAAAATATTT
* *
683367 AT-ATTAAAATTTGTTT
1 ATAATTAAAA-ATATTT
683383 ATAATTAAAAATAATTT
1 ATAATTAAAAAT-ATTT
683400 AT
1 AT
683402 TTATACAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 7 0.26
15 3 0.11
16 5 0.19
17 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
ATAATTAAAAATATTT
Found at i:690670 original size:18 final size:18
Alignment explanation
Indices: 690643--690678 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
690633 TCCTCTTTAA
*
690643 ACGTTTGAAAATTTGGAT
1 ACGTTAGAAAATTTGGAT
690661 ACGTTAGAAAATTTGGAT
1 ACGTTAGAAAATTTGGAT
690679 CATAAGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (18 bp):
ACGTTAGAAAATTTGGAT
Found at i:698540 original size:13 final size:14
Alignment explanation
Indices: 698514--698542 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
698504 TTATATGAAA
698514 ATTTATATATTAAT
1 ATTTATATATTAAT
698528 ATTTATA-ATTAAT
1 ATTTATATATTAAT
698541 AT
1 AT
698543 AAAAATAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTATATATTAAT
Found at i:698561 original size:21 final size:21
Alignment explanation
Indices: 698528--698576 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 21
698518 ATATATTAAT
698528 ATTTATAATTAATATAAA-AATA
1 ATTT-TAA-TAATATAAACAATA
*
698550 AGTTTTAATAATTTAAACAATA
1 A-TTTTAATAATATAAACAATA
698572 ATTTT
1 ATTTT
698577 GACTAGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 12 0.50
22 9 0.38
23 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTTTAATAATATAAACAATA
Found at i:701039 original size:14 final size:14
Alignment explanation
Indices: 701007--701040 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
700997 GTGAATTAAT
*
701007 ACTTTAAAAATTTA
1 ACTTTAAAAAATTA
701021 A-TTTAAAAAATTA
1 ACTTTAAAAAATTA
701034 ACTTTAA
1 ACTTTAA
701041 TCAAAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (14 bp):
ACTTTAAAAAATTA
Found at i:703455 original size:305 final size:300
Alignment explanation
Indices: 702772--704281 Score: 2717
Period size: 305 Copynumber: 5.0 Consensus size: 300
702762 ATGAGTGATA
* * *
702772 ACTCCGAGCTTGTGCTTGCACTTAACCTTTTTTTAGTCCTTTCTACAATCAGGGTTTGCTAATCA
1 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
702837 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
66 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
* *
702902 GACTATGAATTTTGGAAGGTTATCAAGGTTTGTGCAACGTGTTAAATCATTTATTTCTTATTCTC
131 GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
*
702967 GTATGTG-----TGTATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGAT
196 GTATGTGTTATATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGAT
703027 CATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
261 CATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
703067 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
1 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
703132 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
66 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
703197 GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
131 GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
*
703262 GTATGTATGTATATATATATATATATATATATTAGTTGAAAAAAATCATGCAAGTTAAAACAACT
196 GTATG--TG--T-TATATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACT
703327 TTGATCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
256 TTGATCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
703372 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
1 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
703437 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
66 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
703502 GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
131 GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
*
703567 GTATGTGTGTGTATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGA
196 GTATGTGT-TATATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGA
703632 TCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
260 TCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
* * * *
703673 ACTCCTAGCTTATACTTGCACTTAACCCTTTTTTAGTCTCTTCTATAATCAGGGTTTGCTAATCA
1 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
703738 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTTCCTTTTGTTGTTATTATTATT
66 TAGATGGTAATGAATTTGTAGTGCATATAGTGAC-TTTTTTTTTCCTTTTGTTGTTATTATTATT
*
703803 TGACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTGTTCT
130 TGACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCT
*
703868 CGTATGTG-TGTATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGA
195 CGTATGTGTTATATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGA
703932 TCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
260 TCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
*
703973 ACTCTTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
1 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
704038 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTTCCTTTTGTTGTTATTATTATT
66 TAGATGGTAATGAATTTGTAGTGCATATAGTGAC-TTTTTTTTTCCTTTTGTTGTTATTATTATT
704103 TGACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCT
130 TGACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCT
704168 CGTATGTGTGTGTATATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTT
195 CGTA--TGTGT-TATATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTT
* * *
704233 TGATCATACTTTTAGCCATAATCTTTATAAAAACAAGTAATTTT
257 TGATCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
704277 ACTCC
1 ACTCC
704282 GGTCACCCAA
Statistics
Matches: 1174, Mismatches: 26, Indels: 21
0.96 0.02 0.02
Matches are distributed among these distances:
