Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007916.1 Hibiscus syriacus cultivar Beakdansim tig00110319_pilon, whole genome shotgun sequence
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: 3725575
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 16
Found at i:496722 original size:31 final size:31
Alignment explanation
Indices: 496649--496842 Score: 200
Period size: 31 Copynumber: 6.2 Consensus size: 31
496639 GGAGTCGAGG
496649 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * *
496680 GAATTACCTATGTTTTTC-GAGACATATGGACA
1 GTA-TACCTATGTTCTACGGA-ACATATGGACA
496712 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* *
496743 GAATTACCTATG-TCTTTC-GAGACATATGGACA
1 GTA-TACCTATGTTC-TACGGA-ACATATGGACA
*
496775 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * * * *
496806 ATTTACCTAGGTTC-ATCGGAACCTATAGACA
1 GTATACCTATGTTCTA-CGGAACATATGGACA
496837 GT-TACC
1 GTATACC
496843 GAGGATCTTT
Statistics
Matches: 136, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
30 5 0.04
31 77 0.57
32 54 0.40
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (31 bp):
GTATACCTATGTTCTACGGAACATATGGACA
Found at i:496727 original size:63 final size:63
Alignment explanation
Indices: 496649--496814 Score: 298
Period size: 63 Copynumber: 2.7 Consensus size: 63
496639 GGAGTCGAGG
*
496649 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTTTTTCGAGACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
496712 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
* *
496775 GTATACCTATGTTCTAAGGAACATATGGACA-ATTTACCTA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTA
496815 GGTTCATCGG
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
62 8 0.08
63 92 0.92
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (63 bp):
GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
Found at i:499491 original size:10 final size:10
Alignment explanation
Indices: 499468--499498 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
499458 CCCCTTTCTT
499468 AATATTAA-A
1 AATATTAATA
499477 AATATTAATA
1 AATATTAATA
499487 AATATTAATA
1 AATATTAATA
499497 AA
1 AA
499499 ACGTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AATATTAATA
Found at i:499807 original size:27 final size:28
Alignment explanation
Indices: 499774--499853 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 28
499764 TAATATTTAA
499774 AAATAAATAA-ATATTATTAATTTATAAATTT
1 AAATAAATAATATA-TATTAA--TAT-AATTT
* *
499805 AAACAAATAATATATATTAATATAATTA
1 AAATAAATAATATATATTAATATAATTT
499833 AAATAAAATAATA-ATAATTAA
1 AAAT-AAATAATATAT-ATTAA
499854 AATATTGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
28 9 0.21
29 16 0.37
31 15 0.35
32 3 0.07
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (28 bp):
AAATAAATAATATATATTAATATAATTT
Found at i:501262 original size:3 final size:3
Alignment explanation
Indices: 501254--501351 Score: 114
Period size: 3 Copynumber: 33.0 Consensus size: 3
501244 GGGCCTATAG
501254 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA GTAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
* *
501299 TAA -AA -AA TAA TAA TAA TAG TAA TAAA TAA -ATA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA
*
501343 TAA AAA TAA
1 TAA TAA TAA
501352 AAAACCAAAT
Statistics
Matches: 83, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
2 7 0.08
3 69 0.83
4 7 0.08
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:501433 original size:21 final size:21
Alignment explanation
Indices: 501407--501448 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
501397 ATTTTTCTTC
501407 TTTCCCTTACTTTTTCAAGGG
1 TTTCCCTTACTTTTTCAAGGG
501428 TTTCCCTTACTTTTTCAAGGG
1 TTTCCCTTACTTTTTCAAGGG
501449 GAAGCTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.14, T:0.48
Consensus pattern (21 bp):
TTTCCCTTACTTTTTCAAGGG
Found at i:523947 original size:25 final size:24
Alignment explanation
Indices: 523898--523947 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
523888 ATGACCCTAT
*
523898 TCTTGACACAACACTAAGGGCTAG
1 TCTTGACACAACACCAAGGGCTAG
* *
523922 TCTTGACACCAACACCATGGGGTAG
1 TCTTGACA-CAACACCAAGGGCTAG
523947 T
1 T
523948 ATTTAAGTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (24 bp):
TCTTGACACAACACCAAGGGCTAG
Found at i:525189 original size:15 final size:15
Alignment explanation
Indices: 525171--525201 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
525161 AAATTCTAAA
525171 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
525186 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
525201 T
1 T
525202 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:526923 original size:29 final size:28
Alignment explanation
Indices: 526881--526950 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 28
526871 TTTCATATGT
526881 TCATGTACTCATGTCATTTCTCTTGTGA
1 TCATGTACTCATGTCATTTCTCTTGTGA
526909 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTA-CTCATGTCATTTCTCTTGTGA
526938 TCATGTATCTCAT
1 TCATGTA-CTCAT
526951 ATCACTTCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.17
29 33 0.82
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (28 bp):
TCATGTACTCATGTCATTTCTCTTGTGA
Found at i:526974 original size:23 final size:26
Alignment explanation
Indices: 526937--527005 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
526927 TTCTCTTGTG
526937 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
526961 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
526986 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
527006 AACACATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:526987 original size:12 final size:12
Alignment explanation
Indices: 526970--527005 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
526960 TATCATGTTC
526970 TCATATCACATG
1 TCATATCACATG
*
526982 TCATATCACATA
1 TCATATCACATG
526994 TCATATCACATG
1 TCATATCACATG
527006 AACACATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:527421 original size:64 final size:65
Alignment explanation
Indices: 527313--527489 Score: 182
Period size: 64 Copynumber: 2.8 Consensus size: 65
527303 TAATGAAGGT
* * * ** ** * * **
527313 ATGCATCGATGCACTACTGATGCATCGGTACATAAAAGGTATTCGATGTAGT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTAGTCACTATTAATGGG
**
527377 ATGCATCGATGCACT-CTTTATGCATCGATGCACCG-ATTGCATTCGAT-TTTTCACTATTAATG
1 ATGCATCGATGCACTAC-TTATGCATCGATGCA-CGAATTGCATTCGATGTAGTCACTATTAATG
527439 GG
64 GG
*
527441 ATGCATCGATGCACTACTTATGCATTGATGCACGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT
527490 CTTTATTTTA
Statistics
Matches: 93, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
63 5 0.05
64 86 0.92
65 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (65 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTAGTCACTATTAATGGG
Found at i:527510 original size:64 final size:63
Alignment explanation
Indices: 527376--527537 Score: 172
Period size: 64 Copynumber: 2.5 Consensus size: 63
527366 TTATTGCTGG
* *
527376 GATGCATCGATGCACT-CTTTATGCATCGATGCACCGATTGCATTCGATTTTTCACTATTAATGG
1 GATGCATCGATGCACTAC-TTATGCATTGATGCA-CGATTGCATTCGATTTTTCACTATTAATGA
*
527440 GATGCATCGATGCACTACTTATGCATTGATGCACGAATTGCATTCGATGTCTTT-A-TTTTAAAA
1 GATGCATCGATGCACTACTTATGCATTGATGCACG-ATTGCATTCGAT-T-TTTCACTATT--AA
527503 T-A
61 TGA
** *
527505 G-TGCATCGATGCACTACCAATGCATTGGTGCAC
1 GATGCATCGATGCACTACTTATGCATTGATGCAC
527538 ATTCAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
63 2 0.02
64 74 0.86
65 4 0.05
66 6 0.07
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (63 bp):
GATGCATCGATGCACTACTTATGCATTGATGCACGATTGCATTCGATTTTTCACTATTAATGA
Found at i:529959 original size:48 final size:48
Alignment explanation
Indices: 529877--530011 Score: 207
Period size: 48 Copynumber: 2.8 Consensus size: 48
529867 AAACTCCTAT
* *
529877 AAGATTTGATATTCCCTTCAGAGTAAGCGAAACATGTCTCTCTTTCCC
1 AAGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTCCC
*
529925 AATATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTCCC
1 AAGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTCCC
* * * *
529973 AAGATTTGATATCCCCTTCAGAGTAAGTGGAACAAGTCT
1 AAGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCT
530012 GCCCCCATTC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (48 bp):
AAGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTCCC
Found at i:530083 original size:163 final size:163
Alignment explanation
Indices: 529813--530126 Score: 477
Period size: 163 Copynumber: 1.9 Consensus size: 163
529803 TTTCTATCGC
* * * *
529813 ATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCCATTTAGTGGATCAAACTCCTATA
1 ATTTGATATCCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCCATTCAATGGATCAAACTCCTACA
* * * *
529878 AGATTTGATATTCCCTTCAGAGTAAGCGAAACATGTCTCTCTTTCCCAATATCTGATATTCCCTT
66 AGATATGATATTCCCTTCAGAGTAAGCGAAACAGGTCTCTCTTTCCCAAGATCTGATATTACCTT
*
529943 CAGAGTAAGCGGAACATGTCTCTCTTTCCCAAG
131 CAGAGTAAGCGGAACAAGTCTCTCTTTCCCAAG
*
529976 ATTTGATATCCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCCATTCAATGGATCAAACTCAC-CC
