Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007782.1 Hibiscus syriacus cultivar Beakdansim tig00110065_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: 3900615
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 19
Found at i:607087 original size:21 final size:21
Alignment explanation
Indices: 607058--607097 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
607048 TTTGAGTAGA
607058 AAAATCATCCTCAAACGGCTCC
1 AAAATCATCC-CAAACGGCTCC
*
607080 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
607098 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:607786 original size:19 final size:20
Alignment explanation
Indices: 607749--607787 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
607739 ATTTTTAAAA
607749 TATTAAAATAATTTATTTAT
1 TATTAAAATAATTTATTTAT
*
607769 TATTAAAAT-ATTTTTTTAT
1 TATTAAAATAATTTATTTAT
607788 AATTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTAAAATAATTTATTTAT
Found at i:607802 original size:27 final size:31
Alignment explanation
Indices: 607764--607841 Score: 101
Period size: 33 Copynumber: 2.6 Consensus size: 31
607754 AAATAATTTA
*
607764 TTTATT-ATTAAAATATTT-T-TTTATA-AT
1 TTTATTAATAAAAATATTTATATTTATATAT
607791 TTTATTAATAAAAATATTTATATTTATATAT
1 TTTATTAATAAAAATATTTATATTTATATAT
607822 TTTATTGAAATAAAAATATT
1 TTTATT--AATAAAAATATT
607842 ATAAATTATA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
27 6 0.14
28 11 0.25
29 1 0.02
30 6 0.14
31 8 0.18
33 12 0.27
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (31 bp):
TTTATTAATAAAAATATTTATATTTATATAT
Found at i:607851 original size:33 final size:31
Alignment explanation
Indices: 607764--607852 Score: 89
Period size: 33 Copynumber: 2.9 Consensus size: 31
607754 AAATAATTTA
* *
607764 TTTATT-ATTAAAATATTT-T-TTTATA-AT
1 TTTATTAATAAAAATATTTATAATTATATAT
*
607791 TTTATTAATAAAAATATTTATATTTATATAT
1 TTTATTAATAAAAATATTTATAATTATATAT
607822 TTTATTGAAATAAAAATA-TTATAAATTATAT
1 TTTATT--AATAAAAATATTTAT-AATTATAT
607853 TAATTATTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
27 6 0.11
28 11 0.21
29 1 0.02
30 6 0.11
31 8 0.15
32 4 0.08
33 17 0.32
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (31 bp):
TTTATTAATAAAAATATTTATAATTATATAT
Found at i:607852 original size:31 final size:30
Alignment explanation
Indices: 607784--607853 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 30
607774 AAATATTTTT
**
607784 TTATAATTTTATTAATAAAAATATTTATATT
1 TTAT-ATTTTATTAATAAAAATATTTATAAA
607815 TATATATTTTATTGAAATAAAAATA-TTATAAA
1 T-TATATTTTATT--AATAAAAATATTTATAAA
607847 TTATATT
1 TTATATT
607854 AATTATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
31 15 0.44
32 9 0.26
33 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
TTATATTTTATTAATAAAAATATTTATAAA
Found at i:607860 original size:33 final size:33
Alignment explanation
Indices: 607797--607860 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
607787 TAATTTTATT
* *
607797 AATAAAAATATTTATATTTATATATTTTATTGA
1 AATAAAAATATTTAAATTTATATATATTATTGA
607830 AATAAAAATATTATAAA-TTATAT-TAATTATT
1 AATAAAAATATT-TAAATTTATATAT-ATTATT
607861 TATTAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.04
33 23 0.85
34 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (33 bp):
AATAAAAATATTTAAATTTATATATATTATTGA
Found at i:607933 original size:23 final size:23
Alignment explanation
Indices: 607884--607934 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
607874 GTGTTATATT
**
607884 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
607907 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
607930 ATATT
1 ATATT
607935 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:607990 original size:19 final size:19
Alignment explanation
Indices: 607922--608002 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
607912 TTAAATATCT
607922 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
607941 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
607960 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
607980 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
607998 -TATTA
1 TTATTA
608003 TTTCTATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:608088 original size:17 final size:18
Alignment explanation
Indices: 608068--608133 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 18
608058 TAAAATTAAA
608068 ATATAAT-ATATTATATT
1 ATATAATAATATTATATT
608085 ATAT-ATAAT-TTATTATT
1 ATATAATAATATTA-TATT
* * *
608102 TTATATATAATATTAAAAT
1 ATATA-ATAATATTATATT
608121 ATATAATAATATT
1 ATATAATAATATT
608134 TTTATTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 5 0.12
17 13 0.32
18 8 0.20
19 11 0.28
20 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATAATAATATTATATT
Found at i:608090 original size:19 final size:19
Alignment explanation
Indices: 608068--608114 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
608058 TAAAATTAAA
608068 ATATAATATATTATATTAT
1 ATATAATATATTATATTAT
* *
608087 ATATAATTTATTATTTTAT
1 ATATAATATATTATATTAT
608106 ATATAATAT
1 ATATAATAT
608115 TAAAATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATAATATATTATATTAT
Found at i:608375 original size:14 final size:15
Alignment explanation
Indices: 608351--608379 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
608341 TTAAAAAATT
608351 AAAAAATTATTTTTC
1 AAAAAATTATTTTTC
608366 AAAAAA-TATTTTTC
1 AAAAAATTATTTTTC
608380 GTGAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAAAATTATTTTTC
Found at i:608863 original size:23 final size:24
Alignment explanation
Indices: 608831--608932 Score: 82
Period size: 23 Copynumber: 4.3 Consensus size: 24
608821 TTCGTTTAGT
*
608831 GTTCGCGAATATGTCCATTTA-AC
1 GTTCGTGAATATGTCCATTTATAC
* * *
608854 GTTTGTGAATATGTTCATTTATAT
1 GTTCGTGAATATGTCCATTTATAC
* * * *
608878 GTTCGTGAATATTTTTCGTTTATAT
1 GTTCGTGAATA-TGTCCATTTATAC
* * *
608903 GTTCGTGAACATGTTCATTTA-GC
1 GTTCGTGAATATGTCCATTTATAC
608926 GTTCGTG
1 GTTCGTG
608933 GACTTAAGTC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
23 25 0.38
24 19 0.29
25 21 0.32
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.46
Consensus pattern (24 bp):
GTTCGTGAATATGTCCATTTATAC
Found at i:608889 original size:12 final size:12
Alignment explanation
Indices: 608858--608918 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
608848 TTTAACGTTT
608858 GTGAATATGTTC
1 GTGAATATGTTC
* **
608870 ATTTATATGTTC
1 GTGAATATGTTC
*
608882 GTGAATATTTTTC
1 GTGAATA-TGTTC
**
608895 GTTTATATGTTC
1 GTGAATATGTTC
*
608907 GTGAACATGTTC
1 GTGAATATGTTC
608919 ATTTAGCGTT
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
12 26 0.74
13 9 0.26
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (12 bp):
GTGAATATGTTC
Found at i:608903 original size:25 final size:24
Alignment explanation
Indices: 608830--608923 Score: 109
Period size: 25 Copynumber: 3.9 Consensus size: 24
608820 GTTCGTTTAG
* *
