Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 94 of 117
Found at i:16851914 original size:24 final size:24
Alignment explanation
Indices: 16851835--16851914 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
16851825 TTTCTCTCTT
*
16851835 TTTCC-TTCTTTTTCTTTTTTTCC
1 TTTCCTTTCCTTTTCTTTTTTTCC
* * *
16851858 TTTCTTTTTCTTTTTTTTTTTTCC
1 TTTCCTTTCCTTTTCTTTTTTTCC
*
16851882 TTTTTCTTTCCTTTTCTTTTTTT-C
1 -TTTCCTTTCCTTTTCTTTTTTTCC
16851906 TTCTCCTTT
1 TT-TCCTTT
16851915 TTTCTTTCCA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
23 6 0.13
24 21 0.47
25 18 0.40
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTCCTTTCCTTTTCTTTTTTTCC
Found at i:16854478 original size:8 final size:8
Alignment explanation
Indices: 16854461--16854523 Score: 78
Period size: 8 Copynumber: 8.2 Consensus size: 8
16854451 GTTTGGGCAA
16854461 TTTAAGGT
1 TTTAAGGT
*
16854469 TTTGAGG-
1 TTTAAGGT
16854476 TTTAAGGT
1 TTTAAGGT
16854484 TTTAAGGT
1 TTTAAGGT
16854492 TTTAAGG-
1 TTTAAGGT
*
16854499 TTTATGG-
1 TTTAAGGT
16854506 TTTAAGGT
1 TTTAAGGT
*
16854514 TTTAATGT
1 TTTAAGGT
16854522 TT
1 TT
16854524 ACAATTTTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
7 18 0.38
8 30 0.62
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.52
Consensus pattern (8 bp):
TTTAAGGT
Found at i:16854487 original size:23 final size:22
Alignment explanation
Indices: 16854461--16854524 Score: 92
Period size: 23 Copynumber: 2.9 Consensus size: 22
16854451 GTTTGGGCAA
*
16854461 TTTAAGGTTTTGAGGTTTAAGG
1 TTTAAGGTTTTAAGGTTTAAGG
*
16854483 TTTTAAGGTTTTAAGGTTTATGG
1 -TTTAAGGTTTTAAGGTTTAAGG
*
16854506 TTTAAGGTTTTAATGTTTA
1 TTTAAGGTTTTAAGGTTTA
16854525 CAATTTTAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 18 0.47
23 20 0.53
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (22 bp):
TTTAAGGTTTTAAGGTTTAAGG
Found at i:16854523 original size:15 final size:15
Alignment explanation
Indices: 16854461--16854524 Score: 85
Period size: 15 Copynumber: 4.3 Consensus size: 15
16854451 GTTTGGGCAA
*
16854461 TTTAAGGTTTTGAGG
1 TTTAAGGTTTTAAGG
16854476 TTTAAGGTTTTAAGG
1 TTTAAGGTTTTAAGG
*
16854491 TTTTAAGG-TTTATGG
1 -TTTAAGGTTTTAAGG
*
16854506 TTTAAGGTTTTAATG
1 TTTAAGGTTTTAAGG
16854521 TTTA
1 TTTA
16854525 CAATTTTAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
14 7 0.16
15 29 0.67
16 7 0.16
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (15 bp):
TTTAAGGTTTTAAGG
Found at i:16854524 original size:7 final size:7
Alignment explanation
Indices: 16854461--16854515 Score: 65
Period size: 7 Copynumber: 7.4 Consensus size: 7
16854451 GTTTGGGCAA
16854461 TTTAAGG
1 TTTAAGG
*
16854468 TTTTGAGG
1 -TTTAAGG
16854476 TTTAAGG
1 TTTAAGG
16854483 TTTTAAGG
1 -TTTAAGG
16854491 TTTTAAGG
1 -TTTAAGG
*
16854499 TTTATGG
1 TTTAAGG
16854506 TTTAAGG
1 TTTAAGG
16854513 TTT
1 TTT
16854516 TAATGTTTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
7 21 0.50
8 21 0.50
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (7 bp):
TTTAAGG
Found at i:16854848 original size:3 final size:3
Alignment explanation
Indices: 16854840--16854873 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
16854830 GCATTAATAA
*
16854840 AGT AGT AGT AGT AAT AGT AGT AGT AGT AGT AGT A
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
16854874 ATAATAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (3 bp):
AGT
Found at i:16854878 original size:3 final size:3
Alignment explanation
Indices: 16854872--16854904 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
16854862 GTAGTAGTAG
16854872 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16854905 ATGTGAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16854981 original size:16 final size:16
Alignment explanation
Indices: 16854960--16854992 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16854950 ATATAACTAA
*
16854960 ATGTAAACTATAAAAT
1 ATGTAAACTAAAAAAT
16854976 ATGTAAACTAAAAAAT
1 ATGTAAACTAAAAAAT
16854992 A
1 A
16854993 AATTTAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (16 bp):
ATGTAAACTAAAAAAT
Found at i:16855911 original size:23 final size:25
Alignment explanation
Indices: 16855885--16855933 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
16855875 CTTTTTCTCC
*
16855885 CCTTTT-ATTC-CTTTTTTTTTTTG
1 CCTTTTCATTCTCTTTTTTTCTTTG
*
16855908 CCTTTTCTTTCTCTTTTTTTCTTTG
1 CCTTTTCATTCTCTTTTTTTCTTTG
16855933 C
1 C
16855934 TCTCTTCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 3 0.14
25 13 0.59
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.71
Consensus pattern (25 bp):
CCTTTTCATTCTCTTTTTTTCTTTG
Found at i:16859229 original size:19 final size:18
Alignment explanation
Indices: 16859205--16859243 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16859195 ATAATTCTTT
16859205 AAATTTAAAAAATATAATA
1 AAATTTAAAAAATA-AATA
**
16859224 AAATTTTGAAAATAAATA
1 AAATTTAAAAAATAAATA
16859242 AA
1 AA
16859244 TATATTCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATTTAAAAAATAAATA
Found at i:16859471 original size:39 final size:38
Alignment explanation
Indices: 16859403--16859477 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 38
16859393 TAAAATGTAT
*
16859403 TAAAATTTTGAAAAAAATAAAAATTATTTCAAAGATGA
1 TAAAATTTTGAAAAAAATAAAAATAATTTCAAAGATGA
* *
16859441 TAAAATTTTGAAATTAAATAAAAATAATTTCGAAGAT
1 TAAAATTTTGAAA-AAAATAAAAATAATTTCAAAGAT
16859478 AAAATTCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 13 0.39
39 20 0.61
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (38 bp):
TAAAATTTTGAAAAAAATAAAAATAATTTCAAAGATGA
Found at i:16864136 original size:21 final size:22
Alignment explanation
Indices: 16864110--16864150 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
16864100 GCAAATAAAT
*
16864110 TGTTTTGAAT-TGAATCTAACA
1 TGTTTTGAATGTAAATCTAACA
16864131 TGTTTTGAATGTAAATCTAA
1 TGTTTTGAATGTAAATCTAA
16864151 ACTAAGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (22 bp):
TGTTTTGAATGTAAATCTAACA
Found at i:16864387 original size:18 final size:19
Alignment explanation
Indices: 16864354--16864389 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16864344 TAATGGAAAG
16864354 GCAAGTAATGAAGAAAATC
1 GCAAGTAATGAAGAAAATC
16864373 GCAAGTAAT-AAGAAAAT
1 GCAAGTAATGAAGAAAAT
16864390 GTAAATCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.56, C:0.08, G:0.19, T:0.17
Consensus pattern (19 bp):
GCAAGTAATGAAGAAAATC
Found at i:16872112 original size:15 final size:17
Alignment explanation
Indices: 16872082--16872113 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16872072 CTTCTTCTTT
16872082 TAAAAGTTATAAAATAA
1 TAAAAGTTATAAAATAA
16872099 TAAAA-TTA-AAAATAA
1 TAAAAGTTATAAAATAA
16872114 ATATAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
TAAAAGTTATAAAATAA
Found at i:16879761 original size:29 final size:30
Alignment explanation
Indices: 16879729--16879796 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 30
16879719 GTTTAGGTAA
* * *
16879729 TTTAGGGTTTTAGGGCTT-AGGTTTCAAGG
1 TTTAGGGTTTCAGGACTTAAGGTTTCAAAG
*
16879758 TTTA-GGTTTCAGGATTTAAGGTTTCAAAG
1 TTTAGGGTTTCAGGACTTAAGGTTTCAAAG
16879787 TTT-GGGTTTC
1 TTTAGGGTTTC
16879797 TCATATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.19, C:0.07, G:0.29, T:0.44
Consensus pattern (30 bp):
TTTAGGGTTTCAGGACTTAAGGTTTCAAAG
Found at i:16879762 original size:14 final size:14
Alignment explanation
Indices: 16879745--16879796 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
16879735 GTTTTAGGGC
16879745 TTAGGTTTCAAGGT
1 TTAGGTTTCAAGGT
16879759 TTAGGTTTC-AGGAT
1 TTAGGTTTCAAGG-T
*
16879773 TTAAGGTTTCAAAGT
1 TT-AGGTTTCAAGGT
*
16879788 TTGGGTTTC
1 TTAGGTTTC
16879797 TCATATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 3 0.09
14 18 0.55
15 10 0.30
16 2 0.06
ACGTcount: A:0.21, C:0.08, G:0.27, T:0.44
Consensus pattern (14 bp):
TTAGGTTTCAAGGT
Found at i:16879778 original size:21 final size:20
Alignment explanation
Indices: 16879711--16879781 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 20
16879701 ATTGAGGGCT
16879711 AGGTTTAGGTTTAGGTAATTTA
1 AGGTTTAGGTTTAGG--ATTTA
* *
16879733 GGGTTTTAGGGCTTAGG-TTTCA
1 AGG-TTTA-GGTTTAGGATTT-A
16879755 AGGTTTAGGTTTCAGGATTTA
1 AGGTTTAGGTTT-AGGATTTA
16879776 AGGTTT
1 AGGTTT
16879782 CAAAGTTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
20 4 0.10
21 17 0.43
22 8 0.20
23 4 0.10
24 7 0.17
ACGTcount: A:0.21, C:0.04, G:0.31, T:0.44
Consensus pattern (20 bp):
AGGTTTAGGTTTAGGATTTA
Found at i:16880064 original size:3 final size:3
Alignment explanation
Indices: 16880056--16880129 Score: 76
Period size: 3 Copynumber: 24.7 Consensus size: 3
16880046 AATGAGCACT
* * * * * *
16880056 ATG ATG ATG ATG ATG ATG ATA ATC ATG ATA ATG ATA ATA ATA ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
* *
16880104 ATA ATG ATG ATG ATG ATG ATA ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
16880130 AATAATAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.43, C:0.01, G:0.22, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:16880130 original size:6 final size:6
Alignment explanation
Indices: 16880056--16880138 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
16880046 AATGAGCACT
* * * * * *
16880056 ATGATG ATGATG ATGATG ATAATC ATGATA ATGATA ATAATA ATG---
1 ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA
* * *
16880101 ATGATA ATGATG ATGATG ATGATA ATGATA ATAATA AT
1 ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA AT
16880139 TACAACAACA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 3 0.05
6 62 0.95