1 ATTTGATATCCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCCATTCAATGGATCAAACTC-CTAC
* * * *
530040 AAGATATGATATTCCCTTTATAGTAAGCGAAATAGGTCTCTCTTTCCCAAGATTTGATATTACCT
65 AAGATATGATATTCCCTTCAGAGTAAGCGAAACAGGTCTCTCTTTCCCAAGATCTGATATTACCT
*
530105 TCAGAGTAAGTGGAACAAGTCT
130 TCAGAGTAAGCGGAACAAGTCT
530127 TCCCTGATTC
Statistics
Matches: 135, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
163 134 0.99
164 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (163 bp):
ATTTGATATCCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCCATTCAATGGATCAAACTCCTACA
AGATATGATATTCCCTTCAGAGTAAGCGAAACAGGTCTCTCTTTCCCAAGATCTGATATTACCTT
CAGAGTAAGCGGAACAAGTCTCTCTTTCCCAAG
Found at i:530214 original size:114 final size:113
Alignment explanation
Indices: 529928--530354 Score: 606
Period size: 114 Copynumber: 3.7 Consensus size: 113
529918 CTTTCCCAAT
*
529928 ATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTCCCAAGATTTGATATCCCCTTCA
1 ATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTCCCAAGATTTGATATTCCCTTCA
*
529993 GAGTAAGTGGAACAAGTCTGCCCCCATTCAATGGATCAAACTCAC-CCAAG
66 GAGTAAGTGGAACAAGTCTG-CCCCATTCAATGGATCAAACTC-CTTC-AG
* * * * * * *
530043 ATATGATATTCCCTTTATAGTAAGCGAAATAGGTCTCTCTTTCCCAAGATTTGATATTACCTTCA
1 ATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTCCCAAGATTTGATATTCCCTTCA
* * *
530108 GAGTAAGTGGAACAAGTCTTCCCTGATTCAA-GGAATTAAACTCCTTCAG
66 GAGTAAGTGGAACAAGTCTGCCC-CATTCAATGG-ATCAAACTCCTTCAG
* * *
530157 ATCTGATATTCCCTTCAAAGTAAGCGGAACAAGTCTCTCTTTCCCCAGATTTGATATTCCCTTCA
1 ATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTCCCAAGATTTGATATTCCCTTCA
*
530222 GAGTAAGTGGAACAAATCTGCCCCATTCAATGGATCAAACTCCTTCAG
66 GAGTAAGTGGAACAAGTCTGCCCCATTCAATGGATCAAACTCCTTCAG
* ** *
530270 ATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTTATTTTTCAAGATTTAATATTCCCTTC
1 ATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTC-TCTTTCCCAAGATTTGATATTCCCTTC
530335 AGAGTAAGTGGAACAAGTCT
65 AGAGTAAGTGGAACAAGTCT
530355 ACCTCAATTC
Statistics
Matches: 275, Mismatches: 32, Indels: 11
0.86 0.10 0.03
Matches are distributed among these distances:
113 55 0.20
114 129 0.47
115 91 0.33
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (113 bp):
ATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTCCCAAGATTTGATATTCCCTTCA
GAGTAAGTGGAACAAGTCTGCCCCATTCAATGGATCAAACTCCTTCAG
Found at i:530661 original size:18 final size:18
Alignment explanation
Indices: 530618--530659 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
530608 TTTTTCCGTC
530618 ATTATTTATATTATTATT
1 ATTATTTATATTATTATT
530636 ATTATTTATAATTA-TATT
1 ATTATTTAT-ATTATTATT
530654 -TTATTT
1 ATTATTT
530660 TACAGATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTATTTATATTATTATT
Found at i:530924 original size:26 final size:26
Alignment explanation
Indices: 530860--530962 Score: 102
Period size: 26 Copynumber: 4.0 Consensus size: 26
530850 TTACAGAATA
*
530860 AGCCATCACCACTTGGACCACTC-A-
1 AGCCACCACCACTTGGACCACTCAAC
* *
530884 TGCCACCGCCACTTGGACCACTCAAC
1 AGCCACCACCACTTGGACCACTCAAC
* *
530910 AGCCACCACCGCTTGGACCGCTCAAC
1 AGCCACCACCACTTGGACCACTCAAC
** ** *
530936 AATCACTGCCGCTTGGACCACTCAAC
1 AGCCACCACCACTTGGACCACTCAAC
530962 A
1 A
530963 ACCATCACTA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 20 0.31
25 1 0.02
26 44 0.68
ACGTcount: A:0.26, C:0.43, G:0.16, T:0.16
Consensus pattern (26 bp):
AGCCACCACCACTTGGACCACTCAAC
Found at i:532687 original size:2 final size:2
Alignment explanation
Indices: 532680--532714 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
532670 TTTTTACATT
*
532680 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
532715 TAATTGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:533807 original size:26 final size:26
Alignment explanation
Indices: 533752--533805 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
533742 TAATTATCTC
*
533752 AAATATTTAATTTAAATTAATTAAAT
1 AAATATTTAATTTAAATTAAATAAAT
*
533778 AAATATTTAA-TTAATTTGAAAT-AAT
1 AAATATTTAATTTAAATT-AAATAAAT
533803 AAA
1 AAA
533806 ATTCCTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
AAATATTTAATTTAAATTAAATAAAT
Found at i:552595 original size:2 final size:2
Alignment explanation
Indices: 552588--552622 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
552578 TCATGTTTAA
552588 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
552623 ATTTAATCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:555814 original size:2 final size:2
Alignment explanation
Indices: 555807--555845 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
555797 GTTTAAATAA
555807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
555846 ATTTAATCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:559020 original size:2 final size:2
Alignment explanation
Indices: 559013--559042 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
559003 TATATTCATT
559013 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
559043 ATTTAATCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:564156 original size:2 final size:2
Alignment explanation
Indices: 564149--564191 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
564139 TTCATGTTTA
564149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
564191 A
1 A
564192 ATTTAATCGA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:565048 original size:75 final size:76
Alignment explanation
Indices: 564952--565105 Score: 301
Period size: 75 Copynumber: 2.0 Consensus size: 76
564942 GTCGAGATGT
564952 TTTGTTTCTTTTACAGATTTGTAGAATTGATGACGTCGCTGCCTTAAAAATATATAAATCAATTA
1 TTTGTTTCTTTTACAGATTTGTAGAATTGATGACGTCGCTGCCTTAAAAATATATAAATCAATTA
565017 TGTAGTATATA
66 TGTAGTATATA
565028 TTTGTTTCTTTTAC-GATTTGTAGAATTGATGACGTCGCTGCCTTAAAAATATATAAATCAATTA
1 TTTGTTTCTTTTACAGATTTGTAGAATTGATGACGTCGCTGCCTTAAAAATATATAAATCAATTA
565092 TGTAGTATATA
66 TGTAGTATATA
565103 TTT
1 TTT
565106 ATTATGGAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 64 0.82
76 14 0.18
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (76 bp):
TTTGTTTCTTTTACAGATTTGTAGAATTGATGACGTCGCTGCCTTAAAAATATATAAATCAATTA
TGTAGTATATA
Found at i:567290 original size:2 final size:2
Alignment explanation
Indices: 567283--567311 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
567273 GTTTAAATAA
567283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
567312 ATTTAATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:570297 original size:2 final size:2
Alignment explanation
Indices: 570290--570321 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
570280 ATATTCATTT
570290 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
570322 ATTTAATCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:575091 original size:2 final size:2
Alignment explanation
Indices: 575084--575112 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
575074 TCATTTTTAA
575084 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
575113 ATTTAATCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:577205 original size:13 final size:12
Alignment explanation
Indices: 577183--577268 Score: 55
Period size: 13 Copynumber: 6.6 Consensus size: 12
577173 GTCCCATATA
577183 TATATATTTTAAT
1 TATATATTTT-AT
*
577196 TATATTTTTTAT
1 TATATATTTTAT
* **
577208 TATTTACTATTCCT
1 TATATA-T-TTTAT
* *
577222 TTTTTATTTATAT
1 TATATATTT-TAT
577235 TATATTATTTTTAT
1 TATA-TA-TTTTAT
577249 TATATATTTTAT
1 TATATATTTTAT
577261 ATATATAT
1 -TATATAT
577269 ATATGTATAG
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
12 14 0.25
13 23 0.40
14 17 0.30
15 3 0.05
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATATTTTAT
Found at i:577218 original size:17 final size:16
Alignment explanation
Indices: 577189--577235 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
577179 TATATATATA
*
577189 TTTTAATTATATT-TT
1 TTTTATTTATATTCTT
577204 TTATTATTTACTATTCCTT
1 TT-TTATTTA-TATT-CTT
577223 TTTTATTTATATT
1 TTTTATTTATATT
577236 ATATTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 2 0.07
16 6 0.22
17 8 0.30
18 7 0.26
19 4 0.15
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTATTTATATTCTT
Found at i:577224 original size:20 final size:20
Alignment explanation
Indices: 577198--577253 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
577188 ATTTTAATTA
577198 TATTTTTTATTAT-TTACTAT
1 TATTTTTTATTATATTA-TAT
*
577218 TCCTTTTTTATTTATATTATAT
1 T-ATTTTTTA-TTATATTATAT
577240 TA-TTTTTATTATAT
1 TATTTTTTATTATAT
577254 ATTTTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 6 0.19
20 7 0.23
21 7 0.23
22 8 0.26
23 3 0.10
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTTTTTATTATATTATAT
Found at i:577242 original size:14 final size:14
Alignment explanation
Indices: 577225--577268 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
577215 TATTCCTTTT
577225 TTATTTATATTATA
1 TTATTTATATTATA
*
577239 TTATTTTTATTATA
1 TTATTTATATTATA
577253 -TATTTTATATATATA
1 TTA-TTTATAT-TATA
577268 T
1 T
577269 ATATGTATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 2 0.08
14 19 0.76
