Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 39
Found at i:1713969 original size:17 final size:18
Alignment explanation
Indices: 1713944--1713977 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1713934 AGAAGAAATA
*
1713944 CAAGGAAATGTT-GAAAC
1 CAAGAAAATGTTAGAAAC
1713961 CAAGAAAATGTTAGAAA
1 CAAGAAAATGTTAGAAA
1713978 TTAGAATACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.09, G:0.21, T:0.18
Consensus pattern (18 bp):
CAAGAAAATGTTAGAAAC
Found at i:1717206 original size:23 final size:23
Alignment explanation
Indices: 1717180--1717227 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1717170 GCTCTGACAC
* *
1717180 TGCATTTACTCATGCTTCGTTGG
1 TGCATTTACTCATCCTTCCTTGG
1717203 TGCATTTACTCATCCTTCCTTGG
1 TGCATTTACTCATCCTTCCTTGG
1717226 TG
1 TG
1717228 GGTGCATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (23 bp):
TGCATTTACTCATCCTTCCTTGG
Found at i:1717350 original size:21 final size:23
Alignment explanation
Indices: 1717320--1717381 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 23
1717310 ATTTAAAACC
*
1717320 AAATAAATATATA-AATT-TTAA
1 AAATATATATATACAATTATTAA
*
1717341 AAATATATATATACATTTATTAA
1 AAATATATATATACAATTATTAA
*
1717364 AAA-AT-TATATAGAATTAT
1 AAATATATATATACAATTAT
1717382 ACATATTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 23 0.66
22 5 0.14
23 7 0.20
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATATATATATACAATTATTAA
Found at i:1717531 original size:38 final size:38
Alignment explanation
Indices: 1717470--1717545 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
1717460 AAAAGTTACA
* * **
1717470 AAATGGTCCTCTAGCTATGTGGTGTTGCTTTGTTGAGT
1 AAATGGTCCTATAACTACATGGTGTTGCTTTGTTGAGT
1717508 AAATGGTCCTATAACTACATGGTGTTGCTTTGTTGAGT
1 AAATGGTCCTATAACTACATGGTGTTGCTTTGTTGAGT
1717546 CCATTGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.20, C:0.13, G:0.26, T:0.41
Consensus pattern (38 bp):
AAATGGTCCTATAACTACATGGTGTTGCTTTGTTGAGT
Found at i:1719645 original size:15 final size:15
Alignment explanation
Indices: 1719625--1719653 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1719615 TGCTCAAATT
1719625 ATATATATTTTTTAG
1 ATATATATTTTTTAG
1719640 ATATATATTTTTTA
1 ATATATATTTTTTA
1719654 AGTTAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATATATATTTTTTAG
Found at i:1721333 original size:3 final size:3
Alignment explanation
Indices: 1721325--1721366 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1721315 GTTATAACTG
1721325 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1721367 CATGTTACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1734550 original size:23 final size:23
Alignment explanation
Indices: 1734524--1734568 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1734514 CACCACATCT
*
1734524 CGTATAAATACACCGAAGTGCCG
1 CGTAGAAATACACCGAAGTGCCG
* * *
1734547 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATACACCGAAGTGCC
1734569 ATATAAGATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCG
Found at i:1744140 original size:2 final size:2
Alignment explanation
Indices: 1744133--1744162 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1744123 ATACTCATTA
1744133 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
1744163 TGTTTTTTAT
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:1744900 original size:18 final size:18
Alignment explanation
Indices: 1744877--1744911 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1744867 ATGTATAAGG
*
1744877 ATTTATTTAAAATTAATC
1 ATTTATTAAAAATTAATC
1744895 ATTTATTAAAAATTAAT
1 ATTTATTAAAAATTAAT
1744912 TATAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTATTAAAAATTAATC
Found at i:1745198 original size:31 final size:29
Alignment explanation
Indices: 1745160--1745217 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
1745150 AAACTACACG
1745160 TTTAGTACCTAAACTATTACTTTTATTTTGT
1 TTTAGTACCTAAACTATTA-TTTT-TTTTGT
* *
1745191 TTTAGTACCTTAACTTTTATTTTTTTT
1 TTTAGTACCTAAACTATTATTTTTTTT
1745218 AAAAATCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 4 0.16
31 17 0.68
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTAGTACCTAAACTATTATTTTTTTTGT
Found at i:1745403 original size:3 final size:3
Alignment explanation
Indices: 1745395--1745432 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
1745385 TCTCAGACTA
*
1745395 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1745433 GTATGACATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1747345 original size:18 final size:18
Alignment explanation
Indices: 1747322--1747356 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1747312 TAAAATTATA
*
1747322 ATTAATTTTTAATAAATG
1 ATTAATTTTAAATAAATG
1747340 ATTAATTTTAAATAAAT
1 ATTAATTTTAAATAAAT
1747357 CTCTATACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTAATTTTAAATAAATG
Found at i:1748641 original size:39 final size:39
Alignment explanation
Indices: 1748587--1748673 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
1748577 TCAAGTTGTA
1748587 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
1748626 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1748665 GATTTTGAT
1 GATTTTGAT
1748674 GAGCATCGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:1749007 original size:18 final size:18
Alignment explanation
Indices: 1748986--1749022 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1748976 CGAAATTTAT
1748986 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1749004 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1749022 A
1 A
1749023 CTCCAATTAC
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:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1751605 original size:105 final size:104
Alignment explanation
Indices: 1751417--1751639 Score: 259
Period size: 105 Copynumber: 2.1 Consensus size: 104
1751407 GAGTCGAGGG
*
1751417 TCTACGCGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCATTTGCAACACGT
1 TCTACGTGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCATTTGCAACACGT
* *
1751482 ATTTGGTCCTTAGCATATGTATATGATTCTTAAAGAATTT
66 ACTTGATCCTTAGCATATGTATATGATTCTTAAAGAA-TT
* * * * * * * * *
1751522 TCTACGTGGTCCTTTGGGACGTATATGTATTCTTTGGAGCATGTATGAGGTCTTTTG-AGACACT
1 TCTACGTGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCATTTGCA-ACACG
* * * *
1751586 TACTTGATCCTTGGTATATGTATATGGTTCTTAAGGAATT
65 TACTTGATCCTTAGCATATGTATATGATTCTTAAAGAATT
* *
1751626 TATATGTGGTCCTT
1 TCTACGTGGTCCTT
1751640 ATGGACAATC
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
104 15 0.15
105 84 0.85
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (104 bp):
TCTACGTGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCATTTGCAACACGT
ACTTGATCCTTAGCATATGTATATGATTCTTAAAGAATT
Found at i:1756846 original size:105 final size:104
Alignment explanation
Indices: 1756657--1756879 Score: 257
Period size: 105 Copynumber: 2.1 Consensus size: 104
1756647 GAGTCGAGGG
* * * * *
1756657 TCTACGCGGTTCTTCGGGACATATAGGTATCCTATGGAACATCTATGCGGTCATTTGCGACACGT
1 TCTACGTGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCATTTGAGAAACGT
* * *
1756722 ATTTGGTCCTTAGCATATGTATATGATTCTTAAGGATTTT
66 ACTTGATCCTTAGCATATGTATATGATTCTTAAGGA-ATT
* * * * * * *
1756762 TCTACGTGGTCCTTCGGGACATATATGTATTCTTTGGAGCATGTATGAGGTCTTTTGAGAAACTT
1 TCTACGTGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCATTTGAGAAACGT
* * *
1756827 ACTTGATCCTTGGTATATGTATATGGTTCTTAAGGAATT
66 ACTTGATCCTTAGCATATGTATATGATTCTTAAGGAATT
* *
1756866 TATATGTGGTCCTT
1 TCTACGTGGTCCTT
1756880 ATAGACAATC
Statistics
Matches: 98, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
104 14 0.14
105 84 0.86
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.39
Consensus pattern (104 bp):
TCTACGTGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCATTTGAGAAACGT
ACTTGATCCTTAGCATATGTATATGATTCTTAAGGAATT
Found at i:1756941 original size:23 final size:24
Alignment explanation
Indices: 1756896--1756941 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
1756886 AATCTTATAT
*
1756896 GGCACTACGGTGTAAATTCTACGC
1 GGCACTACGGTGTAAATTATACGC
* *
1756920 GGCACTTCGGTG-CAATTATACG
1 GGCACTACGGTGTAAATTATACG
1756942 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (24 bp):
GGCACTACGGTGTAAATTATACGC
Found at i:1757906 original size:20 final size:20
Alignment explanation
Indices: 1757881--1757982 Score: 141
Period size: 20 Copynumber: 5.1 Consensus size: 20
1757871 TGTACAACAT
*
1757881 GAAAGTTAAATTCGCAATGC
1 GAAAGTCAAATTCGCAATGC
*
1757901 GAAAGTCAAATTCCCAATGC
1 GAAAGTCAAATTCGCAATGC
1757921 GAAAGTCAAATTCGCAATGC
1 GAAAGTCAAATTCGCAATGC
* *
1757941 GAAAGTCAAATTCGTAACGC
1 GAAAGTCAAATTCGCAATGC
* * *
1757961 GAAAGCCAAATGCGCAACGC
1 GAAAGTCAAATTCGCAATGC
1757981 GA
1 GA
1757983 TTTTCGGTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (20 bp):
GAAAGTCAAATTCGCAATGC
Found at i:1760610 original size:24 final size:24
Alignment explanation
Indices: 1760576--1760629 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1760566 CCATCACATC
1760576 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1760600 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1760624 ATCAAA
1 ATCAAA
1760630 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1760643 original size:24 final size:24
Alignment explanation
Indices: 1760576--1760643 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1760566 CCATCACATC
* * *
1760576 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
1760600 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
1760624 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
1760644 TAGTACTCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1760776 original size:12 final size:12
Alignment explanation
Indices: 1760755--1760788 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1760745 GGTTGTGGGT
*
1760755 TTTGAGATTGTG
1 TTTGATATTGTG
1760767 TTTGATATTGTG
1 TTTGATATTGTG
*
1760779 TTTGGTATTG
1 TTTGATATTG
1760789 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1761376 original size:14 final size:16
Alignment explanation
Indices: 1761341--1761377 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1761331 GAAATCATTG
1761341 AAAATTATATAGAAAT
1 AAAATTATATAGAAAT
*
1761357 AAAATTATGTA-AAA-
1 AAAATTATATAGAAAT
1761371 AAAATTA
1 AAAATTA
1761378 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 3 0.15
16 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
AAAATTATATAGAAAT
Found at i:1761558 original size:19 final size:19
Alignment explanation
Indices: 1761534--1761570 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1761524 ACTAAAACCT
1761534 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
1761553 GTTGCGAATTTGAAATTC
1 GTTGCGAATTTGAAATTC
1761571 CACGTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:1761585 original size:21 final size:19
Alignment explanation
Indices: 1761540--1761586 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1761530 ACCTGTTGCG
* *
1761540 AATTTGAAATTCAGTTGCG
1 AATTTGAAATTCAGTTACA
1761559 AATTTGAAATTCCACGTTACA
1 AATTTGAAATT-CA-GTTACA
1761580 AATTTGA
1 AATTTGA
1761587 CTTTGTGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 2 0.08
21 11 0.46
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (19 bp):
AATTTGAAATTCAGTTACA
Found at i:1761597 original size:40 final size:40
Alignment explanation
Indices: 1761553--1761639 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
1761543 TTGAAATTCA
1761553 GTTGCGAATTTGAA-ATTCCACGTTACAAATTTGAC-TTTGT
1 GTTGCGAATTTGAATA-T-CACGTTACAAATTTGACTTTTGT
* * * *
1761593 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGAATATCACGTTACAAATTTGACTTTTGT
1761633 GTTGCGA
1 GTTGCGA
1761640 TTTACATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 14 0.34
40 26 0.63
41 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.40
Consensus pattern (40 bp):
GTTGCGAATTTGAATATCACGTTACAAATTTGACTTTTGT