608830 TGTTCGCGAATATGTCCATTTA-A
1 TGTTCGTGAATATGTTCATTTATA
* *
608853 CGTTTGTGAATATGTTCATTTATA
1 TGTTCGTGAATATGTTCATTTATA
* *
608877 TGTTCGTGAATATTTTTCGTTTATA
1 TGTTCGTGAATA-TGTTCATTTATA
*
608902 TGTTCGTGAACATGTTCATTTA
1 TGTTCGTGAATATGTTCATTTA
608924 GCGTTCGTGG
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
23 18 0.31
24 19 0.33
25 21 0.36
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (24 bp):
TGTTCGTGAATATGTTCATTTATA
Found at i:611755 original size:35 final size:34
Alignment explanation
Indices: 611670--611756 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
611660 AAAATAATTT
*
611670 TAAATACAACAAACTTACAATAAATATTAAATGG
1 TAAATACAACAAAATTACAATAAATATTAAATGG
* *
611704 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA---ATATTAAATGG
611742 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
611757 ACTTAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 3 0.07
38 12 0.27
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAATATTAAATGG
Found at i:611989 original size:3 final size:3
Alignment explanation
Indices: 611983--612011 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
611973 ATCATCATCA
611983 TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
612012 CTGAGTAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.31, T:0.34
Consensus pattern (3 bp):
TCG
Found at i:614079 original size:33 final size:30
Alignment explanation
Indices: 614010--614085 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
614000 TCTGTAAAAA
* *
614010 AAAT-TAATTAAATAAAATATTAAACAATT
1 AAATATAATTAAATAAAATATAAAAAAATT
*
614039 AAA-ATAATTAAATAAATTACTAAAAAAATACT
1 AAATATAATTAAATAAAATA-TAAAAAAAT--T
*
614071 AAATATAATAAAATA
1 AAATATAATTAAATA
614086 TACCTTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
29 17 0.45
30 7 0.18
32 4 0.11
33 10 0.26
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (30 bp):
AAATATAATTAAATAAAATATAAAAAAATT
Found at i:624376 original size:30 final size:30
Alignment explanation
Indices: 624340--624420 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
624330 GATTTTTGAA
* * * **
624340 AAAAAATGACTGGAAACATTATTAGGTGCT
1 AAAAAATGACCGAAAACATTACTAGACGCT
624370 AAAAAATGACCGAAAACATTACTAGACGCT
1 AAAAAATGACCGAAAACATTACTAGACGCT
* * *
624400 AAAAATTAACCGAAAATATTA
1 AAAAAATGACCGAAAACATTA
624421 AAAAAAATGA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.22
Consensus pattern (30 bp):
AAAAAATGACCGAAAACATTACTAGACGCT
Found at i:625468 original size:23 final size:23
Alignment explanation
Indices: 625440--625494 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
625430 AAAACTACCA
625440 AAAGGCAAAGAAAAACATGTCAC
1 AAAGGCAAAGAAAAACATGTCAC
* **
625463 AAAGGCAAAGATAAATGTGTCAC
1 AAAGGCAAAGAAAAACATGTCAC
*
625486 AAAGACAAA
1 AAAGGCAAA
625495 ATTATTCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.56, C:0.15, G:0.18, T:0.11
Consensus pattern (23 bp):
AAAGGCAAAGAAAAACATGTCAC
Found at i:627943 original size:82 final size:82
Alignment explanation
Indices: 627805--627994 Score: 247
Period size: 82 Copynumber: 2.3 Consensus size: 82
627795 TAACATGGTA
* * ** *
627805 ACTTTAGCGGCTTTTTTATACAAATACCGCAATAGGTTCATCCATAGTGGCATTTTTTTCAACAA
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCAATAGGTTCATCCATAATGGCA-TTTTTTCAACAA
627870 ACACAGCAACAAAGTAGT
65 ACACAGCAACAAAGTAGT
* *
627888 ACTTTAGTGGCG-TTTTATACAAACGGCGCAATCGGTTCATCCATAATGGCATTTTTTCAACAAA
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCAATAGGTTCATCCATAATGGCATTTTTTCAACAAA
* * * * *
627952 CGCCGTAATAGAGTAGT
66 CACAGCAACAAAGTAGT
*
627969 ACTTTAGTGGTGTTTTTATACAAACG
1 ACTTTAGTGGCGTTTTTATACAAACG
627995 ACGCTATAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 36 0.39
82 47 0.51
83 10 0.11
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (82 bp):
ACTTTAGTGGCGTTTTTATACAAACGCCGCAATAGGTTCATCCATAATGGCATTTTTTCAACAAA
CACAGCAACAAAGTAGT
Found at i:627985 original size:41 final size:41
Alignment explanation
Indices: 627947--628150 Score: 248
Period size: 41 Copynumber: 4.9 Consensus size: 41
627937 CATTTTTTCA
* * *
627947 ACAAACGCCG-TAATAGAGTAGTACTTTAGTGGTGTTTTTAT
1 ACAAACGCCGCT-ATAGACTTGTACTTTAGTGGCGTTTTTAT
* * * * *
627988 ACAAACGACGCTATAAACTCGTACTTTAGTGGCATTTATGTTT
1 ACAAACGCCGCTATAGACTTGTACTTTAGTGGCGTTT-T-TAT
* *
628031 ACAAACGCCGTTAAAGACTTGTACTTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTAT
* *
628072 ACAAACGTCGCTATAGACTTGTACTTTAGTGGCATTTTTAT
1 ACAAACGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTAT
* *
628113 ACAAATGTCGCTATAGACTTGTACTTTAGTGGCGTTTT
1 ACAAACGCCGCTATAGACTTGTACTTTAGTGGCGTTTT
628151 GTAACCCCCT
Statistics
Matches: 140, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
41 104 0.74
42 3 0.02
43 33 0.24
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (41 bp):
ACAAACGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTAT
Found at i:628059 original size:84 final size:81
Alignment explanation
Indices: 627934--628150 Score: 274
Period size: 84 Copynumber: 2.6 Consensus size: 81
627924 TCATCCATAA
* * *
627934 TGGCATTTTT-TCAACAAACGCCGTAATAGAGTAGTACTTTAGTGGTGTTTTTATACAAACGACG
1 TGGCATTTTTAT--ACAAACGCCGTAA-AGACTTGTACTTTAGTGGCGTTTTTATACAAACGACG
627998 CTATAAACTCGTACTTTAG
63 CTATAAACTCGTACTTTAG
* *
628017 TGGCATTTATGTTTACAAACGCCGTTAAAGACTTGTACTTTAGTGGCGTTTTTATACAAACGTCG
1 TGGCATTT-T-TATACAAACGCCG-TAAAGACTTGTACTTTAGTGGCGTTTTTATACAAACGACG
* *
628082 CTATAGACTTGTACTTTAG
63 CTATAAACTCGTACTTTAG
* * *
628101 TGGCATTTTTATACAAATGTCGCTATAGACTTGTACTTTAGTGGCGTTTT
1 TGGCATTTTTATACAAACGCCG-TAAAGACTTGTACTTTAGTGGCGTTTT
628151 GTAACCCCCT
Statistics
Matches: 119, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
82 36 0.30
83 9 0.08
84 69 0.58
85 4 0.03
86 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (81 bp):
TGGCATTTTTATACAAACGCCGTAAAGACTTGTACTTTAGTGGCGTTTTTATACAAACGACGCTA
TAAACTCGTACTTTAG
Found at i:630760 original size:19 final size:18
Alignment explanation
Indices: 630738--630780 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
630728 TAAAACTAAC
630738 ATTTCTTATGCACATCAAT
1 ATTTCTTAT-CACATCAAT
*
630757 ATTT-TTATCAGATCAAT
1 ATTTCTTATCACATCAAT
*
630774 ATGTCTT
1 ATTTCTT
630781 TTCAGATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 11 0.52
18 6 0.29
19 4 0.19
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.47
Consensus pattern (18 bp):
ATTTCTTATCACATCAAT
Found at i:632517 original size:41 final size:41
Alignment explanation
Indices: 632466--632551 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
632456 GGGTGTTACA
* * ** *
632466 GTTTTTATACAAATGCCGCTATAGACTTTTACTTTAGTGGC
1 GTTTATATACAAATGCCACTATAGACTCATACTTTAGTGAC
*
632507 GTTTATATACAAATGCCATTATAGACTCATACTTTAGTGAC
1 GTTTATATACAAATGCCACTATAGACTCATACTTTAGTGAC
632548 GTTT
1 GTTT
632552 GTGTTTACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (41 bp):
GTTTATATACAAATGCCACTATAGACTCATACTTTAGTGAC
