Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold184
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: 2218657
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.30
Warning! 156408 characters in sequence are not A, C, G, or T
File 4 of 13
Found at i:564894 original size:22 final size:22
Alignment explanation
Indices: 564869--564916 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
564859 TTCGTTTTTT
*
564869 TCCCCCTTAATTAAAGAATTTC
1 TCCCCCTTAATCAAAGAATTTC
* *
564891 TCCCCCTTAATCAAGGCATTTC
1 TCCCCCTTAATCAAAGAATTTC
564913 TCCC
1 TCCC
564917 TGTTTGTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.35, G:0.06, T:0.33
Consensus pattern (22 bp):
TCCCCCTTAATCAAAGAATTTC
Found at i:566769 original size:13 final size:13
Alignment explanation
Indices: 566751--566777 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
566741 ATAGTAACCC
566751 ATGTATCGATACA
1 ATGTATCGATACA
566764 ATGTATCGATACA
1 ATGTATCGATACA
566777 A
1 A
566778 GGAATATTGT
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:566833 original size:20 final size:20
Alignment explanation
Indices: 566808--566845 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
566798 CTGGGTTCCA
566808 AATGTATCGATACATTCTTT
1 AATGTATCGATACATTCTTT
566828 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
566846 GAAAAATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTCTTT
Found at i:572992 original size:13 final size:13
Alignment explanation
Indices: 572976--573001 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
572966 ACATTGTACC
572976 ATGTATCGATACA
1 ATGTATCGATACA
572989 ATGTATCGATACA
1 ATGTATCGATACA
573002 TTATACCATA
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):
ATGTATCGATACA
Found at i:572993 original size:20 final size:20
Alignment explanation
Indices: 572936--572993 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
572926 GTTAAAAGCA
*
572936 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
*
572956 ATGTATCGATACATTGTACC
1 ATGTATCGATACAATGTACC
572976 ATGTATCGATACAATGTA
1 ATGTATCGATACAATGTA
572994 TCGATACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:572998 original size:33 final size:33
Alignment explanation
Indices: 572956--573022 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
572946 ACAATTCATC
* *
572956 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTATACCATATATCGATACA
572989 ATGTATCGATACATTATACCATATATCGATACA
1 ATGTATCGATACATTATACCATATATCGATACA
573022 A
1 A
573023 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACATTATACCATATATCGATACA
Found at i:573210 original size:2 final size:2
Alignment explanation
Indices: 573203--573245 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
573193 AATGTATTTG
573203 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
573245 T
1 T
573246 TACAAATGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:573941 original size:19 final size:19
Alignment explanation
Indices: 573902--573985 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
573892 TTTCAACGAT
*
573902 TTGTATCAATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
573922 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
573941 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
573955 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
573973 TTGTATCGATACA
1 TTGTATCGATACA
573986 ATATAAGCTA
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
13 11 0.19
15 2 0.04
17 2 0.04
19 29 0.51
20 13 0.23
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:573960 original size:13 final size:13
Alignment explanation
Indices: 573942--573966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
573932 ACATAAGTGT
573942 TGTATCGATACAA
1 TGTATCGATACAA
573955 TGTATCGATACA
1 TGTATCGATACA
573967 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:573964 original size:32 final size:32
Alignment explanation
Indices: 573923--573987 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
573913 CATAAAGTGT
573923 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
573955 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
573987 T
1 T
573988 ATAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:574046 original size:13 final size:13
Alignment explanation
Indices: 574028--574052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
574018 ATTACTCAAA
574028 TGTATCGATACAT
1 TGTATCGATACAT
574041 TGTATCGATACA
1 TGTATCGATACA
574053 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:574104 original size:52 final size:52
Alignment explanation
Indices: 574061--574191 Score: 217
Period size: 52 Copynumber: 2.5 Consensus size: 52
574051 CACTGATCTT
* *
574061 TGTATCAATACATGCAGGCAGATTTTCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
* * *
574113 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
574165 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
574192 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
Found at i:580361 original size:20 final size:20
Alignment explanation
Indices: 580336--580403 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
580326 GTTACAAGCA
580336 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
580356 ATGTATCGAT---A--CA--
1 ATGTATCGATACAATTCATC
580369 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
*
580389 ATGTATCAATACAAT
1 ATGTATCGATACAAT
580404 GTATCGATAC
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 10 0.25
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 24 0.60
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:580374 original size:13 final size:13
Alignment explanation
Indices: 580334--580419 Score: 70
Period size: 13 Copynumber: 7.5 Consensus size: 13
580324 CCGTTACAAG
580334 CAATGTATCGATA
1 CAATGTATCGATA
580347 CAA--T-TC-AT-
1 CAATGTATCGATA
580355 C-ATGTATCGATA
1 CAATGTATCGATA
580367 CAATGTATCGATA
1 CAATGTATCGATA
580380 CAA--T-TC-AT-
1 CAATGTATCGATA
*
580388 C-ATGTATCAATA
1 CAATGTATCGATA
580400 CAATGTATCGATA
1 CAATGTATCGATA
*
580413 CATTGTA
1 CAATGTA
580420 CCATATATCA
Statistics
Matches: 59, Mismatches: 2, Indels: 24
0.69 0.02 0.28
Matches are distributed among these distances:
7 2 0.03
8 2 0.03
9 6 0.10
10 8 0.14
11 6 0.10
12 2 0.03
13 33 0.56
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:580435 original size:33 final size:33
Alignment explanation
Indices: 580334--580414 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
580324 CCGTTACAAG
*
580334 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCATCATGTATCAATA
580367 CAATGTATCGATACAATTCATCATGTATCAATA
1 CAATGTATCGATACAATTCATCATGTATCAATA
580400 CAATGTATCGATACA
1 CAATGTATCGATACA
580415 TTGTACCATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATTCATCATGTATCAATA
Found at i:580623 original size:2 final size:2
Alignment explanation
Indices: 580616--580652 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
580606 AATGTATTTG
580616 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
580653 TACAAATGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:581247 original size:2 final size:2
Alignment explanation
Indices: 581230--581269 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
581220 TTACTCTCAT
*
581230 TA TA T- TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
581270 TTAATTAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:581760 original size:32 final size:32
Alignment explanation
Indices: 581724--581786 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
581714 GTCAACGATT
*
581724 TGTATCGATAGATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
581756 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
581787 TATGAAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:581761 original size:13 final size:13
Alignment explanation
Indices: 581743--581767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
581733 AGATAAGTGT
581743 TGTATCGATACAA
1 TGTATCGATACAA
581756 TGTATCGATACA
1 TGTATCGATACA
581768 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:581785 original size:19 final size:19
Alignment explanation
Indices: 581723--581788 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
581713 TGTCAACGAT
*
581723 TTGTATCGATAGATAAGTG
1 TTGTATCGATACATAAGTG
581742 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
581756 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
581774 TTGTATCGATACATA
1 TTGTATCGATACATA
581789 TGAAGCTACT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
19 25 0.62
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:581848 original size:13 final size:13
Alignment explanation
Indices: 581830--581854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
581820 ATTACTCAAA
581830 TGTATCGATACAT
1 TGTATCGATACAT
581843 TGTATCGATACA
1 TGTATCGATACA
581855 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:581907 original size:52 final size:52
Alignment explanation
Indices: 581863--581988 Score: 225
Period size: 52 Copynumber: 2.4 Consensus size: 52
581853 CACTGATCTT
581863 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
581915 TGTATCGATACATACAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
581967 TGTATCGATACATGCAAGCAAA
1 TGTATCGATACATGCAGGCAAA
581989 ATTTCATATT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:589433 original size:29 final size:29
Alignment explanation
Indices: 589391--589453 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
589381 GTGGCAAAAC
589391 AAAATAACAATATTTTAATAATTTATTTA
1 AAAATAACAATATTTTAATAATTTATTTA
* * *
589420 AAAATAATATTATTTTAATAATTTATTTC
1 AAAATAACAATATTTTAATAATTTATTTA
589449 AAAAT
1 AAAAT
589454 CAAAGATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (29 bp):
AAAATAACAATATTTTAATAATTTATTTA
Found at i:589445 original size:13 final size:13
Alignment explanation
Indices: 589401--589447 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
589391 AAAATAACAA
589401 TATTTTAATAATT
1 TATTTTAATAATT
*
589414 TATTTAAAAATAATAT
1 TATTT--TAATAAT-T
589430 TATTTTAATAATT
1 TATTTTAATAATT
589443 TATTT
1 TATTT
589448 CAAAATCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 11 0.38
14 6 0.21
15 6 0.21
16 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTTTAATAATT
Found at i:592949 original size:21 final size:23
Alignment explanation
Indices: 592928--592970 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
592918 GACCGAATAT
592928 ATATT-AAAATTAATCTTTTATA
1 ATATTAAAAATTAATCTTTTATA
* *
592950 ATTTTAAAAATTAATTTTTTA
1 ATATTAAAAATTAATCTTTTA
592971 AAAGAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATTAAAAATTAATCTTTTATA
Found at i:598117 original size:41 final size:41
Alignment explanation
Indices: 598060--598152 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
598050 CATTTTACAG
* *
598060 ATGTAGCGATACATCACCAAAATTTATCGATACATTGGTTT
1 ATGTATCGATACATCACCAAAATTTATCAATACATTGGTTT
* * *
598101 ATGTATTGATATATCACCAAAATTTATTAATACATTGGTTT
1 ATGTATCGATACATCACCAAAATTTATCAATACATTGGTTT
598142 ATGTATCGATA
1 ATGTATCGATA
598153 AATTAGGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCACCAAAATTTATCAATACATTGGTTT
Found at i:598386 original size:21 final size:21
Alignment explanation