Found at i:1761618 original size:20 final size:20
Alignment explanation
Indices: 1761580--1761657 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
1761570 CCACGTTACA
* *
1761580 AATTTGACT-TTGTGTTGCG
1 AATTTGACTATCGCGTTGCG
1761599 AATTTGACTATCGCGTTGCG
1 AATTTGACTATCGCGTTGCG
* * *
1761619 AATTTGACTTTTGTGTTGCG
1 AATTTGACTATCGCGTTGCG
1761639 -ATTT-ACATATTCGCGTTGC
1 AATTTGAC-TA-TCGCGTTGC
1761658 AAAATTGGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
18 2 0.04
19 14 0.29
20 32 0.67
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (20 bp):
AATTTGACTATCGCGTTGCG
Found at i:1761653 original size:40 final size:39
Alignment explanation
Indices: 1761580--1761657 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 39
1761570 CCACGTTACA
1761580 AATTTGACTTTGTGTTGCGAATTTGACTATCGCGTTGCG
1 AATTTGACTTTGTGTTGCGAATTTGACTATCGCGTTGCG
1761619 AATTTGACTTTTGTGTTGCG-ATTT-ACATATTCGCGTTGC
1 AATTTGAC-TTTGTGTTGCGAATTTGAC-TA-TCGCGTTGC
1761658 AAAATTGGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
38 2 0.06
39 14 0.39
40 20 0.56
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (39 bp):
AATTTGACTTTGTGTTGCGAATTTGACTATCGCGTTGCG
Found at i:1761865 original size:22 final size:23
Alignment explanation
Indices: 1761790--1761864 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
1761780 TTTTTCTATT
1761790 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
1761812 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1761838 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1761861 TAAA
1 TAAA
1761865 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1761875 original size:32 final size:32
Alignment explanation
Indices: 1761836--1761928 Score: 107
Period size: 32 Copynumber: 3.2 Consensus size: 32
1761826 CAATCCATAT
1761836 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1761868 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1761890 TTTAAAATAAATCAATCCATAATAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1761922 TTTAAAA
1 TTTAAAA
1761929 CAAGTTATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 20
0.70 0.01 0.28
Matches are distributed among these distances:
22 16 0.32
23 2 0.04
24 1 0.02
26 2 0.04
28 3 0.06
30 1 0.02
31 2 0.04
32 23 0.46
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1761878 original size:54 final size:54
Alignment explanation
Indices: 1761819--1761928 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
1761809 CAACTACAAT
*
1761819 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTATTTAA
1761873 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTATTTAA
1761927 AA
1 AA
1761929 CAAGTTATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTATTTAA
Found at i:1761894 original size:22 final size:22
Alignment explanation
Indices: 1761868--1761910 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1761858 TAATAAATTA
1761868 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1761890 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1761911 ATAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1761919 original size:22 final size:22
Alignment explanation
Indices: 1761870--1761918 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1761860 ATAAATTATT
**
1761870 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1761892 TAAAATAAATCAATCCATAATAA
1 TAAAATAAATCAATCCAT-ATAA
1761915 TAAA
1 TAAA
1761919 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1761954 original size:69 final size:68
Alignment explanation
Indices: 1761868--1762016 Score: 185
Period size: 69 Copynumber: 2.2 Consensus size: 68
1761858 TAATAAATTA
1761868 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTATTT-AAAACAA
1 TTTAAAATAAATCAATCCATATTTTAAAAT-AATCAAT--ATAATAATAAATTATTTAAAAACAA
*
1761932 GTTA-T
63 ATTATT
* * ** * * *
1761937 TTTAAAATAAATTAATCCATATTTTATAATAATTTATTTTATAATAAATTATTTAAAAATAAATT
1 TTTAAAATAAATCAATCCATATTTTAAAATAATCAATATAATAATAAATTATTTAAAAACAAATT
1762002 ATT
66 ATT
1762005 TTTAAAATAAAT
1 TTTAAAATAAAT
1762017 AACCTTATTA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
66 15 0.21
67 9 0.13
68 18 0.26
69 28 0.40
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (68 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAATCAATATAATAATAAATTATTTAAAAACAAATT
ATT
Found at i:1761976 original size:15 final size:15
Alignment explanation
Indices: 1761956--1762016 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
1761946 AATTAATCCA
*
1761956 TATTTTATAATAATT
1 TATTTTATAATAAAT
1761971 TATTTTATAATAAAT
1 TATTTTATAATAAAT
* *
1761986 TATTTAAAAATAAAT
1 TATTTTATAATAAAT
*
1762001 TATTTTTAAAATAAAT
1 TA-TTTTATAATAAAT
1762017 AACCTTATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
15 29 0.71
16 12 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTTATAATAAAT
Found at i:1762473 original size:31 final size:31
Alignment explanation
Indices: 1762437--1762495 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1762427 AACTTAAAAG
* * *
1762437 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTAAAATTTAAATAATTTT
1762468 AGTTTTACAATACTAAAATTTAAATAAT
1 AGTTTTACAATACTAAAATTTAAATAAT
1762496 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTAAAATTTAAATAATTTT
Found at i:1762546 original size:22 final size:22
Alignment explanation
Indices: 1762520--1762562 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1762510 TAATAAATTA
1762520 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1762542 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1762563 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1762571 original size:22 final size:22
Alignment explanation
Indices: 1762522--1762570 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1762512 ATAAATTATT
**
1762522 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1762544 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1762567 TAAA
1 TAAA
1762571 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1762574 original size:54 final size:54
Alignment explanation
Indices: 1762510--1763209 Score: 346
Period size: 54 Copynumber: 12.8 Consensus size: 54
1762500 ACAACTACAA
1762510 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
1762564 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
1762621 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* ** *
1762676 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--C
* * * * *
1762736 TAAAATAAATCAATTCATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATA-
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * ** * ** ** *
1762787 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATA--C
* * * * *
1762844 TAAAATAAATCAATCTATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1762896 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** * ** * *
1762944 TAATAAATTATTTAAAATAAATTAATCCATATAATAAAATAAAT-TATTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1762997 TAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCC
1 T-AATAAAT---TA-TTTAAAATAAATCAATC----C--AT--A-T-TTTAAAATAAATCAATCC
1763062 ATAC
51 ATAC
*
1763066 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
1763114 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCAATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1763168 TAATAAATTATTTAAAATAAATCAATCCATATTTTATAATAA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1763210 TTTATTTTAA
Statistics
Matches: 487, Mismatches: 87, Indels: 144
0.68 0.12 0.20
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
45 1 0.00
47 5 0.01
48 53 0.11
49 11 0.02
50 9 0.02
51 1 0.00
52 4 0.01
53 6 0.01
54 219 0.45
55 16 0.03
56 11 0.02
57 19 0.04
58 68 0.14
59 5 0.01
60 6 0.01
61 2 0.00
62 14 0.03
63 7 0.01
64 2 0.00
66 1 0.00
67 3 0.01
68 12 0.02
69 4 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:1762615 original size:80 final size:83
Alignment explanation
Indices: 1762510--1762840 Score: 396
Period size: 80 Copynumber: 4.0 Consensus size: 83
1762500 ACAACTACAA
1762510 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1762575 TTAAAATAAATCAATCCATAC
63 TTAAAATAAATCAATCCATAC
* *
1762596 -AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTT
1 TAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
1762657 AAAATAAATCAATCCATAC
65 AAAATAAATCAATCCATAC
*** * * * *
1762676 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-
1 TAATAAA-TA-TT-AAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTA
*
1762734 TTTAAAATAAATCAATTCATAC
62 TTTAAAATAAATCAATCCATAC
1762756 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1762821 TTAAAATAAATCAATCCATA
63 TTAAAATAAATCAATCCATA
1762841 TTTTAAAATA
Statistics
Matches: 210, Mismatches: 19, Indels: 32
0.80 0.07 0.12
Matches are distributed among these distances:
79 5 0.02
80 134 0.64
81 4 0.02
82 5 0.02
84 5 0.02
85 4 0.02
86 48 0.23
87 5 0.02
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (83 bp):
TAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
AAATAAATCAATCCATAC
Found at i:1762651 original size:22 final size:22
Alignment explanation
Indices: 1762578--1762651 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
1762568 AAATTATTTA
*
1762578 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
1762603 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
1762625 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
1762648 AAAT
1 AAAT
1762652 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:1762666 original size:112 final size:112
Alignment explanation
Indices: 1762542--1762895 Score: 532
Period size: 112 Copynumber: 3.2 Consensus size: 112
1762532 CAATCCATAT
1762542 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
1762607 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTA
66 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1762654 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
1762719 TAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTA
66 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
1762766 TTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A
*
1762820 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTA
63 --T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1762874 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
1762896 AACTACAATA
Statistics
Matches: 226, Mismatches: 5, Indels: 22
0.89 0.02 0.09
Matches are distributed among these distances:
102 25 0.11
103 3 0.01
104 2 0.01
106 3 0.01
108 64 0.28
109 1 0.00
111 1 0.00
112 127 0.56
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (112 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1762744 original size:134 final size:139
Alignment explanation
Indices: 1762605--1762987 Score: 368
Period size: 134 Copynumber: 2.8 Consensus size: 139
1762595 CAACTACAAT
*
1762605 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTATTTAAAATAAATCAAT
* * * *
1762670 CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT
66 CCATACTAATAAATTATTTAAAATAAATCAATCCATA-TATTAAAATAAATAAATCAATACTAAT
1762732 -A-T-TTTAA
130 AATTATTTAA
* * * * * * * *
1762739 AATAAATCAATTCATA--CT--AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAAT---TA-TTTAAAATAAAT
* * *
1762800 CAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACT
62 CAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATATTAAAATAAATAAATCAATACT
1762865 AATAAATTATTTAA
127 AAT-AATTATTTAA
*** * * *
1762879 AATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAA
1 AATAAATCAATCCATA-TTTTAAAATAAATCAATCAATACAAATAAATTATTTAAAATAAATCAA
* *
1762937 TCCATACTAATAAATTATTTAAAATAAATTAATCCATATAATAAAATAAAT
65 TCCATACTAATAAATTATTTAAAATAAATCAATCCATATATTAAAATAAAT
1762988 TATTTAAAAT
Statistics
Matches: 207, Mismatches: 26, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
130 18 0.09
132 1 0.00
133 7 0.03
134 140 0.68
135 1 0.00
136 3 0.01
138 1 0.00
139 1 0.00