15 4 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:577245 original size:21 final size:22
Alignment explanation
Indices: 577198--577256 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
577188 ATTTTAATTA
577198 TATTTTTTA-TTAT-TTACTAT
1 TATTTTTTATTTATATTACTAT
*
577218 TCCTTTTTTATTTATATTA-TAT
1 T-ATTTTTTATTTATATTACTAT
577240 TA-TTTTTATTATATATT
1 TATTTTTTATT-TATATT
577257 TTATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 9 0.27
21 13 0.39
22 8 0.24
23 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTTTATTTATATTACTAT
Found at i:577268 original size:34 final size:34
Alignment explanation
Indices: 577183--577272 Score: 82
Period size: 34 Copynumber: 2.7 Consensus size: 34
577173 GTCCCATATA
*
577183 TATATATTTTA-ATTATATT-TTTTATTATTTAC
1 TATATATTTTATATTATATTATATTATTATTTAC
* * *
577215 TAT-TCCTTTTTTATTTATATTATATTATT-TTTAT
1 TATAT-ATTTTATA-TTATATTATATTATTATTTAC
577249 TATATATTTTATA-TATATATATAT
1 TATATATTTTATATTATAT-TATAT
577273 GTATAGATGT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
31 1 0.02
32 12 0.26
33 6 0.13
34 20 0.43
35 7 0.15
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (34 bp):
TATATATTTTATATTATATTATATTATTATTTAC
Found at i:577391 original size:74 final size:76
Alignment explanation
Indices: 577313--577462 Score: 186
Period size: 79 Copynumber: 2.0 Consensus size: 76
577303 TATGTATATA
577313 TATTTTTTCTTAATAT-TCTAT-T-TTT-GTTTTTATTTATTTA-TATATATTATAT-TTGTACT
1 TATTTTTTCTTAATATATCTATATCTTTAGTTTTTATTTATTTACT-TATATTATATATT-TA--
577372 TTATTTTATTTTTTC
62 TTATTTTATTTTTTC
* * *
577387 TATTTTTTCTTAATATCATGTATATCTTTATTTTTTATTTGTTTACTTATATTATATATTTATTA
1 TATTTTTTCTTAATAT-ATCTATATCTTTAGTTTTTATTTATTTACTTATATTATATATTTATTA
577452 TTTTATTTTTT
65 TTTTATTTTTT
577463 AGTAAATACT
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
74 16 0.24
76 4 0.06
77 15 0.23
78 3 0.05
79 25 0.38
80 3 0.05
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (76 bp):
TATTTTTTCTTAATATATCTATATCTTTAGTTTTTATTTATTTACTTATATTATATATTTATTAT
TTTATTTTTTC
Found at i:577521 original size:17 final size:16
Alignment explanation
Indices: 577490--577532 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
577480 TGTACACATT
577490 ATTTTTATT-CCTTTTA
1 ATTTTT-TTACCTTTTA
*
577506 ATTTCTTTTACCTTTTT
1 ATTT-TTTTACCTTTTA
577523 ATTTTTTTAC
1 ATTTTTTTAC
577533 TCCATTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTTTACCTTTTA
Found at i:580742 original size:11 final size:12
Alignment explanation
Indices: 580709--580742 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
580699 AATCAGAACA
580709 AAAAGAGAAAAT
1 AAAAGAGAAAAT
580721 AAAAGAGAAAAT
1 AAAAGAGAAAAT
580733 AAAA-AGAAAA
1 AAAAGAGAAAA
580743 AAGAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (12 bp):
AAAAGAGAAAAT
Found at i:580742 original size:18 final size:17
Alignment explanation
Indices: 580716--580754 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
580706 ACAAAAAGAG
* *
580716 AAAATAAAAGAGAAAATA
1 AAAAGAAAAAAGAAAA-A
580734 AAAAGAAAAAAGAAAAA
1 AAAAGAAAAAAGAAAAA
580751 AAAA
1 AAAA
580755 CAAAGGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAGAAAAAAGAAAAA
Found at i:580743 original size:12 final size:13
Alignment explanation
Indices: 580708--580750 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
580698 TAATCAGAAC
580708 AAAAAGAGAAAAT
1 AAAAAGAGAAAAT
580721 -AAAAGAGAAAAT
1 AAAAAGAGAAAAT
* *
580733 AAAAAGAAAAAAG
1 AAAAAGAGAAAAT
580746 AAAAA
1 AAAAA
580751 AAAACAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (13 bp):
AAAAAGAGAAAAT
Found at i:581933 original size:31 final size:32
Alignment explanation
Indices: 581892--581998 Score: 146
Period size: 31 Copynumber: 3.4 Consensus size: 32
581882 GCATCTTTAA
581892 AGATTCAACATCAAATGTTGGGGCATTTTTT-
1 AGATTCAACATCAAATGTTGGGGCATTTTTTG
*
581923 AGATTTAACATCAAATGTTGGGGCATTTTTTG
1 AGATTCAACATCAAATGTTGGGGCATTTTTTG
* * *
581955 AGATTCAACATCGAATATTGGGGCA-TCTTTG
1 AGATTCAACATCAAATGTTGGGGCATTTTTTG
*
581986 GGAATTCAACATC
1 AG-ATTCAACATC
581999 CTGATGCAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
31 36 0.53
32 32 0.47
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (32 bp):
AGATTCAACATCAAATGTTGGGGCATTTTTTG
Found at i:581959 original size:32 final size:31
Alignment explanation
Indices: 581892--581998 Score: 142
Period size: 32 Copynumber: 3.4 Consensus size: 31
581882 GCATCTTTAA
581892 AGATTCAACATCAAATGTTGGGGCATTTTTT
1 AGATTCAACATCAAATGTTGGGGCATTTTTT
*
581923 AGATTTAACATCAAATGTTGGGGCATTTTTT
1 AGATTCAACATCAAATGTTGGGGCATTTTTT
* * * *
581954 GAGATTCAACATCGAATATTGGGGCATCTTTG
1 -AGATTCAACATCAAATGTTGGGGCATTTTTT
*
581986 GGAATTCAACATC
1 AG-ATTCAACATC
581999 CTGATGCAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
31 31 0.46
32 36 0.54
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (31 bp):
AGATTCAACATCAAATGTTGGGGCATTTTTT
Found at i:582966 original size:36 final size:36
Alignment explanation
Indices: 582872--582990 Score: 150
Period size: 36 Copynumber: 3.3 Consensus size: 36
582862 TATGTTTTAT
** * *
582872 TTGAAACAAATTTCATCT-TCCTTGAGACAGTTTATT
1 TTGAAACAAATTTTGTCTCT-CTTGAGACAGTTTCTC
* *
582908 TTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTC
1 TTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTC
*
582945 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTC
582981 TTGAAACAAA
1 TTGAAACAAA
582991 ATCTTTGAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
36 43 0.60
37 28 0.39
38 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTC
Found at i:583052 original size:65 final size:65
Alignment explanation
Indices: 582948--583121 Score: 233
Period size: 65 Copynumber: 2.6 Consensus size: 65
582938 GTTTCTCTTG
* * ** *
582948 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCACTA
*
583013 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCAT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCAC
583078 TA
64 TA
* * *
583080 AAACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACAA
1 AAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
583122 CAAATATCTT
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
65 38 0.39
66 4 0.04
67 31 0.32
68 24 0.25
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCACTA
Found at i:583118 original size:67 final size:67
Alignment explanation
Indices: 582948--583131 Score: 239
Period size: 67 Copynumber: 2.7 Consensus size: 67
582938 GTTTCTCTTG
* * ** *
582948 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCAC
583011 TA
66 TA
*
583013 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCAT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCAC
583078 TA
66 TA
* * *
583080 AAACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACAACAAATATCTT
1 AAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-ACAAA-ATCTT
583132 TGAGATCGTT
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
65 34 0.32
66 2 0.02
67 35 0.33
68 29 0.28
69 5 0.05
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCAC
TA
Found at i:583920 original size:106 final size:106
Alignment explanation
Indices: 583787--584159 Score: 459
Period size: 106 Copynumber: 3.5 Consensus size: 106
583777 ACAAAGGGGC
*
583787 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGTGAGGGATATTGGACTCAAGATAACACAAGCT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGTGAGGGATATTGGACTCAAGACAACACAAGCT
*
583852 CAACTTCACAACGAAGGGGCGGCTAGCTATCAACAAACATT
66 CAACTTCACAACGAAGGGGCGGCTAGCTGTCAACAAACATT
* *
583893 TTCCCAGTTTTAGAGCCAATTTCAACTTCACA-TCGAGGGATATTGGACTCAAGACAACGCAAGC
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGT-GAGGGATATTGGACTCAAGACAACACAAGC
* ** *
583957 TCAACTTCACAACGAAGGGGCGACTAATTGTCAATAAACAACTT
65 TCAACTTCACAACGAAGGGGCGGCTAGCTGTCAACAAAC-A-TT
* * ** * * *
584001 TT--CAGTTTCATTTAGAGTCAATTTCAACTTCATAACGAAGGATATTGAACTCGAGACAACACA
1 TTCCCAGTTTC----AGAGCCAATTTCAACTTCACAGTGAGGGATATTGGACTCAAGACAACACA
* *
584064 AGCTCAACTTCACAACGAAGGGGCGGCTGGCTGTCAACAAACAAT
62 AGCTCAACTTCACAACGAAGGGGCGGCTAGCTGTCAACAAACATT
* *
584109 TTCCCAGTTCCATAGCCAATTTCAACTTCACGACG-GA-GGATATTGGACTCA
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCAC-A-GTGAGGGATATTGGACTCA
584160 GAACAATACT
Statistics
Matches: 226, Mismatches: 29, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
105 1 0.00
106 128 0.57
107 4 0.02
108 7 0.03
109 1 0.00
110 85 0.38
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGTGAGGGATATTGGACTCAAGACAACACAAGCT
CAACTTCACAACGAAGGGGCGGCTAGCTGTCAACAAACATT
Found at i:585561 original size:2 final size:2
Alignment explanation
Indices: 585554--585600 Score: 62
Period size: 2 Copynumber: 24.0 Consensus size: 2
585544 CTATTTTTAT
*
585554 TA TA TA TA T- TT TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
585595 TA TA TA
1 TA TA TA
585601 GATGTATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
1 2 0.05
2 37 0.90
3 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:585747 original size:18 final size:18
Alignment explanation
Indices: 585702--585758 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