ACGTcount: A:0.46, C:0.01, G:0.19, T:0.34
Consensus pattern (6 bp):
ATGATA
Found at i:16880146 original size:3 final size:3
Alignment explanation
Indices: 16880140--16880170 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
16880130 AATAATAATT
*
16880140 ACA ACA ACA ATA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
16880171 TAATAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.29, G:0.00, T:0.03
Consensus pattern (3 bp):
ACA
Found at i:16881817 original size:144 final size:143
Alignment explanation
Indices: 16881609--16882011 Score: 371
Period size: 145 Copynumber: 2.8 Consensus size: 143
16881599 CATGATTTTC
* * * * ***
16881609 AATGCATCAAAAATCATGAAATAATATAAAAACATGATCTGAAAGTTTTTGTGAAAAA-TCAACC
1 AATGCACCAAAAATCATGAAATAATATAAAAATATGATATG-GAGTTTTTCACAAAAATTCAACC
* * *
16881673 TCGAGAAGATCAAATTAAAAAAATATCTCTAAAAGTTATTTTGATAATTTGACACATTTCTAGAT
65 TCGAAAAGATCAAATTAAAAAAATATC-CTAAAAGCTATTTTGATAATTTGACACATTTCAAGAT
*
16881738 GCAATC-AGGGTTTTT
129 GCAATCTA-GGTATTT
* * * * * *
16881753 AATGTACCATAAATCATAAAATAATATGAAAATATGATTTGGAGTTTTTCACAAAAATTTAACCT
1 AATGCACCAAAAATCATGAAATAATATAAAAATATGATATGGAGTTTTTCACAAAAATTCAACCT
* * * * * * *** *
16881818 TGAAAAGGTCAAATTATGAAAAAAAATCCTAATAGGTATTTTGGTAATTTTTTACCTTTCAAGAT
66 CGAAAAGATCAAATTA--AAAAAATATCCTAAAAGCTATTTTGATAATTTGACACATTTCAAGAT
*
16881883 GCGATCTAGGTATTT
129 GCAATCTAGGTATTT
* * * ** *
16881898 AATGCATCAAAAATAATGAAATAATATAAAAATATGATATGGAGTCTTTCATGAAAATTCGACCT
1 AATGCACCAAAAATCATGAAATAATATAAAAATATGATATGGAGTTTTTCACAAAAATTCAACCT
* * * * *
16881963 C-AAAAAATCAAAATTACAAAAATATCCCCAAAGGCGATTTTGATAATTT
66 CGAAAAGATC-AAATTAAAAAAATAT-CCTAAAAGCTATTTTGATAATTT
16882012 TATATTTTTT
Statistics
Matches: 204, Mismatches: 49, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
143 19 0.09
144 76 0.37
145 99 0.49
146 10 0.05
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (143 bp):
AATGCACCAAAAATCATGAAATAATATAAAAATATGATATGGAGTTTTTCACAAAAATTCAACCT
CGAAAAGATCAAATTAAAAAAATATCCTAAAAGCTATTTTGATAATTTGACACATTTCAAGATGC
AATCTAGGTATTT
Found at i:16882437 original size:26 final size:26
Alignment explanation
Indices: 16882394--16882458 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 26
16882384 CTTGAAGTTT
*
16882394 TTTTATTGTTGTCTTTTTTTAGAATTTTTA
1 TTTTATT-TTGT-TTTGTTTAG--TTTTTA
*
16882424 TTTTATTTTGTTTTGTTTTGTTTTTA
1 TTTTATTTTGTTTTGTTTAGTTTTTA
16882450 TTTTATTTT
1 TTTTATTTT
16882459 TGGTGTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 15 0.45
28 7 0.21
29 4 0.12
30 7 0.21
ACGTcount: A:0.12, C:0.02, G:0.09, T:0.77
Consensus pattern (26 bp):
TTTTATTTTGTTTTGTTTAGTTTTTA
Found at i:16882468 original size:26 final size:26
Alignment explanation
Indices: 16882418--16882469 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
16882408 TTTTTTAGAA
* *
16882418 TTTTTATTTTATTTTGTTTTGTTTTG
1 TTTTTATTTTATTTTGGTGTGTTTTG
16882444 TTTTTATTTTATTTTTGGTGT-TTTTG
1 TTTTTATTTTA-TTTTGGTGTGTTTTG
16882470 AAAAACTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.08, C:0.00, G:0.13, T:0.79
Consensus pattern (26 bp):
TTTTTATTTTATTTTGGTGTGTTTTG
Found at i:16888748 original size:15 final size:15
Alignment explanation
Indices: 16888728--16888784 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
16888718 AATTCCCATG
*
16888728 AAACCCTTAACCCCA
1 AAACCCTAAACCCCA
*
16888743 AAACCCTAAACCCTA
1 AAACCCTAAACCCCA
* * *
16888758 AGACCCTTATA-CCCT
1 AAACCC-TAAACCCCA
16888773 AAACCCTAAACC
1 AAACCCTAAACC
16888785 TTAAAACCTT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
14 3 0.09
15 26 0.81
16 3 0.09
ACGTcount: A:0.40, C:0.42, G:0.02, T:0.16
Consensus pattern (15 bp):
AAACCCTAAACCCCA
Found at i:16888805 original size:14 final size:13
Alignment explanation
Indices: 16888743--16888816 Score: 58
Period size: 15 Copynumber: 5.2 Consensus size: 13
16888733 CTTAACCCCA
16888743 AAACCCTAAACCCT
1 AAACCCTAAA-CCT
*
16888757 AAGACCCTTATACCCT
1 AA-ACCC-TA-AACCT
16888773 AAACCCTAAACCTT
1 AAACCCTAAACC-T
*
16888787 AAAACCTTGAAACCT
1 -AAACCCT-AAACCT
*
16888802 AAACCCTAAAACT
1 AAACCCTAAACCT
16888815 AA
1 AA
16888817 TCTTTAACCC
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
13 10 0.20
14 11 0.22
15 15 0.31
16 12 0.24
17 1 0.02
ACGTcount: A:0.45, C:0.34, G:0.03, T:0.19
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:16888813 original size:8 final size:7
Alignment explanation
Indices: 16888728--16888811 Score: 71
Period size: 7 Copynumber: 11.4 Consensus size: 7
16888718 AATTCCCATG
16888728 AAACCCTT
1 AAACCC-T
* *
16888736 AACCCCA
1 AAACCCT
16888743 AAACCCT
1 AAACCCT
16888750 AAACCCT
1 AAACCCT
16888757 AAGACCCTT
1 AA-ACCC-T
*
16888766 ATACCCT
1 AAACCCT
16888773 AAACCCT
1 AAACCCT
*
16888780 AAACCTT
1 AAACCCT
*
16888787 AAAACCTT
1 -AAACCCT
16888795 GAAA-CCT
1 -AAACCCT
16888802 AAACCCT
1 AAACCCT
16888809 AAA
1 AAA
16888812 ACTAATCTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
6 3 0.05
7 35 0.56
8 23 0.37
9 2 0.03
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:16889887 original size:28 final size:29
Alignment explanation
Indices: 16889850--16889905 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
16889840 CATTCATTTC
*
16889850 TTTTTCTTTTA-TTTTTATTCTTTTTCTG
1 TTTTTATTTTATTTTTTATTCTTTTTCTG
*
16889878 TTTTTATTTTATTTTTTTTTCTTTTTCT
1 TTTTTATTTTATTTTTTATTCTTTTTCT
16889906 TTCACTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.82
Consensus pattern (29 bp):
TTTTTATTTTATTTTTTATTCTTTTTCTG
Found at i:16889897 original size:23 final size:22
Alignment explanation
Indices: 16889847--16889903 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
16889837 ATTCATTCAT
16889847 TTCTTTTTC--TTTTATTTTTA
1 TTCTTTTTCTTTTTTATTTTTA
16889867 TTCTTTTTCTGTTTTTA-TTTTA
1 TTCTTTTTCT-TTTTTATTTTTA
*
16889889 TTTTTTTTTCTTTTT
1 -TTCTTTTTCTTTTT
16889904 CTTTCACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 9 0.28
22 9 0.28
23 14 0.44
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.82
Consensus pattern (22 bp):
TTCTTTTTCTTTTTTATTTTTA
Found at i:16891082 original size:37 final size:37
Alignment explanation
Indices: 16891023--16891125 Score: 113
Period size: 37 Copynumber: 2.8 Consensus size: 37
16891013 AAACTTTATG
*
16891023 TTTCTCTCTTT-TTCTTTTTTTTTTTCTTTTTTGTT-CC
1 TTTCT-TCTTTCTTC-TTTTTTTTTTCTTTTTTCTTCCC
*
16891060 TTTCTTCTTTCTT-TTTCCTTTTTTTCATTTTTCTTCCC
1 TTTCTTCTTTCTTCTTT--TTTTTTTCTTTTTTCTTCCC
* *
16891098 TTTTTTTTTTCTTCTTTTTTTTTTCTTT
1 TTTCTTCTTTCTTCTTTTTTTTTTCTTT
16891126 CCAAGTGCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
35 3 0.05
36 5 0.09
37 32 0.57
38 13 0.23
39 3 0.05
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.79
Consensus pattern (37 bp):
TTTCTTCTTTCTTCTTTTTTTTTTCTTTTTTCTTCCC
Found at i:16891085 original size:22 final size:22
Alignment explanation
Indices: 16891024--16891116 Score: 60
Period size: 22 Copynumber: 4.5 Consensus size: 22
16891014 AACTTTATGT
* * *
16891024 TTCTCTCTTTTTCTTTTTTTTT
1 TTCTTTCTTTTTCCTTTTTTTC
16891046 TTCTTT-TTTGTTCC----TTTC
1 TTCTTTCTTT-TTCCTTTTTTTC
16891064 TTCTTTCTTTTTCCTTTTTTTC
1 TTCTTTCTTTTTCCTTTTTTTC
* *
16891086 ATT-TTTC--TTCCCTTTTTTTT
1 -TTCTTTCTTTTTCCTTTTTTTC
16891106 TTC-TTCTTTTT
1 TTCTTTCTTTTT
16891117 TTTTTCTTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 21
0.67 0.07 0.26
Matches are distributed among these distances:
18 13 0.24
19 8 0.15
20 11 0.20
21 5 0.09
22 16 0.29
23 2 0.04
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.77
Consensus pattern (22 bp):
TTCTTTCTTTTTCCTTTTTTTC
Found at i:16891092 original size:29 final size:29
Alignment explanation
Indices: 16891029--16891125 Score: 77
Period size: 28 Copynumber: 3.6 Consensus size: 29
16891019 TATGTTTCTC
* *
16891029 TCTTTTTCTT-TTTTTTTTTCTTTTTTGT
1 TCTTTTTCTTCTTTCTTTTTCCTTTTTGT
*
16891057 TC-CTTTCTTCTTTCTTTTTCCTTTTT-T
1 TCTTTTTCTTCTTTCTTTTTCCTTTTTGT
* *
16891084 TCATTTTTCTTC--CCTTTTT--TTTTTCT
1 TC-TTTTTCTTCTTTCTTTTTCCTTTTTGT
16891110 TCTTTTT-TT-TTTCTTT
1 TCTTTTTCTTCTTTCTTT
16891126 CCAAGTGCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
24 2 0.04
25 14 0.25
26 3 0.05
27 15 0.26
28 16 0.28
29 7 0.12
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.79
Consensus pattern (29 bp):
TCTTTTTCTTCTTTCTTTTTCCTTTTTGT
Found at i:16891106 original size:16 final size:14
Alignment explanation
Indices: 16891038--16891124 Score: 79
Period size: 14 Copynumber: 5.9 Consensus size: 14
16891028 CTCTTTTTCT
16891038 TTTTTTTTTTCTT-
1 TTTTTTTTTTCTTC
*
16891051 TTTTGTTCCTTTCTTC
1 TTTT-TT-TTTTCTTC
* *
16891067 TTTCTTTTTCCTT-
1 TTTTTTTTTTCTTC
16891080 TTTTTCATTTTTCTTCCC
1 TTTTT--TTTTTCTT--C
16891098 TTTTTTTTTTCTTC
1 TTTTTTTTTTCTTC
16891112 TTTTTTTTTTCTT
1 TTTTTTTTTTCTT
16891125 TCCAAGTGCT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
13 8 0.13
14 21 0.35
15 15 0.25
16 11 0.18
18 5 0.08
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTTCTTC
Found at i:16891112 original size:19 final size:20
Alignment explanation
Indices: 16891067--16891113 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
16891057 TCCTTTCTTC
*
16891067 TTTCTT-TTTCCTTTTTTTCA
1 TTTCTTCTTCCCTTTTTTT-A
16891087 TTT-TTCTTCCCTTTTTTT-
1 TTTCTTCTTCCCTTTTTTTA
16891105 TTTCTTCTT
1 TTTCTTCTT
16891114 TTTTTTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 7 0.29
20 14 0.58
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCTTCTTCCCTTTTTTTA
Found at i:16891125 original size:11 final size:11
Alignment explanation
Indices: 16891031--16891119 Score: 54
Period size: 12 Copynumber: 7.5 Consensus size: 11