Found at i:635940 original size:86 final size:85
Alignment explanation
Indices: 635773--635993 Score: 293
Period size: 86 Copynumber: 2.6 Consensus size: 85
635763 TATCATGAGC
* ** * *
635773 CCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATA-TGACATTTTTTGATGTTTTTCCAA
1 CCTTTTGCGGCGTTTGT-TCAAAAAACGCCGCTATAGATATTGACCTTTTGCGACGTTGTTCCAA
635837 AAATGCCGCTATAGATATCGA
65 AAATGCCGCTATAGATATCGA
* *
635858 CCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATTGACCTTTTGCGGCGCTTGTTCCAA
1 CCTTTTGCGGCGTTTGTTCAAAAAACGCCGCTATAGATATTGACCTTTTGCGACG-TTGTTCCAA
*
635923 AAATGTCGCTATAGATATCGA
65 AAATGCCGCTATAGATATCGA
* * * * *
635944 CCTTTTGCGGCGTTTGTTAAAAAAACGTCGCGAT-GATCTTGACCTATTGC
1 CCTTTTGCGGCGTTTGTTCAAAAAACGCCGCTATAGATATTGACCTTTTGC
635994 AGCATTTTTT
Statistics
Matches: 120, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
84 21 0.17
85 41 0.34
86 58 0.48
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (85 bp):
CCTTTTGCGGCGTTTGTTCAAAAAACGCCGCTATAGATATTGACCTTTTGCGACGTTGTTCCAAA
AATGCCGCTATAGATATCGA
Found at i:635974 original size:43 final size:43
Alignment explanation
Indices: 635773--635970 Score: 256
Period size: 43 Copynumber: 4.6 Consensus size: 43
635763 TATCATGAGC
*
635773 CCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATAT-GA
1 CCTTTTGCGGCGTTTGT-TCCAAAAACGCCGCTATAGATATCGA
* ** ** *
635816 CATTTTTTGATGTTT-TTCCAAAAATGCCGCTATAGATATCGA
1 CCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGA
*
635858 CCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATTGA
1 CCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGA
* * *
635901 CCTTTTGCGGCGCTTGTTCCAAAAATGTCGCTATAGATATCGA
1 CCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGA
**
635944 CCTTTTGCGGCGTTTGTTAAAAAAACG
1 CCTTTTGCGGCGTTTGTTCCAAAAACG
635971 TCGCGATGAT
Statistics
Matches: 131, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 21 0.16
42 13 0.10
43 97 0.74
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (43 bp):
CCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGA
Found at i:656701 original size:20 final size:19
Alignment explanation
Indices: 656678--656723 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
656668 CGATATACCA
656678 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
656698 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
656718 GGTAAA
1 GGTAAA
656724 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:656868 original size:20 final size:19
Alignment explanation
Indices: 656845--656891 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
656835 CGATATAACA
656845 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
656865 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
656885 GGTAAAA
1 GGTAAAA
656892 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:656893 original size:17 final size:19
Alignment explanation
Indices: 656854--656896 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
656844 AGGTAAAAAT
656854 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
656874 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
656891 ATGATA
1 ATGATA
656897 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:659157 original size:21 final size:21
Alignment explanation
Indices: 659110--659174 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
659100 AAGACAATCA
* *
659110 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
659132 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
659152 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
659173 AG
1 AG
659175 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:659255 original size:33 final size:33
Alignment explanation
Indices: 659208--659273 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
659198 AAATAGATGG
* *
659208 AGTGGTGAATGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
659241 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
659274 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.48, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:661091 original size:19 final size:19
Alignment explanation
Indices: 661067--661115 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
661057 AATGTAGGGT
661067 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
661086 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
661105 TATTTTTGTAT
1 TAATTTTGTAT
661116 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:661571 original size:200 final size:199
Alignment explanation
Indices: 661234--662587 Score: 2413
Period size: 198 Copynumber: 6.9 Consensus size: 199
661224 CAATATGGCC
*
661234 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTCGATCCCATAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAA-AAAGTGTCGATCCCAAAATCATCGAAC
661299 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
661364 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAACGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
**
661429 TGGCC
195 TGGAA
661434 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
661499 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
661564 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTGTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
**
661629 TGGCC
195 TGGAA
661634 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCG-----------AT----C
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
661684 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
661749 GAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
661813 TGGAA
195 TGGAA
661818 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
661883 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
661947 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
662012 GGAA
196 GGAA
662016 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
***
662081 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
662146 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
662210 GGAA
196 GGAA
662214 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
662279 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAA-CGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
662343 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATAAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
662408 GGAA
196 GGAA
662412 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
662477 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
662542 AATATGTCTAAAAAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
662588 CTAATTTAAA
Statistics
Matches: 1115, Mismatches: 19, Indels: 41
0.95 0.02 0.03
Matches are distributed among these distances:
183 11 0.01
184 54 0.05
185 112 0.10
189 2 0.00
194 2 0.00
197 179 0.16
198 333 0.30
199 179 0.16
200 241 0.22
201 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:664843 original size:25 final size:25
Alignment explanation