585692 CTATTTTTGT
* *
585702 TTTTATTTATTTA-TATA
1 TTTTATTTTTTTACTTTA
* *
585719 TATTATATTTTTACTTTA
1 TTTTATTTTTTTACTTTA
585737 TTTTATTTTTTT-CTATTA
1 TTTTATTTTTTTACT-TTA
585755 TTTT
1 TTTT
585759 TTTCTTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 12 0.38
18 20 0.62
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATTTTTTTACTTTA
Found at i:585755 original size:13 final size:13
Alignment explanation
Indices: 585739--585763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
585729 TTACTTTATT
585739 TTATTTTTTTCTA
1 TTATTTTTTTCTA
585752 TTATTTTTTTCT
1 TTATTTTTTTCT
585764 TAATATCATG
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTTTCTA
Found at i:585895 original size:18 final size:17
Alignment explanation
Indices: 585863--585907 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
585853 TGTACACATT
585863 ATTTTTATT-CCTTTTTA
1 ATTTTT-TTACCTTTTTA
*
585880 ATTTCTTTTACCTTTTTT
1 ATTT-TTTTACCTTTTTA
585898 ATTTTTTTAC
1 ATTTTTTTAC
585908 TCCATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTTACCTTTTTA
Found at i:585905 original size:17 final size:17
Alignment explanation
Indices: 585861--585907 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
585851 TATGTACACA
585861 TTATTTTTATT-CCTTTT
1 TTATTTTT-TTACCTTTT
*
585878 TAATTTCTTTTACCTTTT
1 TTATTT-TTTTACCTTTT
585896 TTATTTTTTTAC
1 TTATTTTTTTAC
585908 TCCATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACCTTTT
Found at i:588063 original size:2 final size:2
Alignment explanation
Indices: 588056--588080 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
588046 TCATTTTTAA
588056 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
588081 ATTTAATCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:623050 original size:2 final size:2
Alignment explanation
Indices: 623043--623088 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
623033 TCATTTTTAA
623043 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
623085 AT AT
1 AT AT
623089 TTAATCGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:626220 original size:2 final size:2
Alignment explanation
Indices: 626208--626262 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
626198 CAGAAACTTC
* * *
626208 TA TA T- TA TA TA TA TT TT TA AA 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
626249 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
626263 ATTTAATCGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:629344 original size:2 final size:2
Alignment explanation
Indices: 629339--629372 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
629329 TCATTTTTAA
*
629339 AT AT AT AT AT AT AT AT AT AT CT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
629373 ATTTAATCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:631941 original size:2 final size:2
Alignment explanation
Indices: 631934--631963 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
631924 TCATTTTTAA
631934 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
631964 TTAATTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:634420 original size:2 final size:2
Alignment explanation
Indices: 634413--634439 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
634403 TTCATTTTAA
634413 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
634440 ATTTAATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:636466 original size:2 final size:2
Alignment explanation
Indices: 636461--636485 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
636451 ATTAGTGTAT
636461 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
636486 TCCTATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:636570 original size:20 final size:20
Alignment explanation
Indices: 636545--636582 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
636535 ATTATTATTA
636545 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
636565 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
636583 TTTCTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:636611 original size:16 final size:18
Alignment explanation
Indices: 636592--636626 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
636582 TTTTCTCATT
636592 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
636608 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
636626 T
1 T
636627 GTTTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:639848 original size:9 final size:8
Alignment explanation
Indices: 639836--639895 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 8
639826 AAAAAGGGGG
639836 AAAAAGCAA
1 AAAAAG-AA
639845 AAAAA-AA
1 AAAAAGAA
*
639852 AGCAAA-AA
1 A-AAAAGAA
639860 AAAAAGCAA
1 AAAAAG-AA
639869 AAAAAGAA
1 AAAAAGAA
639877 CAAAAAG-A
1 -AAAAAGAA
639885 AAAAAGAA
1 AAAAAGAA
639893 AAA
1 AAA
639896 GGGACAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
7 12 0.27
8 13 0.30
9 19 0.43
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:639894 original size:12 final size:12
Alignment explanation
Indices: 639836--639888 Score: 81
Period size: 12 Copynumber: 4.4 Consensus size: 12
639826 AAAAAGGGGG
639836 AAAAAGCAAAAA
1 AAAAAGCAAAAA
639848 AAAAAGCAAAAA
1 AAAAAGCAAAAA
639860 AAAAAGCAAAAA
1 AAAAAGCAAAAA
*
639872 AAGAA-CAAAAA
1 AAAAAGCAAAAA
639883 GAAAAA
1 -AAAAA
639889 AGAAAAAGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 6 0.16
12 32 0.84
ACGTcount: A:0.83, C:0.08, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAGCAAAAA
Found at i:639894 original size:23 final size:23
Alignment explanation
Indices: 639836--639895 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
639826 AAAAAGGGGG
*
639836 AAAAAGCAAAAAAAAAAGC-AAAAA
1 AAAAAG-AAAAAAAGAA-CAAAAAA
639860 AAAAAGCAAAAAAAGAACAAAAAGA
1 AAAAAG-AAAAAAAGAACAAAAA-A
639885 AAAAAGAAAAA
1 AAAAAGAAAAA
639896 GGGACAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
23 1 0.03
24 25 0.76
25 7 0.21
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAAAGAACAAAAAA
Found at i:640522 original size:22 final size:22
Alignment explanation
Indices: 640494--640536 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
640484 AGCTACCCCA
640494 TCAAACC-TTTGAGCATCAAATT
1 TCAAACCGTTT-AGCATCAAATT
640516 TCAAACCGTTTAGCATCAAAT
1 TCAAACCGTTTAGCATCAAAT
640537 GAACAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.30
Consensus pattern (22 bp):
TCAAACCGTTTAGCATCAAATT
Found at i:641610 original size:36 final size:36
Alignment explanation
Indices: 641502--641625 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
641492 ATTGAAAACA
* * *
641502 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
* *
641538 TTTCCCTTGGAACTAAGTTTT-GTCTCTCTTAAGACAG
1 TTTCCCTTGAAAC-AA-TTTTCGTCTCTCTTGAGACAG
* *
641575 TTTCTCTTGAAACAATTTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
641611 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
641626 AACCTTTGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 4 0.05
36 41 0.55
37 27 0.36
38 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
Found at i:642585 original size:105 final size:105
Alignment explanation
Indices: 642401--643124 Score: 1122
Period size: 105 Copynumber: 7.0 Consensus size: 105
642391 GCACTCGAGG
* * ** *
642401 CAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
*
642466 AGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
642507 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAATAACAACTTCTTAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
642572 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
642612 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGT---CAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * *
642674 ACCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
642714 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTTAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
642779 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * **
642819 CAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
642884 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
642924 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
642989 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
643029 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * * *
643089 TTCAATTTCAACTTTACGACGGAGGATATTGGACTC
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTC
643125 TGAACAATGC
Statistics
Matches: 580, Mismatches: 35, Indels: 12
0.93 0.06 0.02
Matches are distributed among these distances:
100 36 0.06
101 1 0.00
102 99 0.17
103 2 0.00
104 2 0.00
105 402 0.69
106 38 0.07
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:642765 original size:207 final size:208
Alignment explanation
Indices: 642401--643124 Score: 1098
Period size: 207 Copynumber: 3.5 Consensus size: 208
642391 GCACTCGAGG
* * ** *
642401 CAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT--AC-AACAACTTCTCAATTTCAG
*
642466 AGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
63 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * * *
642531 AAGGGACCGCTGCCTGTCAATAACAACTTCTTAATTTCAGAGCCAATTTCAACTTCACAATGAAG