295 195 0.17
297 2 0.00
300 290 0.25
301 191 0.16
302 106 0.09
303 2 0.00
304 97 0.08
305 291 0.25
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (300 bp):
ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
GTATGTGTTATATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGAT
CATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
Found at i:703993 original size:300 final size:299
Alignment explanation
Indices: 702772--704281 Score: 2722
Period size: 300 Copynumber: 5.0 Consensus size: 299
702762 ATGAGTGATA
* * *
702772 ACTCCGAGCTTGTGCTTGCACTTAACCTTTTTTTAGTCCTTTCTACAATCAGGGTTTGCTAATCA
1 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
702837 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
66 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
* *
702902 GACTATGAATTTTGGAAGGTTATCAAGGTTTGTGCAACGTGTTAAATCATTTATTTCTTATTCTC
131 GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
702967 GTATGTGTG----TATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGATC
196 GTATGTGTGTATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGATC
703028 ATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
261 ATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
703067 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
1 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
703132 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
66 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
703197 GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
131 GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
* *
703262 GTATGTATGTATATATATATATATATATATATTAGTTGAAAAAAATCATGCAAGTTAAAACAACT
196 GTATG--TG----TGTATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACT
703327 TTGATCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
255 TTGATCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
703372 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
1 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
703437 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
66 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
703502 GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
131 GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
703567 GTATGTGTGTGTATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGA
196 GTA--TGTGTGTATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGA
703632 TCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
259 TCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
* * * *
703673 ACTCCTAGCTTATACTTGCACTTAACCCTTTTTTAGTCTCTTCTATAATCAGGGTTTGCTAATCA
1 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
703738 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTTCCTTTTGTTGTTATTATTATT
66 TAGATGGTAATGAATTTGTAGTGCATATAGTGAC-TTTTTTTTTCCTTTTGTTGTTATTATTATT
*
703803 TGACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTGTTCT
130 TGACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCT
703868 CGTATGTGTGTATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGAT
195 CGTATGTGTGTATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGAT
703933 CATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
260 CATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
*
703973 ACTCTTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
1 ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
704038 TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTTCCTTTTGTTGTTATTATTATT
66 TAGATGGTAATGAATTTGTAGTGCATATAGTGAC-TTTTTTTTTCCTTTTGTTGTTATTATTATT
704103 TGACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCT
130 TGACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCT
704168 CGTATGTGTGTGTATATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTT
195 CGTA--TGTGTG--TATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTT
* * *
704233 TGATCATACTTTTAGCCATAATCTTTATAAAAACAAGTAATTTT
256 TGATCATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
704277 ACTCC
1 ACTCC
704282 GGTCACCCAA
Statistics
Matches: 1174, Mismatches: 24, Indels: 25
0.96 0.02 0.02
Matches are distributed among these distances:
295 195 0.17
297 2 0.00
300 294 0.25
301 191 0.16
302 104 0.09
304 96 0.08
305 290 0.25
307 2 0.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (299 bp):
ACTCCTAGCTTGTGCTTGCACTTAACCCTTTTTTAGTCCCTTCTACAATCAGGGTTTGCTAATCA
TAGATGGTAATGAATTTGTAGTGCATATAGTGACTTTTTTTTTCCTTTTGTTGTTATTATTATTT
GACTATGAATTTTGGAATGTTATCAAGGTTTGTGCAACGTGCTAAATCATTTATTTCTTATTCTC
GTATGTGTGTATATATATATATATATGAGTTGAAAAAAATCATGCAAGTTAAAACAACTTTGATC
ATACTTTTAGCCATGATCTTTATGAAAACAAGCAATTTT
Found at i:706054 original size:11 final size:11
Alignment explanation
Indices: 706038--706062 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
706028 TACTCATAAC
706038 AAATAAAGGTA
1 AAATAAAGGTA
706049 AAATAAAGGTA
1 AAATAAAGGTA
706060 AAA
1 AAA
706063 AAATCAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (11 bp):
AAATAAAGGTA
Found at i:706694 original size:18 final size:17
Alignment explanation
Indices: 706649--706685 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
706639 CATTAATAAC
706649 TTTTAT-TTTTAATTAA
1 TTTTATATTTTAATTAA
706665 TTTTATATTTTAATTAA
1 TTTTATATTTTAATTAA
706682 TTTT
1 TTTT
706686 TTCATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTATATTTTAATTAA
Found at i:707866 original size:31 final size:31
Alignment explanation
Indices: 707809--707869 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
707799 AATCGTAATA
* * * *
707809 ATTTTTATATTTATGTTATAATATAAATTTT
1 ATTTCTATACTTATATTAAAATATAAATTTT