Indices: 598362--598408 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
598352 GTCAAGGCCT
*
598362 TGTATCTATACATTAA-TGAAA
1 TGTATCGATACATTAAGTG-AA
*
598383 TGTATCGATACCTTAAGTGAA
1 TGTATCGATACATTAAGTGAA
598404 TGTAT
1 TGTAT
598409 AGACATCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTAAGTGAA
Found at i:598975 original size:339 final size:339
Alignment explanation
Indices: 598334--599001 Score: 998
Period size: 339 Copynumber: 2.0 Consensus size: 339
598324 TTTGGTCTAA
*
598334 AAATAAATTTTAACTATTGTCAAGGCCTTGTATCTATACATTAATGAAATGTATCGATACCTTAA
1 AAATAAATTTTAACTATTGTCAAGGCCTTGTATCTATACATTAATGAAAGGTATCGATACCTTAA
* * *
598399 GTGAATGTATAGACATCGTATTTTGTCTAGACCAATTTTTGACATCTTAAGATGTAATCGAAAGA
66 GTAAATGTATAGACATCGTATTTTGTCTAGACCAACTTTTGACATCTTAAGATGTAATCGAAAAA
*
598464 TAATGAAATAAAAAAATAAAAAAATAGGGACGATTGCCAAGTGTCACAAAGCAAAAATTATTTTT
131 TAATGAAATAAAAAAATAAAAAAATAGGGACGATTACCAAGTGTCACAAAGCAAAAATTATTTTT
* *
598529 GGGAAAGTCTAAAATGCCTAAGGTCATATTAAAAAAAATGTAAAAATGAGGCATAAAAAGTCACT
196 GCGAAAGTCTAAAATGCCTAAGGTCATATTAAAAAAAATGTAAAAATAAGGCATAAAAAGTCACT
* *
598594 ATTCGAAATGTCACCAAAGTCATTCAAATAAAAAGGGATAAGTTTCCCACTATTTGTGACCAAGG
261 ATTCGAAATGTCACCAAAGTCATTCAAATAAAAAGAGATAAGTTTCCCACTATTTGTGACCAAAG
598659 CTACCACATTAATG
326 CTACCACATTAATG
** * *
598673 AAATAAATTTTCGCTATTGTCAGGGCTTTGTATCTATACATTAATGAAAGGTATCGATACCTTAA
1 AAATAAATTTTAACTATTGTCAAGGCCTTGTATCTATACATTAATGAAAGGTATCGATACCTTAA
* * * *
598738 GTAAATGTGTAGACATTGTATTTTTTCTAGACCAACTTTTGACATCTTGAGATGTAATCGAAAAA
66 GTAAATGTATAGACATCGTATTTTGTCTAGACCAACTTTTGACATCTTAAGATGTAATCGAAAAA
* * * * **
598803 TAATGAAATAAAAAAATTAAAAAATAGGGAC-ATTACCAGGTGTCGCAAGGTGAAAATTATTTTT
131 TAATGAAATAAAAAAATAAAAAAATAGGGACGATTACCAAGTGTCACAAAGCAAAAATTATTTTT
* * *
598867 GCG-AAGATCTGAAATGCCTAGGGTCATATTAAAGAAAAATGTAAAAATAAGGCATAAAAGGTCA
196 GCGAAAG-TCTAAAATGCCTAAGGTCATATTAAA-AAAAATGTAAAAATAAGGCATAAAAAGTCA
* * * * * * * *
598931 CTATTTGAAATGTCATCGAAGTTATTCAGATAAATAGAGATAAGTTTCTCACTGTTTGTGACCAA
259 CTATTCGAAATGTCACCAAAGTCATTCAAATAAAAAGAGATAAGTTTCCCACTATTTGTGACCAA
598996 AGCTAC
324 AGCTAC
599002 TACAACCTTT
Statistics
Matches: 293, Mismatches: 34, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
337 3 0.01
338 53 0.18
339 237 0.81
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (339 bp):
AAATAAATTTTAACTATTGTCAAGGCCTTGTATCTATACATTAATGAAAGGTATCGATACCTTAA
GTAAATGTATAGACATCGTATTTTGTCTAGACCAACTTTTGACATCTTAAGATGTAATCGAAAAA
TAATGAAATAAAAAAATAAAAAAATAGGGACGATTACCAAGTGTCACAAAGCAAAAATTATTTTT
GCGAAAGTCTAAAATGCCTAAGGTCATATTAAAAAAAATGTAAAAATAAGGCATAAAAAGTCACT
ATTCGAAATGTCACCAAAGTCATTCAAATAAAAAGAGATAAGTTTCCCACTATTTGTGACCAAAG
CTACCACATTAATG
Found at i:599252 original size:14 final size:14
Alignment explanation
Indices: 599230--599259 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
599220 AAGAGCAGTT
599230 GAGTATAGTACTTG
1 GAGTATAGTACTTG
*
599244 GAGTTTAGTACTTG
1 GAGTATAGTACTTG
599258 GA
1 GA
599260 ATTATCCTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.30, T:0.37
Consensus pattern (14 bp):
GAGTATAGTACTTG
Found at i:601574 original size:17 final size:17
Alignment explanation
Indices: 601543--601578 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
601533 TACCTTTCTT
601543 TAAAAAATAATAATAAA
1 TAAAAAATAATAATAAA
601560 TAAATAAATAA-AATAAA
1 TAAA-AAATAATAATAAA
601577 TA
1 TA
601579 TCCATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAAAAATAATAATAAA
Found at i:603865 original size:18 final size:18
Alignment explanation
Indices: 603842--603878 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
603832 CGACCCACAC
603842 GAAACCATAAAGGTGGGA
1 GAAACCATAAAGGTGGGA
603860 GAAACCATAAAGGTGGGA
1 GAAACCATAAAGGTGGGA
603878 G
1 G
603879 CTAGATGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.35, T:0.11
Consensus pattern (18 bp):
GAAACCATAAAGGTGGGA
Found at i:604873 original size:21 final size:21
Alignment explanation
Indices: 604818--604873 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
604808 AAAAATGCAA
604818 AATATTAATTGTTTAATAAGT
1 AATATTAATTGTTTAATAAGT
* **
604839 AATGTTACATTGTTTTTTAA-T
1 AATATTA-ATTGTTTAATAAGT
604860 ATATATTAATTGTT
1 A-ATATTAATTGTT
604874 GTGAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.54
Consensus pattern (21 bp):
AATATTAATTGTTTAATAAGT
Found at i:605043 original size:21 final size:21
Alignment explanation
Indices: 605004--605043 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
604994 GGGTCTTTTG
* *
605004 ATTTTTTTTTTAAATTTTTAA
1 ATTTTTATTTTAAAGTTTTAA
*
605025 ATTTTTATTTTATAGTTTT
1 ATTTTTATTTTAAAGTTTT
605044 GTGTTTTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (21 bp):
ATTTTTATTTTAAAGTTTTAA
Found at i:608986 original size:168 final size:166
Alignment explanation
Indices: 608661--609311 Score: 752
Period size: 168 Copynumber: 3.9 Consensus size: 166
608651 AACACCAAAA
* **** *
608661 TTCTTCAAATATTATCATTTATTTCATATTACATCAAACCTCAAAAATTAATTCATTTTCATGAG
1 TTCTTCAAATATTATCATTTATTTCATATTAAATCAGTTTTTAAAAATTAATTCATTTTCATGAG
* * * *
608726 TTTTTGAATTTTTTCCTTGAAACTT-TTTTTTT--AAATACGGTGTTTTCTATTCCATAAATTTT
66 TTTTTGATTTTTTTCCTTGAAACTTCTTTTTTTCAAAATACGGTATTTTCTACTCCGTAAATTTT
*
608788 TTCGAGGGGATTTTTCTCAGTTTTCAATTTTTAAAT
131 TTCGAGGAGATTTTTCTCAGTTTTCAATTTTTAAAT
* * *
608824 TTCTTCAAATATTATTATTTATTTCATATTAAATCAGTTTTTAAGAATTCATTCATTTTCATGAG
1 TTCTTCAAATATTATCATTTATTTCATATTAAATCAGTTTTTAAAAATTAATTCATTTTCATGAG
608889 TTTTTGATTTTTTTTCCTTGAAACTTCTTTTTTTCCAAAATACGGTATTTTCTACTCCGTAAATT
66 TTTTTGA-TTTTTTTCCTTGAAACTTCTTTTTTT-CAAAATACGGTATTTTCTACTCCGTAAATT
**
608954 TTTTCGAGGAGATTTTTCTTGGTTTTCAATTTTTAAAT
129 TTTTCGAGGAGATTTTTCTCAGTTTTCAATTTTTAAAT
*
608992 TTCTTCAAATATTATCATTTATTTCATATTAAATCA-TTTTTCAAAAATTCATTCATTTTCATGA
1 TTCTTCAAATATTATCATTTATTTCATATTAAATCAGTTTTT-AAAAATTAATTCATTTTCATGA
* *** *
609056 GTTTTTGA-TTTTTTCCTTAAAACTCTCTTTTTTTTGGAATA-GAGTATTTTCTACTTCGTAAAT
65 GTTTTTGATTTTTTTCCTTGAAACT-TCTTTTTTTCAAAATACG-GTATTTTCTACTCCGTAAA-
* * * *
609119 TTTTTTCAAGTAGATTTTTCTCAATTTTCAATTTTTAAAA
127 TTTTTTCGAGGAGATTTTTCTCAGTTTTCAATTTTTAAAT
* * * * * *
609159 TTCATCAAACATCACCATTTGATTT-ATATTAAATTAGTTTTAAAAAATTAATTCATTTTCATGA
1 TTCTTCAAATATTATCATTT-ATTTCATATTAAATCAGTTTTTAAAAATTAATTCATTTTCATGA
** * *
609223 GTTTTAT-ATTTTTTTTGTTGAAA-TTCCCTTTTTTCCGAGAAAT-C-G-AGTTTTCTTCTCCGT
65 GTTTT-TGATTTTTTTCCTTGAAACTT--CTTTTTTTC-A-AAATACGGTA-TTTTCTACTCCGT
* *
609283 AAATTTTTTCG-GGGGATTTTTCTTAGTTT
124 AAATTTTTTCGAGGAGATTTTTCTCAGTTT
609312 AAAACTTTAA
Statistics
Matches: 419, Mismatches: 50, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
163 63 0.15
164 17 0.04
165 8 0.02
166 52 0.12
167 110 0.26
168 166 0.40
170 3 0.01
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.51
Consensus pattern (166 bp):
TTCTTCAAATATTATCATTTATTTCATATTAAATCAGTTTTTAAAAATTAATTCATTTTCATGAG
TTTTTGATTTTTTTCCTTGAAACTTCTTTTTTTCAAAATACGGTATTTTCTACTCCGTAAATTTT
TTCGAGGAGATTTTTCTCAGTTTTCAATTTTTAAAT
Found at i:611846 original size:154 final size:153
Alignment explanation
Indices: 611591--612119 Score: 575
Period size: 154 Copynumber: 3.4 Consensus size: 153
611581 GGGTGTTGAG
* * * ** **
611591 TACTTTTATGTCAAAGGTATCCCTTAAGGATATTTTTGTAATTTTTTAAAA-TAGAGTCCTAGGT
1 TACTTTTATGTCGAAGGTATCTCTTAGGGGCATTTTCATAA-TTTTTAAAACT-GAGTCCTAGGT
* *
611655 TGTCACCGGGTCTACTTTTATGCCGAAGGTAGATATTTAAGATATGTTCATTTTATCTATTATCC
64 TGTCACCGGGTCTGCTTTTATGCCGAAGGTAGATATTTAAGATATGTTCATTTCATCTATTATCC
611720 TTTTAGGTCCTTTAGGGGTATCAGA
129 TTTTAGGTCCTTTAGGGGTATCAGA
*
611745 TACTTTTATGTCGAAGGTATCT-TCTAGGGGCA-TTTCATAATTTTTCAAAACTGAATCCTAGGT
1 TACTTTTATGTCGAAGGTATCTCT-TAGGGGCATTTTCATAATTTTT-AAAACTGAGTCCTAGGT
* * *
611808 TGTCACCAGGGTCTGCTTTTATGCTGAAGGTAGATATTTATGATAAGTTCATTTCATCTATTATC
64 TGTCACC-GGGTCTGCTTTTATGCCGAAGGTAGATATTTAAGATATGTTCATTTCATCTATTATC
* *
611873 CTTTTAGGTTCTTTAGGGGTATTAGA
128 CTTTTAGGTCCTTTAGGGGTATCAGA
* * * * *
611899 TACTTTTACGTCGAACGTATCTCTTAGGGGTATTTTCATAATTTTTAGAACTGAGTCCTAGGCTG
1 TACTTTTATGTCGAAGGTATCTCTTAGGGGCATTTTCATAATTTTTAAAACTGAGTCCTAGGTTG
* * * * * * *
611964 TCACCTGGGTCCGCGTTTGTGCCGAATGTAGATATTTAGGATATGTTCATCTCATCTATTATCTT
66 TCACC-GGGTCTGCTTTTATGCCGAAGGTAGATATTTAAGATATGTTCATTTCATCTATTATC-C
* * *
612029 TTTTAAGTCTTTTA-GGGTATCAGG
129 TTTTAGGTCCTTTAGGGGTATCAGA
* * * ** *
612053 TA-TTTCT-TCGTCGAAGGTATCCCCTAAGAACATTTTCGTAATTTTCCTACAAAACTGAGTCCT
1 TACTTT-TAT-GTCGAAGGTATCTCTTAGGGGCATTTTCATAATTTT--T--AAAACTGAGTCCT
612116 AGGT
60 AGGT
612120 AATCGCCGAG
Statistics
Matches: 315, Mismatches: 47, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
152 5 0.02
153 31 0.10
154 238 0.76
155 25 0.08
156 1 0.00
158 15 0.05
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (153 bp):
TACTTTTATGTCGAAGGTATCTCTTAGGGGCATTTTCATAATTTTTAAAACTGAGTCCTAGGTTG
TCACCGGGTCTGCTTTTATGCCGAAGGTAGATATTTAAGATATGTTCATTTCATCTATTATCCTT
TTAGGTCCTTTAGGGGTATCAGA
Found at i:621880 original size:16 final size:16
Alignment explanation
Indices: 621859--621899 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
621849 TCAAACCATT
*
621859 CAATTTTAATTCGAAA
1 CAATTTAAATTCGAAA
621875 CAATTTAAATTCGAAA
1 CAATTTAAATTCGAAA
*
621891 TAATTTAAA
1 CAATTTAAA
621900 AAAAATGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (16 bp):
CAATTTAAATTCGAAA
Found at i:622217 original size:25 final size:26
Alignment explanation
Indices: 622163--622226 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 26
622153 GTTATATTAT
*
622163 TTATGATAAATCTAATAATATGATTT
1 TTATGATAAATCTAATAATATGATTC
* *
622189 TTAT-ATAAAT-TATATAATTTTATTC
1 TTATGATAAATCTA-ATAATATGATTC
622214 TTATTGTATAAAT
1 TTA-TG-ATAAAT
622227 ATTATTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 2 0.06
25 18 0.58
26 5 0.16
28 6 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (26 bp):
TTATGATAAATCTAATAATATGATTC
Found at i:623426 original size:19 final size:18
Alignment explanation
Indices: 623402--623438 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
623392 ATTATGTAAT
*
623402 AAATTTTTTTTATTTTTAA
1 AAATTTTTATT-TTTTTAA
623421 AAATTTTTATTTTTTTAA
1 AAATTTTTATTTTTTTAA
623439 TTTGGATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
AAATTTTTATTTTTTTAA
Found at i:623489 original size:3 final size:3
Alignment explanation
Indices: 623469--623517 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
623459 ATAAGTTAAA
* * * *
623469 ATT ACT ATT ATT ACT ATT ATT ATC ATT ATT ATC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
623517 A
1 A
623518 CATAGAGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:624351 original size:24 final size:24
Alignment explanation
Indices: 624306--624361 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
624296 TTTTTTGTAT
624306 AATAAAAATTATATAATGTATATA
1 AATAAAAATTATATAATGTATATA
624330 AATATAAAATTA-ATATAT-TATATA
1 AATA-AAAATTATATA-ATGTATATA
*
624354 ATTAAAAA
1 AATAAAAA
624362 CGGGTTGAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.14
24 16 0.55
25 9 0.31
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AATAAAAATTATATAATGTATATA
Found at i:628354 original size:22 final size:22
Alignment explanation
Indices: 628320--628375 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
628310 TAAAATTGTA
*
628320 AAATATTTAAATTTAATTAATTT