140 21 0.10
142 2 0.01
143 2 0.01
144 7 0.03
145 3 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (139 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTATTTAAAATAAATCAAT
CCATACTAATAAATTATTTAAAATAAATCAATCCATATATTAAAATAAATAAATCAATACTAATA
ATTATTTAA
Found at i:1762792 original size:22 final size:22
Alignment explanation
Indices: 1762766--1762808 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1762756 TAATAAATTA
1762766 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1762788 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1762809 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1762817 original size:22 final size:22
Alignment explanation
Indices: 1762768--1762816 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1762758 ATAAATTATT
**
1762768 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1762790 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1762813 TAAA
1 TAAA
1762817 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1762871 original size:22 final size:22
Alignment explanation
Indices: 1762822--1762870 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1762812 ATAAATTATT
**
1762822 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
1762844 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
1762867 TAAA
1 TAAA
1762871 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1762951 original size:22 final size:23
Alignment explanation
Indices: 1762876--1762950 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
1762866 ATAAATTATT
1762876 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
1762898 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1762924 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1762947 TAAA
1 TAAA
1762951 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1762988 original size:36 final size:36
Alignment explanation
Indices: 1762922--1763023 Score: 140
Period size: 36 Copynumber: 2.9 Consensus size: 36
1762912 CAATCCATAT
*
1762922 TTTAAAATAAATCAATCC--ATACT--AATAAATTA
1 TTTAAAATAAATCAATCCATATAATAAAATAAATTA
*
1762954 TTTAAAATAAATTAATCCATATAATAAAATAAATTA
1 TTTAAAATAAATCAATCCATATAATAAAATAAATTA
**
1762990 TTTAAAATAAATCAATCCATATTTTAAAATAAAT
1 TTTAAAATAAATCAATCCATATAATAAAATAAAT
1763024 CAATCTATAC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
32 17 0.28
34 4 0.07
36 40 0.66
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (36 bp):
TTTAAAATAAATCAATCCATATAATAAAATAAATTA
Found at i:1762999 original size:22 final size:22
Alignment explanation
Indices: 1762956--1762999 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1762946 ATAAATTATT
* *
1762956 TAAAATAAATTAATCCATATAA
1 TAAAATAAATTAATCAAAATAA
* *
1762978 TAAAATAAATTATTTAAAATAA
1 TAAAATAAATTAATCAAAATAA
1763000 ATCAATCCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAAATAAATTAATCAAAATAA
Found at i:1763006 original size:170 final size:170
Alignment explanation
Indices: 1762788--1763157 Score: 667
Period size: 170 Copynumber: 2.2 Consensus size: 170
1762778 CAATCCATAT
*
1762788 TTTAAAATAAATCAATCC--ATACT--AATAAATTATTTAAAATAAATCAATCCATATTTTAAAA
1 TTTAAAATAAATCAATCCATATAATAAAATAAATTATTTAAAATAAATCAATCCATATTTTAAAA
1762849 TAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCA
66 TAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCA
1762914 ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
131 ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
1762954 TTTAAAATAAATTAATCCATATAATAAAATAAATTATTTAAAATAAATCAATCCATATTTTAAAA
1 TTTAAAATAAATCAATCCATATAATAAAATAAATTATTTAAAATAAATCAATCCATATTTTAAAA
1763019 TAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCA
66 TAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCA
1763084 ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
131 ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
* **
1763124 TTTAAAATAAATCAATCTATATTTTAAAATAAAT
1 TTTAAAATAAATCAATCCATATAATAAAATAAAT
1763158 CAATCAATAC
Statistics
Matches: 194, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
166 17 0.09
168 4 0.02
170 173 0.89
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (170 bp):
TTTAAAATAAATCAATCCATATAATAAAATAAATTATTTAAAATAAATCAATCCATATTTTAAAA
TAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCA
ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1763041 original size:22 final size:22
Alignment explanation
Indices: 1762992--1763040 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1762982 ATAAATTATT
**
1762992 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
1763014 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
1763037 TAAA
1 TAAA
1763041 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1763121 original size:22 final size:23
Alignment explanation
Indices: 1763046--1763120 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
1763036 ATAAATTATT
1763046 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
1763068 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1763094 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1763117 TAAA
1 TAAA
1763121 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1763163 original size:80 final size:81
Alignment explanation
Indices: 1762788--1763198 Score: 488
Period size: 80 Copynumber: 4.9 Consensus size: 81
1762778 CAATCCATAT
1762788 TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1 TTTAAAATAAATCAATCCATAC-AACTAAA--A--T-AAATAAATCAATCCATATTTTAAAATAA
*
1762852 ATCAATCTATACTAATAAATTA
60 ATCAATCCATACTAATAAATTA
*
1762874 TTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAATCCATATTTTAAAATAAATCAAT
1 TTTAAAATAAATCAATCCATACAACTAAAATAAATAAATCAATCCATATTTTAAAATAAATCAAT
1762938 CCATACTAATAAATTA
66 CCATACTAATAAATTA
* * *
1762954 TTTAAAATAAATTAATCCATATAATAAAATAAATTATTTAAAATAAATCAATCCATATTTTAAAA
1 TTTAAAATAAATCAATCC--AT-A-CAACTAAA--A--T-AAATAAATCAATCCATATTTTAAAA
*
1763019 TAAATCAATCTATACTAATAAATTA
57 TAAATCAATCCATACTAATAAATTA
*
1763044 TTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAATCCATATTTTAAAATAAATCAAT
1 TTTAAAATAAATCAATCCATACAACTAAAATAAATAAATCAATCCATATTTTAAAATAAATCAAT
1763108 CCATACTAATAAATTA
66 CCATACTAATAAATTA
* *** * *
1763124 TTTAAAATAAATCAATCTATA-TTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAA
1 TTTAAAATAAATCAATCCATACAACTAAAATAAATAAATCAAT-C-CAT--A-T-TTTAAAATAA
1763188 ATCAATCCATA
60 ATCAATCCATA
1763199 TTTTATAATA
Statistics
Matches: 288, Mismatches: 19, Indels: 36
0.84 0.06 0.10
Matches are distributed among these distances:
79 5 0.02
80 143 0.50
81 1 0.00
82 6 0.02
83 1 0.00
84 8 0.03
85 3 0.01
86 52 0.18
87 1 0.00
88 3 0.01
90 65 0.23
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (81 bp):
TTTAAAATAAATCAATCCATACAACTAAAATAAATAAATCAATCCATATTTTAAAATAAATCAAT
CCATACTAATAAATTA
Found at i:1763175 original size:22 final size:22
Alignment explanation
Indices: 1763126--1763174 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1763116 ATAAATTATT
* **
1763126 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCAATATAA
1763148 TAAAATAAATCAATCAATACTAA
1 TAAAATAAATCAATCAATA-TAA
1763171 TAAA
1 TAAA
1763175 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCAATATAA
Found at i:1763215 original size:36 final size:33
Alignment explanation
Indices: 1763143--1763256 Score: 103
Period size: 30 Copynumber: 3.5 Consensus size: 33
1763133 AATCAATCTA
1763143 TATTTTAAAATAAATCAATCAATACTAATAAAT
1 TATTTTAAAATAAATCAATCAATACTAATAAAT
*
1763176 TA-TTTAAAATAAATCAATCCATATTTTA-TAATAATT
1 TATTTTAAAATAAATCAAT-CA-A---TACTAATAAAT
* **
1763212 TATTTTAAAATAAAT-TAT-TTTA-TAATAAAT
1 TATTTTAAAATAAATCAATCAATACTAATAAAT
*
1763242 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
1763257 TATTTTAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 15
0.77 0.07 0.17
Matches are distributed among these distances:
30 23 0.33
32 16 0.23
33 4 0.06
34 1 0.01
36 11 0.16
37 14 0.20
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (33 bp):
TATTTTAAAATAAATCAATCAATACTAATAAAT
Found at i:1763251 original size:12 final size:15
Alignment explanation
Indices: 1763197--1763271 Score: 123
Period size: 15 Copynumber: 5.0 Consensus size: 15
1763187 AATCAATCCA
*
1763197 TATTTTATAATAATT
1 TATTTTATAATAAAT
*
1763212 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
1763227 TATTTTATAATAAAT
1 TATTTTATAATAAAT
1763242 TATTTTATAATAAAT
1 TATTTTATAATAAAT
*
1763257 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
1763272 AAACTTATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 56 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTTATAATAAAT
Found at i:1768378 original size:2 final size:2
Alignment explanation
Indices: 1768320--1768359 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1768310 TAAATCTTTC
1768320 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
1768360 TAATGAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1768642 original size:11 final size:10
Alignment explanation
Indices: 1768605--1768638 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1768595 TTAAATGATT
1768605 ATATATTTTAA
1 ATAT-TTTTAA
1768616 ATATTTTTAA
1 ATATTTTTAA
*
1768626 ATATTTTTTA
1 ATATTTTTAA
1768636 ATA
1 ATA
1768639 ATTTATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:1770365 original size:21 final size:20
Alignment explanation
Indices: 1770347--1770477 Score: 104
Period size: 21 Copynumber: 6.2 Consensus size: 20
1770337 ACTATCGCAA
1770347 TGCGATAGTCCAAGTTCGCGT
1 TGCGATAGTCCAAGTTCGC-T
* * *
1770368 TGCGATTTATTCCAAATTTGCGT
1 TGCGA--TAGTCCAAGTTCGC-T
*
1770391 TGCGATAGTCCAAGTTTG-T
1 TGCGATAGTCCAAGTTCGCT
* *
1770410 TACGATAGTCGAAGTTCGCTT
1 TGCGATAGTCCAAGTTCGC-T
*
1770431 TGCGATTTATTCCAAGTTCG-T
1 TGCGA--TAGTCCAAGTTCGCT
*
1770452 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTTCGC-T
1770473 TGCGA
1 TGCGA
1770478 ATTATTCCAC
Statistics
Matches: 89, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
19 27 0.30
21 33 0.37
23 29 0.33
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (20 bp):
TGCGATAGTCCAAGTTCGCT
Found at i:1770428 original size:63 final size:61
Alignment explanation
Indices: 1770349--1770467 Score: 184
Period size: 63 Copynumber: 1.9 Consensus size: 61
1770339 TATCGCAATG
*
1770349 CGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTTGCGTTGCGATAGTCCAAGTTTGTTA
1 CGATAGTCCAAGTTCGCGTTGCGATTTATTCC-AAGTT-CGTTGCGATAGTCCAAGTTTGTTA
* * *
1770412 CGATAGTCGAAGTTCGCTTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTT
1 CGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTT
1770468 CGCGTTGCGA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 18 0.35
62 4 0.08
63 30 0.58
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (61 bp):
CGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTTGTTA
Found at i:1770458 original size:42 final size:42
Alignment explanation
Indices: 1770387--1770486 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
1770377 TTCCAAATTT
* *
1770387 GCGTTGCG-A-TAGTCCAAGTTTGTTACGATAGTCGAAGTTC
1 GCGTTGCGAATTATTCCAAGTTCGTTACGATAGTCGAAGTTC
* * *
1770427 GCTTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTC
1 GCGTTGCGAATTATTCCAAGTTCGTTACGATAGTCGAAGTTC
1770469 GCGTTGCGAATTATTCCA
1 GCGTTGCGAATTATTCCA
1770487 CGACCACGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 7 0.14
42 44 0.86
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (42 bp):
GCGTTGCGAATTATTCCAAGTTCGTTACGATAGTCGAAGTTC
Found at i:1770468 original size:19 final size:19
Alignment explanation
Indices: 1770347--1770469 Score: 93
Period size: 19 Copynumber: 5.9 Consensus size: 19
1770337 ACTATCGCAA
1770347 TGCGATAGTCCAAGTTCGCGT
1 TGCGATAGTCCAAGTT--CGT
* *
1770368 TGCGATTTATTCCAAATTTGCGT
1 TGCGA--TAGTCC-AAGTT-CGT
*
1770391 TGCGATAGTCCAAGTTTGT
1 TGCGATAGTCCAAGTTCGT
* *
1770410 TACGATAGTCGAAGTTCGCTT
1 TGCGATAGTCCAAGTTCG--T
*
1770431 TGCGATTTATTCCAAGTTCGT
1 TGCGA--TAGTCCAAGTTCGT