707840 ATTTCTATACTTATATTAAAATATAAATTT
1 ATTTCTATACTTATATTAAAATATAAATTT
707870 AATTAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTTCTATACTTATATTAAAATATAAATTTT
Found at i:708907 original size:12 final size:12
Alignment explanation
Indices: 708890--708946 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
708880 TTTAAAGTAA
708890 TTAAAAATATAT
1 TTAAAAATATAT
708902 TTAAAAATATA-
1 TTAAAAATATAT
708913 TTAAAGATATTATAT
1 TTAAA-A-A-TATAT
* *
708928 TTAATAATAAAAT
1 TTAAAAAT-ATAT
708941 TTAAAA
1 TTAAAA
708947 TATTAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 5 0.14
12 13 0.35
13 10 0.27
14 5 0.14
15 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
TTAAAAATATAT
Found at i:708988 original size:27 final size:28
Alignment explanation
Indices: 708930--709001 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
708920 TATTATATTT
708930 AATAATAAAATTTA-AAATATTAAAATA
1 AATAATAAAATTTATAAATATTAAAATA
* * *
708957 AATAATAATATTTATAAATATT-TATTA
1 AATAATAAAATTTATAAATATTAAAATA
*
708984 TATAATTAAAATTTATAA
1 AATAA-TAAAATTTATAA
709002 TACAAAAGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 20 0.53
28 18 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
AATAATAAAATTTATAAATATTAAAATA
Found at i:709048 original size:19 final size:20
Alignment explanation
Indices: 709013--709051 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
709003 ACAAAAGTAT
*
709013 TTTTTAAATATTTATATTTA
1 TTTTTAAATATTAATATTTA
709033 TTTTTAAATA-TAATATTTA
1 TTTTTAAATATTAATATTTA
709052 AAATATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAAATATTAATATTTA
Found at i:709099 original size:23 final size:23
Alignment explanation
Indices: 709072--709141 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
709062 ATGTTAAATA
709072 TAAAATTATATTAAAATAACA-TT
1 TAAAATTATATTAAAATAA-ATTT
* * *
709095 TAAAATAATGTCAAAATAAATTT
1 TAAAATTATATTAAAATAAATTT
* *
709118 TAAAAGTA-ATTAATATTAAATTT
1 TAAAATTATATTAA-AATAAATTT
709141 T
1 T
709142 CAGAATATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
22 4 0.11
23 33 0.89
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (23 bp):
TAAAATTATATTAAAATAAATTT
Found at i:709683 original size:2 final size:2
Alignment explanation
Indices: 709676--709701 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
709666 CTAGACATAC
709676 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
709702 TTGCTTAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:710185 original size:19 final size:19
Alignment explanation
Indices: 710151--710215 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 19
710141 TAATTATTAA
710151 AAAT-AATTAA-ATTTATTT
1 AAATAAATTAATA-TTATTT
710169 AAATAAATTAATATTATTTT
1 AAATAAATTAATATTA-TTT
*
710189 ATAAAAAATTATATTAATTATTT
1 A-AATAAATTA-A-T-ATTATTT
710212 AAAT
1 AAAT
710216 CAATAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 4 0.11
19 9 0.24
20 5 0.13
21 8 0.21
22 3 0.08
23 5 0.13
24 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATAAATTAATATTATTT
Found at i:710189 original size:24 final size:22
Alignment explanation
Indices: 710161--710215 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
710151 AAATAATTAA
710161 ATTTATTTAAATAAATTAATATT
1 ATTTATTTAAATAAATT-ATATT
*
710184 ATTT-TATAAA-AAATTATATT
1 ATTTATTTAAATAAATTATATT
*
710204 AATTATTTAAAT
1 ATTTATTTAAAT
710216 CAATAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 8 0.30
21 10 0.37
22 5 0.19
23 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTATTTAAATAAATTATATT
Found at i:710210 original size:43 final size:43
Alignment explanation
Indices: 710163--710291 Score: 106
Period size: 43 Copynumber: 3.0 Consensus size: 43
710153 ATAATTAAAT
710163 TTATTTAAATAAATTAATATTATTTTATAAAAAATTATATTAA
1 TTATTTAAATAAATTAATATTATTTTATAAAAAATTATATTAA
* * * * *
710206 TTATTTAAATCAA-TAATTTTAATATTATATAAAAA-TAAATTTA
1 TTATTTAAATAAATTAATATT-ATTTTATA-AAAAATTATATTAA
* *
710249 TTA-TAAGATATAAATT-ATA-TAATTTATAAAATAATATATATTA
1 TTATTTA-A-ATAAATTAATATTATTTTATAAAA-AAT-TATATTA
710292 TATAATTAGA
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
41 3 0.05
42 16 0.24
43 30 0.45
44 16 0.24
45 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (43 bp):
TTATTTAAATAAATTAATATTATTTTATAAAAAATTATATTAA
Found at i:710276 original size:16 final size:16
Alignment explanation
Indices: 710194--710278 Score: 50
Period size: 16 Copynumber: 5.2 Consensus size: 16
710184 ATTTTATAAA
*
710194 AAATTATATTAATTATTT
1 AAATTATA-TAATT-TAT
*
710212 AAATCA-ATAATTT-T
1 AAATTATATAATTTAT
**
710226 AATATTATATAA-AAAT
1 AA-ATTATATAATTTAT
**
710242 AAATTTATTATAAGATAT
1 AAA-TTA-TATAATTTAT
710260 AAATTATATAATTTAT
1 AAATTATATAATTTAT
710276 AAA
1 AAA
710279 ATAATATATA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
14 3 0.06
15 5 0.09
16 26 0.48
17 9 0.17
18 11 0.20
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (16 bp):
AAATTATATAATTTAT
Found at i:710280 original size:17 final size:19
Alignment explanation
Indices: 710227--710296 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
710217 AATAATTTTA
710227 ATATTATATAAAAATAA-AT
1 ATATTATAT-AAAATAATAT
* *
710246 TTATTATA-AGATATAAATTAT
1 ATATTATATA-AAAT-AA-TAT
710267 ATAATT-TATAAAATAATAT
1 AT-ATTATATAAAATAATAT
710286 ATATTATATAA
1 ATATTATATAA
710297 TTAGAAGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
17 1 0.03
18 6 0.15
19 19 0.47
20 2 0.05
21 8 0.20
22 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (19 bp):
ATATTATATAAAATAATAT
Found at i:710830 original size:23 final size:22
Alignment explanation
Indices: 710804--710853 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