128 AAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
642596 GATATTGGACTTCAGA
193 GATATTGGACTTCAGA
* *
642612 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGT-CAACAACTTCTCAATTTCAGAAC
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAACAACTTCTCAATTTCAGAGC
* *
642676 CAATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAG
66 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
642741 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGAT
131 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
642806 ATTGGACTTCAGA
196 ATTGGACTTCAGA
* * **
642819 CAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT--ACAACAACTTCTCAATTTCAGA
*
642884 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGA
64 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
* *
642949 AGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGG
129 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
*
643014 ATATTGGACTCCAGA
194 ATATTGGACTTCAGA
* *
643029 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT-CAACAAAATT-TC-A-TTCAGAT
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAAC-AACTTCTCAATTTCAGAG
* * * *
643090 TCAATTTCAACTTTACGACGGAGGATATTGGACTC
65 CCAATTTCAACTTCACAACGAAGGATATTGGACTC
643125 TGAACAATGC
Statistics
Matches: 471, Mismatches: 38, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
205 35 0.07
206 1 0.00
207 200 0.42
208 5 0.01
210 195 0.41
211 35 0.07
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (208 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAACAACTTCTCAATTTCAGAGC
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
ATTGGACTTCAGA
Found at i:644337 original size:2 final size:2
Alignment explanation
Indices: 644332--644394 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
644322 TTAGTGTTAT
644332 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
644374 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
644395 TTCCTATTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:644482 original size:20 final size:20
Alignment explanation
Indices: 644457--644494 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
644447 ATTATTATTA
644457 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
644477 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
644495 TTTACTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:644526 original size:16 final size:18
Alignment explanation
Indices: 644505--644539 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
644495 TTTACTCATT
644505 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
644521 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
644539 T
1 T
644540 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:673307 original size:21 final size:21
Alignment explanation
Indices: 673283--673328 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
673273 TAAAACTAGT
673283 GATGATTGTATTTCAATTGGG
1 GATGATTGTATTTCAATTGGG
673304 GATGATTGTATTTCAATTGGG
1 GATGATTGTATTTCAATTGGG
673325 GATG
1 GATG
673329 GTGCCAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.30, T:0.41
Consensus pattern (21 bp):
GATGATTGTATTTCAATTGGG
Found at i:679009 original size:13 final size:13
Alignment explanation
Indices: 678991--679015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
678981 GGTTTTTGAA
678991 TTTTAAAAATATG
1 TTTTAAAAATATG
679004 TTTTAAAAATAT
1 TTTTAAAAATAT
679016 ATATATCTTT
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTTTAAAAATATG
Found at i:680705 original size:2 final size:2
Alignment explanation
Indices: 680698--680732 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
680688 TCATTTTTAA
680698 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
680733 ATTTAATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:682554 original size:2 final size:2
Alignment explanation
Indices: 682547--682577 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
682537 TCATTTTTAA
682547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
682578 CTCTAATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:683104 original size:59 final size:59
Alignment explanation
Indices: 683039--683176 Score: 233
Period size: 59 Copynumber: 2.3 Consensus size: 59
683029 ATATCTTTTC
*
683039 ACTCATATTTTAATCACTAAAGTTTAAAAATTTCAATTTAACTACTCAACTTTCAAATT
1 ACTCATATTTTAATCACTAAAGTTTAAAAATTTCAATTTAACTACTCAACTTTAAAATT
683098 ACTCATATTTTAA-CAACTAAAGTTTAAAAATTTCAATTTAACTACTCAACTTTAAAATT
1 ACTCATATTTTAATC-ACTAAAGTTTAAAAATTTCAATTTAACTACTCAACTTTAAAATT
* *
683157 ACTCATGTTTTAGTCACTAA
1 ACTCATATTTTAATCACTAA
683177 TTTATTTTAT
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
58 1 0.01
59 72 0.97
60 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.40
Consensus pattern (59 bp):
ACTCATATTTTAATCACTAAAGTTTAAAAATTTCAATTTAACTACTCAACTTTAAAATT
Found at i:683110 original size:31 final size:31
Alignment explanation
Indices: 683039--683168 Score: 107
Period size: 28 Copynumber: 4.4 Consensus size: 31
683029 ATATCTTTTC
* *
683039 ACTCATATTTTAA-TCACTAAAGTTTAAAAATT
1 ACTCATATTTTAACT-ACTCAACTTT-AAAATT
*
683071 --TCA-A-TTTAACTACTCAACTTTCAAATT
1 ACTCATATTTTAACTACTCAACTTTAAAATT
* * *
683098 ACTCATATTTTAACAACTAAAGTTTAAAAATT
1 ACTCATATTTTAACTACTCAACTTT-AAAATT
683130 --TCA-A-TTTAACTACTCAACTTTAAAATT
1 ACTCATATTTTAACTACTCAACTTTAAAATT
*
683157 ACTCATGTTTTA
1 ACTCATATTTTA
683169 GTCACTAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
27 11 0.14
28 27 0.35
29 9 0.12
30 7 0.09
31 18 0.23
32 5 0.06
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (31 bp):
ACTCATATTTTAACTACTCAACTTTAAAATT
Found at i:688459 original size:4 final size:4
Alignment explanation
Indices: 688450--688474 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
688440 GTTTAAATTA
688450 TTAG TTAG TTAG TTAG TTAG TTAG T
1 TTAG TTAG TTAG TTAG TTAG TTAG T
688475 GGGCATAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TTAG
Found at i:690003 original size:11 final size:11
Alignment explanation
Indices: 689989--690126 Score: 51
Period size: 11 Copynumber: 12.6 Consensus size: 11
689979 CATTATTATC
689989 AAATCATTACT
1 AAATCATTACT
*
690000 AAATCATTATT
1 AAATCATTACT
* *
690011 AAATAATTATT
1 AAATCATTACT
* * *
690022 ATCATTATTATT
1 A-AATCATTACT
*
690034 AAATAATTATTACT
1 --A-AATCATTACT
*
690048 AAATCATTATT
1 AAATCATTACT
* *
690059 ATAATGATTATTAT
1 A-AATCATTA--CT
690073 CAAATCATTACT
1 -AAATCATTACT
690085 AAATCA-T-C-
1 AAATCATTACT
690093 AAATCA-T--T
1 AAATCATTACT
690101 AAAT-ATTA--
1 AAATCATTACT
690109 AAATCATTACT
1 AAATCATTACT
690120 AAATCAT
1 AAATCAT
690127 ATAATTATTT
Statistics
Matches: 102, Mismatches: 12, Indels: 26
0.73 0.09 0.19
Matches are distributed among these distances:
7 1 0.01
8 16 0.16
9 5 0.05
10 1 0.01
11 43 0.42
12 17 0.17
14 18 0.18
15 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (11 bp):
AAATCATTACT
Found at i:690093 original size:14 final size:13
Alignment explanation
Indices: 689973--690082 Score: 85
Period size: 14 Copynumber: 8.8 Consensus size: 13
689963 AATATTAATA
689973 ATAAATCATTATT
1 ATAAATCATTATT
689986 ATCAAATCATTA--
1 AT-AAATCATTATT
*
689998 CTAAATCATTA-T
1 ATAAATCATTATT
690010 -TAAAT-A--ATT
1 ATAAATCATTATT
*
690019 AT-TATCATTATT
1 ATAAATCATTATT
*
690031 ATTAAATAATTATT
1 A-TAAATCATTATT
690045 ACTAAATCATTATT
1 A-TAAATCATTATT
*
690059 AT-AATGATTATT
1 ATAAATCATTATT
690071 ATCAAATCATTA
1 AT-AAATCATTA
690083 CTAAATCATC
Statistics
Matches: 78, Mismatches: 8, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
8 1 0.01
9 3 0.04
10 3 0.04
11 14 0.18
12 16 0.21
13 4 0.05
14 37 0.47
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.45
Consensus pattern (13 bp):
ATAAATCATTATT
Found at i:690095 original size:19 final size:19
Alignment explanation
Indices: 690071--690126 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
690061 AATGATTATT
690071 ATCAAATCATTACTAAATC
1 ATCAAATCATTACTAAATC
690090 ATCAAATCA-T--TAAAT-
1 ATCAAATCATTACTAAATC
*
690105 ATTAAAATCATTACTAAATC
1 A-TCAAATCATTACTAAATC
690125 AT
1 AT
690127 ATAATTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
15 1 0.03
16 12 0.39
17 1 0.03
18 1 0.03
19 15 0.48
20 1 0.03
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (19 bp):
ATCAAATCATTACTAAATC
Found at i:690381 original size:21 final size:20
Alignment explanation
Indices: 690357--690412 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
690347 TAATCATTAC
690357 TTAATCATTAAT-ATCAAATCA
1 TTAAT-ATTAATAAT-AAATCA
690378 TTAAATATTAATAATAAATCA
1 TT-AATATTAATAATAAATCA
* *
690399 TTATTAATAATAAT
1 TTAATATTAATAAT
690413 TATAAAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 10 0.32
21 16 0.52
22 5 0.16
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATTAATAATAAATCA
Found at i:690410 original size:26 final size:25
Alignment explanation
Indices: 690388--690537 Score: 141
Period size: 26 Copynumber: 6.1 Consensus size: 25
690378 TTAAATATTA
*
690388 ATAATAAATCATTATTAATAATAATT
1 ATAATAAATCATTATT-ATAATGATT
*
690414 AT-A-AAATCATTATTA-AATCATT