Indices: 664809--664873 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
664799 TTATCATTAA
664809 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
664834 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
664859 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
664874 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:665187 original size:23 final size:23
Alignment explanation
Indices: 665156--665219 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
665146 ATAGGTAAAC
*
665156 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
665179 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
665202 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
665220 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:665226 original size:23 final size:23
Alignment explanation
Indices: 665156--665228 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
665146 ATAGGTAAAC
* **
665156 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
665179 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
665202 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
665225 ATAT
1 ATAT
665229 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:665266 original size:19 final size:19
Alignment explanation
Indices: 665231--665267 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
665221 GGTTATATTG
* *
665231 TAAAGTGTCTATCCTTTTA
1 TAAAGTGTCCATACTTTTA
665250 TAAAGTGTCCATACTTTT
1 TAAAGTGTCCATACTTTT
665268 TTCACTGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (19 bp):
TAAAGTGTCCATACTTTTA
Found at i:665447 original size:25 final size:25
Alignment explanation
Indices: 665413--665463 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
665403 ACAACAAATC
*
665413 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
665438 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
665463 A
1 A
665464 TTTGGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:665872 original size:18 final size:18
Alignment explanation
Indices: 665851--665887 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
665841 GTAATTGGAG
665851 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
665869 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
665887 T
1 T
665888 ATATATTTCG
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:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:665895 original size:24 final size:24
Alignment explanation
Indices: 665843--665889 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
665833 TTTCATATGT
* *
665843 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
665867 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
665890 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:666189 original size:39 final size:39
Alignment explanation
Indices: 666145--666231 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
666135 TCCGATGCTC
*
666145 ATCAAAATCAAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCAAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
666184 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCAAAAGCTCATATGATGCCAAGCAAAAGGAA
666223 ATCAAAATC
1 ATCAAAATC
666232 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCAAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:666685 original size:18 final size:20
Alignment explanation
Indices: 666644--666683 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
666634 ACATATGATG
666644 TAATAGGTAGCGCTTATATA
1 TAATAGGTAGCGCTTATATA
* *
666664 TAATAGGTATCGTTTATATA
1 TAATAGGTAGCGCTTATATA
666684 ATGTAATAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (20 bp):
TAATAGGTAGCGCTTATATA
Found at i:666693 original size:23 final size:22
Alignment explanation
Indices: 666636--666710 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
666626 ATAGGTAAAC
666636 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
* *
666659 ATATA--TAATAGGTATCGTTT
1 ATATATGTAATAGGTAGCGCTT
* *
666679 ATATAATGTAATAGGTAGTGGTT
1 ATAT-ATGTAATAGGTAGCGCTT
666702 ATAT-TGTAA
1 ATATATGTAA
666711 AGTGTCTATC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
20 17 0.39
21 6 0.14
22 1 0.02
23 20 0.45
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:667383 original size:335 final size:333
Alignment explanation
Indices: 666748--667416 Score: 1250
Period size: 335 Copynumber: 2.0 Consensus size: 333
666738 CATACTTTTT
666748 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
*
666813 TATAGGCGTCTAATGATTTATTTTTTTCGTTACGATATATATTATTATTAATTAAAAATTCTAAA
66 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAATTAAAAATTCTAAA
* *
666878 TATTATTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATA
131 TAATATTTATAAAATATCAAAACAATCAAATAATTTTTTGTACAAATGAAATTATTAAATTAATA
666943 TTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGA
196 TTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGA
* *
667008 AGTATCGATCCTTTTTATAAAAAAGTATGGATACTTTCAATATAATAAAATGTAATAGGTAAATT
261 AATATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAATATAATAAAATGTAATAGGTAAATT
667073 TGCAATGC
326 TGCAATGC
667081 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
667146 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT-AATTAAAAATTCTAA
667211 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTACAAATGAAATTATTAAATTAA
130 ATAATA-TTTATAAAATATCAAAACAATCAAATAATTTTTTGTACAAATGAAATTATTAAATTAA
667276 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
194 TATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAA
*
667341 AGAAATATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAA
258 AGAAATATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAATATAATAAAATGTAATAGGTAA
667405 ATTTGCAATGC
323 ATTTGCAATGC
667416 T
1 T
667417 ATCGGTATAA
Statistics
Matches: 327, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
333 113 0.35
334 20 0.06
335 140 0.43
336 54 0.17
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (333 bp):
TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAATTAAAAATTCTAAA
TAATATTTATAAAATATCAAAACAATCAAATAATTTTTTGTACAAATGAAATTATTAAATTAATA
TTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGA
AATATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAATATAATAAAATGTAATAGGTAAATT
TGCAATGC
Found at i:668605 original size:14 final size:14
Alignment explanation
Indices: 668554--668606 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
668544 ATTTAATATT
* *
668554 TTAATATATTTAAA
1 TTAAAATATATAAA
*
668568 TTAAAAT-TAAAATA
1 TTAAAATATATAA-A
*
668582 TTTAAATATATAAA
1 TTAAAATATATAAA
668596 TTAAAATATAT
1 TTAAAATATAT
668607 GTAATAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
13 3 0.10
14 24 0.77
15 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAATATATAAA
Found at i:669014 original size:19 final size:20
Alignment explanation
Indices: 668992--669032 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