710794 TTTTGACATC
*
710804 ATTTTAATTAATCAAA-AATATTT
1 ATTTTAATTAA--AAATAAAATTT
*
710827 ATTTTATTTAAAAATAAAATTT
1 ATTTTAATTAAAAATAAAATTT
710849 ATTTT
1 ATTTT
710854 TATTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 11 0.46
23 10 0.42
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTAATTAAAAATAAAATTT
Found at i:721437 original size:3 final size:3
Alignment explanation
Indices: 721429--721459 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
721419 TACCTACTGG
721429 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
721460 AAATAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:721972 original size:22 final size:23
Alignment explanation
Indices: 721947--721989 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
721937 TTAATTATTT
*
721947 AATTTT-TTATTTACAAAATATC
1 AATTTTCTTATTTAAAAAATATC
721969 AATTTTCTTATTTAAAAAATA
1 AATTTTCTTATTTAAAAAATA
721990 ACTTTCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTTTCTTATTTAAAAAATATC
Found at i:723364 original size:13 final size:13
Alignment explanation
Indices: 723333--723397 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
723323 AACTTTAATT
723333 AAAT-ATTAACATA
1 AAATAATTAA-ATA
723346 ATAATAATTAAATA
1 A-AATAATTAAATA
**
723360 TAATATTTTTAAATA
1 -AA-ATAATTAAATA
*
723375 AAATAAATAAATA
1 AAATAATTAAATA
723388 AAATAATTAA
1 AAATAATTAA
723398 TTTACTATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
13 18 0.43
14 9 0.21
15 15 0.36
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
AAATAATTAAATA
Found at i:724048 original size:22 final size:21
Alignment explanation
Indices: 724023--724071 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
724013 TATCTTTTTA
* *
724023 TAAAATTTAATTTAATTTAATT
1 TAAAATTTAA-TCAATTAAATT
*
724045 TAAAAATTAATCAATTAAATT
1 TAAAATTTAATCAATTAAATT
724066 TAAAAT
1 TAAAAT
724072 AATCTAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAATTTAATCAATTAAATT
Found at i:725394 original size:371 final size:371
Alignment explanation
Indices: 724711--725424 Score: 1374
Period size: 371 Copynumber: 1.9 Consensus size: 371
724701 TGATACGATA
724711 AAAAATATAACTATGACACAAATAAATGAGCTGTTAGGTTTAGTTAGAAGTAATTTATAAGTCTT
1 AAAAATATAACTATGACACAAATAAATGAGCTGTTAGGTTTAGTTAGAAGTAATTTATAAGTCTT
724776 TAGAATAAAAATAAGTAAAAAGATTCAAATTATCGATTTAAATGATAAGTTTAAAAGTATAATAT
66 TAGAATAAAAATAAGTAAAAAGATTCAAATTATCGATTTAAATGATAAGTTTAAAAGTATAATAT
724841 ATTATAATTTTACCTAAAAACTCATATTCCTCGAGCGGATTTCAATATAAATTTTGTCATATTGC
131 ATTATAATTTTACCTAAAAACTCATATTCCTCGAGCGGATTTCAATATAAATTTTGTCATATTGC
* *
724906 AAATTCAATAAAATTTATCATAAAAGTTTTTGGTTATTTGATAAGTTGTTCTTTAAATTAATATC
196 AAATTCAATAAAATTTATCATAAAAGTTTTTGATTATTTAATAAGTTGTTCTTTAAATTAATATC
* *
724971 GATTAATTCATTATTTATACGAGACAAAAATATATTTTTTAACTTATAAAATTATGTGCAACGTA
261 AATTAATTCATTATTTATACGAGACAAAAAAATATTTTTTAACTTATAAAATTATGTGCAACGTA
725036 TATGACATTAGAAATAATTAACAACAATGATCATTTTTATTAATTT
326 TATGACATTAGAAATAATTAACAACAATGATCATTTTTATTAATTT
*
725082 AAAAATATAACTATGATACAAATAAATGAGCTGTTAGGTTTAGTTAGAAGTAATTTATAAGTCTT
1 AAAAATATAACTATGACACAAATAAATGAGCTGTTAGGTTTAGTTAGAAGTAATTTATAAGTCTT
725147 TAGAATAAAAATAAGTAAAAAGATTCAAATTATCGATTTAAATGATAAGTTTAAAAGTATAATAT
66 TAGAATAAAAATAAGTAAAAAGATTCAAATTATCGATTTAAATGATAAGTTTAAAAGTATAATAT
725212 ATTATAATTTTACCTAAAAACTCATATTCCTCGAGCGGATTTCAATATAAATTTTGTCATATTGC
131 ATTATAATTTTACCTAAAAACTCATATTCCTCGAGCGGATTTCAATATAAATTTTGTCATATTGC
725277 AAATTCAATAAAATTTATCATAAAAGTTTTTGATTATTTAATAAGTTGTTCTTTAAATTAATATC
196 AAATTCAATAAAATTTATCATAAAAGTTTTTGATTATTTAATAAGTTGTTCTTTAAATTAATATC
*
725342 AATTAATTCATTATTTATACGAGATAAAAAAATATTTTTTAACTTATAAAATTATGTGCAACGTA
261 AATTAATTCATTATTTATACGAGACAAAAAAATATTTTTTAACTTATAAAATTATGTGCAACGTA
725407 TATGACATTAGAAATAAT
326 TATGACATTAGAAATAAT
725425 ATATATATAA
Statistics
Matches: 337, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
371 337 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (371 bp):
AAAAATATAACTATGACACAAATAAATGAGCTGTTAGGTTTAGTTAGAAGTAATTTATAAGTCTT
TAGAATAAAAATAAGTAAAAAGATTCAAATTATCGATTTAAATGATAAGTTTAAAAGTATAATAT
ATTATAATTTTACCTAAAAACTCATATTCCTCGAGCGGATTTCAATATAAATTTTGTCATATTGC
AAATTCAATAAAATTTATCATAAAAGTTTTTGATTATTTAATAAGTTGTTCTTTAAATTAATATC
AATTAATTCATTATTTATACGAGACAAAAAAATATTTTTTAACTTATAAAATTATGTGCAACGTA
TATGACATTAGAAATAATTAACAACAATGATCATTTTTATTAATTT
Found at i:742864 original size:34 final size:34
Alignment explanation
Indices: 742804--742953 Score: 230
Period size: 34 Copynumber: 4.4 Consensus size: 34
742794 TGCTTTGCCT
*
742804 TTGTTGACTAAAT-GGAGATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
*
742837 TTGTTGATTAAATGGGAAATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* *
742871 TTGTTGATTAAATGGGTGATTTGGTGGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * *
742905 TTGTTGACTAAATGGGAGATTTGGTAGGTTGCCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
742939 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
742954 TGGTTTTTAC
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 12 0.11
34 93 0.89
ACGTcount: A:0.25, C:0.09, G:0.27, T:0.39
Consensus pattern (34 bp):
TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
Found at i:743311 original size:19 final size:19
Alignment explanation
Indices: 743255--743317 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
743245 TGGTTGTCGA
**
743255 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
743274 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
743293 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
743312 GTTACT
1 GGTACT
743318 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:747429 original size:33 final size:32