1 ATAATAAATCATTATTATAATGATT
*
690436 ATTATCAAATCATTATTATAATGATT
1 ATAAT-AAATCATTATTATAATGATT
*
690462 ATTACTAAATCATTATTATAATGATT
1 A-TAATAAATCATTATTATAATGATT
* *
690488 ATTATCAAATCATTATTA-AATCATT
1 ATAAT-AAATCATTATTATAATGATT
* * *
690513 GT--TAAATCATTATTATCATTATT
1 ATAATAAATCATTATTATAATGATT
690536 AT
1 AT
690538 CAAATCATTA
Statistics
Matches: 106, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
22 20 0.19
23 9 0.08
24 11 0.10
25 22 0.21
26 42 0.40
27 2 0.02
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (25 bp):
ATAATAAATCATTATTATAATGATT
Found at i:690546 original size:14 final size:13
Alignment explanation
Indices: 690391--690547 Score: 128
Period size: 11 Copynumber: 12.8 Consensus size: 13
690381 AATATTAATA
690391 ATAAATCATTATT
1 ATAAATCATTATT
*
690404 A-ATAATAATTA-T
1 ATA-AATCATTATT
690416 A-AAATCATTA-T
1 ATAAATCATTATT
690427 -TAAATCATTATT
1 ATAAATCATTATT
690439 ATCAAATCATTATT
1 AT-AAATCATTATT
*
690453 AT-AATGATTATT
1 ATAAATCATTATT
690465 ACTAAATCATTATT
1 A-TAAATCATTATT
*
690479 AT-AATGATTATT
1 ATAAATCATTATT
690491 ATCAAATCATTA-T
1 AT-AAATCATTATT
*
690504 -TAAATCATT-GT
1 ATAAATCATTATT
690515 -TAAATCATTA-T
1 ATAAATCATTATT
690526 -T--ATCATTATT
1 ATAAATCATTATT
690536 ATCAAATCATTA
1 AT-AAATCATTA
690548 CTAAATCATC
Statistics
Matches: 122, Mismatches: 6, Indels: 31
0.77 0.04 0.19
Matches are distributed among these distances:
9 7 0.06
10 1 0.01
11 38 0.31
12 27 0.22
13 12 0.10
14 37 0.30
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (13 bp):
ATAAATCATTATT
Found at i:690797 original size:38 final size:38
Alignment explanation
Indices: 690755--690930 Score: 110
Period size: 38 Copynumber: 4.5 Consensus size: 38
690745 ACATTAGTAT
*
690755 TAAATCATTATTATAATTTCATTATTACTAATCATTAC
1 TAAATCATTATTATAATTTCAATATTACTAATCATTAC
* * * *
690793 TAAATCATTACTATCAAATCATTAAATATTAATAATAATT--
1 TAAATCATTATTAT--AAT--TTCAATATTACTAATCATTAC
* * * * * *
690833 T-TATTATTATTAATCATTACTAAATATTACT-ATCAAATCAT
1 TAAATCATTATT-ATAATT--TCAATATTACTAATC--ATTAC
*
690874 TAAAT-ATTAATAATAATTTCAATATTACTAATCATTAC
1 TAAATCATT-ATTATAATTTCAATATTACTAATCATTAC
*
690912 TAAATAATTATTATAATTT
1 TAAATCATTATTATAATTT
690931 TAAAAAAATC
Statistics
Matches: 104, Mismatches: 19, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
36 1 0.01
37 2 0.02
38 42 0.40
39 22 0.21
40 9 0.09
41 9 0.09
42 19 0.18
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (38 bp):
TAAATCATTATTATAATTTCAATATTACTAATCATTAC
Found at i:690886 original size:59 final size:59
Alignment explanation
Indices: 690753--690917 Score: 269
Period size: 59 Copynumber: 2.8 Consensus size: 59
690743 CCACATTAGT
*
690753 ATTAAATCATT-ATTATAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATC
1 ATTAAAT-ATTAATAATAATTTCATTATTACTAATCATTACTAAAT-ATTACTATCAAATC
* *
690813 ATTAAATATTAATAATAATTTTATTATTATTAATCATTACTAAATATTACTATCAAATC
1 ATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATATTACTATCAAATC
*
690872 ATTAAATATTAATAATAATTTCAATATTACTAATCATTACTAAATA
1 ATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATA
690918 ATTATTATAA
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
59 60 0.61
60 38 0.39
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.44
Consensus pattern (59 bp):
ATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATATTACTATCAAATC
Found at i:690921 original size:21 final size:20
Alignment explanation
Indices: 690777--690917 Score: 87
Period size: 18 Copynumber: 7.1 Consensus size: 20
690767 ATAATTTCAT
690777 TATTACTAATCATTACTAAA
1 TATTACTAATCATTACTAAA
* *
690797 TCATTACT-ATCAAATCATTAAA
1 T-ATTACTAATC--ATTACTAAA
* * * *
690819 TATTAATAATAATT--TTAT
1 TATTACTAATCATTACTAAA
*
690837 TATTATTAATCATTACTAAA
1 TATTACTAATCATTACTAAA
* *
690857 TATTACT-ATCAAATCATTAAA
1 TATTACTAATC--ATTACTAAA
* * *
690878 TATTAATAATAATT--TCAA
1 TATTACTAATCATTACTAAA
690896 TATTACTAATCATTACTAAA
1 TATTACTAATCATTACTAAA
690916 TA
1 TA
690918 ATTATTATAA
Statistics
Matches: 89, Mismatches: 21, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
18 29 0.33
19 3 0.03
20 21 0.24
21 24 0.27
22 12 0.13
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTACTAATCATTACTAAA
Found at i:690967 original size:25 final size:24
Alignment explanation
Indices: 690936--690983 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
690926 AATTTTAAAA
*
690936 AAATCATTATTAAATCATAATTATC
1 AAATCATTACTAAATCA-AATTATC
690961 AAATCATTACTAAATCAAATTAT
1 AAATCATTACTAAATCAAATTAT
690984 ATCATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATCATTACTAAATCAAATTATC
Found at i:694011 original size:26 final size:25
Alignment explanation
Indices: 693954--694012 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
693944 CTAATATTAC
*
693954 TAATAATGATTTAATAATTATTATT
1 TAATAATGATTTAATAATTATGATT
* * *
693979 AATATAATGATTTGATATTTAATGATT
1 TA-ATAATGATTTAATAATT-ATGATT
694006 TAATAAT
1 TAATAAT
694013 AATATGATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.04
26 20 0.74
27 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (25 bp):
TAATAATGATTTAATAATTATGATT
Found at i:694822 original size:28 final size:30
Alignment explanation
Indices: 694782--694844 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
694772 ATTTTTTATA
*
694782 TAATATAATATATAACTTAAACTAACAAAT
1 TAATATAATATATAACTTAAACTAACAAAC
694812 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
694840 TAATA
1 TAATA
694845 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:694851 original size:28 final size:28
Alignment explanation
Indices: 694786--694851 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
694776 TTTATATAAT
*
694786 ATAATATATAACTTAAACTAACAAATTA
1 ATAATATATAACTTAAACTAACAAACTA
694814 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
694842 ATAATTTATA
1 ATAATATATA
694852 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:694854 original size:21 final size:21
Alignment explanation
Indices: 694821--694869 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
694811 TTAATATAAT
694821 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
694842 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
694863 ATTAACT
1 A-TAACT
694870 AAATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:695347 original size:29 final size:29
Alignment explanation
Indices: 695310--695387 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
695300 TAATGGTTGT
*
695310 CGGGCGTGCATGGTGACCTAACAGGTCGC
1 CGGGCGTGCATGGTGACCTAACACGTCGC
* * *
695339 TGGGCGTGCATGGCGACCTACCACGTCGC
1 CGGGCGTGCATGGTGACCTAACACGTCGC
*
695368 CGAGAC-TGCATGGTGACCTA
1 CG-GGCGTGCATGGTGACCTA
695388 CCCCGAGCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 39 0.95
30 2 0.05
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (29 bp):
CGGGCGTGCATGGTGACCTAACACGTCGC
Found at i:696403 original size:2 final size:2
Alignment explanation
Indices: 696396--696427 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
696386 AAATAATTCT
696396 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
696428 ACTAACATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:696650 original size:19 final size:19
Alignment explanation
Indices: 696626--696665 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
696616 AGTATCAATT
696626 AAGTTGGTGGTTATATGAC
1 AAGTTGGTGGTTATATGAC
696645 AAGTTGGTGGTTATATGAC
1 AAGTTGGTGGTTATATGAC
696664 AA
1 AA
696666 TTAGGGATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (19 bp):
AAGTTGGTGGTTATATGAC
Found at i:711976 original size:23 final size:23
Alignment explanation
Indices: 711885--711966 Score: 146
Period size: 23 Copynumber: 3.6 Consensus size: 23
711875 CATTATTATA
711885 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
711908 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
711931 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
711954 CGGCACTTCGGTG
1 TGGCACTACGGTG
711967 TATTTATACG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:717014 original size:23 final size:23
Alignment explanation
Indices: 716947--717006 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
716937 ATTATTATAT
* *
716947 GGCACTACGGTGCAATTCTACGT
1 GGCACTACGGTGTAATTCTACGC
716970 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGTAATTCTACGC
*
716993 GGCACTTCGGTGTA
1 GGCACTACGGTGTA
717007 TTTATACGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGTAATTCTACGC
Found at i:717120 original size:2 final size:2
Alignment explanation
Indices: 717113--717148 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
717103 TACAAATGCA
717113 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
717149 GATGGATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:717748 original size:15 final size:15
Alignment explanation
Indices: 717728--717757 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
717718 ATGGTGCACC
717728 AAATTTAAACAATGG
1 AAATTTAAACAATGG
*
717743 AAATTTAAATAATGG
1 AAATTTAAACAATGG
717758 CGTTAGTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.30
Consensus pattern (15 bp):
AAATTTAAACAATGG