668982 AAATTTCAAC
*
668992 ATAAAAT-ATATATTTTTAA
1 ATAAAATAAAATATTTTTAA
669011 ATAAAATAAAATATTTTTAA
1 ATAAAATAAAATATTTTTAA
669031 AT
1 AT
669033 TAAGTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAAATAAAATATTTTTAA
Found at i:669067 original size:25 final size:25
Alignment explanation
Indices: 669015--669100 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 25
669005 TTTTAAATAA
*
669015 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATATATTT-AA-TAAGTTAAT
669042 AATAAAATATATTTAATAAGTTAAT
1 AATAAAATATATTTAATAAGTTAAT
**
669067 -AT-AAATATATTTTTTAAGTTAAT
1 AATAAAATATATTTAATAAGTTAAT
669090 ATATAAAATAT
1 A-ATAAAATAT
669101 TATAAATTTC
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
23 19 0.36
24 2 0.04
25 11 0.21
26 8 0.15
27 13 0.25
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (25 bp):
AATAAAATATATTTAATAAGTTAAT
Found at i:676385 original size:41 final size:41
Alignment explanation
Indices: 676340--676471 Score: 167
Period size: 41 Copynumber: 3.2 Consensus size: 41
676330 TGATAAAAAT
* * *
676340 GCCGCTACAGAGTCATACTTTAGTGGCGTTTTTATACAAAC
1 GCCGCTATAGACTCATACTTTAGTGGTGTTTTTATACAAAC
* *
676381 GCCGCTATATACTCATACTTTAGTGGTGTTTTTATCCAAAC
1 GCCGCTATAGACTCATACTTTAGTGGTGTTTTTATACAAAC
* *
676422 GCCGCTATAGACT-AGTACTTTAGCGGTGTTTTTAAACACAAAC
1 GCCGCTATAGACTCA-TACTTTAGTGGTGTTTTT--ATACAAAC
676465 GCCGCTA
1 GCCGCTA
676472 AAGTTTAAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 65 0.82
43 13 0.16
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (41 bp):
GCCGCTATAGACTCATACTTTAGTGGTGTTTTTATACAAAC
Found at i:681717 original size:33 final size:34
Alignment explanation
Indices: 681641--681706 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
681631 ACTATTTGTT
** *
681641 CATCACCATCTTCCATCACCATTTCACGCCTATAA
1 CATCACCATAGTCCATCACCA-TTCACGCCAATAA
681676 CATCACCATAGTCCATCACC-TTCACGCCAAT
1 CATCACCATAGTCCATCACCATTCACGCCAAT
681707 TCCATTACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 10 0.36
35 18 0.64
ACGTcount: A:0.29, C:0.41, G:0.05, T:0.26
Consensus pattern (34 bp):
CATCACCATAGTCCATCACCATTCACGCCAATAA
Found at i:682142 original size:6 final size:6
Alignment explanation
Indices: 682091--682144 Score: 58
Period size: 6 Copynumber: 9.0 Consensus size: 6
682081 GTGCTGCAAC
* *
682091 AAAAGA AACAA-A AAGAGA AAAAGA AAGAAGA AAAACA AAAAG- AAAAGA
1 AAAAGA AA-AAGA AAAAGA AAAAGA AA-AAGA AAAAGA AAAAGA AAAAGA
682139 AAAAGA
1 AAAAGA
682145 CTCATACATC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 6 0.15
6 26 0.65
7 8 0.20
ACGTcount: A:0.80, C:0.04, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:699009 original size:20 final size:20
Alignment explanation
Indices: 698993--699032 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
698983 TGTTGATATT
698993 GTTCACGTGGTACTGATACC
1 GTTCACGTGGTACTGATACC
699013 GTTCACGTGGTACTGATACC
1 GTTCACGTGGTACTGATACC
699033 AAAGGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (20 bp):
GTTCACGTGGTACTGATACC
Found at i:704499 original size:15 final size:15
Alignment explanation
Indices: 704479--704508 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
704469 TAGGGAAAGC
704479 CCAGTAGGAAGAGGT
1 CCAGTAGGAAGAGGT
704494 CCAGTAGGAAGAGGT
1 CCAGTAGGAAGAGGT
704509 TCTAAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.40, T:0.13
Consensus pattern (15 bp):
CCAGTAGGAAGAGGT
Found at i:707377 original size:42 final size:42
Alignment explanation
Indices: 707321--707404 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
707311 TTAGTATAAA
* *
707321 AATCGTTAAACGAGTTTAATCGTACTTGAGTAGCTTCGTTAT
1 AATCGTTAAACGAGTTTAATCGTACTTGACTAGCTTCATTAT
707363 AATCGTTAAACGAGTTTAATCGTACTTGACTAGCTTCATTAT
1 AATCGTTAAACGAGTTTAATCGTACTTGACTAGCTTCATTAT
707405 GCCTTAAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (42 bp):
AATCGTTAAACGAGTTTAATCGTACTTGACTAGCTTCATTAT
Found at i:712510 original size:21 final size:19
Alignment explanation
Indices: 712476--712535 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 19
712466 TGTTAATATC
*
712476 AAAAATATTCATTTTAAGTA
1 AAAAATAAT-ATTTTAAGTA
*
712496 ACAAAATTAATATTTT-CGATA
1 A-AAAA-TAATATTTTAAG-TA
712517 AAAAATAATATTTTAAGTA
1 AAAAATAATATTTTAAGTA
712536 GTGCTCTACC
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
19 11 0.33
20 7 0.21
21 12 0.36
22 3 0.09
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAAATAATATTTTAAGTA
Found at i:713722 original size:15 final size:16
Alignment explanation
Indices: 713704--713736 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
713694 AATATTTTAG
*
713704 AATTGAAAT-ATAAAA
1 AATTAAAATAATAAAA
713719 AATTAAAATAATAAAA
1 AATTAAAATAATAAAA
713735 AA
1 AA
713737 ATTCTTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AATTAAAATAATAAAA
Found at i:716611 original size:21 final size:21
Alignment explanation
Indices: 716586--716626 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
716576 GTGAACAGTA
716586 CTACAATGCATCGATGCATTG
1 CTACAATGCATCGATGCATTG
*
716607 CTACAGTGCATCGATGCATT
1 CTACAATGCATCGATGCATT
716627 AAAATTTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (21 bp):
CTACAATGCATCGATGCATTG
Found at i:723393 original size:2 final size:2
Alignment explanation
Indices: 723386--723427 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
723376 TGTGAAAAGA
723386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
723428 GTTTAAAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:725568 original size:18 final size:18
Alignment explanation
Indices: 725547--725581 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
725537 TGGATCATTT
725547 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
725565 TGTCTCGAAGGACCACT
1 TGTCCCGAAGGACCACT
725582 TATAATCCCT
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:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:726738 original size:118 final size:118
Alignment explanation
Indices: 726526--726765 Score: 473
Period size: 118 Copynumber: 2.0 Consensus size: 118
726516 TTTATCTTCC
726526 AAAT-GCTATCCTCTACATAGAATTCAAGAATCATACCAAATTTTCAACATGTTCTAATTTTAAT
1 AAATCGCTATCCTCTACATAGAATTCAAGAATCATACCAAATTTTCAACATGTTCTAATTTTAAT
726590 TTTAACACTTCACACTCCTTAGTTCTACTGATGACAAGTCAAATTTAGTCTTG
66 TTTAACACTTCACACTCCTTAGTTCTACTGATGACAAGTCAAATTTAGTCTTG
726643 AAATCGCTATCCTCTACATAGAATTCAAGAATCATACCAAATTTTCAACATGTTCTAATTTTAAT
1 AAATCGCTATCCTCTACATAGAATTCAAGAATCATACCAAATTTTCAACATGTTCTAATTTTAAT
726708 TTTAACACTTCACACTCCTTAGTTCTACTGATGACAAGTCAAATTTAGTCTTG
66 TTTAACACTTCACACTCCTTAGTTCTACTGATGACAAGTCAAATTTAGTCTTG
726761 AAATC
1 AAATC
726766 TAATTACTAC
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
117 4 0.03
118 118 0.97
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (118 bp):
AAATCGCTATCCTCTACATAGAATTCAAGAATCATACCAAATTTTCAACATGTTCTAATTTTAAT
TTTAACACTTCACACTCCTTAGTTCTACTGATGACAAGTCAAATTTAGTCTTG