1 AAATA-TTAAATTTAATTAACTT
628343 AAATATTAAATTTAATTAACTT
1 AAATATTAAATTTAATTAACTT
628365 AAA-ATTGAAAT
1 AAATATT-AAAT
628376 GACTTTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 3 0.10
22 23 0.74
23 5 0.16
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
AAATATTAAATTTAATTAACTT
Found at i:630088 original size:19 final size:20
Alignment explanation
Indices: 630045--630097 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
630035 CATACCCAGA
*
630045 TGTATCGATACATGCTGTTT
1 TGTATCGATACATGCTGTAT
630065 TGTATCGATACATG-T-TCAT
1 TGTATCGATACATGCTGT-AT
630084 TGTATCGATACATG
1 TGTATCGATACATG
630098 GACAAATGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 1 0.03
19 16 0.52
20 14 0.45
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATGCTGTAT
Found at i:630109 original size:20 final size:19
Alignment explanation
Indices: 630065--630113 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
630055 CATGCTGTTT
** *
630065 TGTATCGATACATGTTCAT
1 TGTATCGATACATGGACAA
630084 TGTATCGATACATGGACAAA
1 TGTATCGATACATGGAC-AA
630104 TGTATCGATA
1 TGTATCGATA
630114 TTTGAAACTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATGGACAA
Found at i:630183 original size:33 final size:33
Alignment explanation
Indices: 630146--630214 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
630136 CTATCATTAT
* ** *
630146 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCAATACATGAAAAAATGTATCGATACA
* *
630179 TTGTATTAATACATGAAAAAATGTATTGATACA
1 TTGTATCAATACATGAAAAAATGTATCGATACA
630212 TTG
1 TTG
630215 CTTGTAACGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (33 bp):
TTGTATCAATACATGAAAAAATGTATCGATACA
Found at i:636347 original size:13 final size:13
Alignment explanation
Indices: 636329--636369 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
636319 ACAACATTCC
636329 TTGTATCGATACA
1 TTGTATCGATACA
636342 TTGTATCGATACA
1 TTGTATCGATACA
*
636355 ATGTATCGATACA
1 TTGTATCGATACA
636368 TT
1 TT
636370 AGGTACTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:638847 original size:20 final size:19
Alignment explanation
Indices: 638824--638896 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
638814 CACACCCAGA
*
638824 TGTATCGATACATGCTGCTT
1 TGTATCGATACATG-TGCAT
*
638844 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTGCAT
*
638863 TGTATCGATACATG-GACAAA
1 TGTATCGATACATGTG-C-AT
638883 TGTATCGATACATG
1 TGTATCGATACATG
638897 AAACTGGCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.62
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGTGCAT
Found at i:638943 original size:13 final size:13
Alignment explanation
Indices: 638925--638951 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
638915 CTATCACTAT
638925 TTGTATCGATACA
1 TTGTATCGATACA
638938 TTGTATCGATACA
1 TTGTATCGATACA
638951 T
1 T
638952 GAAGAAATGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:645826 original size:115 final size:114
Alignment explanation
Indices: 645684--646053 Score: 422
Period size: 115 Copynumber: 3.2 Consensus size: 114
645674 GTCATTTTGC
* * * * *
645684 GATTAATATGCAATTTCATGCATTTTAGCACCATTTTAGTCATTTTTCATGATTTATGAATTATT
1 GATTATTATGTAATTTCATACATTTTAGAATCATTTTAGTCATTTTTCATGATTTATGAATTATT
* * *
645749 ATGTAAATCCATGCATTTTAGAACCATTTTAATCATTTTTCATGACTTAA
66 ATGTAAATCCATG-ATTTTAGAACCATTTTAGTCATTTTTCATGATTTAG
* *
645799 GATTATTATGTAATTTCATACATTTTAGAATTATTTTAGTCATTTTTCATGATTTATGGATTATT
1 GATTATTATGTAATTTCATACATTTTAGAATCATTTTAGTCATTTTTCATGATTTATGAATTATT
* * ** * * * *
645864 ATGTAATTTCATGATTTTAGTGCCATCTTAGTAATTTTTCATTATTTGGG
66 ATGTAAATCCATGATTTTAGAACCATTTTAGTCATTTTTCATGATTT-AG
* * * * *
645914 GATTATTATGTAAATCCATGA-ATTTTAGAATGATTTTAGTCATTTTTCATGATTTA-GAGTTGT
1 GATTATTATGTAATTTCAT-ACATTTTAGAATCATTTTAGTCATTTTTCATGATTTATGAATTAT
* *
645977 TATGTAATATCCA-GTATTTTAGCACAATTTTAGTCATTTTTCATGATTTAGG
65 TATGTAA-ATCCATG-ATTTTAGAACCATTTTAGTCATTTTTCATGATTTA-G
* *
646029 GACTATTATGTAATTTCATGCATTT
1 GATTATTATGTAATTTCATACATTT
646054 AAAGATCATT
Statistics
Matches: 212, Mismatches: 37, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
114 39 0.18
115 172 0.81
116 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (114 bp):
GATTATTATGTAATTTCATACATTTTAGAATCATTTTAGTCATTTTTCATGATTTATGAATTATT
ATGTAAATCCATGATTTTAGAACCATTTTAGTCATTTTTCATGATTTAG
Found at i:645828 original size:57 final size:57
Alignment explanation
Indices: 645684--646053 Score: 404
Period size: 57 Copynumber: 6.4 Consensus size: 57
645674 GTCATTTTGC
* * *
645684 GATTAATATGCAATTTCATGCATTTTAGCACCATTTTAGTCATTTTTCATGATTTATG
1 GATTATTATGTAATTTCATGCATTTTAGAACCATTTTAGTCATTTTTCATGATTTA-G
* * * * * *
645742 AATTATTATGTAAATCCATGCATTTTAGAACCATTTTAATCATTTTTCATGACTTAA
1 GATTATTATGTAATTTCATGCATTTTAGAACCATTTTAGTCATTTTTCATGATTTAG
* **
645799 GATTATTATGTAATTTCATACATTTTAGAATTATTTTAGTCATTTTTCATGATTTATG
1 GATTATTATGTAATTTCATGCATTTTAGAACCATTTTAGTCATTTTTCATGATTTA-G
** * * * *
645857 GATTATTATGTAATTTCATG-ATTTTAGTGCCATCTTAGTAATTTTTCATTATTTGGG
1 GATTATTATGTAATTTCATGCATTTTAGAACCATTTTAGTCATTTTTCATGATTT-AG
* * * **
645914 GATTATTATGTAAATCCATGAATTTTAGAATGATTTTAGTCATTTTTCATGATTTA-
1 GATTATTATGTAATTTCATGCATTTTAGAACCATTTTAGTCATTTTTCATGATTTAG
* * * * *
645970 GAGTTGTTATGTAATATCCA-GTATTTTAGCACAATTTTAGTCATTTTTCATGATTTAGG
1 GA-TTATTATGTAAT-TTCATGCATTTTAGAACCATTTTAGTCATTTTTCATGATTTA-G
*
646029 GACTATTATGTAATTTCATGCATTT
1 GATTATTATGTAATTTCATGCATTT
646054 AAAGATCATT
Statistics
Matches: 257, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
56 2 0.01
57 140 0.54
58 113 0.44
59 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (57 bp):
GATTATTATGTAATTTCATGCATTTTAGAACCATTTTAGTCATTTTTCATGATTTAG
Found at i:645877 original size:27 final size:27
Alignment explanation
Indices: 645786--645880 Score: 77
Period size: 27 Copynumber: 3.4 Consensus size: 27
645776 TTTAATCATT
* *
645786 TTTCATGACTTA-AGATTATTATGTAA
1 TTTCATGATTTATGGATTATTATGTAA
* * * *
645812 TTTCATACATTT-TAGAATTATTTTAGTCATT
1 TTTCAT-GATTTAT-GGATTATTAT-GT-A-A
645843 TTTCATGATTTATGGATTATTATGTAA
1 TTTCATGATTTATGGATTATTATGTAA
645870 TTTCATGATTT
1 TTTCATGATTT
645881 TAGTGCCATC
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
26 6 0.12
27 14 0.27
28 8 0.15
29 4 0.08
30 13 0.25
31 7 0.13
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (27 bp):
TTTCATGATTTATGGATTATTATGTAA
Found at i:645931 original size:172 final size:173
Alignment explanation
Indices: 645684--646053 Score: 487
Period size: 172 Copynumber: 2.1 Consensus size: 173
645674 GTCATTTTGC
* * * * *
645684 GATTAATATGCAATTTCATGCATTTTAGCACCATTTTAGTCATTTTTCATGATTTATGAATTATT
1 GATTATTATGTAATTTCATGCATTTTAGCACCATCTTAGTAATTTTTCATGATTTAGGAATTATT
*
645749 ATGTAAATCCATGCATTTTAGAACCATTTTAATCATTTTTCATGACTTAAGA-TTATTATGTAAT
66 ATGTAAATCCATGAATTTTAGAACCATTTTAATCATTTTTCATGA-TTAAGAGTTATTATGTAAT
* ** *
645813 -TTCA-TACATTTTAGAATTATTTTAGTCATTTTTCATGATTTATG
130 ATCCAGT--ATTTTAGAACAATTTTAGTCATTTTTCATGATTTAGG
** * * *
645857 GATTATTATGTAATTTCATG-ATTTTAGTGCCATCTTAGTAATTTTTCATTATTTGGGGATTATT
1 GATTATTATGTAATTTCATGCATTTTAGCACCATCTTAGTAATTTTTCATGATTTAGGAATTATT
** * * *
645921 ATGTAAATCCATGAATTTTAGAATGATTTTAGTCATTTTTCATGATTTAGAGTTGTTATGTAATA
66 ATGTAAATCCATGAATTTTAGAACCATTTTAATCATTTTTCATGATTAAGAGTTATTATGTAATA
*
645986 TCCAGTATTTTAGCACAATTTTAGTCATTTTTCATGATTTAGG
131 TCCAGTATTTTAGAACAATTTTAGTCATTTTTCATGATTTAGG
*
646029 GACTATTATGTAATTTCATGCATTT
1 GATTATTATGTAATTTCATGCATTT
646054 AAAGATCATT
Statistics
Matches: 171, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
171 5 0.03
172 140 0.82
173 25 0.15
174 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (173 bp):
GATTATTATGTAATTTCATGCATTTTAGCACCATCTTAGTAATTTTTCATGATTTAGGAATTATT
ATGTAAATCCATGAATTTTAGAACCATTTTAATCATTTTTCATGATTAAGAGTTATTATGTAATA
TCCAGTATTTTAGAACAATTTTAGTCATTTTTCATGATTTAGG
Found at i:647119 original size:27 final size:27
Alignment explanation
Indices: 647081--647154 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
647071 TTTTAAAAAA
*
647081 AATGGGGTTGGAGTATCCCCTTGGAAG
1 AATGAGGTTGGAGTATCCCCTTGGAAG
647108 AATGAGGTTGGAGTATCCCCTTGGAAG
1 AATGAGGTTGGAGTATCCCCTTGGAAG
647135 AATGAGGTTGGAGTATCCCC
1 AATGAGGTTGGAGTATCCCC
647155 AATGAAAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (27 bp):
AATGAGGTTGGAGTATCCCCTTGGAAG
Found at i:651665 original size:14 final size:14
Alignment explanation
Indices: 651646--651673 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
651636 CATCTTAAAA
651646 TTAAAGGTTCTAAG
1 TTAAAGGTTCTAAG
651660 TTAAAGGTTCTAAG
1 TTAAAGGTTCTAAG
651674 CCTTGACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
TTAAAGGTTCTAAG
Found at i:654138 original size:13 final size:13
Alignment explanation
Indices: 654120--654147 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
654110 GCCAAGGAAA
654120 TGTATCGATACAT
1 TGTATCGATACAT
654133 TGTATCGATACAT
1 TGTATCGATACAT
654146 TG
1 TG
654148 ATCTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:666860 original size:13 final size:13
Alignment explanation
Indices: 666842--666867 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
666832 AGAGTGTTTG
666842 AAAAAAAAAATTA
1 AAAAAAAAAATTA
666855 AAAAAAAAAATTA
1 AAAAAAAAAATTA
666868 TCCAAATGTA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAAAAAATTA
Found at i:666945 original size:19 final size:19
Alignment explanation
Indices: 666921--666988 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
666911 AATTCAACAA
666921 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
666940 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
666955 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
666972 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
666989 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:666960 original size:13 final size:13
Alignment explanation
Indices: 666942--666966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
666932 ACATAAGTTT
666942 TGTATCGATACAA
1 TGTATCGATACAA
666955 TGTATCGATACA
1 TGTATCGATACA
666967 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:666964 original size:32 final size:32
Alignment explanation
Indices: 666923--666985 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
666913 TTCAACAATT
*
666923 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
666955 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
666986 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:667046 original size:13 final size:13
Alignment explanation
Indices: 667028--667053 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
667018 CATTTTTCTG
667028 TGTATCGATACAT
1 TGTATCGATACAT
667041 TGTATCGATACAT
1 TGTATCGATACAT
667054 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:669556 original size:27 final size:28
Alignment explanation
Indices: 669526--669601 Score: 120
Period size: 27 Copynumber: 2.8 Consensus size: 28
669516 TTTCTTCACA
669526 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
669553 ATCGGGGATACTCCAACCCCGTTATATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
669581 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
669602 GTTTTATTAC
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 25 0.54
28 21 0.46