Found at i:717872 original size:24 final size:24
Alignment explanation
Indices: 717851--717898 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
717841 TGCATGGTAG
*
717851 TACGCGTGGAATTGAAAGTGGTGA
1 TACGCGTGCAATTGAAAGTGGTGA
* *
717875 TATGTGTGCAATTGAAAGTGGTGA
1 TACGCGTGCAATTGAAAGTGGTGA
717899 CATGCATGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.06, G:0.35, T:0.29
Consensus pattern (24 bp):
TACGCGTGCAATTGAAAGTGGTGA
Found at i:717911 original size:24 final size:24
Alignment explanation
Indices: 717857--717915 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
717847 GTAGTACGCG
* **
717857 TGGAATTGAAAGTGGTGATATGTG
1 TGGAATTGAAAGTGGTGACATGCA
*
717881 TGCAATTGAAAGTGGTGACATGCA
1 TGGAATTGAAAGTGGTGACATGCA
717905 TGGAATTGAAA
1 TGGAATTGAAA
717916 ATTATATGCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.32, T:0.29
Consensus pattern (24 bp):
TGGAATTGAAAGTGGTGACATGCA
Found at i:717994 original size:84 final size:84
Alignment explanation
Indices: 717897--718065 Score: 275
Period size: 84 Copynumber: 2.0 Consensus size: 84
717887 TGAAAGTGGT
*
717897 GACATGCATGGAATTGAAAATTATATGCGTGGTGCACATGATGAGTTAAATAATCATGATATGCG
1 GACATGCATGGAATTGAAAATGATATGCGTGGTGCACATGATGAGTTAAATAATCATGATATGCG
717962 TGGTGCACATGGGGAGCAA
66 TGGTGCACATGGGGAGCAA
* * * ** *
717981 GACATGCGTGGAATTGAAAATGATATGTGTGGTGCATATGATGAGTTAAATAATTGTGATATGTG
1 GACATGCATGGAATTGAAAATGATATGCGTGGTGCACATGATGAGTTAAATAATCATGATATGCG
718046 TGGTGCACATGGGGAGCAA
66 TGGTGCACATGGGGAGCAA
718065 G
1 G
718066 CTTCGGTCCT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (84 bp):
GACATGCATGGAATTGAAAATGATATGCGTGGTGCACATGATGAGTTAAATAATCATGATATGCG
TGGTGCACATGGGGAGCAA
Found at i:718308 original size:27 final size:27
Alignment explanation
Indices: 718264--718320 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
718254 AGCTATGAAG
* *
718264 GTGCAACAAATTTGAATAATAATGGTA
1 GTGCAACAAATTTAAATAATAATGATA
*
718291 GTGCAACAATTTTAAATAATAATGATA
1 GTGCAACAAATTTAAATAATAATGATA
718318 GTG
1 GTG
718321 ATTCCAGCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.32
Consensus pattern (27 bp):
GTGCAACAAATTTAAATAATAATGATA
Found at i:721759 original size:17 final size:17
Alignment explanation
Indices: 721739--721771 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
721729 ACAACAAACC
721739 AATAAATTAGTAAATTT
1 AATAAATTAGTAAATTT
*
721756 AATAGATTAGTAAATT
1 AATAAATTAGTAAATT
721772 AGTAGTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
AATAAATTAGTAAATTT
Found at i:738996 original size:134 final size:134
Alignment explanation
Indices: 738756--739024 Score: 538
Period size: 134 Copynumber: 2.0 Consensus size: 134
738746 GCATGTGTAC
738756 TCCCAGTTGCTGTTGGAACATAAGAATTGGTTCATTATATGGCAGACAGGGGTACATTCATTTGA
1 TCCCAGTTGCTGTTGGAACATAAGAATTGGTTCATTATATGGCAGACAGGGGTACATTCATTTGA
738821 TGAAATGGAGAGCTTGGTTAGGAACCACCACCGGCTGCTTTTGACACCGTAAGTCGCGCTGTGCT
66 TGAAATGGAGAGCTTGGTTAGGAACCACCACCGGCTGCTTTTGACACCGTAAGTCGCGCTGTGCT
738886 CCAA
131 CCAA
738890 TCCCAGTTGCTGTTGGAACATAAGAATTGGTTCATTATATGGCAGACAGGGGTACATTCATTTGA
1 TCCCAGTTGCTGTTGGAACATAAGAATTGGTTCATTATATGGCAGACAGGGGTACATTCATTTGA
738955 TGAAATGGAGAGCTTGGTTAGGAACCACCACCGGCTGCTTTTGACACCGTAAGTCGCGCTGTGCT
66 TGAAATGGAGAGCTTGGTTAGGAACCACCACCGGCTGCTTTTGACACCGTAAGTCGCGCTGTGCT
739020 CCAA
131 CCAA
739024 T
1 T
739025 GTAGGATTAT
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (134 bp):
TCCCAGTTGCTGTTGGAACATAAGAATTGGTTCATTATATGGCAGACAGGGGTACATTCATTTGA
TGAAATGGAGAGCTTGGTTAGGAACCACCACCGGCTGCTTTTGACACCGTAAGTCGCGCTGTGCT
CCAA
Found at i:751127 original size:25 final size:25
Alignment explanation
Indices: 751099--751149 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
751089 GAATTGTAGT
* *
751099 AAGATAAATTGTTGATCGATGTTGA
1 AAGATAAACTATTGATCGATGTTGA
* *
751124 AAGATAAACTATTGGTTGATGTTGA
1 AAGATAAACTATTGATCGATGTTGA
751149 A
1 A
751150 GTTCTCAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (25 bp):
AAGATAAACTATTGATCGATGTTGA
Found at i:752240 original size:19 final size:20
Alignment explanation
Indices: 752203--752243 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
752193 GTTATTAACT
752203 ATTATTCTAATTTTATTTTA
1 ATTATTCTAATTTTATTTTA
752223 ATTATT-TAATTATT-TTTTA
1 ATTATTCTAATT-TTATTTTA
752242 AT
1 AT
752244 ATTACCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTATTCTAATTTTATTTTA
Found at i:755065 original size:341 final size:339
Alignment explanation
Indices: 754446--755282 Score: 1240
Period size: 341 Copynumber: 2.5 Consensus size: 339
754436 TATATTTTGA
* *
754446 AAAAATTATTGAATAATAATTCATTTGATTCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
* * * * *
754511 TTATATTCTTAAATAATTAATTTTAAAATGCAATAATTTTTTAAAAAATATATGAAATTTATAAT
66 TTATATTTTTAAACAATTAATTTTAAAA-GAAATATTTTTTTCAAAAATATATGAAATTTATAAT
* * * *
754576 TTTTTAAATTATAAAATA---GTTATCATCATCATCATCATTTTCTAAAAGAAATACTAATTATA
130 TTTTAAAATTATAAAATATTTATTATTATCATCATCATCATTTTCTAAAAGAAATACTAACTATA
*
754638 AAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTTATATACTAGATTAT
195 AAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTTATATACTAAATTAT
* *** * *
754703 ATGTATCGTGTAATTTTAATGCAAAAATTTAAATAGTTTTATTAAAAATGATTAAACATTATTAA
260 ACGTATCGTGTAATTTTAATGCAAAAACCAAAATAATTTTATTAAAAATGAATAAACATTATTAA
* *
754768 CTGTCGTTAAAAATT
325 CTATCGTTAAAAAAT
754783 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
*
754848 TTATATTTTTAAACAATTAATTTTAAAAGGTAATATTTTTTTTCAAAAATATATGAAATTTATAA
66 TTATATTTTTAAACAATTAATTTTAAAA-GAAATA-TTTTTTTCAAAAATATATGAAATTTATAA
* *
754913 TTTTTAAAATTATAAAATATTTATTATTATCATCATCATCATTTTGTAAAAGAAATACTAGCTAT
129 TTTTTAAAATTATAAAATATTTATTATTATCATCATCATCATTTTCTAAAAGAAATACTAACTAT
* *
754978 AAAACTTTTATAAAATTATTCATATTTTAAAATATTTATCCTCAAAG-TTTTATTATACTAAATT
194 AAAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTTA-TATACTAAATT
*
755042 ATACGTATTGTGTAATTTTAATGCAAAAACCAAAATAATTTTATTAAAAATGAATAAACATTATT
258 ATACGTATCGTGTAATTTTAATGCAAAAACCAAAATAATTTTATTAAAAATGAATAAACATTATT
* *
755107 AATTATTGTTAAAAAAT
323 AACTATCGTTAAAAAAT
* * * *
755124 AAAAATTAATGAATAATAATTCATTTAATCCCTTAATTGTAATTAAATGTTTATATTAATA-TTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
755188 TTATACTTTTTAAACAATTAATTTTTTTAAAA-AAATATTTTTTTC-AAAATATATGAAATTTAT
66 TTATA-TTTTTAAACAATTAA---TTTTAAAAGAAATATTTTTTTCAAAAATATATGAAATTTAT
*
755251 AATTTTTAAAATTATACAAA-ATTTATTTTTAT
127 AATTTTTAAAATTATA-AAATATTTATTATTAT
755283 AAAAAAATAA
Statistics
Matches: 456, Mismatches: 34, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
337 94 0.21
338 45 0.10
340 58 0.13
341 247 0.54
342 4 0.01
344 8 0.02
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (339 bp):
AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
TTATATTTTTAAACAATTAATTTTAAAAGAAATATTTTTTTCAAAAATATATGAAATTTATAATT
TTTAAAATTATAAAATATTTATTATTATCATCATCATCATTTTCTAAAAGAAATACTAACTATAA
AACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTTATATACTAAATTATA
CGTATCGTGTAATTTTAATGCAAAAACCAAAATAATTTTATTAAAAATGAATAAACATTATTAAC
TATCGTTAAAAAAT
Found at i:755227 original size:16 final size:16
Alignment explanation
Indices: 755194--755241 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
755184 ATTTTTATAC
* *
755194 TTTTTAAACAATTAATT
1 TTTTTAAAAAAAT-ATT
755211 TTTTTAAAAAAATATT
1 TTTTTAAAAAAATATT
* *
755227 TTTTTCAAAATATAT
1 TTTTTAAAAAAATAT
755242 GAAATTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTTAAAAAAATATT
Found at i:755256 original size:25 final size:26
Alignment explanation
Indices: 755228--755276 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
755218 AAAAATATTT
**
755228 TTTTCAAAA-TATATGAAATTTATAA
1 TTTTCAAAATTATACAAAATTTATAA
*
755253 TTTTTAAAATTATACAAAATTTAT
1 TTTTCAAAATTATACAAAATTTAT
755277 TTTTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTTCAAAATTATACAAAATTTATAA
Found at i:758657 original size:23 final size:23
Alignment explanation
Indices: 758610--758658 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
758600 AATAACATAT
* **
758610 TAGGTAGTATTTATATAATGTAA
1 TAGGTAGCATTTATATAATAAAA
*
758633 TAGGTAGCGTTTATATAATAAAA
1 TAGGTAGCATTTATATAATAAAA
758656 TAG
1 TAG
758659 ACATTTAACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (23 bp):
TAGGTAGCATTTATATAATAAAA
Found at i:758709 original size:64 final size:61
Alignment explanation
Indices: 758633--758776 Score: 198
Period size: 64 Copynumber: 2.3 Consensus size: 61
758623 TATAATGTAA
*
758633 TAGGTAGCGTTTATATAATAAAATAGACATTTAACCGAAAATATTATCAAGTACAATAACATAT
1 TAGGTAGTGTTTATATAATAAAATAGACATTTAACCGAAAATATTATCAAGT---ATAACATAT
* * * *
758697 TAGGTAGTGTTTATATAATAAAATAGACATTTAACTGGAAATATTATCTAGTATAATATAT
1 TAGGTAGTGTTTATATAATAAAATAGACATTTAACCGAAAATATTATCAAGTATAACATAT
* *
758758 TAGGAAATGTTTATATAAT
1 TAGGTAGTGTTTATATAAT
758777 GTAATATGTA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
61 25 0.34
64 48 0.66
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.36
Consensus pattern (61 bp):
TAGGTAGTGTTTATATAATAAAATAGACATTTAACCGAAAATATTATCAAGTATAACATAT
Found at i:759195 original size:199 final size:199