Found at i:728506 original size:95 final size:95
Alignment explanation
Indices: 728343--728532 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
728333 GTTGTAACAG
728343 TCTAGATAGAACCTGATGCTTAGCTTTGACTTACTGGCAAGTCAAACACTTGGATACAAATTCTG
1 TCTAGATAGAACCTGATGCTTAGCTTTGACTTACTGGCAAGTCAAACACTTGGATACAAATTCTG
728408 TAATATTCCTCTTCATTCTAGGCCACAAAT
66 TAATATTCCTCTTCATTCTAGGCCACAAAT
728438 TCTAGATAGAACCTGATGCTTAGCTTTGACTTACTGGCAAGTCAAACACTTGGATACAAATTCTG
1 TCTAGATAGAACCTGATGCTTAGCTTTGACTTACTGGCAAGTCAAACACTTGGATACAAATTCTG
728503 TAATATTCCTCTTCATTCTAGGCCACAAAT
66 TAATATTCCTCTTCATTCTAGGCCACAAAT
728533 ATTGACTCTT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (95 bp):
TCTAGATAGAACCTGATGCTTAGCTTTGACTTACTGGCAAGTCAAACACTTGGATACAAATTCTG
TAATATTCCTCTTCATTCTAGGCCACAAAT
Found at i:732478 original size:18 final size:18
Alignment explanation
Indices: 732455--732492 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
732445 GCACTTAAAA
*
732455 TTTGTCCCGAATGACCAC
1 TTTGTCCCGAAGGACCAC
732473 TTTGTCCCGAAGGACCAC
1 TTTGTCCCGAAGGACCAC
732491 TT
1 TT
732493 ATAATCCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (18 bp):
TTTGTCCCGAAGGACCAC
Found at i:733805 original size:148 final size:148
Alignment explanation
Indices: 733537--733834 Score: 596
Period size: 148 Copynumber: 2.0 Consensus size: 148
733527 TGACAAGTCA
733537 AATTTAGTCTTCAAATCTAATTACTACCTCTCTACCAAGATTTCATTTAAAAACCCTTCTTCTTT
1 AATTTAGTCTTCAAATCTAATTACTACCTCTCTACCAAGATTTCATTTAAAAACCCTTCTTCTTT
733602 AATCCTTCCTATCCCCTTCATCTTATTATTTTAAGACCACTTAAGCATTCCTTAAGCTTAAGTAT
66 AATCCTTCCTATCCCCTTCATCTTATTATTTTAAGACCACTTAAGCATTCCTTAAGCTTAAGTAT
733667 CACCTGATGATCAAAACC
131 CACCTGATGATCAAAACC
733685 AATTTAGTCTTCAAATCTAATTACTACCTCTCTACCAAGATTTCATTTAAAAACCCTTCTTCTTT
1 AATTTAGTCTTCAAATCTAATTACTACCTCTCTACCAAGATTTCATTTAAAAACCCTTCTTCTTT
733750 AATCCTTCCTATCCCCTTCATCTTATTATTTTAAGACCACTTAAGCATTCCTTAAGCTTAAGTAT
66 AATCCTTCCTATCCCCTTCATCTTATTATTTTAAGACCACTTAAGCATTCCTTAAGCTTAAGTAT
733815 CACCTGATGATCAAAACC
131 CACCTGATGATCAAAACC
733833 AA
1 AA
733835 ACTTAATTTT
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 150 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (148 bp):
AATTTAGTCTTCAAATCTAATTACTACCTCTCTACCAAGATTTCATTTAAAAACCCTTCTTCTTT
AATCCTTCCTATCCCCTTCATCTTATTATTTTAAGACCACTTAAGCATTCCTTAAGCTTAAGTAT
CACCTGATGATCAAAACC
Found at i:745547 original size:11 final size:12
Alignment explanation
Indices: 745524--745567 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
745514 TGTCACATTC
745524 AAATTTAAAAAA
1 AAATTTAAAAAA
745536 AAATTTAAAAAA
1 AAATTTAAAAAA
*
745548 ATTATTTTTAAAAAA
1 A--A-ATTTAAAAAA
745563 AAATT
1 AAATT
745568 GGATATGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 15 0.56
13 1 0.04
14 1 0.04
15 10 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTTAAAAAA
Found at i:752568 original size:22 final size:22
Alignment explanation
Indices: 752543--752588 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
752533 TATCTGATCT
752543 TCGGTAAGAAGTAACTGACCTG
1 TCGGTAAGAAGTAACTGACCTG
752565 TCGGTAAGAAGTAACTGACCTG
1 TCGGTAAGAAGTAACTGACCTG
752587 TC
1 TC
752589 TTGCTCCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (22 bp):
TCGGTAAGAAGTAACTGACCTG
Found at i:753179 original size:31 final size:31
Alignment explanation
Indices: 753151--753252 Score: 177
Period size: 31 Copynumber: 3.3 Consensus size: 31
753141 CTAAAGAATC
*
753151 TAGGTAAACAGTCCATATGTCTCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
*
753182 TAGGTAAACAGTCCATATGTCCCAAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
753213 TAGGTAAACAGTCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
*
753244 TAGATAAAC
1 TAGGTAAAC
753253 CCTCGACTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (31 bp):
TAGGTAAACAGTCCATATGTCCCGAAGAACA
Found at i:753515 original size:2 final size:2
Alignment explanation
Indices: 753508--753547 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
753498 ATGTCTTATC
753508 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
753548 CACATGTTCA
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:758374 original size:31 final size:31
Alignment explanation
Indices: 758331--758393 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
758321 CTCGAAGGAC
758331 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
758362 CAGTTCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
758393 C
1 C
758394 CCTCGACTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:759903 original size:24 final size:20
Alignment explanation
Indices: 759850--759907 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
759840 TTCCCCTTGA
*
759850 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
759870 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
759893 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
759908 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:762921 original size:27 final size:22
Alignment explanation
Indices: 762873--762918 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
762863 TATCTGATCT
762873 TCGGTAAGAAGTAACTGACCTG
1 TCGGTAAGAAGTAACTGACCTG
762895 TCGGTAAGAAGTAACTGACCTG
1 TCGGTAAGAAGTAACTGACCTG
762917 TC
1 TC
762919 CTGCTCCGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (22 bp):
TCGGTAAGAAGTAACTGACCTG
Found at i:763500 original size:31 final size:31
Alignment explanation
Indices: 763457--763519 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
763447 CTCGAATGAC
763457 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
763488 CAGTTCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
763519 C
1 C
763520 CCTGGACTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:763786 original size:2 final size:2
Alignment explanation
Indices: 763773--763816 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
763763 ATGTCTTATC
*
763773 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
763815 AT
1 AT
763817 TCATATGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:763886 original size:2 final size:2
Alignment explanation
Indices: 763879--763908 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
763869 TTCATCTTCC
763879 TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
763909 TTCCTATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:765150 original size:64 final size:62
Alignment explanation
Indices: 765063--765202 Score: 149
Period size: 63 Copynumber: 2.2 Consensus size: 62
765053 TCCTTAACAT
* * *
765063 GTGCATCGATGCACTACCCATGCATCGATACACCAATCACCTTCGATGTTTTCAT-TTTAAGGGG
1 GTGCATCGATGCACTACCCATGCA-CGATACACCAATCACATTCGATG-TTTCATCTTTAA-AGA
* * * ** *
765127 GTGCATCGATGCACT-CCTTATGCACGATGCACTAATTGCATTCGATGTTTCTTCTTTAAAGA
1 GTGCATCGATGCACTACC-CATGCACGATACACCAATCACATTCGATGTTTCATCTTTAAAGA
765189 GTGCATCGATGCAC
1 GTGCATCGATGCAC
765203 ATTGAATGTG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