16891021 TGTTTCTCTC
16891031 TTTTTCTTTTTT
1 TTTTTC-TTTTT
16891043 TTTTTCTTTTT
1 TTTTTCTTTTT
* *
16891054 TGTTCCTTTCTT
1 TTTTTCTTT-TT
16891066 CTTTCTT-TTTCCTT
1 -TTT-TTCTTT--TT
16891080 TTTTTCATTTTT
1 TTTTTC-TTTTT
* **
16891092 CTTCCCTTTTT
1 TTTTTCTTTTT
16891103 TTTTTCTTCTTT
1 TTTTTCTT-TTT
16891115 TTTTT
1 TTTTT
16891120 TTCTTTCCAA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
11 22 0.37
12 23 0.38
13 8 0.13
14 7 0.12
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:16894431 original size:4 final size:4
Alignment explanation
Indices: 16894424--16894453 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
16894414 TTTTATTCTT
*
16894424 TTCA TTCA TTCA TTCA TCCA TTCA TTCA TT
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TT
16894454 GTTTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (4 bp):
TTCA
Found at i:16896230 original size:7 final size:7
Alignment explanation
Indices: 16896218--16896269 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
16896208 TAAAGTTTTG
16896218 AGGTTTA
1 AGGTTTA
16896225 AGGTTTTA
1 AGG-TTTA
*
16896233 AAGTTTCA
1 AGGTTT-A
*
16896241 GGGTTTA
1 AGGTTTA
*
16896248 TGGTTTA
1 AGGTTTA
16896255 AGGTTTTA
1 AGG-TTTA
16896263 AGGTTTA
1 AGGTTTA
16896270 CAGTTTTAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
7 19 0.51
8 18 0.49
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (7 bp):
AGGTTTA
Found at i:16896230 original size:15 final size:15
Alignment explanation
Indices: 16896206--16896313 Score: 76
Period size: 15 Copynumber: 7.2 Consensus size: 15
16896196 GTTTGGGTAA
* *
16896206 TTTAAAGTTTTGAGG
1 TTTAAGGTTTTAAGG
*
16896221 TTTAAGGTTTTAAAG
1 TTTAAGGTTTTAAGG
* * *
16896236 TTTCAGGGTTTATGG
1 TTTAAGGTTTTAAGG
16896251 TTTAAGGTTTTAAGG
1 TTTAAGGTTTTAAGG
16896266 TTTACA-GTTTT-AGG
1 TTTA-AGGTTTTAAGG
* * *
16896280 ACTTAAGATTTCAAGG
1 -TTTAAGGTTTTAAGG
* * *
16896296 TTTTAGGATTTAGGG
1 TTTAAGGTTTTAAGG
16896311 TTT
1 TTT
16896314 TAGGATTTGG
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
14 4 0.06
15 62 0.89
16 4 0.06
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (15 bp):
TTTAAGGTTTTAAGG
Found at i:16896232 original size:23 final size:23
Alignment explanation
Indices: 16896206--16896277 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
16896196 GTTTGGGTAA
*
16896206 TTTAAAGTTTTGAGGTTTAAGGT
1 TTTAAAGTTTTAAGGTTTAAGGT
* * *
16896229 TTTAAAGTTTCAGGGTTTATGG-
1 TTTAAAGTTTTAAGGTTTAAGGT
*
16896251 TTTAAGGTTTTAAGGTTTACA-GT
1 TTTAAAGTTTTAAGGTTTA-AGGT
16896274 TTTA
1 TTTA
16896278 GGACTTAAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
22 17 0.44
23 22 0.56
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.49
Consensus pattern (23 bp):
TTTAAAGTTTTAAGGTTTAAGGT
Found at i:16896329 original size:15 final size:15
Alignment explanation
Indices: 16896294--16896328 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
16896284 AAGATTTCAA
16896294 GGTTTTAGGATTTAG
1 GGTTTTAGGATTTAG
16896309 GGTTTTAGGATTT-G
1 GGTTTTAGGATTTAG
16896323 GGTTTT
1 GGTTTT
16896329 TCATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.51
Consensus pattern (15 bp):
GGTTTTAGGATTTAG
Found at i:16896593 original size:3 final size:3
Alignment explanation
Indices: 16896585--16896621 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
16896575 TGTAATGAGC
16896585 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
16896622 TGAAATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:16898049 original size:193 final size:193
Alignment explanation
Indices: 16897714--16898086 Score: 694
Period size: 193 Copynumber: 1.9 Consensus size: 193
16897704 TAGCCCTTAA
*
16897714 ATCAAGTCCCATCGAATGGCATAAAGTCATTTATCTTCTTTTATTAAACTTATTGGGTAAGCTCA
1 ATCAAATCCCATCGAATGGCATAAAGTCATTTATCTTCTTTTATTAAACTTATTGGGTAAGCTCA
* *
16897779 TAATGTGGGTCATTAGATTAGTATCCTTTAAAATCTACTGGTCTTTATTATTCAGAATATATTCA
66 CAATGTGGGTCATTAGATTAGTATCCTTTAAAATCTACTGGTCTTTATTATTCAGAACATATTCA
*
16897844 TTTGGTTGTATGTGTAGCAATCCCTTTATTGCATGTGAAATGATAATTTTAAAGGACCTTATT
131 TTTGGCTGTATGTGTAGCAATCCCTTTATTGCATGTGAAATGATAATTTTAAAGGACCTTATT
16897907 ATCAAATCCCATCGAATGGCATAAAGTCATTTATCTTCTTTTATTAAACTTATTGGGTAAGCTCA
1 ATCAAATCCCATCGAATGGCATAAAGTCATTTATCTTCTTTTATTAAACTTATTGGGTAAGCTCA
16897972 CAATGTGGGTCATTAGATTAGTATCCTTTAAAATCTACTGGTGC-TTATTATTCAGAACATATTC
66 CAATGTGGGTCATTAGATTAGTATCCTTTAAAATCTACTGGT-CTTTATTATTCAGAACATATTC
16898036 ATTTGGCTGTATGTGTAGCAATCCCTTTATTGCATGTGAAATGATAATTTT
130 ATTTGGCTGTATGTGTAGCAATCCCTTTATTGCATGTGAAATGATAATTTT
16898087 GCCTTTATTA
Statistics
Matches: 175, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
193 174 0.99
194 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (193 bp):
ATCAAATCCCATCGAATGGCATAAAGTCATTTATCTTCTTTTATTAAACTTATTGGGTAAGCTCA
CAATGTGGGTCATTAGATTAGTATCCTTTAAAATCTACTGGTCTTTATTATTCAGAACATATTCA
TTTGGCTGTATGTGTAGCAATCCCTTTATTGCATGTGAAATGATAATTTTAAAGGACCTTATT
Found at i:16898534 original size:142 final size:141
Alignment explanation
Indices: 16898170--16899316 Score: 644
Period size: 142 Copynumber: 8.0 Consensus size: 141
16898160 TTAATACACT
* * * * *
16898170 AAAAATCCTAAAATAATATGAAAATATGATCTAAAAG-TTTTCATAAACAA-CTAAC-TACGGGA
1 AAAAATCAT-AAA-AATATAAAAATATGATCT-AGAGTTTTTCACAAA-AATCTAACAT-TGGGA
* * * * **
16898232 ATG-TCAAATTATGAAAATACCTTTAAAAGAGTATTTTAGTAATTTGA-CACCTTTCAAGGTGCG
61 A-GATCAAATTATGAAAATACCCTT-AAAGGGTATTTTGGTAATTTTATCA--TTTCAAGGTGTA
*** * * *
16898295 ATCACTATTTTCAATGCCTA
122 ATCAAGGTTTTTAATGTCTC
* * * * * * * *
16898315 AAAAATCATGAAATGATAAAAAAAAATAATCTAAAAG-TTTTCATGAAAAATC-AACATCGAGAA
1 AAAAATCAT-AAA-AATATAAAAATATGATCT-AGAGTTTTTCA-CAAAAATCTAACATTGGGAA
* ***
16898378 GGTCAAATTATGAAAATATTTTTAAAGGGTATTTTGGTAATTTTATGCATTTCAAGGTGTAATCA
62 GATCAAATTATGAAAATACCCTTAAAGGGTATTTTGGTAATTTTAT-CATTTCAAGGTGTAATCA
16898443 AGGTTTTTAATGTCT-
126 AGGTTTTTAATGTCTC
* * **
16898458 ATAAATCATAAAAATATGAAAAATATGATCTAGAGTTTTTCACAAAAATCTGATTTTGGGAAGAT
1 AAAAATCATAAAAATAT-AAAAATATGATCTAGAGTTTTTCACAAAAATCTAACATTGGGAAGAT
* * *
16898523 CAAATTATGAAAATACCCTTAAATGGTATTTTTGTAATTTTA-CATCTTTCAAGGTGTGATCAAG
65 CAAATTATGAAAATACCCTTAAAGGGTATTTTGGTAATTTTATCA--TTTCAAGGTGTAATCAAG
* *
16898587 GTTTCTAAAG-CATC
128 GTTTTTAATGTC-TC
* * * ***
16898601 AAAAATCATGAAATAATATAAAAATATGATCTAGAATCTTTCACAAAAATCCAACATCAAGAA-A
1 AAAAATCAT-AAA-AATATAAAAATATGATCTAGAGTTTTTCACAAAAATCTAACATTGGGAAGA
* * * * * * *
16898665 GTCAAAATTATAAAAATATCCC-TAAAAGATATTTTGATAATTTTATCCTTTCCAAGGTATAGTC
64 -TC-AAATTATGAAAATA-CCCTTAAAGGGTATTTTGGTAATTTTATCATTT-CAAGGTGTAATC
*
16898729 AA-GTTTTT-A-G-CAC
125 AAGGTTTTTAATGTCTC
* * * * * * * * *
16898742 ATCAAAATCACAAGAATATTAATTCTAAGCCTTGATAATCCCATAGGTTGTCATAAACAA-CTAA
1 A--AAAATCATAAAAATA-TAA----AA---AT-ATGAT-CTAGAGTTTTTCACAAA-AATCTAA
* * * *
16898806 C-TACGGGAATG-TCAAATTATGAAAATACCTTTAAAAGGGTATTTTAGTAATTTGA-CACCTTT
53 CAT-TGGGAA-GATCAAATTATGAAAATACCCTT-AAAGGGTATTTTGGTAATTTTATCA--TTT
** *** * *
16898868 CAAGGTGCGATCACTATTTTCAATGCCTC
113 CAAGGTGTAATCAAGGTTTTTAATGTCTC
* * * * * *
16898897 AAAAATCAT-GAAATGATAAAAAAATAATCTAAAAG-TTTTCATGAAAAATC-AACATTGAGAAG
1 AAAAATCATAAAAAT-ATAAAAATATGATCT-AGAGTTTTTCA-CAAAAATCTAACATTGGGAAG
* * *
16898959 GTCAAATTATGAAAATATCTTTAAAGGGTATTTTGGTAATTTTATACATTTCAAGGTGTAATCAA
63 ATCAAATTATGAAAATACCCTTAAAGGGTATTTTGGTAATTTTAT-CATTTCAAGGTGTAATCAA
16899024 GGTTTTTAATGTCT-
127 GGTTTTTAATGTCTC
* * * *
16899038 ATAAATCATAAAAATATGAAAATATGATCTAGAGTTTTTCACAAAAATATGATC-TTGGGAAGAT
1 AAAAATCATAAAAATATAAAAATATGATCTAGAGTTTTTCACAAAAATCT-AACATTGGGAAGAT
** * *
16899102 CAAATTATGAAAATACCCTTAAATAGTATTTTTGTAATTTTA-CATCTTTCAAGGTGTGATCAAG
65 CAAATTATGAAAATACCCTTAAAGGGTATTTTGGTAATTTTATCA--TTTCAAGGTGTAATCAAG
* *
16899166 GTTTCTAAAG-CATC
128 GTTTTTAATGTC-TC
* * * ***
16899180 AAAAATCATGAAATAATATAAAAATATGATCTAGAATCTTTCACAAAAATCCAACATCAAGAA-A
1 AAAAATCAT-AAA-AATATAAAAATATGATCTAGAGTTTTTCACAAAAATCTAACATTGGGAAGA
* * * * * * *
16899244 GTCAAAATTATAAAAATATCCC-TAAAAGATATTTTGATAATTTTATCCTTTCTAAGGTATAGTC
64 -TC-AAATTATGAAAATA-CCCTTAAAGGGTATTTTGGTAATTTTATCATTTC-AAGGTGTAATC
16899308 AA-GTTTTTA
125 AAGGTTTTTA
16899317 GCACATCAAA
Statistics
Matches: 780, Mismatches: 154, Indels: 137
0.73 0.14 0.13
Matches are distributed among these distances:
139 2 0.00
140 12 0.02
141 117 0.15
142 157 0.20
143 66 0.08
144 156 0.20
145 154 0.20
146 17 0.02
148 2 0.00
149 3 0.00
150 20 0.03
151 46 0.06
152 15 0.02
153 9 0.01
154 1 0.00
155 3 0.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (141 bp):
AAAAATCATAAAAATATAAAAATATGATCTAGAGTTTTTCACAAAAATCTAACATTGGGAAGATC
AAATTATGAAAATACCCTTAAAGGGTATTTTGGTAATTTTATCATTTCAAGGTGTAATCAAGGTT
TTTAATGTCTC
Found at i:16898700 original size:144 final size:142
Alignment explanation
Indices: 16898170--16899288 Score: 681
Period size: 145 Copynumber: 7.7 Consensus size: 142
16898160 TTAATACACT
* * * * * * *
16898170 AAAAATCCTAAAATAATATGAAAATATGATCTAAAAGTTTTCATAAACAA-CTAAC-TACGGGAA
1 AAAAATCATGAAATAATATAAAAATATGATCTAGAA-TTTTCACAAA-AATCCAACAT-CGAGAA
* * * * *
16898233 TGTCAAATTATGAAAATACCTTTAAAAGAGTATTTTAGTAATTTGACACCTTTCAAGGTGCGATC
63 AGTCAAATTATGAAAATACC-CTAAAAG-GTATTTTAGTAATTTTACATCTTTCAAGGTGTGATC
* * *
16898298 ACTA-TTTTC-AATGCCTA
126 A--AGGTTTCTAATGCATC
* * * * * * *
16898315 AAAAATCATGAAATGATAAAAAAAAATAATCTAAAAGTTTTCATGAAAAAT-CAACATCGAGAAG
1 AAAAATCATGAAATAATATAAAAATATGATCTAGAA-TTTTCA-CAAAAATCCAACATCGAGAAA
*** * * *
16898379 GTCAAATTATGAAAATATTTTTAAAGGGTATTTTGGTAATTTT--ATGCATTTCAAGGTGTAATC
64 GTCAAATTATGAAAATA-CCCTAAAAGGTATTTTAGTAATTTTACAT-C-TTTCAAGGTGTGATC
*
16898442 AAGGTTTTTAATG--TC