*
1770452 TGCGATAGTCGAAGTTCG
1 TGCGATAGTCCAAGTTCG
1770470 CGTTGCGAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
19 28 0.34
20 4 0.05
21 21 0.26
23 25 0.30
24 4 0.05
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (19 bp):
TGCGATAGTCCAAGTTCGT
Found at i:1770495 original size:6 final size:6
Alignment explanation
Indices: 1770484--1770509 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1770474 GCGAATTATT
1770484 CCACGA CCACGA CCACGA CCACGA CC
1 CCACGA CCACGA CCACGA CCACGA CC
1770510 CGAGACAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.54, G:0.15, T:0.00
Consensus pattern (6 bp):
CCACGA
Found at i:1771303 original size:21 final size:19
Alignment explanation
Indices: 1771271--1771471 Score: 141
Period size: 21 Copynumber: 9.7 Consensus size: 19
1771261 CGTTGCGATT
*
1771271 TTGGACTATCGCAACGAAC
1 TTGGAATATCGCAACGAAC
1771290 TTGGAATAAATCGCAACACGAAC
1 TTGGAAT--ATCGC-A-ACGAAC
* *
1771313 TTCGACTATCGCAACGAAC
1 TTGGAATATCGCAACGAAC
1771332 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA--CGAAC
* * *
1771355 TTCGACTATCGCAACGAAT
1 TTGGAATATCGCAACGAAC
1771374 TTGGAATAAATCGCAACGCAAAC
1 TTGGAAT--ATCGCAACG--AAC
* *
1771397 TTCGACTATCGCAACGAAC
1 TTGGAATATCGCAACGAAC
* *
1771416 TTGGACTATCGCAACGAAT
1 TTGGAATATCGCAACGAAC
*
1771435 TTGTAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA--CGAAC
* *
1771458 TTCGACTATCGCAA
1 TTGGAATATCGCAA
1771472 ATCAGTTTCC
Statistics
Matches: 145, Mismatches: 21, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
19 51 0.35
20 1 0.01
21 56 0.39
22 1 0.01
23 36 0.25
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (19 bp):
TTGGAATATCGCAACGAAC
Found at i:1771333 original size:42 final size:42
Alignment explanation
Indices: 1771274--1771420 Score: 267
Period size: 42 Copynumber: 3.5 Consensus size: 42
1771264 TGCGATTTTG
*
1771274 GACTATCGCAACGAACTTGGAATAAATCGCAACACGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1771316 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
1771358 GACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1771400 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
1771421 CTATCGCAAC
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 101 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:1771426 original size:61 final size:62
Alignment explanation
Indices: 1771341--1771471 Score: 219
Period size: 61 Copynumber: 2.1 Consensus size: 62
1771331 CTTGGAATAA
1771341 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACT
1 ATCGCAAC-CGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACT
* * *
1771404 ATCGCAA-CGAACTTGGACTATCGCAACGAATTTGTAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACT
1771465 ATCGCAA
1 ATCGCAA
1771472 ATCAGTTTCC
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
61 58 0.89
63 7 0.11
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (62 bp):
ATCGCAACCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACT
Found at i:1771531 original size:41 final size:40
Alignment explanation
Indices: 1771404--1771537 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 40
1771394 AACTTCGACT
*
1771404 ATCGCAA--CGAACTTGGACTATCGCAA-CGAATTTGTAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAATCGAATTTG---TAA
* **
1771444 ATCGCAACGCGAACTTCGACTATCGCAAATC-AGTTTCCAGA
1 ATCGCAACGCGAACTTCGACTATCGC-AATCGAATTTGTA-A
* *
1771485 TTCGCAACGCGAACTTCGACTATCGCAATGCGAATATGTAA
1 ATCGCAACGCGAACTTCGACTATCGCAAT-CGAATTTGTAA
*
1771526 ATCGCAATGCGA
1 ATCGCAACGCGA
1771538 TAGTCGAAGT
Statistics
Matches: 76, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
40 11 0.14
41 38 0.50
42 20 0.26
43 6 0.08
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (40 bp):
ATCGCAACGCGAACTTCGACTATCGCAATCGAATTTGTAA
Found at i:1771532 original size:103 final size:101
Alignment explanation
Indices: 1771307--1771512 Score: 272
Period size: 103 Copynumber: 2.0 Consensus size: 101
1771297 AAATCGCAAC
* *
1771307 ACGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGA
1 ACGAACTTGGACAATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGA
**
1771372 ATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCA
66 ATTTCCAAT--ATCGCAACGCAAACTTCGACTATCGCA
* * *
1771410 ACGAACTTGGACTATCGCAACGAATTTGTAATAAATCGCAACGCGAACTTCGACTATCGCAAATC
1 ACGAACTTGGACAATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGC-AA-C
* *
1771475 -AGTTTCCAGAT-TCGCAACGCGAACTTCGACTATCGCA
64 GAATTTCCA-ATATCGCAACGCAAACTTCGACTATCGCA
1771512 A
1 A
1771513 TGCGAATATG
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
102 26 0.28
103 57 0.61
104 7 0.08
105 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (101 bp):
ACGAACTTGGACAATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGA
ATTTCCAATATCGCAACGCAAACTTCGACTATCGCA
Found at i:1773549 original size:40 final size:40
Alignment explanation
Indices: 1773421--1773967 Score: 601
Period size: 40 Copynumber: 13.5 Consensus size: 40
1773411 TTTTAGCGTT
* * * *
1773421 GTTTTTAGAACAAACGCCACTAAATACTTGTACTTCAGTGGC
1 GTTTTTA-TACAAACGCCGCTAAAGAC-TGTACTTTAGTGGC
* * *
1773463 GTTTTTATATAAACGCCGCTAAAGACAAGTACTTCAGTGGC
1 GTTTTTATACAAACGCCGCTAAAGAC-TGTACTTTAGTGGC
* * *
1773504 ATTTTTATACAAACGACGCTAAAGAATGTACTTTAGTGGC
1 GTTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGC
** *
1773544 GTTTTTATACAAACAACGCTAAAGAATGTACTTTAGTGGC
1 GTTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGC
* * * ** *
1773584 GATTTTAGAACAAACACCATTATAGACTCGTACTTTAGTGGC
1 GTTTTTA-TACAAACGCCGCTAAAGACT-GTACTTTAGTGGC
* * * *
1773626 ATTTTTATACAAAGGCCGCTAAAGATTGTA-TTGTAGTGGT
1 GTTTTTATACAAACGCCGCTAAAGACTGTACTT-TAGTGGC
* * *
1773666 ATTTTTATACAAATGCCGCTAAAGACTATACTTTAGTGGC
1 GTTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGC
* *
1773706 GTTTTTATACAAACGACGCTAAAGAATGTACTTTAGTGGC
1 GTTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGC
* * *
1773746 ATTTTTAGAACAAACGCCGCTATAGACTCGTACTTTAGTGGC
1 GTTTTTA-TACAAACGCCGCTAAAGACT-GTACTTTAGTGGC
* * *
1773788 ATTTTTATACAAACGCCGCTAAAGATTGTATTTTAGTGGC
1 GTTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGC
** *
1773828 GTTTTTATACAAACGCCTATAAAGACTGTACTTTAGTGGT
1 GTTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGC
* * * * *
1773868 GTTTTTATATAAACACCACTATAGACTCATACTTTAGTGGC
1 GTTTTTATACAAACGCCGCTAAAGACT-GTACTTTAGTGGC
* * *
1773909 GTTTTTATACAAACGCCGCTATATACTATACTTTAGTGGC
1 GTTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGC
1773949 GTTTTTATACAAACGCCGC
1 GTTTTTATACAAACGCCGC
1773968 AAATTTATAA
Statistics
Matches: 432, Mismatches: 66, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.00
40 239 0.55
41 146 0.34
42 45 0.10
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (40 bp):
GTTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGC
Found at i:1773630 original size:122 final size:120
Alignment explanation
Indices: 1773430--1773962 Score: 563
Period size: 122 Copynumber: 4.4 Consensus size: 120
1773420 TGTTTTTAGA
* * * * * * * *
1773430 ACAAACGCCACTAAATACTTGTACTTCAGTGGCGTTTTTATATAAACGCCGCTAAAGACAAGTAC
1 ACAAACGCCGCTAAAGAC-TATACTTTAGTGGCGTTTTTATACAAACACC-TTAAAGAC-TGTAC
* * *
1773495 TTCAGTGGCATTTTTATACAAACGACGCTAAAGAAT-GTACTTTAGTGGCGTTTTTAT
63 TTTAGTGGCATTTTTATACAAACGACGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
** * * * * *
1773552 ACAAACAACGCTAAAGAATGTACTTTAGTGGCGATTTTAGAACAAACACCATTATAGACTCGTAC
1 ACAAACGCCGCTAAAGACTATACTTTAGTGGCGTTTTTA-TACAAACACC-TTAAAGACT-GTAC
* * * *
1773617 TTTAGTGGCATTTTTATACAAAGGCCGCTAAAGA-TTGTA-TTGTAGTGGTATTTTTAT
63 TTTAGTGGCATTTTTATACAAACGACGCTAAAGACTCGTACTT-TAGTGGCATTTTTAT
* *
1773674 ACAAATGCCGCTAAAGACTATACTTTAGTGGCGTTTTTATACAAACGACGC-TAAAGAATGTACT
1 ACAAACGCCGCTAAAGACTATACTTTAGTGGCGTTTTTATACAAAC-AC-CTTAAAGACTGTACT
* * *
1773738 TTAGTGGCATTTTTAGAACAAACGCCGCTATAGACTCGTACTTTAGTGGCATTTTTAT
64 TTAGTGGCATTTTTA-TACAAACGACGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
* * * *
1773796 ACAAACGCCGCTAAAGATTGTATTTTAGTGGCGTTTTTATACAAACGCCTATAAAGACTGTACTT
1 ACAAACGCCGCTAAAGACTATACTTTAGTGGCGTTTTTATACAAACACCT-TAAAGACTGTACTT
** * * * * *
1773861 TAGTGGTGTTTTTATATAAAC-ACCACTATAGACTCATACTTTAGTGGCGTTTTTAT
65 TAGTGGCATTTTTATACAAACGA-CGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
* *
1773917 ACAAACGCCGCTATATACTATACTTTAGTGGCGTTTTTATACAAAC
1 ACAAACGCCGCTAAAGACTATACTTTAGTGGCGTTTTTATACAAAC
1773963 GCCGCAAATT
Statistics
Matches: 347, Mismatches: 52, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
120 21 0.06
121 126 0.36
122 197 0.57
123 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (120 bp):
ACAAACGCCGCTAAAGACTATACTTTAGTGGCGTTTTTATACAAACACCTTAAAGACTGTACTTT
AGTGGCATTTTTATACAAACGACGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
Found at i:1773703 original size:162 final size:161
Alignment explanation
Indices: 1773423--1773967 Score: 700
Period size: 162 Copynumber: 3.4 Consensus size: 161
1773413 TTAGCGTTGT
* * * * * *
1773423 TTTTAGAACAAACGCCACTAAATACTTGTACTTCAGTGGCGTTTTTATATAAACGCCGCTAAAGA
1 TTTTAGAACAAACGCCACTATAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGA
** * * *
1773488 CAAGTACTTCAGTGGCATTTTTATACAAACGACGCTAAAGAATGTACTTTAGTGGCGTTTTTATA
66 -TTGTA-TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGCGTTTTTATA
1773553 CAAACAACGCTAAAGAATGTACTTTAGTGGCGA
129 CAAACAACGCTAAAGAATGTACTTTAGTGGCGA
* * *
1773586 TTTTAGAACAAACACCATTATAGACTCGTACTTTAGTGGCATTTTTATACAAAGGCCGCTAAAGA
1 TTTTAGAACAAACGCCACTATAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGA
* * *
1773651 TTGTATTGTAGTGGTATTTTTATACAAATGCCGCTAAAGACTATACTTTAGTGGCGTTTTTATAC
66 TTGTATT-TAGTGGCATTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGCGTTTTTATAC
*
1773716 AAACGACGCTAAAGAATGTACTTTAGTGGC-A
130 AAACAACGCTAAAGAATGTACTTTAGTGGCGA
*
1773747 TTTTTAGAACAAACGCCGCTATAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAG
1 -TTTTAGAACAAACGCCACTATAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAG
* ** *
1773812 ATTGTATTTTAGTGGCGTTTTTATACAAACGCCTATAAAGACTGTACTTTAGTGGTGTTTTTATA
65 ATTGTA-TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGCGTTTTTATA
* * * * * * *
1773877 TAAACACCACTATAGACTCATACTTTAGTGGCGT
129 CAAACAACGCTAAAGAAT-GTACTTTAGTGGCGA
* * * * *
1773911 TTTTA-TACAAACGCCGCTATATACT-ATACTTTAGTGGCGTTTTTATACAAACGCCGC
1 TTTTAGAACAAACGCCACTATAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGC
1773968 AAATTTATAA
Statistics
Matches: 336, Mismatches: 41, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
161 33 0.10
162 228 0.68
163 75 0.22
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (161 bp):
TTTTAGAACAAACGCCACTATAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGA
TTGTATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTGTACTTTAGTGGCGTTTTTATACA
AACAACGCTAAAGAATGTACTTTAGTGGCGA
Found at i:1778273 original size:701 final size:700
Alignment explanation
Indices: 1776925--1778776 Score: 3067
Period size: 701 Copynumber: 2.6 Consensus size: 700
1776915 AGGATATGAA
*
1776925 AAAGAGCATGTGTGGCATGGTGAAGGAGTTATTTCTTGAGCGATACTTCT-GCAAGGTATTTTAT
1 AAAG-GCATGTGTGGCATGGTGAAGGAGTTATTGCTTGAGCGATACTT-TAGCAAGGTATTTTAT
* *
1776989 GCTTCAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAAAACTGGACTAGTTGAGTGGTGAGGTTA
64 GCTTCAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGAGTGGTGAGGTTG
* *
1777054 TGAATGACAATTGCAGGAAGTTTGTGGTAGCGTTGTAGTACAGGAATCTGATATAGTTCAGTAAG
129 CGAATGACAATTGCAGGAAGTTTGTGGTAGCGTTGTAGTACCGGAATCTGATATAGTTCAGTAAG
* *
1777119 ATAGATGTATGCGCTCATTACCTTTCCCAAATATTTGTTGTTATGTTTCCCTTGCTGTGGTTTTC
194 ATAGATGTATGCGCTCATTGCCTTTCCCAAATATTTGTAGTTATGTTTCCCTTGCTGTGGTTTTC
* *
1777184 ATTCTAATGAATGGTGTCTTTCATTTTGTATTGTGTTCATAGTCTGGCACTGGCGGCCTTAGAGT
259 ATTCTAATGAATGGTGCCTTTCATTTTGCATTGTGTTCATAGTCTGGCACTGGCGGCCTTAGAGT
* *
1777249 TGATCGCCGTGGTTCCATGATGTTGACTTTCTTGCCTGCTATTGTTGAGCACAAGTATGATTGGG
324 TGATCGCCGTGGTTCCATGATGTTGACTTTCTTGCCTGCTATTGCTGAGCGCAAGTATGATTGGG