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:669657 original size:52 final size:50
Alignment explanation
Indices: 669586--669754 Score: 164
Period size: 52 Copynumber: 3.3 Consensus size: 50
669576 ATATCTGAGG
*
669586 GGATACTCCAACCCCGGTTTTATTACTAAAATACTAATTTTTTCACAATCGA
1 GGATACTCCAA-CCCGGTTTTATT-CTAAAATACCAATTTTTTCACAATCGA
* ** * *
669638 GGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTT--TAATCGG
1 GGATACTCCAACCC-GGTTTTATTCT-AAAATACCAATTTT--TTCACAATCGA
* *
669690 GGATACTCCAACTCCGATTTTATTTCCAAAAATACCAA-TTTTTCACAATCGA
1 GGATACTCCAAC-CCGGTTTTA-TT-CTAAAATACCAATTTTTTCACAATCGA
669742 GGATACTCCAACC
1 GGATACTCCAACC
669755 TCGTTATTTC
Statistics
Matches: 95, Mismatches: 13, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
50 2 0.02
51 5 0.05
52 74 0.78
53 12 0.13
54 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (50 bp):
GGATACTCCAACCCGGTTTTATTCTAAAATACCAATTTTTTCACAATCGA
Found at i:669732 original size:104 final size:103
Alignment explanation
Indices: 669417--669754 Score: 308
Period size: 104 Copynumber: 3.2 Consensus size: 103
669407 CTCAATTCTC
* * * * * *
669417 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCAGGGAT
1 CACAATCGAGGATACTCCAAC-CCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
* *
669481 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TT
* * * ** * * * ** *
669522 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATATCTGA
1 CACAATCGAGGATACTCCAACCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-ATC---
* * * * *
669584 GGGGATACTCCAACCCCGGTTTTA-TTACTAAAATACTAATTTTTT
59 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAA-TTTTT
*
669629 CACAATCGAGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGAT
1 CACAATCGAGGATACTCCAACCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
669694 ACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
65 ACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
669733 CACAATCGAGGATACTCCAACC
1 CACAATCGAGGATACTCCAACC
669755 TCGTTATTTC
Statistics
Matches: 181, Mismatches: 38, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
103 6 0.03
104 51 0.28
105 35 0.19
106 16 0.09
107 35 0.19
108 12 0.07
109 26 0.14
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
Found at i:669773 original size:28 final size:28
Alignment explanation
Indices: 669737--669813 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
669727 ATTTTTCACA
* * *
669737 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
669765 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
669793 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
669814 ACTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:669784 original size:212 final size:210
Alignment explanation
Indices: 669412--669862 Score: 620
Period size: 212 Copynumber: 2.1 Consensus size: 210
669402 AGTTTCTCAA
* *
669412 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCAG
1 TTCT-CACAATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAACACCAATTTTCTATAATCAG
* *
669477 GGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAA
64 GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
* **
669542 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTA-TATCTGAGGGGATACTCCAACCCCGGTTT
129 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTACT-TCCGAGGGGATACTCCAACCCCGACTT
*
669606 TATTACTAAAATACTAATT
193 TATTACCAAAATACTAA-T
* * * * * *
669625 TTTTCACAATCGAGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGG
1 TTCTCACAATCGGGGATACTCCAACCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCAG
*
669690 GGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAA
64 GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
* *
669753 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTT
129 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTT
* * *
669818 TATTCCCAAAATATTGAT
193 TATTACCAAAATACTAAT
* *
669836 TTCTCATAATTGGGGATACTCCAACCC
1 TTCTCACAATCGGGGATACTCCAACCC
669863 CGTTATTTTC
Statistics
Matches: 210, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
211 54 0.26
212 118 0.56
213 38 0.18
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (210 bp):
TTCTCACAATCGGGGATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGG
ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
CCGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTAT
TACCAAAATACTAAT
Found at i:669880 original size:107 final size:107
Alignment explanation
Indices: 669476--669892 Score: 339
Period size: 107 Copynumber: 3.9 Consensus size: 107
669466 TCTATAATCA
* * * * *
669476 GGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCA
1 GGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATCGAGGATACTCCA
* * *
669541 ACCCCGTTAATCATCGGGGATACTCCAACCCCGTTA-TATCTGAG
64 ACCCCGTTATTTATCGGGGATACTCCAACCCCGTTACT-TCCGAG
** * * * *
669585 GGGATACTCCAACCCCGGTTTTA-TTACTAAAATACTAATTTTTTCACAATCGAGGATACTCCAA
1 GGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAA-TTTCTCACAATCGAGGATACTCCAA
* * ***** * * ** * *
669649 CCCTGGT-TTTATTTTCAAAACGCCAATTTTCCTTTA-AT-C--G
65 CCCCGTTATTTATCGGGGATACTCCAA--CCCCGTTACTTCCGAG
* * *
669689 GGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAAC
1 GGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAAC
*
669754 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAG
66 CCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGAG
* *** * * *
669797 GGGATACTCCAACCCCGACTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAAC
*
669861 CCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCGTTATTTATCG--GGGATACTCCAACCCCG
669893 AATTTTTTTT
Statistics
Matches: 240, Mismatches: 56, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
104 56 0.23
105 19 0.08
106 20 0.08
107 92 0.38
108 33 0.14
109 20 0.08
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (107 bp):
GGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAAC
CCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGAG
Found at i:672001 original size:123 final size:123
Alignment explanation
Indices: 671781--672021 Score: 464
Period size: 123 Copynumber: 2.0 Consensus size: 123
671771 TAGAGTCTTG
671781 ATAGAAGCTAAACTTGAAGAGGTGGAATGGATCAAGAATAGATATGACCAGCTCAACCTCATCGA
1 ATAGAAGCTAAACTTGAAGAGGTGGAATGGATCAAGAATAGATATGACCAGCTCAACCTCATCGA
671846 AGAAAAACGCCTGAAAGCCATATGCCAAGGTCAAATGTATCAGAAACCCATGAAAGCC
66 AGAAAAACGCCTGAAAGCCATATGCCAAGGTCAAATGTATCAGAAACCCATGAAAGCC
*
671904 ATAGAAGCTAAACTTGAAGAGGTTGAATGGATCAAGAATAGATATGACCAGCTCAACCTCATCGA
1 ATAGAAGCTAAACTTGAAGAGGTGGAATGGATCAAGAATAGATATGACCAGCTCAACCTCATCGA
*
671969 AGAAAAACGCCTGAAAGCCATATGCCATGGTCAAATGTATCAGAAACCCATGA
66 AGAAAAACGCCTGAAAGCCATATGCCAAGGTCAAATGTATCAGAAACCCATGA
672022 TTCAAGCCCA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 116 1.00
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (123 bp):
ATAGAAGCTAAACTTGAAGAGGTGGAATGGATCAAGAATAGATATGACCAGCTCAACCTCATCGA
AGAAAAACGCCTGAAAGCCATATGCCAAGGTCAAATGTATCAGAAACCCATGAAAGCC
Found at i:674290 original size:20 final size:20
Alignment explanation
Indices: 674265--674312 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
674255 TGGGGGTGCT
674265 AAACATGC-CATAAATGCATG
1 AAACATGCTCA-AAATGCATG
674285 AAACATAGCTCAAAATGCATG
1 AAACAT-GCTCAAAATGCATG
*
674306 AATCATG
1 AAACATG
674313 AGCTGTTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 16 0.64
22 2 0.08
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.21
Consensus pattern (20 bp):
AAACATGCTCAAAATGCATG
Found at i:674302 original size:21 final size:22
Alignment explanation
Indices: 674276--674316 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
674266 AACATGCCAT
674276 AAATGCATGAAACAT-AGCTCA
1 AAATGCATGAAACATGAGCTCA
*
674297 AAATGCATGAATCATGAGCT
1 AAATGCATGAAACATGAGCT
674317 GTTAACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (22 bp):
AAATGCATGAAACATGAGCTCA
Found at i:675347 original size:19 final size:19
Alignment explanation
Indices: 675323--675372 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
675313 AGTGATACAT
675323 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
675342 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
675361 TGTATCGATACA
1 TGTATCGATACA
675373 GTTACTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:675901 original size:11 final size:11
Alignment explanation
Indices: 675880--676001 Score: 101
Period size: 11 Copynumber: 11.0 Consensus size: 11
675870 CGTCCTTCGC
675880 AAAAACAAAAAA
1 AAAAAC-AAAAA
675892 AAAAACAAAAA
1 AAAAACAAAAA
675903 AATAAA-AAAACA
1 AA-AAACAAAA-A
675915 AAAAA-AAAAGA
1 AAAAACAAAA-A
**
675926 AAAAGGAAAGAA
1 AAAAACAAA-AA
675938 AAAAACACAAAA
1 AAAAACA-AAAA
*
675950 CAAAAC-AAAA
1 AAAAACAAAAA
*
675960 AAAAA-AACAA
1 AAAAACAAAAA
675970 AAAAAC-AAAA
1 AAAAACAAAAA
*
675980 AAAAACAAAAC
1 AAAAACAAAAA
*
675991 AACAACAAAAA
1 AAAAACAAAAA
676002 GGGTCCGGAT
Statistics
Matches: 91, Mismatches: 11, Indels: 17
0.76 0.09 0.14
Matches are distributed among these distances:
10 25 0.27
11 35 0.38
12 28 0.31
13 3 0.03
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:675960 original size:40 final size:41
Alignment explanation
Indices: 675880--676001 Score: 139
Period size: 40 Copynumber: 3.1 Consensus size: 41
675870 CGTCCTTCGC
* *
675880 AAAAACAAAA-AAAAAAACAAAAAAATA-AAAA-AACAA-A
1 AAAAAAAAAACAAAAAAACAAAAAAAAACAAAACAACAACA
** * *
675917 AAAAAAAGAAA-AAGGAAAGAAAAAAACACAAAACAA-AACA
1 AAAAAAA-AAACAAAAAAACAAAAAAAAACAAAACAACAACA
675957 AAAAAAAAAACAAAAAAACAAAAAAAAACAAAACAACAACA
1 AAAAAAAAAACAAAAAAACAAAAAAAAACAAAACAACAACA
675998 AAAA
1 AAAA
676002 GGGTCCGGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
37 6 0.09
38 16 0.23
39 9 0.13
40 31 0.44
41 8 0.11
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (41 bp):
AAAAAAAAAACAAAAAAACAAAAAAAAACAAAACAACAACA
Found at i:676001 original size:1 final size:1
Alignment explanation
Indices: 675880--675989 Score: 85
Period size: 1 Copynumber: 110.0 Consensus size: 1
675870 CGTCCTTCGC
* * * * * ** * *
675880 AAAAACAAAAAAAAAAACAAAAAAATAAAAAAACAAAAAAAAAAGAAAAAGGAAAGAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
675945 CAAAACAAAACAAAAAAAAAAACAAAAAAACAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
675990 CAACAACAAA
Statistics
Matches: 81, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 81 1.00
ACGTcount: A:0.86, C:0.09, G:0.04, T:0.01
Consensus pattern (1 bp):
A
Found at i:677534 original size:57 final size:57
Alignment explanation
Indices: 677446--678034 Score: 618
Period size: 57 Copynumber: 10.2 Consensus size: 57
677436 CACCTTTTCC
* *
677446 AAAGCCCACAAGT-TAGTGGCATCTTTTCTAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCCA-TGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * *
677503 AAAGCCAACAAGTCCATGGCATTTTTTCTAAAGCCCACAAGTTAGTGGCAACCTTCA
1 AAAGCCCACAAGTCCATGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * *
677560 AAAGCCCACAAGT-CAGTGGCACCCTTTTCCAAAGCCCACAAGTCTGTGGCATCTTTTCC
1 AAAGCCCACAAGTCCA-TGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
*
677619 AAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCCATGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