126 AAGGTTTCTAATGCATC
* * ** ** * *
16898457 TATAAATCAT-AAA-AATATGAAAAATATGATCTAGAGTTTTTCACAAAAATCTGATTTTG-GGA
1 -AAAAATCATGAAATAATAT-AAAAATATGATCTAGA-ATTTTCACAAAAATCCAACATCGAGAA
* *
16898519 AGATCAAATTATGAAAATACCCTTAAATGGTATTTTTGTAATTTTACATCTTTCAAGGTGTGATC
63 AG-TCAAATTATGAAAATACCC-TAAAAGGTATTTTAGTAATTTTACATCTTTCAAGGTGTGATC
*
16898584 AAGGTTTCTAAAGCATC
126 AAGGTTTCTAATGCATC
*
16898601 AAAAATCATGAAATAATATAAAAATATGATCTAGAATCTTTCACAAAAATCCAACATCAAGAAAG
1 AAAAATCATGAAATAATATAAAAATATGATCTAGAAT-TTTCACAAAAATCCAACATCGAGAAAG
* * *
16898666 TCAAAATTATAAAAATATCCCTAAAAGATATTTT-GATAATTTT--ATCCTTTCCAAGGTAT-AG
65 TC-AAATTATGAAAATA-CCCTAAAAGGTATTTTAG-TAATTTTACAT-CTTT-CAAGGTGTGA-
* ***
16898727 TCAA-GTTTTTAGCACATC
124 TCAAGGTTTCTAATGCATC
* * *** * * * * *
16898745 -AAAATCACAAGAATATTAATTCTAAGCCTTGATAATCCCATAG-GTTGTCATAAACAA-CTAAC
1 AAAAAT--CATGAA-A-TAA-TATAA-AAAT-ATGAT--C-TAGAATTTTCACAAA-AATCCAAC
* * * * *
16898807 -TACGGGAATGTCAAATTATGAAAATACCTTTAAAAGGGTATTTTAGTAATTTGACACCTTTCAA
55 AT-CGAGAAAGTCAAATTATGAAAATACC-CTAAAA-GGTATTTTAGTAATTTTACATCTTTCAA
* * *
16898871 GGTGCGATCACTA-TTTTC-AATGCCTC
117 GGTGTGATCA--AGGTTTCTAATGCATC
* * * * * *
16898897 AAAAATCATGAAATGATA-AAAAA-ATAATCTAAAAGTTTTCATGAAAAAT-CAACATTGAGAAG
1 AAAAATCATGAAATAATATAAAAATATGATCTAGAA-TTTTCA-CAAAAATCCAACATCGAGAAA
** * * * *
16898959 GTCAAATTATGAAAATATCTTTAAAGGGTATTTTGGTAATTTTATA-CATTTCAAGGTGTAATCA
64 GTCAAATTATGAAAATA-CCCTAAAAGGTATTTTAGTAATTTTACATC-TTTCAAGGTGTGATCA
*
16899023 AGGTTTTTAATG--TC
127 AGGTTTCTAATGCATC
* * * ** *
16899037 TATAAATCAT-AAA-AATATGAAAATATGATCTAGAGTTTTTCACAAAAAT--ATGATCTTG-GG
1 -AAAAATCATGAAATAATATAAAAATATGATCTAGA-ATTTTCACAAAAATCCAACATC--GAGA
*
16899097 AAGATCAAATTATGAAAATACCCTTAAATA-GTATTTTTGTAATTTTACATCTTTCAAGGTGTGA
62 AAG-TCAAATTATGAAAATACCC-TAAA-AGGTATTTTAGTAATTTTACATCTTTCAAGGTGTGA
*
16899161 TCAAGGTTTCTAAAGCATC
124 TCAAGGTTTCTAATGCATC
*
16899180 AAAAATCATGAAATAATATAAAAATATGATCTAGAATCTTTCACAAAAATCCAACATCAAGAAAG
1 AAAAATCATGAAATAATATAAAAATATGATCTAGAAT-TTTCACAAAAATCCAACATCGAGAAAG
* *
16899245 TCAAAATTATAAAAATATCCCTAAAAGATATTTT-GATAATTTTA
65 TC-AAATTATGAAAATA-CCCTAAAAGGTATTTTAG-TAATTTTA
16899289 TCCTTTCTAA
Statistics
Matches: 754, Mismatches: 140, Indels: 160
0.72 0.13 0.15
Matches are distributed among these distances:
139 6 0.01
140 20 0.03
141 103 0.14
142 134 0.18
143 71 0.09
144 134 0.18
145 160 0.21
146 15 0.02
147 5 0.01
148 5 0.01
149 5 0.01
150 24 0.03
151 45 0.06
152 14 0.02
153 13 0.02
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (142 bp):
AAAAATCATGAAATAATATAAAAATATGATCTAGAATTTTCACAAAAATCCAACATCGAGAAAGT
CAAATTATGAAAATACCCTAAAAGGTATTTTAGTAATTTTACATCTTTCAAGGTGTGATCAAGGT
TTCTAATGCATC
Found at i:16899311 original size:579 final size:581
Alignment explanation
Indices: 16898210--16899371 Score: 2220
Period size: 579 Copynumber: 2.0 Consensus size: 581
16898200 CTAAAAGTTT
16898210 TCATAAACAACTAACTACGGGAATGTCAAATTATGAAAATACCTTTAAAAGAGTATTTTAGTAAT
1 TCATAAACAACTAACTACGGGAATGTCAAATTATGAAAATACCTTTAAAAGAGTATTTTAGTAAT
16898275 TTGACACCTTTCAAGGTGCGATCACTATTTTCAATGCCTAAAAAATCATGAAATGATAAAAAAAA
66 TTGACACCTTTCAAGGTGCGATCACTATTTTCAATGCCTAAAAAATCATGAAATGAT-AAAAAAA
*
16898340 ATAATCTAAAAGTTTTCATGAAAAATCAACATCGAGAAGGTCAAATTATGAAAATATTTTTAAAG
130 ATAATCTAAAAGTTTTCATGAAAAATCAACATCGAGAAGGTCAAATTATGAAAATATCTTTAAAG
*
16898405 GGTATTTTGGTAATTTTATGCATTTCAAGGTGTAATCAAGGTTTTTAATGTCTATAAATCATAAA
195 GGTATTTTGGTAATTTTATACATTTCAAGGTGTAATCAAGGTTTTTAATGTCTATAAATCATAAA
* *
16898470 AATATGAAAAATATGATCTAGAGTTTTTCACAAAAATCTGATTTTGGGAAGATCAAATTATGAAA
260 AATATGAAAAATATGATCTAGAGTTTTTCACAAAAATATGATCTTGGGAAGATCAAATTATGAAA
*
16898535 ATACCCTTAAATGGTATTTTTGTAATTTTACATCTTTCAAGGTGTGATCAAGGTTTCTAAAGCAT
325 ATACCCTTAAATAGTATTTTTGTAATTTTACATCTTTCAAGGTGTGATCAAGGTTTCTAAAGCAT
16898600 CAAAAATCATGAAATAATATAAAAATATGATCTAGAATCTTTCACAAAAATCCAACATCAAGAAA
390 CAAAAATCATGAAATAATATAAAAATATGATCTAGAATCTTTCACAAAAATCCAACATCAAGAAA
16898665 GTCAAAATTATAAAAATATCCCTAAAAGATATTTTGATAATTTTATCCTTTCCAAGGTATAGTCA
455 GTCAAAATTATAAAAATATCCCTAAAAGATATTTTGATAATTTTATCCTTTCCAAGGTATAGTCA
16898730 AGTTTTTAGCACATCAAAATCACAAGAATATTAATTCTAAGCCTTGATAATCCCATAGGTTG
520 AGTTTTTAGCACATCAAAATCACAAGAATATTAATTCTAAGCCTTGATAATCCCATAGGTTG
*
16898792 TCATAAACAACTAACTACGGGAATGTCAAATTATGAAAATACCTTTAAAAGGGTATTTTAGTAAT
1 TCATAAACAACTAACTACGGGAATGTCAAATTATGAAAATACCTTTAAAAGAGTATTTTAGTAAT
*
16898857 TTGACACCTTTCAAGGTGCGATCACTATTTTCAATGCCTCAAAAATCATGAAATGAT-AAAAAAA
66 TTGACACCTTTCAAGGTGCGATCACTATTTTCAATGCCTAAAAAATCATGAAATGATAAAAAAAA
*
16898921 TAATCTAAAAGTTTTCATGAAAAATCAACATTGAGAAGGTCAAATTATGAAAATATCTTTAAAGG
131 TAATCTAAAAGTTTTCATGAAAAATCAACATCGAGAAGGTCAAATTATGAAAATATCTTTAAAGG
16898986 GTATTTTGGTAATTTTATACATTTCAAGGTGTAATCAAGGTTTTTAATGTCTATAAATCATAAAA
196 GTATTTTGGTAATTTTATACATTTCAAGGTGTAATCAAGGTTTTTAATGTCTATAAATCATAAAA
16899051 ATATG-AAAATATGATCTAGAGTTTTTCACAAAAATATGATCTTGGGAAGATCAAATTATGAAAA
261 ATATGAAAAATATGATCTAGAGTTTTTCACAAAAATATGATCTTGGGAAGATCAAATTATGAAAA
16899115 TACCCTTAAATAGTATTTTTGTAATTTTACATCTTTCAAGGTGTGATCAAGGTTTCTAAAGCATC
326 TACCCTTAAATAGTATTTTTGTAATTTTACATCTTTCAAGGTGTGATCAAGGTTTCTAAAGCATC
16899180 AAAAATCATGAAATAATATAAAAATATGATCTAGAATCTTTCACAAAAATCCAACATCAAGAAAG
391 AAAAATCATGAAATAATATAAAAATATGATCTAGAATCTTTCACAAAAATCCAACATCAAGAAAG
*
16899245 TCAAAATTATAAAAATATCCCTAAAAGATATTTTGATAATTTTATCCTTTCTAAGGTATAGTCAA
456 TCAAAATTATAAAAATATCCCTAAAAGATATTTTGATAATTTTATCCTTTCCAAGGTATAGTCAA
16899310 GTTTTTAGCACATCAAAATCACAAGAATATTAATTCTAAGCCTTGATAATCCCATAGGTTG
521 GTTTTTAGCACATCAAAATCACAAGAATATTAATTCTAAGCCTTGATAATCCCATAGGTTG
16899371 T
1 T
16899372 AAATTCCAAG
Statistics
Matches: 571, Mismatches: 9, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
579 312 0.55
580 139 0.24
582 120 0.21
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (581 bp):
TCATAAACAACTAACTACGGGAATGTCAAATTATGAAAATACCTTTAAAAGAGTATTTTAGTAAT
TTGACACCTTTCAAGGTGCGATCACTATTTTCAATGCCTAAAAAATCATGAAATGATAAAAAAAA
TAATCTAAAAGTTTTCATGAAAAATCAACATCGAGAAGGTCAAATTATGAAAATATCTTTAAAGG
GTATTTTGGTAATTTTATACATTTCAAGGTGTAATCAAGGTTTTTAATGTCTATAAATCATAAAA
ATATGAAAAATATGATCTAGAGTTTTTCACAAAAATATGATCTTGGGAAGATCAAATTATGAAAA
TACCCTTAAATAGTATTTTTGTAATTTTACATCTTTCAAGGTGTGATCAAGGTTTCTAAAGCATC
AAAAATCATGAAATAATATAAAAATATGATCTAGAATCTTTCACAAAAATCCAACATCAAGAAAG
TCAAAATTATAAAAATATCCCTAAAAGATATTTTGATAATTTTATCCTTTCCAAGGTATAGTCAA
GTTTTTAGCACATCAAAATCACAAGAATATTAATTCTAAGCCTTGATAATCCCATAGGTTG
Found at i:16901599 original size:5 final size:5
Alignment explanation
Indices: 16901570--16901640 Score: 56
Period size: 5 Copynumber: 13.6 Consensus size: 5
16901560 TTGTTTTTAA
* *
16901570 TTATT TTACT TTATT TGTATGT TTATT TTATT TT-TT TTATT TAATT ATT-TT
1 TTATT TTATT TTATT T-TAT-T TTATT TTATT TTATT TTATT TTATT -TTATT
*
16901621 TGTATTT TTAAT TTATT TTA
1 T-TA-TT TTATT TTATT TTA
16901641 ATTTGTTACT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 5 0.09
5 34 0.64
6 9 0.17
7 5 0.09
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:16901610 original size:14 final size:15
Alignment explanation
Indices: 16901591--16901628 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
16901581 TATTTGTATG
16901591 TTTATTTTATT-TTT
1 TTTATTTTATTATTT
*
16901605 TTTATTTAATTATTT
1 TTTATTTTATTATTT
16901620 TTGTATTTT
1 TT-TATTTT
16901629 TAATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 10 0.50
15 5 0.25
16 5 0.25
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTATTTTATTATTT
Found at i:16901617 original size:22 final size:23
Alignment explanation
Indices: 16901557--16901620 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
16901547 TTATTTATCG
*
16901557 TTTTTGTT-TTTAATTATTTTAC
1 TTTTTTTTATTTAATTATTTTAC
* *
16901579 TTTATTTGTATGT--TTATTTTA-
1 TTT-TTTTTATTTAATTATTTTAC
16901600 TTTTTTTTATTTAATTATTTT
1 TTTTTTTTATTTAATTATTTT
16901621 TGTATTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
20 7 0.21
21 3 0.09
22 18 0.55
23 3 0.09
24 2 0.06
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.75
Consensus pattern (23 bp):
TTTTTTTTATTTAATTATTTTAC
Found at i:16901621 original size:18 final size:19
Alignment explanation
Indices: 16901583--16901639 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
16901573 TTTTACTTTA
* *
16901583 TTTGTATGTTTATTTTATT
1 TTTGTATTTTTAATTTATT
16901602 TTT-T-TTATTTAA-TTATT
1 TTTGTATT-TTTAATTTATT
16901619 TTTGTATTTTTAATTTATT
1 TTTGTATTTTTAATTTATT
16901638 TT
1 TT
16901640 AATTTGTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 9 0.28
18 11 0.34
19 12 0.38
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTGTATTTTTAATTTATT
Found at i:16901654 original size:36 final size:36
Alignment explanation
Indices: 16901564--16901655 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 36
16901554 TCGTTTTTGT
* *
16901564 TTTTAATTATTTTACTT-TATTTGTATGTTTATTTTA
1 TTTTAATT-TTTTACTTATTTTTGTATGTTTAATTTA
* * *
16901600 TTTT-TTTTATTTAATTATTTTTGTATTTTTAATTTA
1 TTTTAATTT-TTTACTTATTTTTGTATGTTTAATTTA
*
16901636 TTTTAATTTGTTACTTATTT
1 TTTTAATTTTTTACTTATTT
16901656 AAATTTTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
34 1 0.02
35 8 0.18
36 33 0.73
37 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (36 bp):
TTTTAATTTTTTACTTATTTTTGTATGTTTAATTTA
Found at i:16901730 original size:19 final size:18
Alignment explanation
Indices: 16901706--16901745 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
16901696 ATAATTCTTT
16901706 AAATTTAAAAAATATAATA
1 AAATTTAAAAAATA-AATA
**
16901725 AAATTTTGAAAATAAATA
1 AAATTTAAAAAATAAATA
16901743 AAA
1 AAA