1777314 AGAAGAGATAGATAAGTATTTCCATCTTGTTCCCCATTAAACAATTAGTGCATTGATAAATACGA
389 AGAAGAGATAG-TAAGTATTTCCATCTTGTTCCCCATTAAACAATTAGTGCATTGATAAATACGA
* *
1777379 CTCAAAACAATGTGAATTTCATTATTCCAAATTAGGTTATTGGACTTGAATTTAGCATACTCTTA
453 CTCAAAACAATGTGAATTTCATTATTCCAAATTAGGATATTGGACTTGAATTTAACATACTCTTA
1777444 GCTGGATATATTTGGTTTACGATAACATTTTCCCTTGACCTCTCTCACTATCTTGTTGCTCCTGG
518 GCTGGATATATTTGGTTTACGATAACATTTTCCCTTGACCTCTCTCACTATCTTGTTGCTCCTGG
* *
1777509 TCTCCCCTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTGCAAGTTGTAAGGACATGGAAAG
583 TCTCCACTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTGCAAGTTGTAAGGACATGGAAAA
*
1777574 GGAAATATTCTTTGCTTGAACACGTAGAGTTCATGCCTCATGTTATTACTTTT
648 GGAAATATTCTTTGCTTGAACACATAGAGTTCATGCCTCATGTTATTACTTTT
* * *
1777627 AAGGGCATGTGTGGCATGGTGAAGGAGTTATTGCTTAAGCGATACTTTAGCAAGGTATTTTATAC
1 AAAGGCATGTGTGGCATGGTGAAGGAGTTATTGCTTGAGCGATACTTTAGCAAGGTATTTTATGC
*
1777692 TTCAAAAACTTGTGTTGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGAGTGGTGAGGTTGCG
66 TTCAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGAGTGGTGAGGTTGCG
1777757 AATGACAATTGCAGGAAGTTTGTGGTAGCGTTGTAGTACCGGAATCTGATATAGTTCAGTAAGAT
131 AATGACAATTGCAGGAAGTTTGTGGTAGCGTTGTAGTACCGGAATCTGATATAGTTCAGTAAGAT
*
1777822 AGATGTATGCGCTCATTGCCTTTCCCAAATATTTGTAGTTATCTTTCCCTTGCTGTGGTTTTCAT
196 AGATGTATGCGCTCATTGCCTTTCCCAAATATTTGTAGTTATGTTTCCCTTGCTGTGGTTTTCAT
*
1777887 TCTAATGAATGGTGCCTTTCATTTTGCATTGTGTTCATAGTCTGGAACTGGCGGCCTTAGAGTTG
261 TCTAATGAATGGTGCCTTTCATTTTGCATTGTGTTCATAGTCTGGCACTGGCGGCCTTAGAGTTG
* * *
1777952 ATCGCCGTGTTTCCATGATGTTGACTTTTTTGCCTGTTATTGCTGAGCGCAAGTATGATTGGGAG
326 ATCGCCGTGGTTCCATGATGTTGACTTTCTTGCCTGCTATTGCTGAGCGCAAGTATGATTGGGAG
* * * *
1778017 AAGAGACATGTAAGTATTTCCATCTTGTTCCCTATTAAATAATTAGTGCACTGATAAATACGACT
391 AAGAGATA-GTAAGTATTTCCATCTTGTTCCCCATTAAACAATTAGTGCATTGATAAATACGACT
* * ** *
1778082 CAAAATAATGTGAATTTCATTGTTCTGAATTAGGATATTGGACTTGAATTTAACATACTCTTAGT
455 CAAAACAATGTGAATTTCATTATTCCAAATTAGGATATTGGACTTGAATTTAACATACTCTTAGC
* * *
1778147 TGGATATATTTGGTTTATGATAACATTTTCCCTTGACCTCTCTCACTGTCTTGTTGCTCTTGGTC
520 TGGATATATTTGGTTTACGATAACATTTTCCCTTGACCTCTCTCACTATCTTGTTGCTCCTGGTC
1778212 TCCACTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTGCAAGTTGTAAGGACATGGAAAAGG
585 TCCACTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTGCAAGTTGTAAGGACATGGAAAAGG
* *
1778277 AAATATTCTTTGTTTGAACACATATAGTTCATGCCTCATGTTATTACTTTT
650 AAATATTCTTTGCTTGAACACATAGAGTTCATGCCTCATGTTATTACTTTT
* * *
1778328 AAAGGCATGAGTGGCATGGTGAAGGAGTTATTGCTTGAGCGATACTTCAACAAGGTATTTTATGC
1 AAAGGCATGTGTGGCATGGTGAAGGAGTTATTGCTTGAGCGATACTTTAGCAAGGTATTTTATGC
* *
1778393 TTTAAAAACTTGTGTGGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGAGTGGTGAGGTTGCG
66 TTCAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGAGTGGTGAGGTTGCG
* * * * ** *
1778458 AATGACAATTGTAGAAAGTTTGTGGTAGCGTTGTTGTACCGAAATCTTTTATAGTTCCGTAAGAT
131 AATGACAATTGCAGGAAGTTTGTGGTAGCGTTGTAGTACCGGAATCTGATATAGTTCAGTAAGAT
* *
1778523 AGATGTATGCGCTCATTGCCTTTCCCAAATATTTGTAGTTATGTTTCCCTTGTTGCGGTTTTCAT
196 AGATGTATGCGCTCATTGCCTTTCCCAAATATTTGTAGTTATGTTTCCCTTGCTGTGGTTTTCAT
* * * * *
1778588 TCTAATGAATGGTGCCTTTCATTTTGCATTGTGTTTATAGTTTGGCATTGGCGGCCTTATAGGTG
261 TCTAATGAATGGTGCCTTTCATTTTGCATTGTGTTCATAGTCTGGCACTGGCGGCCTTAGAGTTG
* *
1778653 ATCGACGTGGTTCCATGATGTTGACTTTCTTGCCTGCTATTGCTGAGTGCAAGTATGATTGGGAG
326 ATCGCCGTGGTTCCATGATGTTGACTTTCTTGCCTGCTATTGCTGAGCGCAAGTATGATTGGGAG
* * * * *
1778718 AAGAGATAGGCAAGTATTTCTATTTTATTCCCCATTAAACAATTAGTGCTTTGATAAAT
391 AAGAGATA-GTAAGTATTTCCATCTTGTTCCCCATTAAACAATTAGTGCATTGATAAAT
1778777 TTTTTTTGAT
Statistics
Matches: 1070, Mismatches: 78, Indels: 5
0.93 0.07 0.00
Matches are distributed among these distances:
700 1 0.00
701 1065 1.00
702 4 0.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (700 bp):
AAAGGCATGTGTGGCATGGTGAAGGAGTTATTGCTTGAGCGATACTTTAGCAAGGTATTTTATGC
TTCAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGAGTGGTGAGGTTGCG
AATGACAATTGCAGGAAGTTTGTGGTAGCGTTGTAGTACCGGAATCTGATATAGTTCAGTAAGAT
AGATGTATGCGCTCATTGCCTTTCCCAAATATTTGTAGTTATGTTTCCCTTGCTGTGGTTTTCAT
TCTAATGAATGGTGCCTTTCATTTTGCATTGTGTTCATAGTCTGGCACTGGCGGCCTTAGAGTTG
ATCGCCGTGGTTCCATGATGTTGACTTTCTTGCCTGCTATTGCTGAGCGCAAGTATGATTGGGAG
AAGAGATAGTAAGTATTTCCATCTTGTTCCCCATTAAACAATTAGTGCATTGATAAATACGACTC
AAAACAATGTGAATTTCATTATTCCAAATTAGGATATTGGACTTGAATTTAACATACTCTTAGCT
GGATATATTTGGTTTACGATAACATTTTCCCTTGACCTCTCTCACTATCTTGTTGCTCCTGGTCT
CCACTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTGCAAGTTGTAAGGACATGGAAAAGGA
AATATTCTTTGCTTGAACACATAGAGTTCATGCCTCATGTTATTACTTTT
Found at i:1786917 original size:701 final size:701
Alignment explanation
Indices: 1785574--1787430 Score: 3398
Period size: 701 Copynumber: 2.7 Consensus size: 701
1785564 TTACAAGTTT
* * *
1785574 ATTAGTGCATTGATAAATACAACTCAAAACAATGTGAATTTCATTTTTCTGAATTAGGAGATTGG
1 ATTAGTGCATTGATAAATACGACTTAAAACAATGTGAATTTCATTGTTCTGAATTAGGAGATTGG
*
1785639 ACTTGAATTTAACATAATCTTAGCTGGATATATTTGGTTTATGATAACATTTTCCCTTGACCTCT
66 ACTTGAATTTAACATAATCTTAGCTGGATATATTTGGTTTATGATAACATTTTCCCTTGATCTCT
* * *
1785704 CTCACTGTCTTGTTGCTCCTGGTCTCCCCTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTG
131 ATCACAGTCTTGTTTCTCCTGGTCTCCCCTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTG
1785769 CAAGTTGTAGGGACATGGAAAGGGAAATATTCTTTGCTTGAACACATAGAGTTTATGCCTCATGT
196 CAAGTTGTAGGGACATGGAAAGGGAAATATTCTTTGCTTGAACACATAGAGTTTATGCCTCATGT
* *
1785834 TATTACTTTTAAGGGCATGAGTAGTATGGTGAAGGAGTTATTGCTTGAGCAATACTTCAACAAGA
261 TATTACTTTTAAGGGCATGAGTGGCATGGTGAAGGAGTTATTGCTTGAGCAATACTTCAACAAGA
1785899 TATTTTATGCTTCAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGATTGG
326 TATTTTATGCTTCAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGATTGG
1785964 TGAGGTTGCGAATGACAATTGCAGGAAGTTTGTGGTAGCGTTGTAGTACCGAAATCTGATATAGT
391 TGAGGTTGCGAATGACAATTGCAGGAAGTTTGTGGTAGCGTTGTAGTACCGAAATCTGATATAGT
1786029 TCAGTAAGATAGATGTATGCGCTCATTGCCTTTCCCAAATATTTGTAGTTATGTTTCCCTTGTTG
456 TCAGTAAGATAGATGTATGCGCTCATTGCCTTTCCCAAATATTTGTAGTTATGTTTCCCTTGTTG
*
1786094 CGGTTTTTATTCTAATAAATGGTGCCTTTCATTTTGCATTCTGTTCATAGTTTGGGAGTGGCGGC
521 CGGTTTTCATTCTAATAAATGGTGCCTTTCATTTTGCATTCTGTTCATAGTTTGGGAGTGGCGGC
1786159 CTTAGAGGTGATCGACGTGGTTCCATGATGTTGACTTTCTTGCCTGCTATTGCTGAGTGCAAGTA
586 CTTAGAGGTGATCGACGTGGTTCCATGATGTTGACTTTCTTGCCTGCTATTGCTGAGTGCAAGTA
1786224 TGATTGGGAGAAGAGATATGTAAGTATTTCCATCTTGTTCCCCATTAAACA
651 TGATTGGGAGAAGAGATATGTAAGTATTTCCATCTTGTTCCCCATTAAACA
1786275 ATTAGTGCATTGATAAATACGACTTAAAACAATGTGAATTTCATTGTTCTGAATTAGGAGATTGG
1 ATTAGTGCATTGATAAATACGACTTAAAACAATGTGAATTTCATTGTTCTGAATTAGGAGATTGG
1786340 ACTTGAATTTAACATAATCTTAGCTGGATATATTTGGTTTATGATAACATTTTCCCTTGATCTCT
66 ACTTGAATTTAACATAATCTTAGCTGGATATATTTGGTTTATGATAACATTTTCCCTTGATCTCT
1786405 ATCACAGTCTTGTTTCTCCTGGTCTCCCCTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTG
131 ATCACAGTCTTGTTTCTCCTGGTCTCCCCTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTG
1786470 CAAGTTGTAGGGACATGGAAAGGGAAATATTCTTTGCTTGAACACATAGAGTTTATGCCTCATGT
196 CAAGTTGTAGGGACATGGAAAGGGAAATATTCTTTGCTTGAACACATAGAGTTTATGCCTCATGT
* *
1786535 TATTACTTTTAAGGGTATGAGTGGCATAGTGAAGGAGTTATTGCTTGAGCAATACTTCAACAAGA
261 TATTACTTTTAAGGGCATGAGTGGCATGGTGAAGGAGTTATTGCTTGAGCAATACTTCAACAAGA
1786600 TATTTTATGCTTCAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGATTGG
326 TATTTTATGCTTCAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGATTGG
*
1786665 TGAGGTTGCGAATGACAATTGCAGGAAGTTTGTGGTAGTGTTGTAGTACCGAAATCTGATATAGT
391 TGAGGTTGCGAATGACAATTGCAGGAAGTTTGTGGTAGCGTTGTAGTACCGAAATCTGATATAGT
1786730 TCAGTAAGATAGATGTATGCGCTCATTGCCTTTCCCAAATATTTGTAGTTATGTTTCCCTTGTTG
456 TCAGTAAGATAGATGTATGCGCTCATTGCCTTTCCCAAATATTTGTAGTTATGTTTCCCTTGTTG
*
1786795 CGGTTTTCATTCTAATAAATGGTGCCTTTCATTTTGCATTCTGTTCATAGTTTGGGATTGGCGGC
521 CGGTTTTCATTCTAATAAATGGTGCCTTTCATTTTGCATTCTGTTCATAGTTTGGGAGTGGCGGC
* *
1786860 CTTAGAGGTGATCGACGTGGTTCGATGATGTTGACTTTCTTGTCTGCTATTGCTGAGTGCAAGTA
586 CTTAGAGGTGATCGACGTGGTTCCATGATGTTGACTTTCTTGCCTGCTATTGCTGAGTGCAAGTA
1786925 TGATTGGGAGAAGAGATATGTAAGTATTTCCATCTTGTTCCCCATTAAACA
651 TGATTGGGAGAAGAGATATGTAAGTATTTCCATCTTGTTCCCCATTAAACA
1786976 ATTAGTGCATTGATAAATACGACTTAAAACAATGTGAATTTCATTGTTCTGAATTAGGAGATTGG
1 ATTAGTGCATTGATAAATACGACTTAAAACAATGTGAATTTCATTGTTCTGAATTAGGAGATTGG
*
1787041 ACTTGAATTTAACATAATCTTAGTTGGATATATTTGGTTTATGATAACATTTTCCCTTGATCTCT
66 ACTTGAATTTAACATAATCTTAGCTGGATATATTTGGTTTATGATAACATTTTCCCTTGATCTCT
1787106 ATCACAGTCTTGTTTCTCCTGGTCTCCCCTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTG
131 ATCACAGTCTTGTTTCTCCTGGTCTCCCCTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTG
* * * *
1787171 CAAGTTGTAAGGACATGGAAAGGGAAATATT-TTTGTTTGCACACATAGAGTTCATGCCTCATGT
196 CAAGTTGTAGGGACATGGAAAGGGAAATATTCTTTGCTTGAACACATAGAGTTTATGCCTCATGT
* * ** ** * *
1787235 TATTACTTTTAAGGGCATGTGTGGCATGGTGAAGGAGTTATTGCTTAAGTGATAAGTCAGCAAGG
261 TATTACTTTTAAGGGCATGAGTGGCATGGTGAAGGAGTTATTGCTTGAGCAATACTTCAACAAGA
* *
1787300 TATTTTATGCTTAAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAGAACTGGACTA---GAGTGG
326 TATTTTATGCTTCAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGATTGG
*
1787362 TGAGGTTGCGAATGACAATTGCAGGAAGTTTTTGGTAGCGTTGTAGTACCGAAATCTGATATAGT
391 TGAGGTTGCGAATGACAATTGCAGGAAGTTTGTGGTAGCGTTGTAGTACCGAAATCTGATATAGT
1787427 TCAG
456 TCAG
1787431 GCATGCAAAA
Statistics
Matches: 1121, Mismatches: 35, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
697 72 0.06
700 140 0.12
701 909 0.81
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (701 bp):
ATTAGTGCATTGATAAATACGACTTAAAACAATGTGAATTTCATTGTTCTGAATTAGGAGATTGG
ACTTGAATTTAACATAATCTTAGCTGGATATATTTGGTTTATGATAACATTTTCCCTTGATCTCT
ATCACAGTCTTGTTTCTCCTGGTCTCCCCTTAGCATGTAGGCATACTGATCTTGTGCCAAATTTG
CAAGTTGTAGGGACATGGAAAGGGAAATATTCTTTGCTTGAACACATAGAGTTTATGCCTCATGT
TATTACTTTTAAGGGCATGAGTGGCATGGTGAAGGAGTTATTGCTTGAGCAATACTTCAACAAGA
TATTTTATGCTTCAAAAACTTGTGTAGTTTACTTTTTTGTGTCTAGAACTGGACTAGTTGATTGG
TGAGGTTGCGAATGACAATTGCAGGAAGTTTGTGGTAGCGTTGTAGTACCGAAATCTGATATAGT
TCAGTAAGATAGATGTATGCGCTCATTGCCTTTCCCAAATATTTGTAGTTATGTTTCCCTTGTTG
CGGTTTTCATTCTAATAAATGGTGCCTTTCATTTTGCATTCTGTTCATAGTTTGGGAGTGGCGGC
CTTAGAGGTGATCGACGTGGTTCCATGATGTTGACTTTCTTGCCTGCTATTGCTGAGTGCAAGTA
TGATTGGGAGAAGAGATATGTAAGTATTTCCATCTTGTTCCCCATTAAACA
Found at i:1788339 original size:40 final size:42
Alignment explanation
Indices: 1788233--1788343 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
1788223 AAAACACTGT
* *
1788233 TAAATATCATAACCTTTAGCAGCGTTTGTAAAGAAACGCCGC
1 TAAATAACATAACCTTTAGCGGCGTTTGTAAAGAAACGCCGC
* * *
1788275 TAAATATCATTACCTTTAGAGGCGTTTGTAAA-AAACGCCGC
1 TAAATAACATAACCTTTAGCGGCGTTTGTAAAGAAACGCCGC
1788316 TAAA-AACATAACCTTTAGCGGCGTTTGT
1 TAAATAACATAACCTTTAGCGGCGTTTGT
1788344 GAACGACAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 21 0.33
41 13 0.21
42 29 0.46
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (42 bp):
TAAATAACATAACCTTTAGCGGCGTTTGTAAAGAAACGCCGC
Found at i:1794007 original size:25 final size:25
Alignment explanation
Indices: 1793979--1794031 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
1793969 TCAGATTCAG
*
1793979 ATTTTATCTCAAAAGGTCGGATCGA
1 ATTTTATCTCAAAAAGTCGGATCGA
1794004 ATTTTATCTCAAAAAGTCGGATCGA
1 ATTTTATCTCAAAAAGTCGGATCGA
1794029 ATT
1 ATT
1794032 CAAGTCGGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (25 bp):
ATTTTATCTCAAAAAGTCGGATCGA
Found at i:1809231 original size:2 final size:2
Alignment explanation
Indices: 1809220--1809299 Score: 146
Period size: 2 Copynumber: 41.0 Consensus size: 2
1809210 CAAATACATG
1809220 AT AT -T AT AT AT AT -T 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
1809260 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
1809300 CTTAAAATAT
Statistics
Matches: 76, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 74 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1811734 original size:13 final size:14