Alignment explanation
Indices: 747383--747518 Score: 105
Period size: 33 Copynumber: 4.5 Consensus size: 32
747373 AAGTGGGAGA
*
747383 ATTGTTGACTAAATGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGAGATTTGGTAGCTTA-C
*
747416 ATTGTTGATTAAATGGA-AATT-GTAGCTTAC
1 ATTGTTGATTAAATGGAGATTTGGTAGCTTAC
* * *
747446 A-T-TTGATTAAAAGGTGATTTGGT-GGTTAC
1 ATTGTTGATTAAATGGAGATTTGGTAGCTTAC
* *
747475 A---TT--TT-AATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAAT-GGAGATTTGGTAGCTT-AC
747503 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
747519 TGGTTTTTAT
Statistics
Matches: 83, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
25 2 0.02
26 12 0.14
27 4 0.05
28 15 0.18
29 10 0.12
30 4 0.05
31 10 0.12
32 3 0.04
33 20 0.24
34 3 0.04
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.40
Consensus pattern (32 bp):
ATTGTTGATTAAATGGAGATTTGGTAGCTTAC
Found at i:749400 original size:3 final size:3
Alignment explanation
Indices: 749392--749417 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
749382 CATTTTGATC
749392 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
749418 GCGAATCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:751100 original size:13 final size:13
Alignment explanation
Indices: 751078--751116 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
751068 ACATAAGTGT
* *
751078 TGTATTGATATAA
1 TGTATCGATACAA
751091 TGTATCGATACAA
1 TGTATCGATACAA
*
751104 TGTATCGCTACAA
1 TGTATCGATACAA
751117 AGCTACTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:760433 original size:49 final size:49
Alignment explanation
Indices: 760356--760488 Score: 232
Period size: 49 Copynumber: 2.7 Consensus size: 49
760346 GAGGAGTGCC
760356 AATGTGCCA-ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGAACT
1 AATGTG-CAGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGAACT
*
760405 AATGTGCAGATTCAAGGCCAGCGGCATTGGGCTAAGGGAAAAGTGAACT
1 AATGTGCAGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGAACT
*
760454 AATGTGCAGATTCAAGACCAGCGACATTGGGCTAA
1 AATGTGCAGATTCAAGGCCAGCGACATTGGGCTAA
760489 TAAAGGTGCC
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
48 2 0.03
49 78 0.98
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (49 bp):
AATGTGCAGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGAACT
Found at i:760669 original size:31 final size:31
Alignment explanation
Indices: 760631--760782 Score: 133
Period size: 31 Copynumber: 4.8 Consensus size: 31
760621 AAAAATGATG
* *
760631 CCACCAACTTGTGTGGATTTTAAAAGGGTTC
1 CCACCAACTTGTGCGGACTTTAAAAGGGTTC
*
760662 CCACCAACTTGTGCGGGCTTTAAAAGGGTTC
1 CCACCAACTTGTGCGGACTTTAAAAGGGTTC
* * *
760693 CCACCAACTTGTGCGGGCTTTGAGAGAGGTTC
1 CCACCAACTTGTGCGGACTTTAAAAG-GGTTC
* ** * * *
760725 TCACTGACTTGTGTGGGCTTTAAAAAGGGGTTG
1 CCACCAACTTGTGCGGACTTT-AAAA-GGGTTC
** * *
760758 CCACTGACTTGTGTGGGCTTTAAAA
1 CCACCAACTTGTGCGGACTTTAAAA
760783 AAGGGTTGTC
Statistics
Matches: 105, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
31 52 0.50
32 26 0.25
33 26 0.25
34 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (31 bp):
CCACCAACTTGTGCGGACTTTAAAAGGGTTC
Found at i:760768 original size:33 final size:31
Alignment explanation
Indices: 760637--761117 Score: 234
Period size: 28 Copynumber: 16.2 Consensus size: 31
760627 GATGCCACCA
** * **
760637 ACTTGTGTGGATTTTAAAAGGGTTCCCACCA
1 ACTTGTGTGGGCTTTAAAAGGGTTGCCACTG
* * **
760668 ACTTGTGCGGGCTTTAAAAGGGTTCCCACCA
1 ACTTGTGTGGGCTTTAAAAGGGTTGCCACTG
* * *
760699 ACTTGTGCGGGCTTTGAGAGAGGTT-CTCACTG
1 ACTTGTGTGGGCTTTAAAAG-GGTTGC-CACTG
760731 ACTTGTGTGGGCTTTAAAAAGGGGTTGCCACTG
1 ACTTGTGTGGGCTTT-AAAA-GGGTTGCCACTG
*
760764 ACTTGTGTGGGCTTTAAAAAAGGGTTGTCACTG
1 ACTTGTGTGGGCTTT--AAAAGGGTTGCCACTG
*
760797 ACTTGTGTGGGCTTTGAAATGGGTTGCCACTG
1 ACTTGTGTGGGCTTT-AAAAGGGTTGCCACTG
** * * * *
760829 AC-T-TGTAAGCTTTGAAA-TGATGCCATTG
1 ACTTGTGTGGGCTTTAAAAGGGTTGCCACTG
* *
760857 AC-T-TGTGGGCTTTGAAATGAGTTGCCACTG
1 ACTTGTGTGGGCTTT-AAAAGGGTTGCCACTG
* * * *
760887 AC-T-TGTGGGCTTTGAAA-TGATGCCACGG
1 ACTTGTGTGGGCTTTAAAAGGGTTGCCACTG
*
760915 A-TT-TGTGGGCTTTCAAAA--GATGCCACTG
1 ACTTGTGTGGGCTTT-AAAAGGGTTGCCACTG
* * * *
760943 AC-T-AGTGAGCTTTGAAATGG-TGCCACTG
1 ACTTGTGTGGGCTTTAAAAGGGTTGCCACTG
** * *
760971 AC-T-TGTGAACTTTGAAA--TTATGCCACTG
1 ACTTGTGTGGGCTTTAAAAGGGT-TGCCACTG
* *
760999 AC-T-TGTGGGCTTTGAAATGG-TGCCACTG
1 ACTTGTGTGGGCTTTAAAAGGGTTGCCACTG
* * * * *
761027 AC-T-TGTGGACTTTGAAA-TGATGCCACGG
1 ACTTGTGTGGGCTTTAAAAGGGTTGCCACTG
*
761055 AC-T-TGTGGGCTTTAGAAGGG-TGCCACTG
1 ACTTGTGTGGGCTTTAAAAGGGTTGCCACTG
* * *
761083 AC-T-TGTGGGCTTTGAAA-TGATGCCACTG
1 ACTTGTGTGGGCTTTAAAAGGGTTGCCACTG
761111 ACTTGTG
1 ACTTGTG
761118 GGCTTTGAAA
Statistics
Matches: 373, Mismatches: 55, Indels: 45
0.79 0.12 0.10
Matches are distributed among these distances:
27 5 0.01
28 181 0.49
29 12 0.03
30 31 0.08
31 48 0.13
32 37 0.10
33 52 0.14
34 7 0.02
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (31 bp):
ACTTGTGTGGGCTTTAAAAGGGTTGCCACTG
Found at i:760823 original size:65 final size:63
Alignment explanation
Indices: 760668--760834 Score: 208
Period size: 65 Copynumber: 2.6 Consensus size: 63
760658 GTTCCCACCA
* * ** * * *
760668 ACTTGTGCGGGCTTTAAAAGGGTTCCCACCAACTTGTGCGGGCTTTGAGAGAGGTTCTCACTG
1 ACTTGTGTGGGCTTTAAAAGGGTTGCCACTGACTTGTGCGGGCTTTAAAAAAGGTTCTCACTG
* *
760731 ACTTGTGTGGGCTTTAAAAAGGGGTTGCCACTGACTTGTGTGGGCTTTAAAAAAGGGTTGTCACT
1 ACTTGTGTGGGCTTT-AAAA-GGGTTGCCACTGACTTGTGCGGGCTTTAAAAAA-GGTTCTCACT
760796 G
63 G
*
760797 ACTTGTGTGGGCTTTGAAATGGGTTGCCACTGACTTGT
1 ACTTGTGTGGGCTTT-AAAAGGGTTGCCACTGACTTGT
760835 AAGCTTTGAA
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