16901746 ATATTCCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AAATTTAAAAAATAAATA
Found at i:16901978 original size:39 final size:38
Alignment explanation
Indices: 16901904--16901978 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
16901894 TAAAATGTAT
*
16901904 TAAAATTTTGAAAAAAACAAAAATTATTTCAAAGATGA
1 TAAAATTTTGAAAAAAACAAAAATAATTTCAAAGATGA
* * *
16901942 TAAAATTTTGAAATTAAATAAAAATAATTTCGAAGAT
1 TAAAATTTTGAAA-AAAACAAAAATAATTTCAAAGAT
16901979 AAAATTCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 13 0.41
39 19 0.59
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (38 bp):
TAAAATTTTGAAAAAAACAAAAATAATTTCAAAGATGA
Found at i:16908071 original size:30 final size:28
Alignment explanation
Indices: 16908013--16908071 Score: 66
Period size: 30 Copynumber: 2.0 Consensus size: 28
16908003 AATTTATCTT
* *
16908013 TTCAAAAATTTACCTAAGATATTTAAAA
1 TTCAAAAATTTACCTAAGACATTAAAAA
16908041 TTCAAACAATTTTA-CTCAAGACATTAAAAA
1 TTCAAA-AA-TTTACCT-AAGACATTAAAAA
16908071 T
1 T
16908072 ATAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 6 0.23
29 4 0.15
30 16 0.62
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (28 bp):
TTCAAAAATTTACCTAAGACATTAAAAA
Found at i:16909161 original size:38 final size:38
Alignment explanation
Indices: 16909119--16909193 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
16909109 AATAACTCAT
* * *
16909119 TCATTCTTAATTTTACTAATAAATGTTTTAAGAATAAA
1 TCATTCCTAATTTAAATAATAAATGTTTTAAGAATAAA
*
16909157 TCATTCCTAATTTAAATAATCAATGTTTTAAGAATAA
1 TCATTCCTAATTTAAATAATAAATGTTTTAAGAATAA
16909194 GCACAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (38 bp):
TCATTCCTAATTTAAATAATAAATGTTTTAAGAATAAA
Found at i:16909818 original size:52 final size:52
Alignment explanation
Indices: 16909732--16909888 Score: 219
Period size: 52 Copynumber: 3.0 Consensus size: 52
16909722 TATAACCATA
* * *
16909732 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGT
* *
16909784 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGT
* *
16909836 CAAACTTACCTATTAAGAATCCTCTTT-CTCTT-GAAATTCTTCTTTTGTAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTCTTAG-AATTCTTCTCTTGTAAGT
16909888 C
1 C
16909889 TTCTTGTCCA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.01
52 89 0.95
53 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.09, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGT
Found at i:16909928 original size:11 final size:11
Alignment explanation
Indices: 16909912--16909952 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
16909902 AGCAATATCT
16909912 AACAAATCCCA
1 AACAAATCCCA
* *
16909923 AACAAATCTCT
1 AACAAATCCCA
16909934 AACAAATCCCA
1 AACAAATCCCA
16909945 AACAAATC
1 AACAAATC
16909953 TCTTATGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.15
Consensus pattern (11 bp):
AACAAATCCCA
Found at i:16909934 original size:22 final size:22
Alignment explanation
Indices: 16909909--16909955 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
16909899 TCAAGCAATA
16909909 TCTAACAAATCCCAAACAAATC
1 TCTAACAAATCCCAAACAAATC
16909931 TCTAACAAATCCCAAACAAATC
1 TCTAACAAATCCCAAACAAATC
16909953 TCT
1 TCT
16909956 TATGAGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (22 bp):
TCTAACAAATCCCAAACAAATC
Found at i:16913312 original size:3 final size:3
Alignment explanation
Indices: 16913304--16913338 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16913294 TTCAAAAGCT
16913304 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16913339 TGCTAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16920649 original size:2 final size:2
Alignment explanation
Indices: 16920642--16920676 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
16920632 TTTTGAGTCT
16920642 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 T
16920677 CCTTTCTTTG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16922975 original size:23 final size:26
Alignment explanation
Indices: 16922925--16922983 Score: 81
Period size: 24 Copynumber: 2.4 Consensus size: 26
16922915 GTTTTAGTTC
*
16922925 ATTTAAATTCT-GTTTGCATAATTTA
1 ATTTAAATTTTGGTTTGCATAATTTA
16922950 ATTT-AATTTTGGTTTGC-T-ATTTA
1 ATTTAAATTTTGGTTTGCATAATTTA
16922973 ATTTAAATTTT
1 ATTTAAATTTT
16922984 TAATTTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 9 0.29
24 12 0.39
25 10 0.32
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (26 bp):
ATTTAAATTTTGGTTTGCATAATTTA
Found at i:16926047 original size:143 final size:143
Alignment explanation
Indices: 16925779--16926048 Score: 339
Period size: 143 Copynumber: 1.9 Consensus size: 143
16925769 GTATCTCAAA
* * * * * *
16925779 AGGTGTGAAATCCCCAAAATACCCTTTAAAGGTATTTTCATAATTTGACTTTTTTGAGGTCAAAT
1 AGGTGTGAAATCACCAAAATACCCCTTAAAGGTAATTTCATAATTTGACCTTCTCGAGGTCAAAT
* * *
16925844 TTTACAAAACTTTTCAAATCATGCTTTTAAAATATTTGATGATTTTAGGTGCATTGAAAATCATA
66 TTTACAAAAATTTTCAAATCATGCTTTCAAAATATTTGATGATTTTAGGTACATTGAAAATCATA
16925909 GCAATACCTTGGG
131 GCAATACCTTGGG
* * *
16925922 AGGTGTGAAATTACCAAAATACCCCTTAAAGGTAATTTCGTAATTTGACCTTCTCGAGGTCAGAT
1 AGGTGTGAAATCACCAAAATACCCCTTAAAGGTAATTTCATAATTTGACCTTCTCGAGGTCAAAT
* * * * *
16925987 TTTCACAAAAATTTAT-AAATCTTAG-TTTCATAATATTTTATGATTTTTGGTAC-TTTAAAATC
66 TTT-ACAAAAATTT-TCAAATCAT-GCTTTCAAAATATTTGATGATTTTAGGTACATTGAAAATC
16926049 CTAAAAATGA
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
143 67 0.63
144 38 0.36
145 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (143 bp):
AGGTGTGAAATCACCAAAATACCCCTTAAAGGTAATTTCATAATTTGACCTTCTCGAGGTCAAAT
TTTACAAAAATTTTCAAATCATGCTTTCAAAATATTTGATGATTTTAGGTACATTGAAAATCATA
GCAATACCTTGGG
Found at i:16927454 original size:22 final size:22
Alignment explanation
Indices: 16927402--16927456 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
16927392 CCTTTAACAC
*
16927402 TAAACCCTAAACCTTAAAATCT
1 TAAACCCTAAACCTTAAAATCA
16927424 TGAAA-CCTAAA-CTCTAAAATCA
1 T-AAACCCTAAACCT-TAAAATCA
16927446 TAAACCCTAAA
1 TAAACCCTAAA
16927457 ACTAATCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 5 0.17
22 21 0.72
23 3 0.10
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.24
Consensus pattern (22 bp):
TAAACCCTAAACCTTAAAATCA
Found at i:16928234 original size:2 final size:2
Alignment explanation
Indices: 16928229--16928262 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
16928219 GAGAGAAAGC
16928229 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
16928263 GAGATATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16930008 original size:23 final size:23
Alignment explanation
Indices: 16929981--16930031 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
16929971 ATTATGGTAT
* *
16929981 TTTTTATTTTTTTATTTAATTTTG
1 TTTTT-TTTTTCTATTTAACTTTG
*
16930005 TTTTTTTTTTCTTTTTAACTTTG
1 TTTTTTTTTTCTATTTAACTTTG
16930028 TTTT
1 TTTT
16930032 GTCTTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (23 bp):
TTTTTTTTTTCTATTTAACTTTG
Found at i:16930045 original size:4 final size:4
Alignment explanation
Indices: 16930036--16930081 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
16930026 TGTTTTGTCT
* * *
16930036 TTTA TTTA TTTA TTTA TTTA TTTG CTTA TTGA TTT- TTT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
16930082 CATACATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 6 0.17
4 29 0.83
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:16930252 original size:28 final size:28
Alignment explanation
Indices: 16930220--16930289 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
16930210 AACATGGAAA
*
16930220 TAAATGACAATTGTTTCAATGATGACAT
1 TAAATGAAAATTGTTTCAATGATGACAT
16930248 TAAATGAAAATTGTTTCAATGATGACAT
1 TAAATGAAAATTGTTTCAATGATGACAT
*
16930276 TAAAAGAAAATTGT
1 TAAATGAAAATTGT
16930290 AAATGGTGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.34
Consensus pattern (28 bp):
TAAATGAAAATTGTTTCAATGATGACAT
Found at i:16934822 original size:2 final size:2
Alignment explanation
Indices: 16934817--16934869 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
16934807 TAATCATAAT
*
16934817 AG AG AG AG AG AG AG AG AG AG CG AG AG AG AG AG AG AG AG -G AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16934858 AG AG AG AG AG AG
1 AG AG AG AG AG AG
16934870 TAACTTCGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.47, C:0.02, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16938902 original size:1 final size:1
Alignment explanation
Indices: 16938896--16938933 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
16938886 CATTAGACTT
16938896 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16938934 CCAGCTTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16940256 original size:25 final size:24
Alignment explanation
Indices: 16940204--16940270 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
16940194 AATTAAAAAT
* * *
16940204 ATTAATAAAAATTATTATAATTATA
1 ATTAA-AAAAATTAATGTAATTACA
* *
16940229 ATTTTAAAAAATTAATGTAATTGCA
1 A-TTAAAAAAATTAATGTAATTACA
16940254 ATTAAAAAAATTTAATG
1 ATTAAAAAAA-TTAATG
16940271 AAAATTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 8 0.24
25 23 0.68
26 3 0.09
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (24 bp):
ATTAAAAAAATTAATGTAATTACA
Found at i:16941314 original size:25 final size:24
Alignment explanation
Indices: 16941276--16941328 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
16941266 TTTTATTAAA
*
16941276 TTTTTTAATCATAATTACAATAAT
1 TTTTTTAATAATAATTACAATAAT
**
16941300 TTTTTTCAATAATAATTATTATAAT
1 TTTTTT-AATAATAATTACAATAAT
16941325 TTTT
1 TTTT
16941329 ATTATTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTTAATAATAATTACAATAAT
Found at i:16941694 original size:18 final size:19
Alignment explanation
Indices: 16941666--16941703 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
16941656 TGAATTATTG
16941666 TCTTAATTTTTATTTGAAC
1 TCTTAATTTTTATTTGAAC
*
16941685 TCTT-ATTTTTATTTTAAC
1 TCTTAATTTTTATTTGAAC
16941703 T
1 T
16941704 ACATTTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.24, C:0.11, G:0.03, T:0.63
Consensus pattern (19 bp):
TCTTAATTTTTATTTGAAC
Found at i:16941723 original size:25 final size:25
Alignment explanation
Indices: 16941694--16941741 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16941684 CTCTTATTTT
* *
16941694 TATTTTAACTACATTTTACTTTTAC
1 TATTTTAACAACATTGTACTTTTAC
*
16941719 TATTTTAGCAACATTGTACTTTT
1 TATTTTAACAACATTGTACTTTT
16941742 TATCAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.54
Consensus pattern (25 bp):
TATTTTAACAACATTGTACTTTTAC
Found at i:16942390 original size:34 final size:34
Alignment explanation
Indices: 16942320--16942391 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
16942310 TAAATTTTAT
* ** *
16942320 TTTTTGAAAAGTATTGCAATTATTCAAAAATTTA
1 TTTTTGAAAAGCATCACAATTATTCAAAAATATA
*
16942354 TTTTTGAAAAGCATCACAATTA-TCAAGAAGTATA
1 TTTTTGAAAAGCATCACAATTATTCAA-AAATATA
16942388 TTTT
1 TTTT
16942392 CAAAAATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 4 0.12
34 28 0.88
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (34 bp):
TTTTTGAAAAGCATCACAATTATTCAAAAATATA
Found at i:16943397 original size:3 final size:3
Alignment explanation
Indices: 16943389--16943419 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
16943379 TTTCATTTTC
16943389 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
16943420 GAAGAAGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:16949616 original size:36 final size:36
Alignment explanation
Indices: 16949576--16949648 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
16949566 TCAAAGGGGT
16949576 ACACCCTAATATTTACACATATAGCACAATGATCAA
1 ACACCCTAATATTTACACATATAGCACAATGATCAA
16949612 ACACCCTAATATTTACACATATAGCACAATGATCAA
1 ACACCCTAATATTTACACATATAGCACAATGATCAA
16949648 A
1 A
16949649 GGACTTTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (36 bp):
ACACCCTAATATTTACACATATAGCACAATGATCAA
Found at i:16952797 original size:17 final size:17
Alignment explanation
Indices: 16952775--16952819 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
16952765 TTATTACGGT
*
16952775 ATTTTTTATTTTTATTTA
1 ATTTTTT-TTTCTATTTA
*
16952793 ATTTTTTTTTCTTTTTA
1 ATTTTTTTTTCTATTTA
16952810 ATTTTGTTTT
1 ATTTT-TTTT
16952820 GTCTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (17 bp):
ATTTTTTTTTCTATTTA
Found at i:16952830 original size:17 final size:17
Alignment explanation
Indices: 16952775--16952826 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
16952765 TTATTACGGT
16952775 ATTTTTTATTT-TTATTTA
1 ATTTTTT-TTTCTT-TTTA
16952793 ATTTTTTTTTCTTTTTA
1 ATTTTTTTTTCTTTTTA
16952810 ATTTTGTTTTGTCTTTT
1 ATTTT-TTTT-TCTTTT
16952827 ATTTATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.39
18 13 0.42
19 6 0.19
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (17 bp):
ATTTTTTTTTCTTTTTA
Found at i:16952833 original size:4 final size:4
Alignment explanation
Indices: 16952824--16952873 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
16952814 TGTTTTGTCT
* * *
16952824 TTTA TTTA TTTA TTTA TTTA TTTA TTTG CTTA TTGA TTT- TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
16952870 TTTA
1 TTTA
16952874 CATACATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 6 0.15
4 33 0.85
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:16961710 original size:20 final size:20
Alignment explanation
Indices: 16961677--16961745 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
16961667 TAATTATTTT
* *
16961677 ATATTTAAATTTATTTAAAA
1 ATATTAAAAATTATTTAAAA
16961697 ATATTAAAAATTATATTAAAATA
1 ATATTAAAAATTAT-TT-AAA-A
16961720 ATATATAAAAA--ATTTAAAA
1 ATAT-TAAAAATTATTTAAAA
16961739 A-ATTAAA
1 ATATTAAA
16961746 TTTAAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
17 4 0.09
18 2 0.05
19 2 0.05
20 15 0.35
21 4 0.09
22 5 0.12
23 5 0.12
24 6 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATTAAAAATTATTTAAAA
Found at i:16961746 original size:14 final size:14
Alignment explanation
Indices: 16961729--16961755 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16961719 AATATATAAA
16961729 AAATTTAAAAAATT
1 AAATTTAAAAAATT
16961743 AAATTTAAAAAAT
1 AAATTTAAAAAAT
16961756 CAATGAACTC
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATTTAAAAAATT
Found at i:16961755 original size:9 final size:10
Alignment explanation
Indices: 16961688--16961741 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 10
16961678 TATTTAAATT
*
16961688 TATTTAAAAA
1 TATTAAAAAA
16961698 TATTAAAAATTA
1 TATTAAAAA--A
16961710 TATTAAAATAA
1 TATTAAAA-AA
16961721 TATATAAAAAA
1 TAT-TAAAAAA
16961732 T-TTAAAAAA
1 TATTAAAAAA
16961741 T
1 T
16961742 TAAATTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
9 8 0.21
10 9 0.23
11 7 0.18
12 14 0.36
13 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TATTAAAAAA
Found at i:16964734 original size:2 final size:2
Alignment explanation
Indices: 16964729--16964801 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
16964719 TATATAATAC
16964729 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
16964771 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
16964802 TAACTTCGAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16968809 original size:1 final size:1
Alignment explanation
Indices: 16968803--16968840 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
16968793 CATTAGACTT
16968803 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16968841 CCCAGCTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16970176 original size:25 final size:24
Alignment explanation
Indices: 16970113--16970178 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
16970103 AATTAAAAAT
* *
16970113 ATTAATAAAAATTATTGTAATTATA
1 ATTAA-AAAAATTAATGTAATTACA
16970138 ATTAAAAAAATTAATGTAATTACA
1 ATTAAAAAAATTAATGTAATTACA
16970162 ATTAAAAAAATTTAATG
1 ATTAAAAAAA-TTAATG
16970179 AAAATTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 27 0.71
25 11 0.29
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (24 bp):
ATTAAAAAAATTAATGTAATTACA
Found at i:16971213 original size:24 final size:24
Alignment explanation
Indices: 16971181--16971232 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16971171 TATTTTATTA
*
16971181 AATTTTTTTAATCATAATTATAAT
1 AATTTTTTTAATAATAATTATAAT
* *
16971205 AATTTTTTTAATAATTATTATTAT
1 AATTTTTTTAATAATAATTATAAT
16971229 AATT
1 AATT
16971233 ATTATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
AATTTTTTTAATAATAATTATAAT
Found at i:16971230 original size:12 final size:12
Alignment explanation
Indices: 16971197--16971240 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
16971187 TTTAATCATA
*
16971197 ATTATAATAATT
1 ATTATTATAATT
*
16971209 -TTTTTAATAATT
1 ATTATT-ATAATT
16971221 ATTATTATAATT
1 ATTATTATAATT
16971233 ATTATTAT
1 ATTATTAT
16971241 TATATTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 3 0.11
12 20 0.74
13 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTATAATT
Found at i:16971231 original size:15 final size:15
Alignment explanation
Indices: 16971197--16971244 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
16971187 TTTAATCATA
16971197 ATTATAATAATT-TT
1 ATTATAATAATTATT
16971211 -TT-TAATAATTATT
1 ATTATAATAATTATT
*
16971224 ATTATAATTATTATT
1 ATTATAATAATTATT
16971239 ATTATA
1 ATTATA
16971245 TTTAATATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 8 0.27
13 4 0.13
14 2 0.07
15 16 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTATAATAATTATT
Found at i:16973895 original size:13 final size:13
Alignment explanation
Indices: 16973877--16973902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16973867 ATATCCTCAT
16973877 CTAGATATTTTAA
1 CTAGATATTTTAA
16973890 CTAGATATTTTAA
1 CTAGATATTTTAA
16973903 AAAATCACAA
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:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
CTAGATATTTTAA
Found at i:16974000 original size:19 final size:19
Alignment explanation
Indices: 16973973--16974017 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
16973963 TATTGTTTAG
*
16973973 TTTTTTATTCTTA-TTATA
1 TTTTTTATTCTTACCTATA
*
16973991 TTTTTATATTTTTACCTATA
1 TTTTT-TATTCTTACCTATA
16974011 TTTTTTA
1 TTTTTTA
16974018 AATTTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 9 0.39
20 9 0.39
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTTATTCTTACCTATA
Found at i:16974411 original size:22 final size:23
Alignment explanation
Indices: 16974386--16974428 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
16974376 TAGGCTATAA
*
16974386 AATTTGC-TTTTTTTTCTTAATC
1 AATTTGCATCTTTTTTCTTAATC
*
16974408 AATTTTCATCTTTTTTCTTAA
1 AATTTGCATCTTTTTTCTTAA
16974429 AAAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.63
Consensus pattern (23 bp):
AATTTGCATCTTTTTTCTTAATC
Found at i:16975796 original size:51 final size:51
Alignment explanation
Indices: 16975708--16975804 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
16975698 TAGCATATAG
* *
16975708 TAGGTAAAAGGATGGTAAAAACCAAAAAGTTGAGAAAAGCAAAGAATACAA
1 TAGGTAAAAGGATAGTAAAAACCAAAAAGCTGAGAAAAGCAAAGAATACAA
* * * * *
16975759 TAGGTAAAAGGATAGTGAAAGCCAGAGAGCTGGGAAAAGCAAAGAA
1 TAGGTAAAAGGATAGTAAAAACCAAAAAGCTGAGAAAAGCAAAGAA