Alignment explanation
Indices: 1811693--1811734 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
1811683 TCAATCTATA
* * *
1811693 TGCAGAGATTTCTA
1 TGCAGGGATTTATT
1811707 TGCAGGGATTTATT
1 TGCAGGGATTTATT
1811721 TGCAGGGA-TTATT
1 TGCAGGGATTTATT
1811734 T
1 T
1811735 CCAATTACAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 6 0.24
14 19 0.76
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:1812331 original size:33 final size:34
Alignment explanation
Indices: 1812267--1812331 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
1812257 ATTATTTTAT
1812267 AAATAAAAATATTA-AGACTATTATATT--TTATTA
1 AAATAAAAATATTATA-A-TATTATATTAATTATTA
1812300 AAATAAAAATATTATAA-ATTATATTAATTATT
1 AAATAAAAATATTATAATATTATATTAATTATT
1812332 TATTAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
31 8 0.28
33 20 0.69
34 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (34 bp):
AAATAAAAATATTATAATATTATATTAATTATTA
Found at i:1812387 original size:22 final size:24
Alignment explanation
Indices: 1812320--1812376 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 24
1812310 ATTATAAATT
*
1812320 ATATTAATTATTTATTAAAATAATA
1 ATATT-ATTATATATTAAAATAATA
1812345 ATATTATTATAATATTAAAATAATA
1 ATATTATTAT-ATATTAAAATAATA
1812370 ATATTAT
1 ATATTAT
1812377 ATTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATTATTATATATTAAAATAATA
Found at i:1813134 original size:2 final size:2
Alignment explanation
Indices: 1813127--1813152 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1813117 AAACCAGTGA
1813127 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
1813153 CATTTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1834006 original size:44 final size:44
Alignment explanation
Indices: 1833957--1834096 Score: 163
Period size: 44 Copynumber: 3.2 Consensus size: 44
1833947 TATTTCATGT
* *
1833957 TATGTGATATGATCTACGTGATTAAATGAAAATGTGATATAAGC
1 TATGTGATATGATCTATGTGATTATATGAAAATGTGATATAAGC
* * *
1834001 TATGTGATATTAAACTATGTGATTATATGAAAATGTGATATAATC
1 TATGTGATA-TGATCTATGTGATTATATGAAAATGTGATATAAGC
** * *** *
1834046 TATGTGACGTGATCTATGTGATTATTTGCCTATTTGATATAAGC
1 TATGTGATATGATCTATGTGATTATATGAAAATGTGATATAAGC
1834090 TATGTGA
1 TATGTGA
1834097 AATGGTATAA
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
44 43 0.54
45 37 0.46
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.39
Consensus pattern (44 bp):
TATGTGATATGATCTATGTGATTATATGAAAATGTGATATAAGC
Found at i:1834007 original size:14 final size:14
Alignment explanation
Indices: 1833988--1834096 Score: 65
Period size: 14 Copynumber: 7.4 Consensus size: 14
1833978 TTAAATGAAA
1833988 ATGTGATATAAGCT
1 ATGTGATATAAGCT
*
1834002 ATGTGATATTAAACT
1 ATGTGATA-TAAGCT
* **
1834017 ATGTGATTATATGAAA
1 ATGTGA-TATAAG-CT
*
1834033 ATGTGATATAATCT
1 ATGTGATATAAGCT
** * *
1834047 ATGTGACGTGATCT
1 ATGTGATATAAGCT
**
1834061 ATGTGATTATTTGCCT
1 ATGTGA-TATAAG-CT
*
1834077 ATTTGATATAAGCT
1 ATGTGATATAAGCT
1834091 ATGTGA
1 ATGTGA
1834097 AATGGTATAA
Statistics
Matches: 69, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
14 32 0.46
15 22 0.32
16 15 0.22
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.40
Consensus pattern (14 bp):
ATGTGATATAAGCT
Found at i:1834020 original size:15 final size:14
Alignment explanation
Indices: 1833988--1834052 Score: 60
Period size: 15 Copynumber: 4.4 Consensus size: 14
1833978 TTAAATGAAA
*
1833988 ATGTGATATAAGCT
1 ATGTGATATAAACT
1834002 ATGTGATATTAAACT
1 ATGTGATA-TAAACT
*
1834017 ATGTGATTATATGAA-A
1 ATGTGA-TATA--AACT
*
1834033 ATGTGATATAATCT
1 ATGTGATATAAACT
1834047 ATGTGA
1 ATGTGA
1834053 CGTGATCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 1 0.02
14 14 0.33
15 17 0.40
16 8 0.19
17 2 0.05
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (14 bp):
ATGTGATATAAACT
Found at i:1834240 original size:23 final size:23
Alignment explanation
Indices: 1834168--1834258 Score: 76
Period size: 23 Copynumber: 4.0 Consensus size: 23
1834158 AATCGAGGGT
*
1834168 TCTACGCGGTCATTCGGGACA-A
1 TCTACGCGGTCCTTCGGGACATA
* * * * *
1834190 TTCTACGTGATCTTTTGGGACATT
1 -TCTACGCGGTCCTTCGGGACATA
*
1834214 TCTACGCGGTCCTTCGGGGCATA
1 TCTACGCGGTCCTTCGGGACATA
* * *
1834237 TCTATGTGGTCCTTTGGGACAT
1 TCTACGCGGTCCTTCGGGACAT
1834259 TTCTTTGTGG
Statistics
Matches: 52, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.34
Consensus pattern (23 bp):
TCTACGCGGTCCTTCGGGACATA
Found at i:1834253 original size:46 final size:46
Alignment explanation
Indices: 1834167--1834262 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
1834157 GAATCGAGGG
*
1834167 TTCTACGCGGTCATTCGGGACAATTCTACGTGATCTTTTGGGACAT
1 TTCTACGCGGTCATTCGGGACAATTCTACGTGATCCTTTGGGACAT
* * * *
1834213 TTCTACGCGGTCCTTCGGGGC-ATATCTATGTGGTCCTTTGGGACAT
1 TTCTACGCGGTCATTCGGGACAAT-TCTACGTGATCCTTTGGGACAT
1834259 TTCT
1 TTCT
1834263 TTGTGGCACT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 2 0.05
46 42 0.95
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (46 bp):
TTCTACGCGGTCATTCGGGACAATTCTACGTGATCCTTTGGGACAT
Found at i:1834267 original size:23 final size:23
Alignment explanation
Indices: 1834183--1834268 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
1834173 GCGGTCATTC
* * * *
1834183 GGGACAATTCTACGTGATCTTTT
1 GGGACATTTCTATGTGGTCCTTT
* * *
1834206 GGGACATTTCTACGCGGTCCTTC
1 GGGACATTTCTATGTGGTCCTTT
* *
1834229 GGGGCATATCTATGTGGTCCTTT
1 GGGACATTTCTATGTGGTCCTTT
*
1834252 GGGACATTTCTTTGTGG
1 GGGACATTTCTATGTGG
1834269 CACTTTAGTG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.37
Consensus pattern (23 bp):
GGGACATTTCTATGTGGTCCTTT
Found at i:1841971 original size:27 final size:27
Alignment explanation
Indices: 1841932--1841985 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1841922 GCTTTGTAAG
*
1841932 ATTTGACATGATCAATTAAAAAAACCA
1 ATTTGACACGATCAATTAAAAAAACCA
* *
1841959 ATTTGATACGATCACTTAAAAAAACCA
1 ATTTGACACGATCAATTAAAAAAACCA
1841986 CTTAGGTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (27 bp):
ATTTGACACGATCAATTAAAAAAACCA
Found at i:1843153 original size:16 final size:17
Alignment explanation
Indices: 1843132--1843183 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
1843122 TTTATAATTT
1843132 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
1843148 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
1843163 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
1843180 AATT
1 AATT
1843184 TATATATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:1845803 original size:27 final size:27
Alignment explanation
Indices: 1845720--1845804 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
1845710 TTATTATTTA
*
1845720 TTATTTTATTATTTTATCCTTATC-TT
1 TTATTTTATTATTTTATACTTATCTTT
* * *
1845746 TTATTTTAAATAATTTATACTTAAT-TAT
1 TTATTTT-ATTATTTTATACTT-ATCTTT
*
1845774 TTATTTTATTATTTTATTCTTATCTTT
1 TTATTTTATTATTTTATACTTATCTTT
1845801 TTAT
1 TTAT
1845805 CTTAATCTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
26 9 0.19
27 28 0.60
28 10 0.21
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (27 bp):
TTATTTTATTATTTTATACTTATCTTT
Found at i:1846483 original size:4 final size:4
Alignment explanation
Indices: 1846470--1846507 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
1846460 CTTTATCTCA
*
1846470 ATTT ATTTT ATTT ATTT ATTT ATTT ATTT GTTT ATTT A
1 ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
1846508 ATCTTTATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:1846520 original size:24 final size:23
Alignment explanation
Indices: 1846488--1846532 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1846478 TATTTATTTA
1846488 TTTATTTATTTGTTTATTTAATC
1 TTTATTTATTTGTTTATTTAATC
* *
1846511 TTTATCTTATTTTTTTCTTTAA
1 TTTAT-TTATTTGTTTATTTAA
1846533 ACAATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTATTTATTTGTTTATTTAATC
Found at i:1848091 original size:21 final size:21
Alignment explanation
Indices: 1848067--1848134 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
1848057 AATTTCACAA
*
1848067 GAAAAGTTGGTTACATCCCAT
1 GAAAAGTTGGTTGCATCCCAT
* * *
1848088 GAAAAATTAGTTGCATCCCAG
1 GAAAAGTTGGTTGCATCCCAT
1848109 GAAAAGTTGGTTGCATCCCAT
1 GAAAAGTTGGTTGCATCCCAT
*
1848130 TAAAA
1 GAAAA
1848135 ATTCCAAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (21 bp):
GAAAAGTTGGTTGCATCCCAT
Found at i:1853731 original size:16 final size:16
Alignment explanation
Indices: 1853712--1853746 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1853702 AGATGTAATA
1853712 CTTATTATGAGTTAGT
1 CTTATTATGAGTTAGT
1853728 CTTATTATGAGTTAGT
1 CTTATTATGAGTTAGT
1853744 CTT
1 CTT
1853747 TGAGTTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (16 bp):
CTTATTATGAGTTAGT
Found at i:1855269 original size:41 final size:40
Alignment explanation
Indices: 1855224--1855306 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 40
1855214 AAAATTCAAA
*
1855224 AAAAAATGTTCATTGTTTCGAACAACAAAAAAAGAAAA-AAG
1 AAAAAATGTTCACTGTTTCGAA-AA-AAAAAAAGAAAAGAAG
*
1855265 AAAAAATGTTCACTGTTTCGAATAAAAAAAAGAAAAGAAG
1 AAAAAATGTTCACTGTTTCGAAAAAAAAAAAGAAAAGAAG
1855305 AA
1 AA
1855307 GAAGGAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
39 12 0.31
40 6 0.15
41 21 0.54
ACGTcount: A:0.59, C:0.08, G:0.13, T:0.19
Consensus pattern (40 bp):
AAAAAATGTTCACTGTTTCGAAAAAAAAAAAGAAAAGAAG
Found at i:1862288 original size:23 final size:24
Alignment explanation
Indices: 1862244--1862291 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
1862234 GTATGTTTCC
* *
1862244 TAAAATTTTATAAATTCGCATTTTT
1 TAAAATTTTAAAAAATC-CATTTTT
1862269 TAAAATTTTAAAAAAT-CATTTTT
1 TAAAATTTTAAAAAATCCATTTTT
1862292 AACATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (24 bp):
TAAAATTTTAAAAAATCCATTTTT
Found at i:1867993 original size:22 final size:24
Alignment explanation
Indices: 1867962--1868011 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1867952 CGTTTGGGTT
1867962 TATATA-T-TATTA-TATTTAGTTA
1 TATATATTATATTATTA-TTAGTTA
*
1867984 TATATGTTATATTATTATTAGTTA
1 TATATATTATATTATTATTAGTTA
1868008 TATA
1 TATA
1868012 AGGATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 5 0.21
23 1 0.04
24 16 0.67
25 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (24 bp):
TATATATTATATTATTATTAGTTA
Found at i:1871979 original size:14 final size:14
Alignment explanation
Indices: 1871960--1871995 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1871950 CAACCCATTA
*
1871960 ACTTTGATTCGTTG
1 ACTTTGACTCGTTG
1871974 ACTTTGACTCGTTG
1 ACTTTGACTCGTTG
1871988 ACTTTGAC
1 ACTTTGAC
1871996 CAAAAAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.44
Consensus pattern (14 bp):
ACTTTGACTCGTTG
Found at i:1873950 original size:34 final size:34
Alignment explanation
Indices: 1873911--1873996 Score: 113
Period size: 34 Copynumber: 2.5 Consensus size: 34
1873901 GGCTACATCG
*
1873911 TATGTGTTCTCTTATTAT-GATTTTCACTGAAAAA
1 TATGTGTTCTCTGATT-TCGATTTTCACTGAAAAA
*
1873945 TATGTGTTCTCTGATTTCGGTTTTCACTGAAAAA
1 TATGTGTTCTCTGATTTCGATTTTCACTGAAAAA
1873979 TATGATTGTTC-CTGATTT
1 TATG--TGTTCTCTGATTT
1873997 ATGGAATCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
33 1 0.02
34 34 0.72
35 7 0.15
36 5 0.11
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.48
Consensus pattern (34 bp):
TATGTGTTCTCTGATTTCGATTTTCACTGAAAAA
Found at i:1874188 original size:32 final size:32
Alignment explanation
Indices: 1874143--1874215 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
1874133 CTTAAGGTGA
* * **
1874143 CCCTTGGGTAGGCTCTGAGGCCCTGAGAAACT
1 CCCTTAGGTAGGCTCTCAGGCCCCAAGAAACT
**
1874175 TTCTTAGGTAGGCTCTCAGGCCCCAAGAAACT
1 CCCTTAGGTAGGCTCTCAGGCCCCAAGAAACT
1874207 CCCTTAGGT
1 CCCTTAGGT
1874216 TAATCATGGG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.25
Consensus pattern (32 bp):
CCCTTAGGTAGGCTCTCAGGCCCCAAGAAACT
Found at i:1877062 original size:14 final size:14
Alignment explanation