677676 AAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCCATGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * *
677733 AAAGCCCACAAGT-CAGTGGCACCCTTTTCCAAAGCCCACAAGTCTGTGGCATCTTTTCC
1 AAAGCCCACAAGTCCA-TGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
* * * * * *
677792 AAAGCCCACAAGT-CAGTGGCAAC-CTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCCA-TGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACC--TTCA
* *
677850 AAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAATGGCAACCTTCA
1 AAAGCCCACAAGTCCATGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * * * * * *
677907 AAAGCCCACAAGT-TAGTGGCAAC-CTTCAAAAGCCTACATGTTAGTGACACCCTTTTTC-
1 AAAGCCCACAAGTCCA-TGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACC---TTCA
* * * * * *
677965 AAAGCCCATAAGTCAATGGTATCTTTTCAAAAGCCAACAAGTCAATGGCAACCTTCA
1 AAAGCCCACAAGTCCATGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
678022 AAAGCACACAAGT
1 AAAGCCCACAAGT
678035 TGGTGCAACC
Statistics
Matches: 449, Mismatches: 64, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
56 27 0.06
57 202 0.45
58 123 0.27
59 96 0.21
60 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (57 bp):
AAAGCCCACAAGTCCATGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:677598 original size:115 final size:114
Alignment explanation
Indices: 677446--678060 Score: 677
Period size: 115 Copynumber: 5.3 Consensus size: 114
677436 CACCTTTTCC
* * * *
677446 AAAGCCCACAAGTTAGTGGCATCTTTTCTAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCAA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCA
* * *
677511 CAAGTCCATGGCATTTTTTCTAAAGCCCACAAGTTAGTGGCAACCTTCA
66 CAAGTCCATGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * *
677560 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCTGTGGCATCTTTTCCAAAGCC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCC
*
677625 CACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
64 CACAAGTCCATGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
677676 AAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCA
* * * * *
677741 CAAGT-CAGTGGCACCCTTTTCCAAAGCCCACAAGTCTGTGGCATCTTTTCC
66 CAAGTCCA-TGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
* * *
677792 AAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGC
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGC
* *
677855 CCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAATGGCAACCTTCA
63 CCACAAGTCCATGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * * *
677907 AAAGCCCACAAGTTAGTGGCAACC--TTCAAAAGCCTACATGTTAGTGACACCCTTTTTC-AAAG
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAAGCCCACAAGTCAGTGGCAACC---TTCAAAAG
* * * * * *
677969 CCCATAAGTCAATGGTATCTTTTCAAAAGCCAACAAGTCAATGGCAACCTTCA
62 CCCACAAGTCCATGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* ** * *
678022 AAAGCACACAAGTTGGT-GCAACCCTATCAAAAGCCCACA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAAGCCCACA
678061 TAAGTTGGTG
Statistics
Matches: 438, Mismatches: 51, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
113 1 0.00
114 47 0.11
115 225 0.51
116 141 0.32
117 23 0.05
118 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (114 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCA
CAAGTCCATGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:677728 original size:173 final size:173
Alignment explanation
Indices: 677439--678034 Score: 867
Period size: 173 Copynumber: 3.4 Consensus size: 173
677429 CATTCCTCAC
* *
677439 CTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCTAAAGCCCACAAGTCAGTGGCAACCTTCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAA
* * * * *
677504 AAGCCAACAAGTCCATGGCATTTTTTCTAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCAC
66 AAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCAC
677569 AAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCTGTGGCAT
131 AAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCTGTGGCAT
* *
677612 CTTTTCCAAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAA
677677 AAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCAC
66 AAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCAC
677742 AAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCTGTGGCAT
131 AAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCTGTGGCAT
* * * *
677785 CTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACC--TTC
* *
677849 CAAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAATGGCAACCTTCAAAAGCCC
64 AAAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCC
* * * * * * *
677914 ACAAGTTAGTGGCAACC--TTCAAAAGCCTACATGT-TAGTGACACC
129 ACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCT-GTGGCA-T
* * * * * *
677958 CTTTTTCAAAGCCCATAAGTCAATGGTATCTTTTCAAAAGCCAACAAGTCAATGGCAACCTTCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAA
*
678023 AAGCACACAAGT
66 AAGCCCACAAGT
678035 TGGTGCAACC
Statistics
Matches: 383, Mismatches: 35, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
171 1 0.00
172 59 0.15
173 218 0.57
174 105 0.27
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (173 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAA
AAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCAC
AAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCTGTGGCAT
Found at i:678020 original size:87 final size:85
Alignment explanation
Indices: 677439--678034 Score: 751
Period size: 87 Copynumber: 6.9 Consensus size: 85
677429 CATTCCTCAC
* * * *
677439 CTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCTAAAGCCCACAAGTCAGTGGCAACCTTCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAA
* *
677504 AAGCCAACAAGTCCATGGCAT
65 AAGCCCACAAGTCCGTGGCAT
* * * * *
677525 TTTTTCTAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACC--TTCA
*
677590 AAAGCCCACAAGTCTGTGGCAT
64 AAAGCCCACAAGTCCGTGGCAT
* * * *
677612 CTTTTCCAAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAA
677677 AAGCCCACAAGTCCGTGGCAT
65 AAGCCCACAAGTCCGTGGCAT
* *
677698 CTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACC--TTCA
*
677763 AAAGCCCACAAGTCTGTGGCAT
64 AAAGCCCACAAGTCCGTGGCAT
* * *
677785 CTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACC--TTCA
677850 AAAGCCCACAAGTCCGTGGCAT
64 AAAGCCCACAAGTCCGTGGCAT
* *
677872 CTTTTCCAAAGCCCACAAGTCAATGGCAACCTTCAAAAGCCCACAAGTTAGTGGCAACCTTCAAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAA
* * ** * *
677937 AGCCTACATGTTAGTGACACC
66 AGCCCACAAGTCCGTGGCA-T
* * * * * * * *
677958 CTTTTTCAAAGCCCATAAGTCAATGGTATCTTTTCAAAAGCCAACAAGTCAATGGCAACCTTCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAA
*
678023 AAGCACACAAGT
65 AAGCCCACAAGT
678035 TGGTGCAACC
Statistics
Matches: 454, Mismatches: 49, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
85 71 0.16
86 105 0.23
87 252 0.56
88 26 0.06
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (85 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAA
AGCCCACAAGTCCGTGGCAT
Found at i:678053 original size:29 final size:28
Alignment explanation
Indices: 677990--678070 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
677980 ATGGTATCTT
***
677990 TTCAAAAGCCA-ACAAGTCAATGGCAACC
1 TTCAAAAGCCACACAAGTTGGT-GCAACC
678018 TTCAAAAG-CACACAAGTTGGTGCAACCC
1 TTCAAAAGCCACACAAGTTGGTGCAA-CC
*
678046 TATCAAAAGCCCACATAAGTTGGTG
1 T-TCAAAAG-CCACACAAGTTGGTG
678071 GCATCTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 6 0.14
28 18 0.41
29 7 0.16
31 13 0.30
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (28 bp):
TTCAAAAGCCACACAAGTTGGTGCAACC
Found at i:678069 original size:31 final size:27
Alignment explanation
Indices: 678012--678070 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 27
678002 CAAGTCAATG
678012 GCAACCTTCAAAAGCACACAAGTTGGT
1 GCAACCTTCAAAAGCACACAAGTTGGT
*
678039 GCAACCCTATCAAAAGCCCACATAAGTTGGT
1 GCAA-CCT-TCAAAAG--CACACAAGTTGGT
678070 G
1 G
678071 GCATCTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 4 0.15
28 3 0.11
29 7 0.26
31 13 0.48
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (27 bp):
GCAACCTTCAAAAGCACACAAGTTGGT
Found at i:678239 original size:49 final size:49
Alignment explanation
Indices: 678171--678450 Score: 254
Period size: 49 Copynumber: 5.8 Consensus size: 49
678161 CACCTTTAAA
*
678171 CCAATGTCGCTGGCTTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* *
678220 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
*
678263 CCAATGTCG-TCGGCCTTGAATCAGCACATTGGTATCTTCATCTTTAAGT
1 CCAATGTCGCT-GGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
** * * * * * * *
678312 CTGATATCGTTGGCCTTGAATCAGCATATTGGAATCTTTAACATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT--TAAGT
** * *
678364 CCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * * *
678411 CTAATGTCGCTAGTCATGAATCAGCACATTGTCATTCTTC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTC
678451 GTATCTTCGA
Statistics
Matches: 183, Mismatches: 34, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
42 1 0.01
43 37 0.20
45 1 0.01
47 31 0.17
49 74 0.40
50 9 0.05
52 30 0.16
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
Found at i:678278 original size:43 final size:43
Alignment explanation
Indices: 678082--678294 Score: 234
Period size: 42 Copynumber: 4.9 Consensus size: 43
678072 CATCTTCTTC
* * ** *
678082 TAAGTCCAATATCTCTGGCCTCGAATCAATATATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
678125 TAA-ACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
678167 TAA-ACCAATGTCGCTGGCTTTGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
*
678215 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
*
678258 TAAGTCCAATGTCG-TCGGCCTTGAATCAGCACATTGG
1 TAAGTCCAATATCGCT-GGCCTTGAATCAGCACATTGG
678295 TATCTTCATC
Statistics
Matches: 148, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
42 70 0.47
43 39 0.26
45 1 0.01
46 1 0.01
48 6 0.04
49 31 0.21
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:678310 original size:92 final size:91
Alignment explanation
Indices: 678129--678352 Score: 351
Period size: 92 Copynumber: 2.5 Consensus size: 91
678119 CACCTTTAAA
*
678129 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAACCAATGTCGCTGGCTTTGAATCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAACCAATGTCGCTGGCCTTGAATCA
678194 GCACATTGGCATCTTCATCTTTAAGT
66 GCACATTGGCATCTTCATCTTTAAGT
*
678220 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCG-TCGGCCTTGAAT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAA-ACCAATGTCGCT-GGCCTTGAAT
*
678284 CAGCACATTGGTATCTTCATCTTTAAGT
64 CAGCACATTGGCATCTTCATCTTTAAGT
** * * *
678312 CTGATATCGTTGGCCTTGAATCAGCATATTGGAATCTTTAA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAA
678353 CATTCCTAAG
Statistics
Matches: 123, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
91 42 0.34
92 81 0.66
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (91 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAACCAATGTCGCTGGCCTTGAATCA
GCACATTGGCATCTTCATCTTTAAGT
Found at i:679199 original size:13 final size:13
Alignment explanation
Indices: 679181--679205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
679171 TTCAACAATT
679181 TGTATCGATACAA
1 TGTATCGATACAA
679194 TGTATCGATACA
1 TGTATCGATACA