16975805 GAAAAAGGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.53, C:0.08, G:0.27, T:0.12
Consensus pattern (51 bp):
TAGGTAAAAGGATAGTAAAAACCAAAAAGCTGAGAAAAGCAAAGAATACAA
Found at i:16979451 original size:76 final size:78
Alignment explanation
Indices: 16979359--16979504 Score: 224
Period size: 77 Copynumber: 1.9 Consensus size: 78
16979349 GGGTATAATA
* *
16979359 GGAAAGATTCTAACAAATCAAATCTTTGATTTAG-GAGATGTTATTTAATTATATATATCATAAT
1 GGAAAGATTATAACAAATCAAATCTTTGATTTAGTGAGATATTATTTAATTATATATATCATAAT
16979423 ATTTAGGTATTAG
66 ATTTAGGTATTAG
* * **
16979436 GGAAA-ATTATAACAAATCAAATCTTTGATTTAGTGGGATATTATTTAATTGTATATATTGTAAT
1 GGAAAGATTATAACAAATCAAATCTTTGATTTAGTGAGATATTATTTAATTATATATATCATAAT
16979500 ATTTA
66 ATTTA
16979505 AATAAATTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
76 27 0.44
77 35 0.56
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (78 bp):
GGAAAGATTATAACAAATCAAATCTTTGATTTAGTGAGATATTATTTAATTATATATATCATAAT
ATTTAGGTATTAG
Found at i:16984133 original size:76 final size:77
Alignment explanation
Indices: 16984042--16984185 Score: 229
Period size: 77 Copynumber: 1.9 Consensus size: 77
16984032 TAACAAAAAG
* *
16984042 GATTCTACCAAATC-AAATCTTTGATTTAG-GAGATATTATTTAATTGTGTATATTGTAATATTT
1 GATTCTAACAAATCAAAAT-TTTGATTTAGAGAGATATTATTTAATTGTATATATTGTAATATTT
16984105 AGGTCTTAGGACA
65 AGGTCTTAGGACA
* *
16984118 GATTCTAACAAATCAAAATTTTGATTTAGAGAGATGTTATTTAATTGTATATATTGTAATCTTTA
1 GATTCTAACAAATCAAAATTTTGATTTAGAGAGATATTATTTAATTGTATATATTGTAATATTTA
16984183 GGT
66 GGT
16984186 AGATTATTGT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
76 23 0.37
77 39 0.63
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (77 bp):
GATTCTAACAAATCAAAATTTTGATTTAGAGAGATATTATTTAATTGTATATATTGTAATATTTA
GGTCTTAGGACA
Found at i:16985059 original size:21 final size:21
Alignment explanation
Indices: 16985015--16985089 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
16985005 TATTTTTATT
* *
16985015 TTTAATTTTCAAACAACAAA-A
1 TTTAATTTTTAAA-AAAAAATA
*
16985036 TTTAATTTTTATAAAAAAATA
1 TTTAATTTTTAAAAAAAAATA
* *
16985057 TTTGAAATTTCTAAAAAAAAATG
1 TTT--AATTTTTAAAAAAAAATA
16985080 TTTAATTTTT
1 TTTAATTTTT
16985090 TATTTTTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 5 0.11
21 21 0.48
23 18 0.41
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (21 bp):
TTTAATTTTTAAAAAAAAATA
Found at i:16985065 original size:23 final size:22
Alignment explanation
Indices: 16985035--16985092 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
16985025 AAACAACAAA
16985035 ATTT-AATTTTTATAAAAAAAT
1 ATTTAAATTTTTATAAAAAAAT
* *
16985056 ATTTGAAATTTCTAAAAAAAAAT
1 ATTT-AAATTTTTATAAAAAAAT
* *
16985079 GTTTAATTTTTTAT
1 ATTTAAATTTTTAT
16985093 TTTTTAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 4 0.14
22 7 0.24
23 18 0.62
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (22 bp):
ATTTAAATTTTTATAAAAAAAT
Found at i:16985471 original size:21 final size:20
Alignment explanation
Indices: 16985445--16985498 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
16985435 TAAGAAATCC
16985445 ATTTTCGAGAATGCAATATT
1 ATTTTCGAGAATGCAATATT
* *
16985465 AATTTTCTAAAATGCAATATT
1 -ATTTTCGAGAATGCAATATT
*
16985486 ATTCTCGAGAATG
1 ATTTTCGAGAATG
16985499 AATTTTTGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (20 bp):
ATTTTCGAGAATGCAATATT
Found at i:16985634 original size:25 final size:24
Alignment explanation
Indices: 16985605--16985694 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 24
16985595 TAAATTATAA
16985605 TTAATCTTAAAATAAATAAATACAT
1 TTAATCTT-AAATAAATAAATACAT
* ***
16985630 TTAATCTT-CAT-AATGTTTA-ATT
1 TTAATCTTAAATAAATAAATACA-T
16985652 TTAAT-TTAAATAAAATAAATACAT
1 TTAATCTTAAAT-AAATAAATACAT
16985676 TTAATCTTAAAATAAATAA
1 TTAATCTT-AAATAAATAA
16985695 TATTAAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
21 3 0.06
22 13 0.26
23 2 0.04
24 11 0.22
25 17 0.34
26 4 0.08
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (24 bp):
TTAATCTTAAATAAATAAATACAT
Found at i:16985700 original size:15 final size:15
Alignment explanation
Indices: 16985677--16985709 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
16985667 TAAATACATT
*
16985677 TAATCTTAAAATAAA
1 TAATATTAAAATAAA
16985692 TAATATTAAAATAAA
1 TAATATTAAAATAAA
16985707 TAA
1 TAA
16985710 ATTTGATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATATTAAAATAAA
Found at i:16985707 original size:45 final size:46
Alignment explanation
Indices: 16985614--16985710 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 46
16985604 ATTAATCTTA
* *** * **
16985614 AAAT-AAATAAATACATTTAATCTTCATAATGTTTAATTTTAATTT
1 AAATAAAATAAATACATTTAATCTTCAAAATAAATAATATTAAAAT
16985659 AAATAAAATAAATACATTTAATCTT-AAAATAAATAATATTAAAAT
1 AAATAAAATAAATACATTTAATCTTCAAAATAAATAATATTAAAAT
16985704 AAATAAA
1 AAATAAA
16985711 TTTGATGTGC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 24 0.55
46 20 0.45
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (46 bp):
AAATAAAATAAATACATTTAATCTTCAAAATAAATAATATTAAAAT
Found at i:16986715 original size:34 final size:34
Alignment explanation
Indices: 16986666--16986734 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
16986656 AGTTTCTTAG
**
16986666 AAATGAATATCCGAGAAGTTTTAA-AACTTCTCGA
1 AAATGAATATCCGAGAAACTTTAAGAA-TTCTCGA
* *
16986700 AAATGGATATTCGAGAAACTTTAAGAATTCTCGA
1 AAATGAATATCCGAGAAACTTTAAGAATTCTCGA
16986734 A
1 A
16986735 TATCCATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 28 0.93
35 2 0.07
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (34 bp):
AAATGAATATCCGAGAAACTTTAAGAATTCTCGA
Found at i:17018246 original size:18 final size:18
Alignment explanation
Indices: 17018219--17018255 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17018209 TATTTTATAA
*
17018219 TAATATATTTATAAAAAT
1 TAATAAATTTATAAAAAT
*
17018237 TAATAAATTTTTAAAAAT
1 TAATAAATTTATAAAAAT
17018255 T
1 T
17018256 CTAGCATCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAAATTTATAAAAAT
Found at i:17020261 original size:75 final size:75
Alignment explanation
Indices: 17020130--17020277 Score: 215
Period size: 75 Copynumber: 2.0 Consensus size: 75
17020120 CAAATATTAA
* *
17020130 TTTAATGCACTGCACCAATCAAGTACGGAAAATCTGGATAAGATTTACCCTGTACCTAAAATAAT
1 TTTAATGCACTGCACCAATCAAGTACGGAAAATCTGAATAAGATTTACCCTATACCTAAAATAAT
*
17020195 GGGAAATAAT
66 GAGAAATAAT
* * * * * *
17020205 TTTAATGCACTGCATCAATTAAGTACTGAAATTTTGAATAAGATTTATCCTATACCTAAAATAAT
1 TTTAATGCACTGCACCAATCAAGTACGGAAAATCTGAATAAGATTTACCCTATACCTAAAATAAT
17020270 GAGAAATA
66 GAGAAATA
17020278 TCTAAGTATT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (75 bp):
TTTAATGCACTGCACCAATCAAGTACGGAAAATCTGAATAAGATTTACCCTATACCTAAAATAAT
GAGAAATAAT
Found at i:17020676 original size:34 final size:35
Alignment explanation
Indices: 17020619--17020688 Score: 108
Period size: 34 Copynumber: 2.0 Consensus size: 35
17020609 ATTTTTTTAA
*
17020619 TATTCTTATATAATAATGTATTGATTAGATATATT
1 TATTCTTATATAATAATATATTGATTAGATATATT
17020654 TATTACTTA-ATAA-AATATATTGATTAGATATATT
1 TATT-CTTATATAATAATATATTGATTAGATATATT
17020688 T
1 T
17020689 CTTTAAGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 21 0.64
35 8 0.24
36 4 0.12
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (35 bp):
TATTCTTATATAATAATATATTGATTAGATATATT
Found at i:17020870 original size:20 final size:20
Alignment explanation
Indices: 17020841--17020879 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17020831 ACATTGGTAT
*
17020841 TGCTACCTAATGACCTACAA
1 TGCTAACTAATGACCTACAA
*
17020861 TGCTAACTAATGACTTACA
1 TGCTAACTAATGACCTACA
17020880 TCTTTTACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (20 bp):
TGCTAACTAATGACCTACAA
Found at i:17021655 original size:11 final size:10
Alignment explanation
Indices: 17021635--17021667 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
17021625 GAGTCAGCTC
17021635 TTAATTTCTA
1 TTAATTTCTA
17021645 TTAATTTTCTA
1 TTAA-TTTCTA
17021656 TTAATTTCTA
1 TTAATTTCTA
17021666 TT
1 TT
17021668 GCTTCAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (10 bp):
TTAATTTCTA
Found at i:17027107 original size:47 final size:46
Alignment explanation
Indices: 17026997--17027868 Score: 777
Period size: 47 Copynumber: 18.5 Consensus size: 46
17026987 ATCTAATCAA
* * * *
17026997 AGGCTCAATAACTTTAAAATTCATCATCTTGGGAAAGTTCCTCTAAGCAG
1 AGGCTCAACAACTTTAAAA-T--TCATCTT-GAAAAGCTCCTCTCAGCAG
** *
17027047 AGGCTCAGTAACTTTAAAATTTCATTTTGAAAAGCTCCTCTCAGCAG
1 AGGCTCAACAACTTTAAAA-TTCATCTTGAAAAGCTCCTCTCAGCAG
* * * * *
17027094 AGGCTTAACAACTTTAAAATTAATCTTGAAAAAACTCATCTCAGTAG
1 AGGCTCAACAACTTTAAAATTCATCTTG-AAAAGCTCCTCTCAGCAG
* * * *
17027141 AGGCTCAACAATTTTAAAATTAATCTTGAAAAAGCTCATCTAAGCAG
1 AGGCTCAACAACTTTAAAATTCATCTTG-AAAAGCTCCTCTCAGCAG
* * * *
17027188 AGGCTCCACAACTTTAAAAAT--TCTTGAAAATGCTCATCTCAACAG
1 AGGCTCAACAACTTTAAAATTCATCTTGAAAA-GCTCCTCTCAGCAG
* *
17027233 AGGCTCAACAACTTTAAAATTCATTTTGGAAAAGCTCCTCTAAGCAG
1 AGGCTCAACAACTTTAAAATTCATCTT-GAAAAGCTCCTCTCAGCAG
** * *
17027280 AGGCTTTACAATTTTAAAATTAATCTTGAAAATGCTCCTCTCAGCAG
1 AGGCTCAACAACTTTAAAATTCATCTTGAAAA-GCTCCTCTCAGCAG
* * *
17027327 AGACTCAACAACTTTAAAAATTCATCTTAAAAATGCTCCTCTCAGTAG
1 AGGCTCAACAACTTT-AAAATTCATCTTGAAAA-GCTCCTCTCAGCAG
* * * * * *
17027375 AGGCTTAACAACTTTAAAAATTTATTTTGGAAAAGCTCCTCTAAGTAA
1 AGGCTCAACAACTTT-AAAATTCATCTT-GAAAAGCTCCTCTCAGCAG
* * * * *
17027423 AGGCTCCATAACTTTAAAATTAATCTTGAAATGCTCCTCTCAACAG
1 AGGCTCAACAACTTTAAAATTCATCTTGAAAAGCTCCTCTCAGCAG
* *
17027469 AGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGCTCCTCTAAGCAG
1 AGGCTCAACAACTTT-AAAATTCATCTTG-AAAAGCTCCTCTCAGCAG
* * * *
17027517 AGGCTCTACAACTTTAAAAATT--T-TTAAAAATGCTCTTCTCAGTAG
1 AGGCTCAACAACTTT-AAAATTCATCTTGAAAA-GCTCCTCTCAGCAG
* * * *
17027562 AGGTTCAACAACTTTAAAAATTCATCTTGAAAAAGCACCTCTAAGTAG
1 AGGCTCAACAACTTT-AAAATTCATCTTG-AAAAGCTCCTCTCAGCAG
* * **
17027610 AGGCTCCACAACTTTAAAAAT--TCTTGAAAATGCTTATCTCAGCAG
1 AGGCTCAACAACTTTAAAATTCATCTTGAAAA-GCTCCTCTCAGCAG
* * * * *
17027655 AGGTTCAACAACTTTAAAATTCATTTTGGAAAAACTCCTCTAAACAG
1 AGGCTCAACAACTTTAAAATTCATCTT-GAAAAGCTCCTCTCAGCAG
* * * * *
17027702 AGGCTCCACAACTTTAAAATTAATCTTAAAAATACTCATCTCAGCAG
1 AGGCTCAACAACTTTAAAATTCATCTTGAAAA-GCTCCTCTCAGCAG
* * * *
17027749 AGGCTCAACAACTTTAAAAATTTATTTTGGGAAAGCTCCTCTAAGCAG
1 AGGCTCAACAACTTT-AAAATTCATCTT-GAAAAGCTCCTCTCAGCAG
* * * * * *
17027797 AAGCTCCACAACTTTAAAATTAATCTTGAAAATACTCCTATTAGCAG
1 AGGCTCAACAACTTTAAAATTCATCTTGAAAA-GCTCCTCTCAGCAG
*
17027844 AGGTTCAACAACTTTAAAAATTCAT
1 AGGCTCAACAACTTT-AAAATTCAT
17027869 TTGTTCTCAA
Statistics
Matches: 677, Mismatches: 121, Indels: 50
0.80 0.14 0.06
Matches are distributed among these distances:
44 12 0.02
45 101 0.15
46 48 0.07
47 288 0.43
48 197 0.29
49 11 0.02
50 20 0.03
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (46 bp):
AGGCTCAACAACTTTAAAATTCATCTTGAAAAGCTCCTCTCAGCAG
Found at i:17028711 original size:26 final size:26
Alignment explanation
Indices: 17028681--17028736 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17028671 ATAAGTCATC
17028681 ATTTTTCTTT-TTTTTTCTTTCACTTT
1 ATTTTT-TTTCTTTTTTCTTTCACTTT
* *
17028707 ATTTTTTTTCTTTTTTTTTTCTCTTT
1 ATTTTTTTTCTTTTTTCTTTCACTTT
17028733 -TTTT
1 ATTTT
17028737 AAGTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (26 bp):
ATTTTTTTTCTTTTTTCTTTCACTTT
Found at i:17035186 original size:11 final size:12
Alignment explanation
Indices: 17035166--17035199 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
17035156 AAATCTTATA
17035166 AGAGATTTGTTT
1 AGAGATTTGTTT
17035178 AGA-ATTTG-TT
1 AGAGATTTGTTT
17035188 AGAGATTTGTTT
1 AGAGATTTGTTT
17035200 GGGATTGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.25
11 10 0.50
12 5 0.25
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (12 bp):
AGAGATTTGTTT
Found at i:17039681 original size:22 final size:21
Alignment explanation
Indices: 17039656--17039697 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17039646 AAGCTCTTGA
*
17039656 CTTTTTCCTTAACATTTGTTTT
1 CTTTCTCCTTAA-ATTTGTTTT
*
17039678 CTTTCTCCTTCAATTTGTTT
1 CTTTCTCCTTAAATTTGTTT
17039698 CCTCTTTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.12, C:0.21, G:0.05, T:0.62
Consensus pattern (21 bp):
CTTTCTCCTTAAATTTGTTTT
Found at i:17049448 original size:20 final size:20
Alignment explanation
Indices: 17049409--17049450 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
17049399 CACATAATAT
* * *
17049409 ATACAAAGAACAATATATAA
1 ATACAAAGAAAAACACATAA
17049429 ATACAAAGAAAAACACATAA
1 ATACAAAGAAAAACACATAA
17049449 AT
1 AT
17049451 GGTTAGTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.17
Consensus pattern (20 bp):
ATACAAAGAAAAACACATAA
Found at i:17051794 original size:18 final size:18
Alignment explanation
Indices: 17051754--17051796 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
17051744 TCAGATAACT
*
17051754 ATATAATCAAGCAATTAA
1 ATATAATCAAGCAAATAA
*
17051772 TTATAATCACA-CAAATAA
1 ATATAATCA-AGCAAATAA
17051790 ATATAAT
1 ATATAAT
17051797 AATCATACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (18 bp):
ATATAATCAAGCAAATAA
Found at i:17051796 original size:24 final size:24
Alignment explanation
Indices: 17051769--17051867 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 24
17051759 ATCAAGCAAT
17051769 TAATTATAATCACACAAATAAATA
1 TAATTATAATCACACAAATAAATA
* *
17051793 T-A--ATAATCATACAATTAAATA
1 TAATTATAATCACACAAATAAATA
17051814 T-ATTAATAATCACACAATCAACTTAAATA
1 TAATT-ATAATCACAC-A--AA--TAAATA
*
17051843 TAATTAT-ATCATAC-AATAAATA
1 TAATTATAATCACACAAATAAATA
17051865 TAA
1 TAA
17051868 AATGATATCA
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
21 19 0.31
22 9 0.15
23 1 0.02
24 12 0.20
25 1 0.02
27 1 0.02
28 6 0.10
29 9 0.15
30 3 0.05
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (24 bp):
TAATTATAATCACACAAATAAATA
Found at i:17051800 original size:21 final size:24
Alignment explanation
Indices: 17051774--17051830 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
17051764 GCAATTAATT
17051774 ATAATCACACAAAT-AA-ATA-TA
1 ATAATCACACAAATAAATATATTA
* *
17051795 ATAATCATACAATTAAATATATTA
1 ATAATCACACAAATAAATATATTA
17051819 ATAATCACACAA
1 ATAATCACACAA
17051831 TCAACTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.40
22 2 0.07
23 3 0.10
24 13 0.43
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (24 bp):
ATAATCACACAAATAAATATATTA
Found at i:17051829 original size:45 final size:49
Alignment explanation
Indices: 17051774--17051866 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 49
17051764 GCAATTAATT
17051774 ATAATCACAC-A-AA-TAAATATAA-TA-ATCATACAATTAAATATATTA
1 ATAATCACACAACAACTAAATATAATTATATCATACAA-TAAATATATTA
17051819 ATAATCACACAATCAACTTAAATATAATTATATCATACAATAAATATA
1 ATAATCACACAA-CAAC-TAAATATAATTATATCATACAATAAATATA
17051867 AAATGATATC
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
45 10 0.24
46 1 0.02
48 2 0.05
50 9 0.22
51 10 0.24
52 9 0.22
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (49 bp):
ATAATCACACAACAACTAAATATAATTATATCATACAATAAATATATTA
Found at i:17051868 original size:28 final size:25
Alignment explanation
Indices: 17051786--17051891 Score: 78
Period size: 24 Copynumber: 4.2 Consensus size: 25
17051776 AATCACACAA
17051786 ATAAATATAATAATCATACAATTAAAT
1 ATAAAT-TAATAATCATACAA-TAAAT
* *
17051813 AT--ATTAATAATCACACAATCAACT
1 ATAAATTAATAATCATACAAT-AAAT
17051837 -TAAATATAATTATATCATACAATAAAT
1 ATAAAT-TAA-TA-ATCATACAATAAAT
* * *
17051864 ATAAAATGAT-ATCATGCAA-AAAT
1 ATAAATTAATAATCATACAATAAAT
17051887 ATAAA
1 ATAAA
17051892 ATTATGCAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
23 11 0.17
24 24 0.37
25 4 0.06
26 4 0.06
27 9 0.14
28 13 0.20
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (25 bp):
ATAAATTAATAATCATACAATAAAT
Found at i:17051889 original size:23 final size:24
Alignment explanation
Indices: 17051848--17051893 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
17051838 AAATATAATT
17051848 ATATCATACAATAAATATAAAATG
1 ATATCATACAATAAATATAAAATG
*
17051872 ATATCATGCAA-AAATATAAAAT
1 ATATCATACAATAAATATAAAAT
17051894 TATGCAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.28
Consensus pattern (24 bp):
ATATCATACAATAAATATAAAATG
Found at i:17052022 original size:19 final size:18
Alignment explanation
Indices: 17051997--17052046 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
17051987 AAAACAAAAG
*
17051997 AAAAAAACAAAAATTAGAA
1 AAAAAAACAAAAAATA-AA
* *
17052016 AATAAAATAAAAAATAAA
1 AAAAAAACAAAAAATAAA
*
17052034 AAAAAAAGAAAAA
1 AAAAAAACAAAAA
17052047 GAAAAGCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.84, C:0.02, G:0.04, T:0.10
Consensus pattern (18 bp):
AAAAAAACAAAAAATAAA
Found at i:17052563 original size:21 final size:22
Alignment explanation
Indices: 17052528--17052571 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
17052518 CAAATTCAGA
17052528 AAACCCAAAACCAAA-TCAAATC
1 AAACCCAAAACCAAAGT-AAATC
17052550 AAACCCAAAA-CAAAGTAAATC
1 AAACCCAAAACCAAAGTAAATC
17052571 A
1 A
17052572 CATAACTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.61, C:0.27, G:0.02, T:0.09
Consensus pattern (22 bp):
AAACCCAAAACCAAAGTAAATC
Found at i:17055096 original size:19 final size:19
Alignment explanation
Indices: 17055074--17055113 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17055064 AAATGAAATC
*
17055074 AAATAAAATAAAAAAATAA
1 AAATAAAATAAAAAAAGAA
*
17055093 AAATAAAATAGAAAAAGAA
1 AAATAAAATAAAAAAAGAA
17055112 AA
1 AA
17055114 GCTTACTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (19 bp):
AAATAAAATAAAAAAAGAA
Found at i:17056025 original size:18 final size:18
Alignment explanation
Indices: 17055999--17056033 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17055989 ATTTTTTCTC
*
17055999 TATTTTTATTTATTTATT
1 TATTATTATTTATTTATT
*
17056017 TATTATTATTTTTTTAT
1 TATTATTATTTATTTAT
17056034 AATTTTTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TATTATTATTTATTTATT
Found at i:17056216 original size:136 final size:136
Alignment explanation
Indices: 17056065--17056337 Score: 483
Period size: 136 Copynumber: 2.0 Consensus size: 136
17056055 ATGTGTCTAA
* *
17056065 AGCTAGCTTGGTGACTCCACTGGGGACGCTAGAGAGTCAAGCCAAAAATTAAACATGTGTCATCA
1 AGCTAGCTTGGTGACTCCACTAGGGACGCTAAAGAGTCAAGCCAAAAATTAAACATGTGTCATCA
* *
17056130 AAACTTTGATTTTATGGTCTTTTTTATATTTAATTTTAATTCTTTATCTCGTCTTAGAATAAAAA
66 AAACTTTGATTTTATGGTCTTTTGTATATTTAATTTTAATTCTTTATCTCATCTTAGAATAAAAA
17056195 CATGAT
131 CATGAT
* *
17056201 AGCTAGCTTGGTGACTCCACTAGGGACGCTAAAGAGTCAAGCTAAAAATTAAACATTTGTCATCA
1 AGCTAGCTTGGTGACTCCACTAGGGACGCTAAAGAGTCAAGCCAAAAATTAAACATGTGTCATCA
17056266 AAACTTTGATTTTATGGTCTTTTGTATATTTAATTTTAATTCTTTATCTCATCTTAGAATAAAAA
66 AAACTTTGATTTTATGGTCTTTTGTATATTTAATTTTAATTCTTTATCTCATCTTAGAATAAAAA
*
17056331 CGTGAT
131 CATGAT
17056337 A
1 A
17056338 AAAAAAAGAA
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
136 130 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (136 bp):
AGCTAGCTTGGTGACTCCACTAGGGACGCTAAAGAGTCAAGCCAAAAATTAAACATGTGTCATCA
AAACTTTGATTTTATGGTCTTTTGTATATTTAATTTTAATTCTTTATCTCATCTTAGAATAAAAA
CATGAT
Done.