62 20 0.31
63 25 0.38
64 20 0.31
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (62 bp):
GTGCATCGATGCACTACCCATGCACGATACACCAATCACATTCGATGTTTCATCTTTAAAGA
Found at i:768980 original size:21 final size:21
Alignment explanation
Indices: 768954--769004 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
768944 TATGTCATAA
768954 AACCCTACGAGCTAGGAATGT
1 AACCCTACGAGCTAGGAATGT
** *
768975 AACCCTGTGGGCTAGGAATGT
1 AACCCTACGAGCTAGGAATGT
768996 AACCCTACG
1 AACCCTACG
769005 GAGATGGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.20
Consensus pattern (21 bp):
AACCCTACGAGCTAGGAATGT
Found at i:769027 original size:42 final size:42
Alignment explanation
Indices: 768981--769085 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
768971 ATGTAACCCT
*
768981 GTGGGCTAGGAATGTAACCCTACGGAGATGGCATATGAACTG
1 GTGGGCTAGGCATGTAACCCTACGGAGATGGCATATGAACTG
* * * * *
769023 GTGGGCTTGGCATAT-ACCCTTGCGGAGATGTCATCTGAACTG
1 GTGGGCTAGGCATGTAACCC-TACGGAGATGGCATATGAACTG
* * *
769065 GAGGACTAGGCATGTACCCCT
1 GTGGGCTAGGCATGTAACCCT
769086 GTGCCATCAT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 4 0.08
42 43 0.86
43 3 0.06
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (42 bp):
GTGGGCTAGGCATGTAACCCTACGGAGATGGCATATGAACTG
Found at i:770832 original size:15 final size:16
Alignment explanation
Indices: 770802--770847 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
770792 TAATTGATTA
770802 ATTAATTTAAATAAAT
1 ATTAATTTAAATAAAT
*
770818 ATTAA-TTATATAAAT
1 ATTAATTTAAATAAAT
* *
770833 ATTATTTTTAATAAA
1 ATTAATTTAAATAAA
770848 AAATAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTAATTTAAATAAAT
Found at i:775822 original size:31 final size:31
Alignment explanation
Indices: 775786--775844 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
775776 AACTTAAAAG
* *
775786 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
775817 AGTTTTACAATACTGAAATTTGAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
775845 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:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:775895 original size:22 final size:22
Alignment explanation
Indices: 775869--775911 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
775859 TAATAAATTA
775869 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
775891 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
775912 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:775918 original size:54 final size:54
Alignment explanation
Indices: 775859--776426 Score: 464
Period size: 54 Copynumber: 10.4 Consensus size: 54
775849 ACAACTACAA
775859 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
775913 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATACATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * * * *
775970 TTTTAAAATAAAT-AAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATAC
*
776029 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
776083 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
776140 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
** * ** * ** **
776194 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
776249 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * *
776297 TAATAAATTATTTAAAATAAATAAATCCATATTTTAAAAAAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
776351 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
776405 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
776427 TATTTTAAAC
Statistics
Matches: 427, Mismatches: 60, Indels: 54
0.79 0.11 0.10
Matches are distributed among these distances:
48 30 0.07
49 4 0.01
50 6 0.01
51 1 0.00
52 1 0.00
53 1 0.00
54 258 0.60
55 7 0.02
56 16 0.04
57 28 0.07
58 53 0.12
59 12 0.03
60 10 0.02
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:775920 original size:22 final size:22
Alignment explanation
Indices: 775871--775919 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
775861 ATAAATTATT
**
775871 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
775893 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
775916 TAAA
1 TAAA
775920 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:775970 original size:80 final size:80
Alignment explanation
Indices: 775874--776193 Score: 489
Period size: 80 Copynumber: 3.9 Consensus size: 80
775864 AATTATTTAA
775874 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
775939 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
775954 AATAAATCAATACATATTTTAAAATAAATAAATCAATCCATACAAATAAATTATTTAAAATAAAT
1 AATAAATCAATCCATATTTT---A-AAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
* *
776019 CAATCTATACTAA-TAAATTATTT
62 CAATCCATAC-AACTACA--A--T
*
776042 AAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
776107 ATCCATACAACTACAAT
64 ATCCATACAACTACAAT
776124 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
776189 CCATA
66 CCATA
776194 TTTTAAAATA
Statistics
Matches: 218, Mismatches: 10, Indels: 24
0.87 0.04 0.10
Matches are distributed among these distances:
80 88 0.40
82 1 0.00
83 1 0.00
84 52 0.24
85 4 0.02
86 51 0.23
87 1 0.00
88 1 0.00
90 19 0.09
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:776014 original size:14 final size:14
Alignment explanation
Indices: 775997--776050 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
775987 CAATCCATAC
775997 AAATAAATTATTTA
1 AAATAAATTATTTA
*
776011 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
776028 CTAATAAATTATTTA
1 -AAATAAATTATTTA
776043 AAATAAAT
1 AAATAAAT
776051 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:776016 original size:36 final size:36
Alignment explanation
Indices: 775971--776055 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 36
775961 CAATACATAT
775971 TTTAAAATAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATAAATCAATCCATACAAATAAATTA
* *
776007 TTT---A-AAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATAAATCAATCCATACAAATAAATTA
*
776039 TTTAAAATAAATCAATC
1 TTTAAAATAAATAAATC
776056 CATATTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
32 29 0.69
33 1 0.02
35 1 0.02
36 11 0.26
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (36 bp):
TTTAAAATAAATAAATCAATCCATACAAATAAATTA
Found at i:776065 original size:22 final size:22
Alignment explanation
Indices: 776039--776081 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
776029 TAATAAATTA
776039 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
776061 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
776082 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:776090 original size:22 final size:22
Alignment explanation
Indices: 776041--776089 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
776031 ATAAATTATT
**
776041 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
776063 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
776086 TAAA