679206 TAAGTGTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:683042 original size:23 final size:23
Alignment explanation
Indices: 682999--683042 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
682989 TATGAACAGT
* *
682999 TATTTATAATTATTATACAATTA
1 TATTAATAATTATAATACAATTA
683022 TATTAATAATGTATAAT-CAAT
1 TATTAATAAT-TATAATACAAT
683043 AAAAGTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTAATAATTATAATACAATTA
Found at i:683449 original size:20 final size:19
Alignment explanation
Indices: 683402--683452 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
683392 TAAAATAAAT
*
683402 AAAATATAAAT-TTATTTG
1 AAAATAAAAATATTATTTG
683420 AAAATAAAAATATTATCTTG
1 AAAATAAAAATATTAT-TTG
* *
683440 TAAATCAAAATAT
1 AAAATAAAAATAT
683453 AAAGATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 10 0.36
19 4 0.14
20 14 0.50
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (19 bp):
AAAATAAAAATATTATTTG
Found at i:683888 original size:118 final size:121
Alignment explanation
Indices: 683713--683949 Score: 338
Period size: 120 Copynumber: 2.0 Consensus size: 121
683703 TTCAAAATTA
*
683713 TTTTTCAATAATCAAGAACATCAAGTTTCTCATAAACTTCCCTAAACTCGTCC-AAAA-AAATTC
1 TTTTTCAATAATCAAGAACATCAAGTTTCTCATAAACTTCCCTAAACTCATCCAAAAATAAATTC
* *
683776 TCTA-TACTATATTATATAGATCTAATTTTATAAATTTTAAATCCCTAT-ATTAACT
66 TCTATTA-TATATAATATAGATCTAATTGTATAAATTTTAAATCCCTATAATTAACT
* * * ** * *
683831 TTTTTCAATAATCAAGGACATCAAGTTTTTCATAAATTTTTCTAAGCTCATCTAAAAATAAATTC
1 TTTTTCAATAATCAAGAACATCAAGTTTCTCATAAACTTCCCTAAACTCATCCAAAAATAAATTC
*
683896 TCTATTATATATAATATAGATCTAATTGTATAAATTTTAAATCCTTATAATTAA
66 TCTATTATATATAATATAGATCTAATTGTATAAATTTTAAATCCCTATAATTAA
683950 AGTAAGTTCA
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
118 45 0.43
119 4 0.04
120 48 0.46
121 7 0.07
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.41
Consensus pattern (121 bp):
TTTTTCAATAATCAAGAACATCAAGTTTCTCATAAACTTCCCTAAACTCATCCAAAAATAAATTC
TCTATTATATATAATATAGATCTAATTGTATAAATTTTAAATCCCTATAATTAACT
Found at i:684113 original size:14 final size:14
Alignment explanation
Indices: 684094--684120 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
684084 ATTAATGTCA
684094 AAAAATAAAATATT
1 AAAAATAAAATATT
684108 AAAAATAAAATAT
1 AAAAATAAAATAT
684121 CAGTATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAATAAAATATT
Found at i:685138 original size:27 final size:27
Alignment explanation
Indices: 685106--685160 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
685096 TTAAATACTA
685106 TATATTAATA-AAAT-TATTATATAATTT
1 TATATTAATATAAATAT-TTAT-TAATTT
*
685133 TATATTTATATAAATATTTATTAATTT
1 TATATTAATATAAATATTTATTAATTT
685160 T
1 T
685161 TTAAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 16 0.64
28 8 0.32
29 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TATATTAATATAAATATTTATTAATTT
Found at i:686137 original size:24 final size:24
Alignment explanation
Indices: 686105--686152 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
686095 TTTTTTTGGA
686105 TAAGTTTTTACTATTCCTACTAAT
1 TAAGTTTTTACTATTCCTACTAAT
*
686129 TAAGTTTTTACTGTTCCTACTAAT
1 TAAGTTTTTACTATTCCTACTAAT
686153 CTATCATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (24 bp):
TAAGTTTTTACTATTCCTACTAAT
Found at i:687045 original size:49 final size:49
Alignment explanation
Indices: 686820--688383 Score: 1402
Period size: 49 Copynumber: 31.9 Consensus size: 49
686810 AGTGATAAAA
* * *
686820 GTGCCAACATGCTGATTC-AGGACCAGTGATATTGGACTTAAAGATGTAAAG
1 GTGCCAATATGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATG--AAG
* * * * * * * *
686871 AATGTCAATGTGCTGATTCACGGTCAGCGACATTAGTCTTGAAGATGAAAAG
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAG
* * * **
686923 AATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAG
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAG
* * *
686977 GCGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* * *
687026 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAG
* *
687078 GTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* * *
687121 GTGCCAATGTGCTGATTCGAGGCCAGCGACATTGGTAC-TAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG-ACTTAAAGATGAAG
* * * *
687170 GTGCCAATATGCTAATTCAAGGCCAGCGATATTGGTCTAAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* *
687219 GTGCCAATATGCTGATTCAAAGCCAGTGACATTGGACTTAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAG
* *
687271 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT----A--AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* * *
687314 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTAC-TAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG-ACTTAAAGATGAAG
* * * *
687363 GTGCCAATATGCTGATTCAAGGCTAGTGATATTGGACTAAAAGATGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAG
* * * * * * *
687414 AATGTCAATGTGCTGATTCACA-GTCAGCGACATTAGTCTTGAAGATGAAAAG
1 -GTGCCAATATGCTGATTCA-AGGCCAGCGACATTGGACTTAAAGATG--AAG
** * * * * * **
687466 AACGCCAATGTGCTGATTCAAAGCTAACGACTTTGGGTTTTAAAGATGACGAAG
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAG
* * * * * *
687520 GCGTCAATATGCTAATTCAAGGCTAGCGATATTGGACTCAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
*
687569 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAG
*
687621 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* * *
687664 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTAC-TAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG-ACTTAAAGATGAAG
* * *
687713 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTAAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* *
687762 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAG
* * *
687814 GCGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT----A--AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* * *
687857 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTAC-TAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG-ACTTAAAGATGAAG
* *
687906 GTGCCAATATGCTGATTCAAGGCCAGTC-ATATTGGTCTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAG-CGACATTGGACTTAAAGATGAAG
* * * *
687955 GTGTCAATGTGCTAATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAG
* * * * *
688007 GCGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAGAGATGAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* * *
688056 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* *
688104 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT----A--AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* *
688147 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAG
* * *
688199 GCGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
*
688247 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-AT----
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* * *
688290 GTGCCAATGTGCTGATTCAAGGCCAGAGACATTGGTCTTAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAG
* * *
688342 GTGCCAATATGCT-ATTTAAGGCCAGCGATATTGGGCTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
688384 GAAAACGCCA
Statistics
Matches: 1248, Mismatches: 182, Indels: 165
0.78 0.11 0.10
Matches are distributed among these distances:
43 213 0.17
44 11 0.01
45 2 0.00
46 1 0.00
47 7 0.01
48 86 0.07
49 418 0.33
51 29 0.02
52 400 0.32
53 73 0.06
54 6 0.00
56 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
Found at i:687259 original size:193 final size:192
Alignment explanation
Indices: 686925--688383 Score: 1402
Period size: 193 Copynumber: 7.5 Consensus size: 192
686915 ATGAAAAGAA
* * ** *
686925 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATT-GGTACTAAAGAT-A--AAGGTGCCAATATGCT
* * * *
686990 GATTCAAGGCTAGCGATATTGGACTTAAAGATG-AAGGTGCCAATGTGTTGATTCAAGGCCAGCG
62 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* * *
687054 ACATTAGACTTAAAGATGACAAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
127 ACATTGGACTT-AAGATGA-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAA
687119 AGG
190 AGG
* * *
687122 TGCCAATGTGCTGATTCGAGGCCAGCGACATTGGTACTAAAGATAAAGGTGCCAATATGCTAATT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTACTAAAGATAAAGGTGCCAATATGCTGATT
* * * * *
687187 CAAGGCCAGCGATATTGGTCTAAAAGATG-AAGGTGCCAATATGCTGATTCAAAGCCAGTGACAT
66 CAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACAT
* *
687251 TGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGG
131 TGGACTT-AAGATGA-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* *
687315 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTACTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTACTAAAGATAAAGGTGCCAATATGCTGATT
* * * * * * * *
687380 CAAGGCTAGTGATATTGGACTAAAAGATGTAAAGAATGTCAATGTGCTGATTCACA-GTCAGCGA
66 CAAGGCCAGCGACATTGGACTTAAAGATG-AAAG-GTGCCAATATGCTGATTCA-AGGCCAGCGA
* * ** * * * **
687444 CATTAGTCTTGAAGATGAAAAGAACGCCAATGTGCTGATTCAAAGCTAACGACT-TTGGGTTTTA
128 CATTGGACTT-AAGATGAAAAG-GTGCCAATGTGCTGATTCAAGGCCAGCGA-TATT-GGACTT-
687508 AAGATGACG
188 AA-A-G--G
* * * * * *
687517 AAGGCGTCAATATGCTAATTCAAGGCTAGCGATATTGG-ACTCAAAGATGAAGGTGCCAATGTGC
1 --TGC--CAATATGCTGATTCAAGGCCAGCGACATTGGTACT-AAAGATAAAGGTGCCAATATGC
687581 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCA
61 TGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCA
* * *
687646 GCGATATTGGAC-T----T--AAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTACTA
124 GCGACATTGGACTTAAGATGAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGG-ACT-
687704 AAGATAAAGG
187 ----TAAAGG
* * *
687714 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGT-CTAAAAGATGAAGGTGCCAATGTGCTGAT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTACT-AAAGATAAAGGTGCCAATATGCTGAT
* *
687778 TCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGA
65 TCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
* * * *
687843 TATTAGAC-T----T--AAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTACTAAAGA
128 CATTGGACTTAAGATGAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGG-ACT-----
687901 TAAAGG
187 TAAAGG
* * * * *
687907 TGCCAATATGCTGATTCAAGGCCAGTC-ATATTGGT-CTTAAAGATGAAGGTGTCAATGTGCTAA
1 TGCCAATATGCTGATTCAAGGCCAG-CGACATTGGTAC-TAAAGATAAAGGTGCCAATATGCTGA
* * *
687970 TTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCA
64 TTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* * *
688035 ATATTGGACTTAGAGATG-AAA-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
127 ACATTGGACTTA-AGATGAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT---
688098 GACAAGG
188 -A-AAGG
* * *
688105 TGCCAATATGCTGATTCAAGGCCAACGATATTGG-ACT-----TAAAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTACTAAAGATAAAGGTGCCAATATGCTGATT
* *
688164 CAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGAC
66 CAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGAC
* * * *
688229 ATTGGTCTTAA-A-GACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAATG
129 ATTGGACTTAAGATGAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* *
688291 TGCCAATGTGCTGATTCAAGGCCAGAGACATTGGT-CTTAAAGATGACAAAGGTGCCAATATGCT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTAC-TAAAGAT---AAAGGTGCCAATATGCT
* * *
688355 -ATTTAAGGCCAGCGATATTGGGCTTAAAG
62 GATTCAAGGCCAGCGACATTGGACTTAAAG
688384 GAAAACGCCA