Alignment explanation
Indices: 758824--759894 Score: 1298
Period size: 199 Copynumber: 5.5 Consensus size: 199
758814 CTAAATCGGT
* * * * *
758824 ATATTTATACC-GGTAATATTGCAAATTTACCTATTATATTATAATTATCGGTTTCAATGTTTTT
1 ATATTTATACCGGGT-ACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTTT
* * * * *
758888 TGGATCGATACAATTT--TGAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATACATTAT
65 GGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATATATTCT
* * * *
758951 GGAAAAAAGTATTGACACAAACTTAAAACGTTTCGATATATTATGTAGACATATTTTCTTATAAA
129 GGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACATATTTTCTCATAAA
759016 ACCGGA
194 ACCGGA
* **
759022 ATATTTCTACCGGGTACATTGTAAATTTAATTATTACATTGTAATTATCGGTTTCGATGTTTTTG
1 ATATTTATACCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTTTG
* * *
759087 GGATCGATAATTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTGGGCATATATTCTGG
66 GGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATATATTCTGG
* * *
759152 AAAAAAGTATCGATACAAACTTAAAACGTGTCAATACATTATGTAGACCTATTTTCTCATAAAAC
131 AAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACATATTTTCTCATAAAAC
*
759217 CGGT
196 CGGA
*
759221 ATATTTTTACC--G--C---G-------------TACATTGTAATTATCGGTTTCGATGTTTTTG
1 ATATTTATACCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTTTG
* * * *
759266 GGATCGATACTTGTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATACATTCTGA
66 GGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATATATTCTGG
* * * *
759331 AAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATATATACTTATTTTCTCATAAAAT
131 AAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACATATTTTCTCATAAAAC
*
759396 C-AA
196 CGGA
*
759399 TATATTTATACCGGGTACATTGTAAGTTTACCTATTACATTGTAATTATCGGTTTCGATGTTTTT
1 -ATATTTATACCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTTT
*
759464 AGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCAT-TCATTCT
65 GGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATAT-ATTCT
*
759528 GGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACTTATTTTCTCATAAA
129 GGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACATATTTTCTCATAAA
**
759593 ACCAAA
194 ACCGGA
* ** * * *
759599 ATATTTCTACAAGATACATTATAAATTTACATATTACATTGTAATTATCGGTTTCGATGTTTTTG
1 ATATTTATACCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTTTG
* * *
759664 GGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCATTTGACAT-TCATTCTG
66 GGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATAT-ATTCTG
* *** ** * * *
759728 GACAAAATGTATCGACAC-TTTTTAAATTTGTGTCGATACATTATGTTGACATATTCTATCATAA
130 GA-AAAAAGTATCGACACAAACTTAAA-ACGTGTCGATACATTATGTAGACATATTTTCTCATAA
*
759792 AA-CTGA
193 AACCGGA
* * * *
759798 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTTTAATTATCGATTTCAATGTTTTT
1 -ATATTTATACCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTTT
* *
759863 GGGGTCGATACTTTTAAAAAATGTATCGACAC
65 GGGATCGATACTTTTAATAAATGTATCGACAC
759895 ATATGTTACC
Statistics
Matches: 763, Mismatches: 81, Indels: 56
0.85 0.09 0.06
Matches are distributed among these distances:
179 161 0.21
181 1 0.00
183 1 0.00
186 1 0.00
192 1 0.00
195 1 0.00
197 4 0.01
198 61 0.08
199 398 0.52
200 134 0.18
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (199 bp):
ATATTTATACCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTTTG
GGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATATATTCTGG
AAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACATATTTTCTCATAAAAC
CGGA
Found at i:759356 original size:179 final size:179
Alignment explanation
Indices: 759056--759423 Score: 601
Period size: 179 Copynumber: 2.1 Consensus size: 179
759046 ATTTAATTAT
*
759056 TACATTGTAATTATCGGTTTCGATGTTTTTGGGATCGATAATTTTAATAAATGTATCGACACTTT
1 TACATTGTAATTATCGGTTTCGATGTTTTTGGGATCGATAATTGTAATAAATGTATCGACACTTT
* * * *
759121 ATGTGTGCACCTCGTTGGGCATATATTCTGGAAAAAAGTATCGATACAAACTTAAAACGTGTCAA
66 ATGCGTGCACCTCGTTGGGCATACATTCTGAAAAAAAGTATCGACACAAACTTAAAACGTGTCAA
* ** *
759186 TACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTTTACCGCG
131 TACATTATATAGACCTATTTTCTCATAAAACCAATATATTTATACCGCG
*
759235 TACATTGTAATTATCGGTTTCGATGTTTTTGGGATCGATACTTGTAATAAATGTATCGACACTTT
1 TACATTGTAATTATCGGTTTCGATGTTTTTGGGATCGATAATTGTAATAAATGTATCGACACTTT
*
759300 ATGCGTGCACCTCGTTGGGCATACATTCTGAAAAAAAGTATCGACACAAACTTAAAACGTGTCGA
66 ATGCGTGCACCTCGTTGGGCATACATTCTGAAAAAAAGTATCGACACAAACTTAAAACGTGTCAA
* * * *
759365 TACATTATATATACTTATTTTCTCATAAAATCAATATATTTATACCGGG
131 TACATTATATAGACCTATTTTCTCATAAAACCAATATATTTATACCGCG
759414 TACATTGTAA
1 TACATTGTAA
759424 GTTTACCTAT
Statistics
Matches: 174, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
179 174 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (179 bp):
TACATTGTAATTATCGGTTTCGATGTTTTTGGGATCGATAATTGTAATAAATGTATCGACACTTT
ATGCGTGCACCTCGTTGGGCATACATTCTGAAAAAAAGTATCGACACAAACTTAAAACGTGTCAA
TACATTATATAGACCTATTTTCTCATAAAACCAATATATTTATACCGCG
Found at i:760359 original size:125 final size:125
Alignment explanation
Indices: 760205--760470 Score: 415
Period size: 125 Copynumber: 2.1 Consensus size: 125
760195 CAGTAAAAAA
* *
760205 AATAATAAAACCGGTAGCGCTTTTACCGATTTTGTTAAGAAACCCGATAAAATATCAAAATAATA
1 AATAATAAAATCGGTAGCGCTTTTACCGATTTTATTAAGAAACCCGATAAAATATCAAAATAATA
* * * * * * *
760270 ACAAAATCGGTAGAAATAATAATGTTTTTGGTAATTTTTATCGGTTTTATTATGCACAAC
66 ACAAAACCAGTAGAAATAATAATATTTTTGATAATTTTTACCAGTTTTATTATACACAAC
* * *
760330 AATAACAAAATCGGTAGCGCTTTTACCGATTTTATTAAGAAACCCGGTAAAATGTCAAAATAATA
1 AATAATAAAATCGGTAGCGCTTTTACCGATTTTATTAAGAAACCCGATAAAATATCAAAATAATA
*
760395 ACAAAACCAGTAGAAATAATGATATTTTTGATAATTTTTACCAGTTTTATTATACACAAC
66 ACAAAACCAGTAGAAATAATAATATTTTTGATAATTTTTACCAGTTTTATTATACACAAC
760455 AATAATAAAATCGGTA
1 AATAATAAAATCGGTA
760471 TCATTTTTTT
Statistics
Matches: 127, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 127 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.32
Consensus pattern (125 bp):
AATAATAAAATCGGTAGCGCTTTTACCGATTTTATTAAGAAACCCGATAAAATATCAAAATAATA
ACAAAACCAGTAGAAATAATAATATTTTTGATAATTTTTACCAGTTTTATTATACACAAC
Found at i:761140 original size:18 final size:19
Alignment explanation
Indices: 761117--761156 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
761107 AAACATCGCG
* *
761117 ACTCAA-ATTAGTATTGAT
1 ACTCAAGATAAGTATCGAT
761135 ACTCAAGATAAGTATCGAT
1 ACTCAAGATAAGTATCGAT
761154 ACT
1 ACT
761157 AGTAAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (19 bp):
ACTCAAGATAAGTATCGAT
Found at i:763050 original size:22 final size:22
Alignment explanation
Indices: 763025--763067 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
763015 GTCAAACACT
*
763025 GATTGGTTAATGATTTTTAACA
1 GATTGGTTAATAATTTTTAACA
**
763047 GATTTTTTAATAATTTTTAAC
1 GATTGGTTAATAATTTTTAAC
763068 GGTCAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (22 bp):
GATTGGTTAATAATTTTTAACA
Found at i:763585 original size:6 final size:6
Alignment explanation
Indices: 763574--763598 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
763564 GGGATGATAA
763574 ACGGGG ACGGGG ACGGGG ACGGGG A
1 ACGGGG ACGGGG ACGGGG ACGGGG A
763599 AAATCCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.64, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:763755 original size:23 final size:23
Alignment explanation
Indices: 763725--763796 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
763715 ATATTAATAA
763725 ATTTAATTTAAATAAAAATATAT
1 ATTTAATTTAAATAAAAATATAT
763748 ATTTAATTTAAATAAAAAATATAT
1 ATTTAATTTAAAT-AAAAATATAT
* *
763772 ATTTAATTTAAATATATATATAT
1 ATTTAATTTAAATAAAAATATAT
763795 AT
1 AT
763797 ATATATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.50
24 23 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTTAAATAAAAATATAT
Found at i:763770 original size:24 final size:24
Alignment explanation
Indices: 763725--763785 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
763715 ATATTAATAA
763725 ATTTAATTTAAAT-AAAAATATAT
1 ATTTAATTTAAATAAAAAATATAT
763748 ATTTAATTTAAATAAAAAATATAT
1 ATTTAATTTAAATAAAAAATATAT
763772 ATTTAATTTAAATA
1 ATTTAATTTAAATA
763786 TATATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 13 0.35
24 24 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTAATTTAAATAAAAAATATAT
Found at i:763788 original size:2 final size:2
Alignment explanation
Indices: 763783--763813 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
763773 TTTAATTTAA
763783 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
763814 CCCGGCCCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:763859 original size:12 final size:12
Alignment explanation
Indices: 763811--763864 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
763801 ATATATATAT
*
763811 ATACCCGGCCCG
1 ATACCCGGCCCA
* *
763823 ATTCCCAGCCCA
1 ATACCCGGCCCA
*
763835 ATA-CCGACCCA
1 ATACCCGGCCCA
763846 ATACCCGGCCCA
1 ATACCCGGCCCA
763858 ATACCCG
1 ATACCCG
763865 TTTAAATAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 9 0.26
12 25 0.74
ACGTcount: A:0.26, C:0.48, G:0.15, T:0.11
Consensus pattern (12 bp):
ATACCCGGCCCA
Done.