Indices: 1877043--1877078 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1877033 AACTCGTTCA
*
1877043 AGTCAACCCGTCTG
1 AGTCAACCCGTCCG
*
1877057 AGTCAACTCGTCCG
1 AGTCAACCCGTCCG
1877071 AGTCAACC
1 AGTCAACC
1877079 TATTACTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (14 bp):
AGTCAACCCGTCCG
Found at i:1877110 original size:13 final size:14
Alignment explanation
Indices: 1877083--1877117 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
1877073 TCAACCTATT
1877083 ACTTTGACTTGTTG
1 ACTTTGACTTGTTG
1877097 ACTTTGAC-TGTTG
1 ACTTTGACTTGTTG
1877110 ACTTTGAC
1 ACTTTGAC
1877118 CAAAAAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (14 bp):
ACTTTGACTTGTTG
Found at i:1879159 original size:35 final size:34
Alignment explanation
Indices: 1879091--1879163 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
1879081 GGCTACATGG
*
1879091 TATGTGTTCTCTGATTACATTTTTCACTAAAAAAA
1 TATGTGTTCTCTGATTACAGTTTTCACT-AAAAAA
* * *
1879126 TATGTGTTCTCTGATTTCAGTTTTCATTGAAAAA
1 TATGTGTTCTCTGATTACAGTTTTCACTAAAAAA
1879160 TATG
1 TATG
1879164 ATTATTCCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 9 0.26
35 25 0.74
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (34 bp):
TATGTGTTCTCTGATTACAGTTTTCACTAAAAAA
Found at i:1879641 original size:31 final size:32
Alignment explanation
Indices: 1879606--1879677 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
1879596 AAGGTGACCT
*
1879606 TTGGGTAGGCTCC-AAGGCCCCAAGATCTTTC
1 TTGGGTAGGCTCCTAAGGCCCCAAGATCCTTC
* *
1879637 TTGGGTAGG-TCCTACGGCCCCGAGATCCTTC
1 TTGGGTAGGCTCCTAAGGCCCCAAGATCCTTC
1879668 TTGGGTAGGC
1 TTGGGTAGGC
1879678 CCCGTGTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.08
31 33 0.92
ACGTcount: A:0.15, C:0.28, G:0.31, T:0.26
Consensus pattern (32 bp):
TTGGGTAGGCTCCTAAGGCCCCAAGATCCTTC
Found at i:1880344 original size:47 final size:47
Alignment explanation
Indices: 1880281--1880553 Score: 474
Period size: 47 Copynumber: 5.8 Consensus size: 47
1880271 TTTGAATATA
1880281 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAAT
1 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAAT
*
1880328 TATGTCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAAT
1 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAAT
*
1880375 TATGGCATCCTTGCATGCCTTAATGCATCCTTTCATGCATTTTCAAT
1 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAAT
** * *
1880422 TATGGTGTCCTTTCATGACTTAATGCATCATTTCATGCATTTTCAAT
1 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAAT
**
1880469 TATGGCATCCTTTCATGCCTTAATGCATTATTTCATGCATTTTCAAT
1 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAAT
1880516 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1880554 CTTAATGCAT
Statistics
Matches: 212, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 212 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (47 bp):
TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAAT
Found at i:1884919 original size:19 final size:19
Alignment explanation
Indices: 1884848--1884919 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
1884838 CTGAAAAAAC
1884848 AAAAT-AATAAA-AAAAGGCA
1 AAAATAAATAAATAAAA-G-A
*
1884867 AATATAAA-AAAT-AAAGA
1 AAAATAAATAAATAAAAGA
* * *
1884884 AAAAGAAAAAAAGAAAAGA
1 AAAATAAATAAATAAAAGA
1884903 AAAATAAATAAATAAAA
1 AAAATAAATAAATAAAA
1884920 TGGGGGTTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.17
18 4 0.10
19 29 0.69
20 2 0.05
ACGTcount: A:0.79, C:0.01, G:0.08, T:0.11
Consensus pattern (19 bp):
AAAATAAATAAATAAAAGA
Found at i:1886772 original size:10 final size:11
Alignment explanation
Indices: 1886757--1886841 Score: 51
Period size: 10 Copynumber: 7.9 Consensus size: 11
1886747 TTGTTTAGGT
1886757 TTATATATTA-
1 TTATATATTAG
1886767 TTATAT-TTAG
1 TTATATATTAG
1886777 TTATATA-T-G
1 TTATATATTAG
1886786 TTATATTGTTATTAG
1 TTATA----TATTAG
*
1886801 TTATATA-AAG
1 TTATATATTAG
1886811 ATTA-ATTATTAG
1 -TTATA-TATTAG
1886823 TTAT-TATTAG
1 TTATATATTAG
1886833 TTAT-TATTA
1 TTATATATTA
1886842 ATAGTTATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 24
0.70 0.02 0.28
Matches are distributed among these distances:
9 9 0.15
10 31 0.51
11 10 0.16
12 2 0.03
13 2 0.03
14 1 0.02
15 6 0.10
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TTATATATTAG
Found at i:1886849 original size:10 final size:10
Alignment explanation
Indices: 1886815--1886841 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1886805 ATAAAGATTA
1886815 ATTATTAGTT
1 ATTATTAGTT
1886825 ATTATTAGTT
1 ATTATTAGTT
1886835 ATTATTA
1 ATTATTA
1886842 ATAGTTATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (10 bp):
ATTATTAGTT
Found at i:1890473 original size:25 final size:28
Alignment explanation
Indices: 1890434--1890485 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
1890424 GTTTTGTAAG
1890434 TTTATAATATCTTAT-A-TTATATCATT
1 TTTATAATATCTTATAATTTATATCATT
*
1890460 TTTAT-ATATTTTATAATTTATATCAT
1 TTTATAATATCTTATAATTTATATCAT
1890486 ACAATGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 6 0.26
27 9 0.39
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTATAATATCTTATAATTTATATCATT
Found at i:1890598 original size:24 final size:25
Alignment explanation
Indices: 1890557--1890607 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
1890547 AGTTCGGTAT
*
1890557 AAAAGAGTAAAAACTAAATTTAATA
1 AAAAGAGTAAAAACTAAAATTAATA
* * *
1890582 AAAAGA-TAAATATTAAAATTATTA
1 AAAAGAGTAAAAACTAAAATTAATA
1890606 AA
1 AA
1890608 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (25 bp):
AAAAGAGTAAAAACTAAAATTAATA
Found at i:1899086 original size:23 final size:23
Alignment explanation
Indices: 1899056--1899113 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
1899046 TCTGGGCTAT
1899056 GTATCGATACCCCCCTTGCA-TGG
1 GTATCGATACCCCCCTTG-AGTGG
*
1899079 GTATCGATACCCCCTTTGAGTGG
1 GTATCGATACCCCCCTTGAGTGG
*
1899102 GTACCGATACCC
1 GTATCGATACCC
1899114 TCCACGGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (23 bp):
GTATCGATACCCCCCTTGAGTGG
Found at i:1901949 original size:20 final size:20
Alignment explanation
Indices: 1901924--1901971 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
1901914 TAACTCCACT
1901924 AATGATCCCCAACGTTCAGA
1 AATGATCCCCAACGTTCAGA
1901944 AATGATCCCCAACGTTCAGA
1 AATGATCCCCAACGTTCAGA
1901964 AATGATCC
1 AATGATCC
1901972 AAGGAGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (20 bp):
AATGATCCCCAACGTTCAGA
Found at i:1906077 original size:3 final size:3
Alignment explanation
Indices: 1906064--1906156 Score: 122
Period size: 3 Copynumber: 32.3 Consensus size: 3
1906054 TAATATATTA
* *
1906064 AAT AA- AAT AAT AAT AAT -AT AAT AAT AAC AAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
1906110 -AT AAT AAT GAT AAT AAT AAT ATT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1906156 A
1 A
1906157 TGGATAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
2 8 0.10
3 71 0.90
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1906163 original size:26 final size:25
Alignment explanation
Indices: 1906054--1906157 Score: 110
Period size: 26 Copynumber: 4.2 Consensus size: 25
1906044 TATATGTATT
*
1906054 TAATATATTA-AATAA-AATAATAA
1 TAATATAATATAATAATAATAATAA
* *
1906077 TAATAT-A-ATAATAACAAAAATAA
1 TAATATAATATAATAATAATAATAA
*
1906100 TAATAATAATATAATAATGATAATAA
1 TAAT-ATAATATAATAATAATAATAA
1906126 TAATATTAATAATAATAATAATAAT-A
1 TAATA-TAAT-ATAATAATAATAATAA
1906152 TAATAT
1 TAATAT
1906158 GGATAAAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.01
22 5 0.07
23 17 0.25
24 2 0.03
25 3 0.04
26 27 0.40
27 13 0.19
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (25 bp):
TAATATAATATAATAATAATAATAA
Found at i:1906163 original size:41 final size:41
Alignment explanation
Indices: 1906064--1906156 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
1906054 TAATATATTA
* *
1906064 AATAAAATAATAATAAT-ATAATAATAACAAAAATAATAAT
1 AATAATATAATAATGATAATAATAATAACAAAAATAATAAT
** *
1906104 AATAATATAATAATGATAATAATAATATTAATAATAATAAT
1 AATAATATAATAATGATAATAATAATAACAAAAATAATAAT
1906145 AATAATATAATA
1 AATAATATAATA
1906157 TGGATAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 15 0.32
41 32 0.68
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (41 bp):
AATAATATAATAATGATAATAATAATAACAAAAATAATAAT
Found at i:1906984 original size:353 final size:353
Alignment explanation
Indices: 1906309--1907644 Score: 2203
Period size: 353 Copynumber: 3.8 Consensus size: 353
1906299 TTTTTCTCCA
* ** * *
1906309 GATGAGTTCTTCTCATTACGAACT-TT-CTGCTGGGGATGATGTTCTATCAAATGATGAATTCAA
1 GATGAGTTCTTCTCATTATGAACTCTTCCT-CTGGAAATGATGATCCATCAAAT-ATGAATTCAA
* *
1906372 GCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
64 GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1906437 CTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTG
129 CTCATTATGAACT-TT-CTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTG
1906502 AACAAGTTCTTCTCA-T-TGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAA
192 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAA
1906565 CTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCAAGTTCTT
257 CTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCAAGTTCTT
*
1906630 CTCATTATGAACTTCTTCTTCCTTATTCAGAT
322 CTCATTATGAACTTCTTCTTCCTTCTTCAGAT
1906662 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAAT-TGAATTCAAGC
1 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAATATGAATTCAAGC
* *
1906726 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCT
66 AAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
* * *
1906791 CATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAATTGATGAATTCAAGCAAAAGGTTAA
131 CATTATGAACT-TT-CTCTGGAAAAGAATGATCCATC-AAGTGATGAATTCAAGCAAAAGGTTGA
1906856 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC
193 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC
*
1906921 T-TT-CTCTGGACAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCAAGTTCTTC
258 TCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCAAGTTCTTC
1906984 TCATTATGAACTTCTTCTTCCTTCTTCAGAT
323 TCATTATGAACTTCTTCTTCCTTCTTCAGAT
*
1907015 GATGATTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAAT-TGAATTCAAGC
1 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAATATGAATTCAAGC
1907079 AAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
66 AAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
*
1907144 CATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCA
131 CATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
*
1907209 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCT
196 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
* * *
1907274 TCCTCTGGAAATG-ATGATCCATCAAAT--TGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCA
261 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCAAGTTCTTCTCA
1907336 TTATGAACTTCTTCTTCCTTCTTCAGAT
326 TTATGAACTTCTTCTTCCTTCTTCAGAT
1907364 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAATTGATGAATTCA
1 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATG-ATGATCCATCAAA-T-ATGAATTCA
1907429 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
63 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
* * *
1907494 TCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAATGATGAATTTAAACAAAAGGTTGA
128 TCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGA
*
1907559 ACAAATTCTTCTCATTATGAACTTCTTC-T--TTCTTC--A-GA-GAGTTCTTCTCATTATGAA-
193 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC
*
1907616 -CTT--TCTGGAAAAGAATGATTCATCAAGTG
258 TCTTCCTCTGGAAAAGAATGATCCATCAAGTG
1907645 GATTTGAAAT
Statistics
Matches: 937, Mismatches: 33, Indels: 35
0.93 0.03 0.03
Matches are distributed among these distances:
342 9 0.01
343 12 0.01
344 3 0.00
346 19 0.02
347 2 0.00
348 1 0.00
349 100 0.11
350 108 0.12
351 37 0.04
352 122 0.13
353 449 0.48
354 24 0.03
355 51 0.05