63 14 0.16
64 4 0.04
65 44 0.49
66 28 0.31
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (63 bp):
ACTTGTGTGGGCTTTAAAAGGGTTGCCACTGACTTGTGCGGGCTTTAAAAAAGGTTCTCACTG
Found at i:761176 original size:27 final size:27
Alignment explanation
Indices: 761019--762193 Score: 922
Period size: 27 Copynumber: 42.7 Consensus size: 27
761009 TTTGAAATGG
* * * *
761019 TGCCACTGACTTGTGGACTTTGAAATGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* * * *
761047 TGCCACGGACTTGTGGGCTTTAGAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* * * * *
761075 TGCCACTGACTTGTGGGCTTTGAAATGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* * * * *
761103 TGCCACTGACTTGTGGGCTTTGAAATGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* * * * *
761131 TGCCACAGACTTGTAGACTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
761158 TGCCACGGAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
761185 TGCCACAGAGTTGTAGACTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
761212 TGCCATGGAGTTGTGG-CTTAAAAAGGTG
1 TGCCACGGAGTTGTGGACTT-AAAAGG-A
* * * *
761240 TGCCACTGACTTATGGGCTTAAAAAGGA
1 TGCCACGGAGTTGTGGACTT-AAAAGGA
* * * *
761268 TGCCACTGACTTGT-AAGCTTTGAAAAGGG
1 TGCCACGGAGTTGTGGA-C-TT-AAAAGGA
* * * ** *
761297 TGCGACTGACG-TGTGGGCTTTGGAAGGC
1 TGCCACGGA-GTTGTGGAC-TTAAAAGGA
* * *
761325 TGCCACTGACTTGTGGGCTTAAAAAGGA
1 TGCCACGGAGTTGTGGACTT-AAAAGGA
** *
761353 TGCCACAAAGTTGTGGACTAAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
761380 TGCCACAGAGTTGTAGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * * * *
761407 TGTCACAGAGTTGTAGATTTAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * *
761434 TGCCATGGAGTTGTAGACTTGAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
761461 TGCCACGGAGTTGTGGACTTTAAAAGTA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
*
761489 TGCCACGGAGTTGTGGACTTAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
761516 TACCATGGAGTTATGGACTTAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
761543 TGCCATGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
761570 TGCTACAGAGTTATGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* *
761598 TGCCACGAAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
761625 TGCCACGAAGTTATGGACTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
761652 TGCCACGGAGTTGTGGACTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
761679 TGCCATGGACTTGTGGGCTTAAAAAGGGG
1 TGCCACGGAGTTGTGGACTT-AAAA-GGA
* * *
761708 TGCCACTGACTTGTGGGCTTAAAAAGGA
1 TGCCACGGAGTTGTGGACTT-AAAAGGA
* * * *
761736 TGCCACTGACTTGTAGG-CTTTGAAAGGGG
1 TGCCACGGAGTTGT-GGAC-TT-AAAAGGA
* * * *
761765 TGCCACTGACTTATGGGCTTTAGAAAGG-
1 TGCCACGGAGTTGTGGAC-TTA-AAAGGA
* *
761793 TGCCACTGACTTGTGGACTTAAAAAGGA
1 TGCCACGGAGTTGTGGACTT-AAAAGGA
* *
761821 TGCCACGAAGTTGTAGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
761848 TGCCACGAAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
761875 TGCCACAGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* * *
761903 TGCCATGGAGTTATGAACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
761930 TGCCACGGAGTTGTGGACTTTAAGAA-GA
1 TGCCACGGAGTTGTGGAC-TTAA-AAGGA
* *
761958 TACCACAGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
761985 TGCCATGGAGTTGTAGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
** *
762012 TGCCATAGAGTTGTGAACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
** *
762039 TGCCATAGAGTTGTGGACTTAAAATGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
762066 TGCCACAGAGTTGTGGAATTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
** *
762093 TGCCATAGAGTTGTGAACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
** *
762120 TGCCATAGAGTTGTGGACATAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
**
762147 TGCCACAAAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * *
762174 TGCCACTGAATCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
762194 TGAAAAGGTC
Statistics
Matches: 976, Mismatches: 148, Indels: 47
0.83 0.13 0.04
Matches are distributed among these distances:
26 5 0.01
27 579 0.59
28 301 0.31
29 91 0.09
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:761243 original size:82 final size:81
Alignment explanation
Indices: 761019--762193 Score: 871
Period size: 82 Copynumber: 14.2 Consensus size: 81
761009 TTTGAAATGG
* * * * ** * * * * *
761019 TGCCACTGACTTGTGGACTTTGAAATGATGCCACGGACTTGTGGGCTTTAGAAGGGTGCCACTGA
1 TGCCACAGAGTTGTGGAC-TTAAAAGGATGCCATAGAGTTGTGGAC-TTAAAAGGATGCCACGGA
* * * *
761084 CTTGTGGGCTTTGAAATGA
64 GTTGTGGAC-TTAAAAGGA
* * * * * * * * * *
761103 TGCCACTGACTTGTGGGCTTTGAAATGATGCCACAGACTTGTAGACTTTAAAGGGTGCCACGGAG
1 TGCCACAGAGTTGTGGAC-TTAAAAGGATGCCATAGAGTTGTGGACTTAAAAGGATGCCACGGAG
* *
761168 TTATGGACTTAAAAGGG
65 TTGTGGACTTAAAAGGA
* * * * * *
761185 TGCCACAGAGTTGTAGACTTTAAAGGGTGCCATGGAGTTGTGG-CTTAAAAAGGTGTGCCACTGA
1 TGCCACAGAGTTGTGGACTTAAAAGGATGCCATAGAGTTGTGGACTT-AAAAGG-ATGCCACGGA
* * *
761249 CTTATGGGCTTAAAAAGGA
64 GTTGTGGACTT-AAAAGGA
* * * * * * ** *
761268 TGCCACTGACTTGT-AAGCTTTGAAAAGGGTGCGACT-GACG-TGTGGGCTTTGGAAGGCTGCCA
1 TGCCACAGAGTTGTGGA-C-TT-AAAAGGATGCCA-TAGA-GTTGTGGAC-TTAAAAGGATGCCA
* * *
761330 CTGACTTGTGGGCTTAAAAAGGA
60 CGGAGTTGTGGACTT-AAAAGGA
* * * * * *
761353 TGCCACAAAGTTGTGGACTAAAAAGGATGCCACAGAGTTGTAGACTTAAAAGGATGTCACAGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGATGCCATAGAGTTGTGGACTTAAAAGGATGCCACGGAGT
* * *
761418 TGTAGATTTAAAAAGA
66 TGTGGACTTAAAAGGA
** * * ** *
761434 TGCCATGGAGTTGTAGACTTGAAAGGATGCCACGGAGTTGTGGACTTTAAAAGTATGCCACGGAG
1 TGCCACAGAGTTGTGGACTTAAAAGGATGCCATAGAGTTGTGGAC-TTAAAAGGATGCCACGGAG
*