Statistics
Matches: 1102, Mismatches: 105, Indels: 113
0.83 0.08 0.09
Matches are distributed among these distances:
186 34 0.03
187 2 0.00
189 1 0.00
190 3 0.00
191 37 0.03
192 90 0.08
193 533 0.48
194 29 0.03
195 26 0.02
196 74 0.07
197 65 0.06
198 44 0.04
199 37 0.03
200 6 0.01
201 2 0.00
202 2 0.00
204 2 0.00
205 5 0.00
206 106 0.10
207 4 0.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (192 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTACTAAAGATAAAGGTGCCAATATGCTGATT
CAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACAT
TGGACTTAAGATGAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
Found at i:687847 original size:543 final size:542
Alignment explanation
Indices: 686813--688384 Score: 2241
Period size: 543 Copynumber: 2.9 Consensus size: 542
686803 GAGGAGGAGT
* *
686813 GATAAAAGTGCCAACATGCTGATTC-AGGACCAGTGATATTGGACTTAAAGATGTAAAGAATGTC
1 GATAAAGGTGCCAATATGCTGATTCAAGG-CCAGTGATATTGGACTTAAAGATGTAAAGAATGTC
* *
686877 AATGTGCTGATTCACGGTCAGCGACATTAGTCTTGAAGATGAAAAGAATGCCAATGTGCTGATTC
65 AATGTGCTGATTCACAGTCAGCGACATTAGTCTTGAAGATGAAAAGAACGCCAATGTGCTGATTC
*
686942 AAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGCTAGCGAT
130 AAGGCCAACGACTTTGGGTTTTAAAGATGACGAAGGCG-CAATATGCTGATTCAAGGCTAGCGAT
* *
687007 ATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTAGACTTAAAGATG
194 ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
*
687072 ACAAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAT
259 ACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAT
* *
687137 TCGAGGCCAGCGACATTGGTACTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATAT
324 TCAAGGCCAGCGACATTGGTACTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
* * *
687202 TGGTCTAAAAGATGAAGGTGCCAATATGCTGATTCAAAGCCAGTGACATTGGACTTAAAGATGAC
389 TGGTCTAAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGAGACATTGGACTTAAAGATGAC
687267 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATGTGCTGATTC
454 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATGTGCTGATTC
*
687332 AAGGCTAGCGACATTGGTACTAAA
519 AAGGCCAGCGACATTGGTACTAAA
* *
687356 GATAAAGGTGCCAATATGCTGATTCAAGGCTAGTGATATTGGACTAAAAGATGTAAAGAATGTCA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGTAAAGAATGTCA
687421 ATGTGCTGATTCACAGTCAGCGACATTAGTCTTGAAGATGAAAAGAACGCCAATGTGCTGATTCA
66 ATGTGCTGATTCACAGTCAGCGACATTAGTCTTGAAGATGAAAAGAACGCCAATGTGCTGATTCA
* * *
687486 AAGCTAACGACTTTGGGTTTTAAAGATGACGAAGGCGTCAATATGCTAATTCAAGGCTAGCGATA
131 AGGCCAACGACTTTGGGTTTTAAAGATGACGAAGGCG-CAATATGCTGATTCAAGGCTAGCGATA
*
687551 TTGGACTCAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
195 TTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
687616 CAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATT
260 CAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATT
*
687681 CAAGGCCAGCAACATTGGTACTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
325 CAAGGCCAGCGACATTGGTACTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
* *
687746 GGTCTAAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACA
390 GGTCTAAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGAGACATTGGACTTAAAGATGACA
*
687811 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATGTGCTGATTCA
455 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATGTGCTGATTCA
*
687876 AGGCCAGTGACATTGGTACTAAA
520 AGGCCAGCGACATTGGTACTAAA
* * *
687899 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGTCATATTGGTCTTAAAGATG--AAG-GTGTCA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGTAAAGAATGTCA
* * * * * * *
687961 ATGTGCTAATTCA-AGGCTAGCGACATTGGACTTAAAGATGACAAAG-GCGCCAATATGCTGATT
66 ATGTGCTGATTCACAGTC-AGCGACATTAGTCTTGAAGATGA-AAAGAACGCCAATGTGCTGATT
* * ** * * *
688024 CAAGGCCAGC-AATATT-GGACTTAGAGATGA--AAGTGC-CAATGTGCTGATTCAAGGCCAGCG
129 CAAGGCCAACGACT-TTGGGTTTTAAAGATGACGAAG-GCGCAATATGCTGATTCAAGGCTAGCG
* * * * * *
688084 ACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC-T-----
192 ATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* * * *
688142 T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCC
257 TGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGGTGCC
* *
688204 AATATGCTGATTCAAGGCCAGCGACATTGGT-CTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
313 AATGTGCTGATTCAAGGCCAGCGACATTGGTAC-TAAAGATAAAGGTGCCAATATGCTGATTCAA
* * *
688267 GGCCAGCGATATTGGACT-TAA-AT----GTGCCAATGTGCTGATTCAAGGCCAGAGACATTGGT
377 GGCCAGCGATATTGGTCTAAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGAGACATTGGA
* * *
688326 CTTAAAGATGACAAAGGTGCCAATATGCT-ATTTAAGGCCAGCGATATTGGGCTTAAAGG
442 CTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGG
688385 AAAACGCCAC
Statistics
Matches: 944, Mismatches: 70, Indels: 46
0.89 0.07 0.04
Matches are distributed among these distances:
526 38 0.04
527 28 0.03
528 61 0.06
529 1 0.00
532 3 0.00
533 2 0.00
534 42 0.04
535 80 0.08
536 34 0.04
537 3 0.00
538 2 0.00
539 16 0.02
540 61 0.06
541 7 0.01
543 563 0.60
544 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (542 bp):
GATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGTAAAGAATGTCA
ATGTGCTGATTCACAGTCAGCGACATTAGTCTTGAAGATGAAAAGAACGCCAATGTGCTGATTCA
AGGCCAACGACTTTGGGTTTTAAAGATGACGAAGGCGCAATATGCTGATTCAAGGCTAGCGATAT
TGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTC
AAGGCCAGCGACATTGGTACTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
GTCTAAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGAGACATTGGACTTAAAGATGACAA
AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGTACTAAA
Found at i:688465 original size:27 final size:27
Alignment explanation
Indices: 688420--688615 Score: 187
Period size: 27 Copynumber: 6.9 Consensus size: 27
688410 TTTGAAAGGG
*
688420 AAAGATGCCACAGAGTTGTGGACTTAA
1 AAAGGTGCCACAGAGTTGTGGACTTAA
* *
688447 AAAGGTGCCACGGATTTGTGGACTTAA
1 AAAGGTGCCACAGAGTTGTGGACTTAA
*
688474 AAGGGTGCCAC-GAAGTTGTGGACTTAA
1 AAAGGTGCCACAG-AGTTGTGGACTTAA
* *
688501 AAAGGGTGCCACAGAGTTGTTGACCTAAAA
1 AAA-GGTGCCACAGAGTTGTGGA-CT-TAA
688531 GGAAAGAAAGTGCCACAGAGTTGTGGACTTTAA
1 --AAAG---GTGCCACAGAGTTGTGGAC-TTAA
* * *
688564 AAGGGTGCCACGGAGTTGTGGGCTTAA
1 AAAGGTGCCACAGAGTTGTGGACTTAA
* * *
688591 AAGGGTGCTATAGAGTTGTGGACTT
1 AAAGGTGCCACAGAGTTGTGGACTT
688616 TGAAGAAAAG
Statistics
Matches: 141, Mismatches: 17, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
26 1 0.01
27 74 0.52
28 33 0.23
29 3 0.02
30 2 0.01
31 4 0.03
32 3 0.02
33 3 0.02
34 18 0.13
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (27 bp):
AAAGGTGCCACAGAGTTGTGGACTTAA
Found at i:688592 original size:62 final size:62
Alignment explanation
Indices: 688478--688594 Score: 173
Period size: 62 Copynumber: 1.9 Consensus size: 62
688468 ACTTAAAAGG
*
688478 GTGCCACGAAGTTGTGGACTTAAAAAGGGTGCCACAGAGTTGTTGACCTAAAAGGAAAGAAA
1 GTGCCACGAAGTTGTGGACTTAAAAAGGGTGCCACAGAGTTGTGGACCTAAAAGGAAAGAAA
* * * *
688540 GTGCCAC-AGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAAAGG
1 GTGCCACGA-AGTTGTGGACTTAAAAAGGGTGCCACAGAGTTGTGGACCTAAAAGG
688595 GTGCTATAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 1 0.02
62 48 0.98
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (62 bp):
GTGCCACGAAGTTGTGGACTTAAAAAGGGTGCCACAGAGTTGTGGACCTAAAAGGAAAGAAA
Found at i:688626 original size:89 final size:88
Alignment explanation
Indices: 688425--688651 Score: 245
Period size: 89 Copynumber: 2.6 Consensus size: 88
688415 AAGGGAAAGA
* * *
688425 TGCCACAGAGTTGTGGA-CT--TA-AAAAG-GTGCCACGGATTTGTGGAC-TTAAAAGGGTGCCA
1 TGCCACAGAGTTGTGGACCTAAAAGAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCA
688484 CGAAGTTGTGGACTTAAAAAGGG
66 CGAAGTTGTGGACTTAAAAAGGG
* *
688507 TGCCACAGAGTTGTTGACCTAAAAGGAAAGAAAGTGCCACAGAGTTGTGGACTTTAAAAGGGTGC
1 TGCCACAGAGTTGTGGACCTAAAA-GAAA-AGAGTGCCACAGAGTTGTGGACTTTAAAAGGGTGC
* *
688572 CACGGAGTTGTGGGCTT-AAAAGGG
64 CACGAAGTTGTGGACTTAAAAAGGG
* * * ** * **
688596 TGCTATAGAGTTGTGGACTTTGAAGAAAAGA-TGCCACTGAGTCATGGACTTTAAAA
1 TGCCACAGAGTTGTGGACCTAAAAGAAAAGAGTGCCACAGAGTTGTGGACTTTAAAA
688652 AGAGATTGCC
Statistics
Matches: 120, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
82 16 0.13
83 2 0.02
85 1 0.01
86 22 0.18
87 5 0.04
88 5 0.04
89 42 0.35
90 27 0.22
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (88 bp):
TGCCACAGAGTTGTGGACCTAAAAGAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCA
CGAAGTTGTGGACTTAAAAAGGG
Found at i:688644 original size:31 final size:31
Alignment explanation
Indices: 688603--688776 Score: 144
Period size: 31 Copynumber: 5.6 Consensus size: 31
688593 GGGTGCTATA
688603 GAGTTGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTTGTGGACTTTGAAGAAAAGATGCCACT
**
688634 GAGTCATGGACTTT-AA-AAAGAGATTGCCACT
1 GAGTTGTGGACTTTGAAGAAA-AGA-TGCCACT
* * *
688665 GGGTTGTGGACTTTGGAGAAAAAAATGCCACT
1 GAGTTGTGGACTTTGAAG-AAAAGATGCCACT
* * *
688697 AAGTTGTGGTCTTTG-GGACAAA-ATGCCACT
1 GAGTTGTGGACTTTGAAGA-AAAGATGCCACT
* * * *
688727 GAGTCGTGGGCTTTG-AGAAGAGATTGCCACC
1 GAGTTGTGGACTTTGAAGAAAAGA-TGCCACT
*
688758 GAGTTATGGACTTT-AAGAA
1 GAGTTGTGGACTTTGAAGAA
688777 GGTATTTGAA
Statistics
Matches: 114, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
29 5 0.04
30 29 0.25
31 55 0.48
32 20 0.18
33 2 0.02
34 3 0.03
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.26
Consensus pattern (31 bp):
GAGTTGTGGACTTTGAAGAAAAGATGCCACT
Found at i:688654 original size:117 final size:116
Alignment explanation
Indices: 688419--688678 Score: 285
Period size: 117 Copynumber: 2.2 Consensus size: 116
688409 TTTTGAAAGG
*
688419 GAAAGATGCCACAGAGTTGTGGAC-TTAAAAAGGTGCCACGGATTTGTGGACTTAAAAGGGTGCC
1 GAAAG-TGCCACAGAGTTGTGGACTTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
* * * ** *
688483 ACGAAGTTGTGGACTTAAAAAGGGTGCCACAGAGTTGTTGACCTAAAAGGAAA
65 AAGAAGTTGTGGACTTAAAAAAGATGCCACAGAGTCATGGACCTAAAA-GAAA
* * *
688536 GAAAGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCTA
1 GAAAGTGCCACAGAGTTGTGGACTTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
* **
688601 TAG-AGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGA-CTTTAA-AAA
66 -AGAAGTTGTGGAC-TT-AA-AAAAGATGCCACAGAGTCATGGACCTAAAAGAAA
* * * *
688653 GAGATTGCCACTGGGTTGTGGACTTT
1 GAAAGTGCCACAGAGTTGTGGACTTT
688679 GGAGAAAAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
116 18 0.15
117 77 0.64
118 3 0.02
119 6 0.05
120 17 0.14
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (116 bp):
GAAAGTGCCACAGAGTTGTGGACTTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
AGAAGTTGTGGACTTAAAAAAGATGCCACAGAGTCATGGACCTAAAAGAAA
Found at i:688777 original size:31 final size:31
Alignment explanation
Indices: 688541--688777 Score: 136
Period size: 31 Copynumber: 7.9 Consensus size: 31
688531 GGAAAGAAAG
* *
688541 TGCCACAGAGTTGTGGACTTTAA-AAG-G-G
1 TGCCACTGAGTTGTGGACTTTAAGAAGAGAA
* * *
688569 TGCCACGGAGTTGTGGGC-TTAA-AAG-G-G
1 TGCCACTGAGTTGTGGACTTTAAGAAGAGAA
* *
688596 TGCTA-TAGAGTTGTGGACTTTGAAGAAAAG-A
1 TGCCACT-GAGTTGTGGACTTT-AAGAAGAGAA
** * *
688627 TGCCACTGAGTCATGGACTTTAAAAAGAGAT
1 TGCCACTGAGTTGTGGACTTTAAGAAGAGAA
* * * *
688658 TGCCACTGGGTTGTGGACTTTGGAGAAAAAAA
1 TGCCACTGAGTTGTGGACTTT-AAGAAGAGAA
* * **
688690 TGCCACTAAGTTGTGGTCTTTGGGACA-A-AA
1 TGCCACTGAGTTGTGGACTTTAAGA-AGAGAA
* * * *