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (353 bp):
GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAATATGAATTCAAGC
AAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
CATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCAAGTTCTTCTCA
TTATGAACTTCTTCTTCCTTCTTCAGAT
Found at i:1907171 original size:233 final size:237
Alignment explanation
Indices: 1906309--1907644 Score: 2136
Period size: 233 Copynumber: 5.7 Consensus size: 237
1906299 TTTTTCTCCA
* ** * *
1906309 GATGAGTTCTTCTCATTACGAACT-TT-CTGCTGGGGATG-ATGTTCTATCAAATGATGAATTCA
1 GATGAGTTCTTCTCATTATGAACTCTTCCT-CTGGAAATGAATGATCCATCAAAT-ATGAATTCA
*
1906371 AGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
64 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
1906436 TCTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTT
129 TCTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTT
1906501 GAACAAGTTCTTCTCA-T-TGAACTTCTTCTTCCTTCTTCAGAT
194 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * *
1906543 GACGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAA
1 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAAT-ATGAATTCAA
* * *
1906608 GCAAAAGGTTGAGCAAGTTCTTCTCATTATGAACTTCTTCTTCCTTATTCAGATGATGAGTTCTT
65 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
* *
1906673 CTCATTATGAACTCTTCCTCTGGAAATG-ATGATCCATCAAAT--TGAATTCAAGCAAAAGGTTG
130 CTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTG
1906735 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
195 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
1906778 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAATTGATGAATTCA
1 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAA-T-ATGAATTCA
*
1906843 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
64 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
*
1906908 TCTCATTATGAACT-TT-CTCTGGACAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTT
129 TCTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTT
*
1906971 GAGCAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
194 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
*
1907015 GATGATTTCTTCTCATTATGAACTCTTCCTCTGGAAATG-ATGATCCATCAAAT-TGAATTCAAG
1 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAATATGAATTCAAG
*
1907078 CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
66 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1907143 TCATTATGAACT-TT-CTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGA
131 TCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGA
*
1907206 GCAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
196 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
1907248 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATG-ATGATCCATCAAAT-TGAATTCAAG
1 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAATATGAATTCAAG
*
1907311 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
66 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
* * *
1907376 TCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAATTGATGAATTCAAGCAAAAGGTTA
131 TCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATC-AAGTGATGAATTCAAGCAAAAGGTTG
1907441 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
195 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * *
1907484 GACGAGTTCTTCTCATTATGAACT-TT-CTCTGGAAAAGAATGATCCATCAAATGATGAATTTAA
1 GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAAT-ATGAATTCAA
* *
1907547 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-T--TTCTTC--A-GA-GAGTTCTT
65 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
*
1907605 CTCATTATGAA--CTT--TCTGGAAAAGAATGATTCATCAAGTG
130 CTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTG
1907645 GATTTGAAAT
Statistics
Matches: 1045, Mismatches: 42, Indels: 39
0.93 0.04 0.03
Matches are distributed among these distances:
225 4 0.00
226 19 0.02
228 3 0.00
230 19 0.02
231 2 0.00
232 1 0.00
233 351 0.34
234 50 0.05
235 149 0.14
236 301 0.29
237 146 0.14
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (237 bp):
GATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAATATGAATTCAAG
CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
TCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGA
ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
Found at i:1907419 original size:586 final size:586
Alignment explanation
Indices: 1906312--1907641 Score: 2328
Period size: 586 Copynumber: 2.3 Consensus size: 586
1906302 TTCTCCAGAT
* ** * * *
1906312 GAGTTCTTCTCATTACGAACTTTCTGCTGGGGATG-ATGTTCTATCAAATGATGAATTCAAGCAA
1 GAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGAATGATCCATCAAATGATGAATTCAAGCAA
*
1906376 AAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCA
65 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-GA-TTCTTCTCA
* *
1906441 TTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
128 TTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAAT-ATGAATTCAAGCAAAAGGTTAAACA
1906506 AGTTCTTCTCATTGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
192 AGTTCTTCTCATTGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1906571 CTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCAAGTTCTTCTCATT
257 CTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCAAGTTCTTCTCATT
1906636 ATGAACTTCTTCTTCCTTATTCAGATGATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATG
322 ATGAACTTCTTCTTCCTTATTCAGATGATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATG
1906701 ATGATCCATCAAATTGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT
387 ATGATCCATCAAATTGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT
1906766 CCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAA
452 CCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAA
1906831 TTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
517 TTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1906896 ATGAC
582 ATGAC
* *
1906901 GAGTTCTTCTCATTATGAACTTTCTCTGGACAAGAATGATCCATCAAGTGATGAATTCAAGCAAA
1 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAATGATGAATTCAAGCAAA
*
1906966 AGGTTGAGCAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGATTTCTTCTCAT
66 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-GA-TTCTTCTCAT
*
1907031 TATGAACTCTTCCTCTGGAAATG-ATGATCCATCAAAT-TGAATTCAAGCAAAAGGTTAAACAAG
129 TATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAATATGAATTCAAGCAAAAGGTTAAACAAG
1907094 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACT-TT-
194 TTCTTCTCA-T-TGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1907157 CTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCAAGTTCTTCTCATT
257 CTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCAAGTTCTTCTCATT
*
1907222 ATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATG
322 ATGAACTTCTTCTTCCTTATTCAGATGATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATG
1907287 ATGATCCATCAAATTGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT
387 ATGATCCATCAAATTGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT
1907352 CCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAA
452 CCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAA
1907417 TTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
517 TTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1907482 ATGAC
582 ATGAC
* *
1907487 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAATGATGAATTTAAACAAA
1 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAATGATGAATTCAAGCAAA
*
1907552 AGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-T--TTCTTCAGA-GAG-TTCTTCTCATTA
66 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGATTCTTCTCATTA
*
1907612 TGAA--CTT--TCTGGAAAAGAATGATTCATCAA
131 TGAACTCTTCCTCTGGAAAAGAATGATCCATCAA
1907642 GTGGATTTGA
Statistics
Matches: 714, Mismatches: 23, Indels: 21
0.94 0.03 0.03
Matches are distributed among these distances:
575 9 0.01
576 11 0.02
577 3 0.00
579 16 0.02
581 1 0.00
582 2 0.00
583 9 0.01
585 1 0.00
586 457 0.64
587 3 0.00
588 68 0.10
589 134 0.19
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (586 bp):
GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAATGATGAATTCAAGCAAA
AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGATTCTTCTCATTA
TGAACTCTTCCTCTGGAAAAGAATGATCCATCAAATATGAATTCAAGCAAAAGGTTAAACAAGTT
CTTCTCATTGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTCT
GGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAGCAAGTTCTTCTCATTATGA
ACTTCTTCTTCCTTATTCAGATGATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGA
TCCATCAAATTGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
CTTCAGATGATGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGAATGATCCATCAAATTGA
TGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA
C
Found at i:1908360 original size:52 final size:52
Alignment explanation
Indices: 1908281--1908797 Score: 923
Period size: 52 Copynumber: 9.9 Consensus size: 52
1908271 TACTTGATTT
*
1908281 TGTCC-ACTCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTT
1 TGTCCAAC-CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
*
1908333 TGTCCAACCAGATCAGATAACTTAAAGAACACTTCCAGAAGATGCTATGTTC
1 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
1908385 TGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
1 TG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
1908437 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
1 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
*
1908489 TGTCCAACCAGATCAGATAACTTAAAGAACACTTCCAGAAGATGCTATGTTC
1 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
1908541 TGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
1 TG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
*
1908593 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTC
1 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
*
1908645 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTT
1 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
*
1908697 TGTCCAACCAGATCATATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
1 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
*
1908749 TGTCCAACCAGATCAGATAACTTAAAGAACACTTCCAGAAGATGCTATG
1 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1908798 AGCATATTCA
Statistics
Matches: 448, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
51 2 0.00
52 442 0.99
53 4 0.01
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.24
Consensus pattern (52 bp):
TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
Found at i:1909600 original size:19 final size:20
Alignment explanation
Indices: 1909578--1909619 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1909568 AATAGAAAAG
* *
1909578 AATAAATTGAATTTCCAA-A
1 AATAAATTAAATCTCCAATA
1909597 AATAAATTAAATCTCCAATA
1 AATAAATTAAATCTCCAATA
1909617 AAT
1 AAT
1909620 TGAACTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAAATTAAATCTCCAATA
Found at i:1909971 original size:14 final size:13
Alignment explanation
Indices: 1909952--1910010 Score: 66
Period size: 14 Copynumber: 4.4 Consensus size: 13
1909942 CTTGACCCCC
*
1909952 TTTTTTCGTTTTT
1 TTTTTTTGTTTTT
*
1909965 TTTTTTT-TCAATTT
1 TTTTTTTGT--TTTT
1909979 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
1909992 TTTTGTTTGTTTTT
1 TTTT-TTTGTTTTT
1910006 TTTTT
1 TTTTT
1910011 CAATCATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 1 0.03
13 14 0.36
14 23 0.59
15 1 0.03
ACGTcount: A:0.03, C:0.03, G:0.07, T:0.86
Consensus pattern (13 bp):
TTTTTTTGTTTTT
Found at i:1909990 original size:10 final size:10
Alignment explanation
Indices: 1909977--1910010 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1909967 TTTTTTCAAT
1909977 TTTTTTTTTG
1 TTTTTTTTTG
1909987 TTTTTTTTTG
1 TTTTTTTTTG
*
1909997 TTTGTTTTT-
1 TTTTTTTTTG
1910006 TTTTT
1 TTTTT
1910011 CAATCATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (10 bp):
TTTTTTTTTG
Done.