761499 TTGTGGACTTAAAAAGA
65 TTGTGGACTTAAAAGGA
* ** * * * * *
761516 TACCATGGAGTTATGGACTTAAAAAGATGCCATGGAGTTGTGGACTTAAAAGGATGCTACAGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGATGCCATAGAGTTGTGGACTTAAAAGGATGCCACGGAGT
* *
761581 TATGGACTTTAAAAGGG
66 TGTGGAC-TTAAAAGGA
* * * * *
761598 TGCCAC-GAAGTTGTGGACTTAAAAGGGTGCCA-CGAAGTTATGGACTTTAAAGGGTGCCACGGA
1 TGCCACAG-AGTTGTGGACTTAAAAGGATGCCATAG-AGTTGTGGACTTAAAAGGATGCCACGGA
* *
761661 GTTGTGGACTTTAAAGGG
64 GTTGTGGACTTAAAAGGA
** * * * * * *
761679 TGCCATGGACTTGTGGGCTTAAAAAGGGGTGCCACT-GACTTGTGGGCTTAAAAAGGATGCCACT
1 TGCCACAGAGTTGTGGACTT-AAAA-GGATGCCA-TAGAGTTGTGGACTT-AAAAGGATGCCACG
* * *
761743 GACTTGTAGG-CTTTGAAAGGGG
62 GAGTTGT-GGAC-TT-AAAAGGA
* * * * *
761765 TGCCACTGACTTATGGGCTTTAGAAAGG-TGCCACT-GACTTGTGGACTTAAAAAGGATGCCACG
1 TGCCACAGAGTTGTGGAC-TTA-AAAGGATGCCA-TAGAGTTGTGGACTT-AAAAGGATGCCACG
* *
761828 AAGTTGTAGACTTAAAAGGA
62 GAGTTGTGGACTTAAAAGGA
* *
761848 TGCCAC-GAAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCATGGA
1 TGCCACAG-AGTTGTGGACTTAAAAGGATGCCATAGAGTTGTGGAC-TTAAAAGGATGCCACGGA
* *
761912 GTTATGAACTTAAAAGGA
64 GTTGTGGACTTAAAAGGA
* * * *
761930 TGCCACGGAGTTGTGGACTTTAAGAA-GATACCACAGAGTTGTGGACTTAAAAGGATGCCATGGA
1 TGCCACAGAGTTGTGGAC-TTAA-AAGGATGCCATAGAGTTGTGGACTTAAAAGGATGCCACGGA
*
761994 GTTGTAGACTTAAAAGGA
64 GTTGTGGACTTAAAAGGA
* * * *
762012 TGCCATAGAGTTGTGAACTTAAAAGGATGCCATAGAGTTGTGGACTTAAAATGATGCCACAGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGATGCCATAGAGTTGTGGACTTAAAAGGATGCCACGGAGT
*
762077 TGTGGAATTAAAAGGA
66 TGTGGACTTAAAAGGA
* * * **
762093 TGCCATAGAGTTGTGAACTTAAAAGGATGCCATAGAGTTGTGGACATAAAAGGATGCCACAAAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGATGCCATAGAGTTGTGGACTTAAAAGGATGCCACGGAGT
762158 TGTGGACTTAAAAGGA
66 TGTGGACTTAAAAGGA
* * *
762174 TGCCACTGAATCGTGGACTT
1 TGCCACAGAGTTGTGGACTT
762194 TGAAAAGGTC
Statistics
Matches: 903, Mismatches: 151, Indels: 77
0.80 0.13 0.07
Matches are distributed among these distances:
80 5 0.01
81 264 0.29
82 310 0.34
83 118 0.13
84 69 0.08
85 99 0.11
86 31 0.03
87 7 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (81 bp):
TGCCACAGAGTTGTGGACTTAAAAGGATGCCATAGAGTTGTGGACTTAAAAGGATGCCACGGAGT
TGTGGACTTAAAAGGA
Found at i:761377 original size:112 final size:113
Alignment explanation
Indices: 760821--762152 Score: 591
Period size: 109 Copynumber: 12.1 Consensus size: 113
760811 TGAAATGGGT
* * * *
760821 TGCCACTGACTTGTAAGCTTTG-AAATGATGCCATTGACTTGTGGGCTTTGAAATGAGTTGCCAC
1 TGCCACTGACTTGTAAGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-G-GATGCCAC
** * * * * *
760885 TGACTTGTGGGCTTTGAAATGATGCCACGGATTTGTGGGCTTTCAAAA-GA
64 TGACTTGTGGGCTTAAAAAGGATGCCACAGACTTGTGGAC-TTAAAAAGGA
* * * ** **
760935 TGCCACTGACTAGTGAGCTTTG-AAATGGTGCCACTGACTTGTGAACTTTGAAATTATGCCACTG
1 TGCCACTGACTTGTAAGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
* * * ** *
760999 ACTTGTGGGCTTTGAAATGG-TGCCACTGACTTGTGGACTTTGAAATGA
66 ACTTGTGGGC-TTAAAAAGGATGCCACAGACTTGTGGACTTAAAAAGGA
* ** * *
761047 TGCCACGGACTTGTGGGCTTT-AGAAGGGTGCCACTGACTTGTGGGCTTTGAAATGATGCCACTG
1 TGCCACTGACTTGTAAGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
** * * * *
761111 ACTTGTGGGCTTTGAAATGATGCCACAGACTTGTAGACTT-TAAAGGG
66 ACTTGTGGGCTTAAAAAGGATGCCACAGACTTGTGGACTTAAAAAGGA
* * * * * * * * *
761158 TGCCACGGAGTTAT-GGAC-TT-AAAAGGGTGCCACAGAGTTGTAGACTTT-AAAGGGTGCCA-T
1 TGCCACTGACTTGTAAG-CTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
* * * * *
761218 GGAGTTGT-GGCTTAAAAAGGTGTGCCACTGACTTATGGGCTTAAAAAGGA
65 -GACTTGTGGGCTTAAAAAGG-ATGCCACAGACTTGTGGACTTAAAAAGGA
* * * *
761268 TGCCACTGACTTGTAAGCTTTGAAAAGGGTGCGACTGACGTGTGGGCTTTGGAAGGCTGCCACTG
1 TGCCACTGACTTGTAAGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
* *
761333 ACTTGTGGGCTTAAAAAGGATGCCACAAAGTTGTGGAC-TAAAAAGGA
66 ACTTGTGGGCTTAAAAAGGATGCCACAGACTTGTGGACTTAAAAAGGA
* * * * * * * * * *
761380 TGCCACAGAGTTGT-AGAC-TT-AAAAGGATGTCACAGAGTTGT-AGATTTAAAAAGATGCCA-T
1 TGCCACTGACTTGTAAG-CTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
* * * * * * * *
761440 GGAGTTGTAGACTT-GAAAGGATGCCACGGAGTTGTGGACTTTAAAAGTA
65 -GACTTGTGGGCTTAAAAAGGATGCCACAGACTTGTGGACTTAAAAAGGA
* * * * * * * * * * *
761489 TGCCACGGAGTTGT-GGAC-TT-AAAAAGATACCA-TGGAGTTATGGAC-TTAAAAAGATGCCA-
1 TGCCACTGACTTGTAAG-CTTTGAAAAGGGTGCCACT-GACTTGTGGGCTTTGAAAGGATGCCAC
* * * * * * *
761548 TGGAGTTGTGGACTT-AAAAGGATGCTACAGAGTTATGGACTTTAAAAGGG
64 T-GACTTGTGGGCTTAAAAAGGATGCCACAGACTTGTGGACTTAAAAAGGA
* * * * * *
761598 TGCCAC-GAAGTTGT-GGAC-TT-AAAAGGGTGCCAC-GAAGTTATGGACTTT-AAAGGGTGCCA
1 TGCCACTG-ACTTGTAAG-CTTTGAAAAGGGTGCCACTG-ACTTGTGGGCTTTGAAAGGATGCCA
* * * * * ** * *
761657 CGGAGTTGTGGACTT-TAAAGGGTGCCATGGACTTGTGGGCTTAAAAAGGGG
63 CTGACTTGTGGGCTTAAAAAGGATGCCACAGACTTGTGGACTTAAAAA-GGA
** * * * *
761708 TGCCACTGACTTGTGGGC-TTAAAAAGGATGCCACTGACTTGTAGGCTTTGAAAGGGGTGCCACT
1 TGCCACTGACTTGTAAGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACT
* * *
761772 GACTTATGGGCTTTAGAAAGG-TGCCACTGACTTGTGGACTTAAAAAGGA
65 GACTTGTGGGC-TTAAAAAGGATGCCACAGACTTGTGGACTTAAAAAGGA
* * * * *
761821 TGCCAC-GAAGTTGT-AGAC-TT-AAAAGGATGCCAC-GAAGTTGTGGAC-TTAAAAGGATGCCA
1 TGCCACTG-ACTTGTAAG-CTTTGAAAAGGGTGCCACTG-ACTTGTGGGCTTTGAAAGGATGCCA
* * * * ** * * *
761880 CAGAGTTGTGGACTTTAAAAGGATGCCATGGAGTTATGAACTT-AAAAGGA
63 CTGACTTGTGGGCTTAAAAAGGATGCCACAGACTTGTGGACTTAAAAAGGA
* * * * * * * * *
761930 TGCCACGGAGTTGT-GGACTTT-AAGAA-GATACCACAGAGTTGTGGAC-TTAAAAGGATGCCA-
1 TGCCACTGACTTGTAAG-CTTTGAA-AAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC
* * * * * *
761990 TGGAGTTGTAGACTT-AAAAGGATGCCATAGAGTTGTGAACTT-AAAAGGA
64 T-GACTTGTGGGCTTAAAAAGGATGCCACAGACTTGTGGACTTAAAAAGGA