688720 TGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTTGTGGACTTTAAGAAGAGAA
* *
688751 TGCCACCGAGTTATGGACTTTAAGAAG
1 TGCCACTGAGTTGTGGACTTTAAGAAG
688778 GTATTTGAAG
Statistics
Matches: 163, Mismatches: 35, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
27 23 0.14
28 18 0.11
29 3 0.02
30 32 0.20
31 62 0.38
32 25 0.15
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTTGTGGACTTTAAGAAGAGAA
Found at i:690067 original size:13 final size:13
Alignment explanation
Indices: 690049--690095 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
690039 ACTTCTTTTG
*
690049 TGTTTTTTTGTTT
1 TGTTTTTTTGTGT
690062 TGTTTTTTT-TGT
1 TGTTTTTTTGTGT
690074 TGTTTTTTTGTGT
1 TGTTTTTTTGTGT
690087 TGTTTTTTT
1 TGTTTTTTT
690096 TGGGGGTGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (13 bp):
TGTTTTTTTGTGT
Found at i:690069 original size:12 final size:12
Alignment explanation
Indices: 690052--690094 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
690042 TCTTTTGTGT
690052 TTTTTTGTTTTG
1 TTTTTTGTTTTG
690064 TTTTTT-TTGTTG
1 TTTTTTGTT-TTG
*
690076 TTTTTTTGTGTTG
1 -TTTTTTGTTTTG
690089 TTTTTT
1 TTTTTT
690095 TTGGGGGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 2 0.07
12 15 0.56
13 9 0.33
14 1 0.04
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (12 bp):
TTTTTTGTTTTG
Found at i:690077 original size:25 final size:24
Alignment explanation
Indices: 690044--690097 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 24
690034 TTTGCACTTC
*
690044 TTTTGTGTTTTTTTGTTTTGTTTT
1 TTTTGTGTTTTTTTGTGTTGTTTT
690068 TTTTGTTGTTTTTTTGTGTTGTTTT
1 TTTTG-TGTTTTTTTGTGTTGTTTT
690093 TTTTG
1 TTTTG
690098 GGGGTGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (24 bp):
TTTTGTGTTTTTTTGTGTTGTTTT
Found at i:696785 original size:19 final size:19
Alignment explanation
Indices: 696761--696855 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 19
696751 AGCGATACAT
696761 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
696780 TGTATCGAT-----A-TAA
1 TGTATCGATACAACACTTA
*
696793 GGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
696812 TGTATCGAT---ATA--T-
1 TGTATCGATACAACACTTA
696825 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
696844 TGTATCGATACA
1 TGTATCGATACA
696856 GTTACAGTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 24
0.66 0.07 0.27
Matches are distributed among these distances:
13 19 0.33
14 2 0.03
16 4 0.07
18 2 0.03
19 31 0.53
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:696789 original size:32 final size:32
Alignment explanation
Indices: 696753--696855 Score: 170
Period size: 32 Copynumber: 3.2 Consensus size: 32
696743 AGCTTCGTAG
696753 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
* **
696785 CGATATAAGGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
696817 CGATATATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
696849 CGATACA
1 CGATACA
696856 GTTACAGTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:698087 original size:24 final size:24
Alignment explanation
Indices: 698059--698106 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
698049 TTTTTTGGGA
698059 TAAGTTTTTACTATTCCTACTAAT
1 TAAGTTTTTACTATTCCTACTAAT
*
698083 TAAGTTTTTACTGTTCCTACTAAT
1 TAAGTTTTTACTATTCCTACTAAT
698107 CTATCATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (24 bp):
TAAGTTTTTACTATTCCTACTAAT
Found at i:700016 original size:20 final size:20
Alignment explanation
Indices: 699991--700028 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
699981 CCAAAGAACC
699991 AATCGACCTAGACCTCATCT
1 AATCGACCTAGACCTCATCT
700011 AATCGACCTAGACCTCAT
1 AATCGACCTAGACCTCAT
700029 TATGATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.24
Consensus pattern (20 bp):
AATCGACCTAGACCTCATCT
Found at i:701820 original size:17 final size:18
Alignment explanation
Indices: 701793--701827 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
701783 TGAAACTCAT
701793 AGTAGGGAAAAGAGCTTA
1 AGTAGGGAAAAGAGCTTA
*
701811 AGTA-GGAAAAGGGCTTA
1 AGTAGGGAAAAGAGCTTA
701828 GAAAATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.43, C:0.06, G:0.34, T:0.17
Consensus pattern (18 bp):
AGTAGGGAAAAGAGCTTA
Found at i:705804 original size:20 final size:19
Alignment explanation
Indices: 705762--705814 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
705752 ATTACAAGGT
705762 ATGTATCGATACATTTCTTC
1 ATGTATCGATACATTTC-TC
705782 ATGTATCGATACATTGTAC-C
1 ATGTATCGATACATT-T-CTC
*
705802 ATGTATTGATACA
1 ATGTATCGATACA
705815 AATAGTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTTCTC
Found at i:708369 original size:13 final size:13
Alignment explanation
Indices: 708351--708390 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
708341 ATAGTACCCT
708351 ATGTATCGATACA
1 ATGTATCGATACA
*
708364 ATGTATTGATACA
1 ATGTATCGATACA
708377 ATGTATCGATACA
1 ATGTATCGATACA
708390 A
1 A
708391 GGAATGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:709197 original size:33 final size:33
Alignment explanation
Indices: 709160--709226 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
709150 TTCAATGATT
709160 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
709193 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
709226 T
1 T
709227 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:709198 original size:13 final size:13
Alignment explanation
Indices: 709180--709204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
709170 CATAAAATGT
709180 TGTATCGATACAA
1 TGTATCGATACAA
709193 TGTATCGATACA
1 TGTATCGATACA
709205 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:709285 original size:13 final size:13
Alignment explanation
Indices: 709267--709291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
709257 ATTACTCAAA
709267 TGTATCGATACAT
1 TGTATCGATACAT
709280 TGTATCGATACA
1 TGTATCGATACA
709292 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:723249 original size:3 final size:3
Alignment explanation
Indices: 723241--723270 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
723231 TGAAGAGGAA
*
723241 GAT GAT GAT GAT GAT GAT GAT GAT GGT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
723271 TCGGATGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:727818 original size:13 final size:13
Alignment explanation
Indices: 727800--727828 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
727790 ACAATATTCC
727800 TTGTATCGATACA
1 TTGTATCGATACA
727813 TTGTATCGATACA
1 TTGTATCGATACA
727826 TTG
1 TTG
727829 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:730325 original size:20 final size:20
Alignment explanation
Indices: 730300--730413 Score: 65
Period size: 20 Copynumber: 5.5 Consensus size: 20
730290 CGATACATTA
730300 TATCGATACATGGACAATTG
1 TATCGATACATGGACAATTG
730320 TATCGATACAT-GA-AATTGG
1 TATCGATACATGGACAATT-G
* * * * *
730339 CAGTAGCTACCCTAT-CACTATTTG
1 TA-TCGATA--C-ATGGACAAT-TG
730363 TATCGATACATGGTACAA-TG
1 TATCGATACATGG-ACAATTG
* * *
730383 TATCGATACATGAAGAAATG
1 TATCGATACATGGACAATTG
730403 TATCGATACAT
1 TATCGATACAT
730414 AGCTTGTAAC
Statistics
Matches: 72, Mismatches: 12, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
18 4 0.06
19 7 0.10
20 44 0.61
21 1 0.01
22 4 0.06
23 7 0.10
24 4 0.06
25 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (20 bp):
TATCGATACATGGACAATTG
Found at i:731761 original size:16 final size:16
Alignment explanation
Indices: 731742--731773 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
731732 TTTATTATAA
731742 TTAATCACAATAATAT
1 TTAATCACAATAATAT
*
731758 TTAATTACAATAATAT
1 TTAATCACAATAATAT
731774 AATATGATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAATCACAATAATAT
Found at i:731813 original size:32 final size:32
Alignment explanation
Indices: 731769--731836 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
731759 TAATTACAAT
* **
731769 AATA-TAATATGATCAAATGTAAAATAATTTA
1 AATATTAACATGATCAAACATAAAATAATTTA
*
731800 AATATTAACATGATCGAACATAAAATAATTTA
1 AATATTAACATGATCAAACATAAAATAATTTA
731832 AATAT
1 AATAT
731837 ATGGCTCTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 4 0.12
32 28 0.88
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (32 bp):
AATATTAACATGATCAAACATAAAATAATTTA
Found at i:738479 original size:25 final size:25
Alignment explanation
Indices: 738450--738562 Score: 127
Period size: 25 Copynumber: 4.3 Consensus size: 25
738440 AAGAACTTTT
*
738450 TTTTTTTTGGTTCAACACTAATTGAA
1 TTTTTTTTGATTCAACACTAATTG-A
*
738476 TTTTTTTTTTATTCAACACTAATTGA
1 -TTTTTTTTGATTCAACACTAATTGA
*
738502 TTTTTTTTTATTCAACACTAATTGA
1 TTTTTTTTGATTCAACACTAATTGA
* * *
738527 TTTTTTTTTTTGGTTCAACGCTAACTGA
1 ---TTTTTTTTGATTCAACACTAATTGA
738555 TTTTTTTT
1 TTTTTTTT
738563 CACATTGAAG
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
25 33 0.43
26 1 0.01
27 22 0.29
28 21 0.27
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTTTTTTGATTCAACACTAATTGA
Found at i:738479 original size:28 final size:26
Alignment explanation
Indices: 738448--738562 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 26
738438 ACAAGAACTT
*
738448 TTTTTTTTTTGGTTCAACACTAATTGAA
1 TTTTTTTTTT-ATTCAACACTAATTG-A
738476 TTTTTTTTTTATTCAACACTAATTGA
1 TTTTTTTTTTATTCAACACTAATTGA
738502 -TTTTTTTTTATTCAACACTAATTGA
1 TTTTTTTTTTATTCAACACTAATTGA
* * *
738527 TTTTTTTTTTTGGTTCAACGCTAACTGA
1 -TTTTTTTTTT-ATTCAACACTAATTGA
738555 TTTTTTTT
1 TTTTTTTT
738563 CACATTGAAG
Statistics
Matches: 80, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
25 25 0.31
26 1 0.01
27 31 0.39
28 23 0.29
ACGTcount: A:0.23, C:0.11, G:0.08, T:0.58
Consensus pattern (26 bp):
TTTTTTTTTTATTCAACACTAATTGA
Found at i:738518 original size:52 final size:54
Alignment explanation
Indices: 738449--738562 Score: 169
Period size: 53 Copynumber: 2.1 Consensus size: 54
738439 CAAGAACTTT
* *
738449 TTTTTTTTTGGTTCAACACTAATTGAATTTTTTTTTT-ATTCAACACTAATTGA
1 TTTTTTTTTGATTCAACACTAATTGAATTTTTTTTTTGATTCAACACTAACTGA
* * *
738502 TTTTTTTTT-ATTCAACACTAATTGATTTTTTTTTTTGGTTCAACGCTAACTGA
1 TTTTTTTTTGATTCAACACTAATTGAATTTTTTTTTTGATTCAACACTAACTGA
738555 TTTTTTTT
1 TTTTTTTT
738563 CACATTGAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 25 0.45
53 30 0.55
ACGTcount: A:0.23, C:0.11, G:0.08, T:0.58
Consensus pattern (54 bp):
TTTTTTTTTGATTCAACACTAATTGAATTTTTTTTTTGATTCAACACTAACTGA
Found at i:741844 original size:27 final size:30
Alignment explanation
Indices: 741814--741868 Score: 89
Period size: 28 Copynumber: 1.9 Consensus size: 30
741804 AATTTTAAGT
741814 ATAATAT-AAAAATAA-ATAAAT-AATAAA
1 ATAATATAAAAAATAATATAAATGAATAAA
741841 ATAATATAAAAAATAATATAAATGAATA
1 ATAATATAAAAAATAATATAAATGAATA
741869 TATTAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 7 0.28
28 8 0.32
29 6 0.24
30 4 0.16
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (30 bp):
ATAATATAAAAAATAATATAAATGAATAAA
Found at i:741853 original size:12 final size:12
Alignment explanation
Indices: 741827--741862 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
741817 ATATAAAAAT
741827 AAATAA-ATAATA
1 AAATAATATAA-A
741839 AAATAATATAAA
1 AAATAATATAAA
741851 AAATAATATAAA
1 AAATAATATAAA
741863 TGAATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAATAATATAAA
Done.