* * * * * * ** *
762039 TGCCA-TAGAGTTGT-GGAC-TT-AAAATGATGCCACAGAGTTGT-GGAATTAAAAGGATGCCA-
1 TGCCACT-GACTTGTAAG-CTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC
* ** * * *
762098 TAGAGTTGTGAACTT-AAAAGGATGCCATAGAGTTGTGGACAT-AAAAGGA
64 T-GACTTGTGGGCTTAAAAAGGATGCCACAGACTTGTGGACTTAAAAAGGA
762147 TGCCAC
1 TGCCAC
762153 AAAGTTGTGG
Statistics
Matches: 996, Mismatches: 176, Indels: 97
0.78 0.14 0.08
Matches are distributed among these distances:
107 3 0.00
108 117 0.12
109 309 0.31
110 157 0.16
111 67 0.07
112 188 0.19
113 66 0.07
114 84 0.08
115 5 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (113 bp):
TGCCACTGACTTGTAAGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
ACTTGTGGGCTTAAAAAGGATGCCACAGACTTGTGGACTTAAAAAGGA
Found at i:761710 original size:29 final size:28
Alignment explanation
Indices: 760726--761907 Score: 510
Period size: 28 Copynumber: 42.1 Consensus size: 28
760716 GAGAGGTTCT
760726 CACTGACTTGTGTGGGCTTTAAAAAGGGGTTGC
1 CACTGAC-T-TGTGGGC-TTAAAAA-GGG-TGC
*
760759 CACTGACTTGTGTGGGCTTTAAAAAAGGGTTGT
1 CACTGAC-T-TGTGGGC-TT-AAAAAGGG-TGC
* *
760792 CACTGACTTGTGTGGGCTTTGAAATGGGTTGC
1 CACTGAC-T-TGTGGGC-TTAAAAAGGG-TGC
** ** * *
760824 CACTGACTTGTAAGCTTTGAAATGATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * * *
760852 CATTGACTTGTGGGCTTTGAAATGAGTTGC
1 CACTGACTTGTGGGC-TTAAAAAG-GGTGC
** * *
760882 CACTGACTTGTGGGCTTTGAAATGATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * * *
760910 CACGGATTTGTGGGCTTTCAAAA-GATGC
1 CACTGACTTGTGGGC-TTAAAAAGGGTGC
* * ** *
760938 CACTGACTAGTGAGCTTTGAAATGGTGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
** ** ***
760966 CACTGACTTGTGAACTTTGAAATTATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
** *
760994 CACTGACTTGTGGGCTTTGAAATGGTGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* ** * *
761022 CACTGACTTGTGGACTTTGAAATGATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * *
761050 CACGGACTTGTGGGCTTTAGAAGGGTGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
** * *
761078 CACTGACTTGTGGGCTTTGAAATGATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
** * *
761106 CACTGACTTGTGGGCTTTGAAATGATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * * *
761134 CACAGACTTGTAGACTT-TAAAGGGTGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * * *
761161 CACGGAGTTATGGACTT-AAAAGGGTGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * * * *
761188 CACAGAGTTGTAGACTT-TAAAGGGTGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
*
761215 CA-TGGAGTTGT-GGCTTAAAAAGGTGTGC
1 CACT-GACTTGTGGGCTTAAAAAGG-GTGC
* *
761243 CACTGACTTATGGGCTTAAAAAGGATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
** *
761271 CACTGACTTGTAAGCTTTGAAAAGGGTGC
1 CACTGACTTGTGGGC-TTAAAAAGGGTGC
* * *** *
761300 GACTGACGTGTGGGCTTTGGAAGGCTGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
*
761328 CACTGACTTGTGGGCTTAAAAAGGATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
** * * *
761356 CACAAAGTTGTGGAC-TAAAAAGGATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * * * * *
761383 CACAGAGTTGTAGACTT-AAAAGGATGT
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * * ** *
761410 CACAGAGTTGTAGATTTAAAAA-GATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * * * *
761437 CA-TGGAGTTGTAGACTT-GAAAGGATGC
1 CACT-GACTTGTGGGCTTAAAAAGGGTGC
* * * * **
761464 CACGGAGTTGTGGACTTTAAAAGTATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * * * *
761492 CACGGAGTTGTGGACTTAAAAA-GATAC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * * *
761519 CA-TGGAGTTATGGACTTAAAAA-GATGC
1 CACT-GACTTGTGGGCTTAAAAAGGGTGC
* * *
761546 CA-TGGAGTTGTGGACTT-AAAAGGATGC
1 CACT-GACTTGTGGGCTTAAAAAGGGTGC
* * * * * *
761573 TACAGAGTTATGGACTTTAAAAGGGTGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* *
761601 CAC-GAAGTTGTGGACTT-AAAAGGGTGC
1 CACTG-ACTTGTGGGCTTAAAAAGGGTGC
* * * *
761628 CAC-GAAGTTATGGACTT-TAAAGGGTGC
1 CACTG-ACTTGTGGGCTTAAAAAGGGTGC
* * * *
761655 CACGGAGTTGTGGACTT-TAAAGGGTGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
761682 CA-TGGACTTGTGGGCTTAAAAAGGGGTGC
1 CACT-GACTTGTGGGCTTAAAAA-GGGTGC
*
761711 CACTGACTTGTGGGCTTAAAAAGGATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * *
761739 CACTGACTTGTAGGCTTTGAAAGGGGTGC
1 CACTGACTTGTGGGC-TTAAAAAGGGTGC
* *
761768 CACTGACTTATGGGCTTTAGAAA-GGTGC
1 CACTGACTTGTGGGC-TTAAAAAGGGTGC
* *
761796 CACTGACTTGTGGACTTAAAAAGGATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
* * * *
761824 CAC-GAAGTTGTAGACTT-AAAAGGATGC
1 CACTG-ACTTGTGGGCTTAAAAAGGGTGC
* * *
761851 CAC-GAAGTTGTGGACTT-AAAAGGATGC
1 CACTG-ACTTGTGGGCTTAAAAAGGGTGC
* * * * *
761878 CACAGAGTTGTGGACTTTAAAAGGATGC
1 CACTGACTTGTGGGCTTAAAAAGGGTGC
761906 CA
1 CA
761908 TGGAGTTATG
Statistics
Matches: 967, Mismatches: 150, Indels: 69
0.82 0.13 0.06
Matches are distributed among these distances:
26 11 0.01
27 349 0.36
28 408 0.42
29 107 0.11
30 24 0.02
31 1 0.00
32 16 0.02
33 46 0.05
34 5 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
CACTGACTTGTGGGCTTAAAAAGGGTGC
Found at i:763522 original size:22 final size:22
Alignment explanation
Indices: 763497--763576 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 22
763487 TATTGTTCCC
763497 TTTTTTATTTTACTTTTGCATT
1 TTTTTTATTTTACTTTTGCATT
* *
763519 TTTTTTGGTTTTTCTTTT-CATT
1 TTTTTT-ATTTTACTTTTGCATT
* *
763541 TTTTGTACTTTTGCTTTTG-ACTT
1 TTTTTTA-TTTTACTTTTGCA-TT
*
763564 TTTTGTCATTTTA
1 TTTT-TTATTTTA
763577 AAAGAAACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
22 25 0.56
23 19 0.42
24 1 0.02
ACGTcount: A:0.10, C:0.10, G:0.09, T:0.71
Consensus pattern (22 bp):
TTTTTTATTTTACTTTTGCATT
Done.