1 TAAA
776090 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:776163 original size:134 final size:134
Alignment explanation
Indices: 776007--776381 Score: 698
Period size: 134 Copynumber: 2.8 Consensus size: 134
775997 AAATAAATTA
*
776007 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
776072 TCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
776137 ATAT
131 ATAT
776141 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
776206 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
776271 ATAT
131 ATAT
* *
776275 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATAAATCCATATTTTAAAAAAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
776340 TCAA-TCTATACTAATAAATTATTTAAAATAAATCAATCCATA
66 TCAATTC-ATACTAATAAATTATTTAAAATAAATCAATCCATA
776382 TTTTAAAATA
Statistics
Matches: 235, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
133 1 0.00
134 234 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (134 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
ATAT
Found at i:776170 original size:22 final size:23
Alignment explanation
Indices: 776095--776169 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
776085 ATAAATTATT
776095 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
776117 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
776143 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
776166 TAAA
1 TAAA
776170 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:776199 original size:22 final size:22
Alignment explanation
Indices: 776173--776215 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
776163 TAATAAATTA
776173 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
776195 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
776216 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:776207 original size:188 final size:185
Alignment explanation
Indices: 775874--776426 Score: 575
Period size: 188 Copynumber: 2.9 Consensus size: 185
775864 AATTATTTAA
** *
775874 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATAAATATTTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATAAAT
*** * ** * ** * * *
775939 CCATACAACTACAATAATAAATCAATACATA-TTTTAAAATAAAT-AAATCAATCCATACAAATA
63 CCATA-TTTTA-AA-AA-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-CAT-
776002 AATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAA
121 -A-T-TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATA----AAA
776067 ATA-AAT
179 ATACAAT
** * *
776073 CAATTCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC-AACTACA-A-T-AATAAATCA
1 -AATAAAT-C-AATAAATAT-TTTAAAATAAATCAATCCATACTAA-TAAATATTAAATAAATAA
*
776133 ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTT
61 ATCCATATTTTAAAAAAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTT
* * *
776198 AAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
126 AAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATAAAAATACAAT
**
776258 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATAAAT
1 AATAAATCAATAAATATTTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATAAAT
*
776323 CCATATTTTAAAAAAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA
63 CCATATTTTAAAAAAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA
776388 AATAAATCAAT-TCATACTAATAAATTATTTAAAATAAAT
128 AATAAATCAATCT-ATACTAATAAATTATTTAAAATAAAT
776427 TATTTTAAAC
Statistics
Matches: 307, Mismatches: 30, Indels: 44
0.81 0.08 0.12
Matches are distributed among these distances:
182 30 0.10
183 4 0.01
184 10 0.03
185 3 0.01
186 1 0.00
188 162 0.53
189 1 0.00
190 1 0.00
192 14 0.05
193 10 0.03
194 12 0.04
195 2 0.01
196 16 0.05
198 1 0.00
200 6 0.02
201 4 0.01
202 30 0.10
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (185 bp):
AATAAATCAATAAATATTTTAAAATAAATCAATCCATACTAATAAATATTAAATAAATAAATCCA
TATTTTAAAAAAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT
AAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATAAAAATACAAT
Found at i:776224 original size:22 final size:22
Alignment explanation
Indices: 776175--776223 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
776165 ATAAATTATT
**
776175 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
776197 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
776220 TAAA
1 TAAA
776224 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:776262 original size:80 final size:80
Alignment explanation
Indices: 776178--776327 Score: 291
Period size: 80 Copynumber: 1.9 Consensus size: 80
776168 AATTATTTAA
*
776178 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATAAAT
776243 CCATACAACTACAAT
66 CCATACAACTACAAT
776258 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATAAAT
776323 CCATA
66 CCATA
776328 TTTTAAAAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATAAAT
CCATACAACTACAAT
Found at i:776304 original size:22 final size:23
Alignment explanation
Indices: 776229--776303 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
776219 ATAAATTATT
776229 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
776251 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
776277 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
776300 TAAA
1 TAAA
776304 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:776387 original size:22 final size:22
Alignment explanation
Indices: 776361--776463 Score: 80
Period size: 22 Copynumber: 4.5 Consensus size: 22
776351 TAATAAATTA
776361 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
776383 TTTAAAATAAATCAATTCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
776406 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
*
776430 TTTAAACTAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
776452 TTTATAATAAAT
1 TTTAAAATAAAT
776464 TATTTTAAAA
Statistics
Matches: 59, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
22 33 0.56
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:776435 original size:15 final size:15
Alignment explanation
Indices: 776406--776591 Score: 190
Period size: 15 Copynumber: 12.5 Consensus size: 15
776396 AATTCATACT
776406 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
776420 AATAAATTATTTTAAACTA
1 AATAAATTATTTT--A--A
* *
776439 AATCAATCCATATTTTAT
1 AATAAAT---TATTTTAA
776457 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
776472 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
776487 AATAAATTGTTTTAA
1 AATAAATTATTTTAA
* *
776502 AACAAATTATTTTAT
1 AATAAATTATTTTAA
776517 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
776532 AATAAATTATTTTAT
1 AATAAATTATTTTAA
776547 AATAAATTA-TTT--
1 AATAAATTATTTTAA
776559 --TAAA--ATTTTAA
1 AATAAATTATTTTAA
776570 AATAAATTATTTTAA
1 AATAAATTATTTTAA
776585 AATAAAT
1 AATAAAT
776592 AACCTTATTA
Statistics
Matches: 144, Mismatches: 13, Indels: 29
0.77 0.07 0.16
Matches are distributed among these distances:
8 1 0.01
9 3 0.02
10 4 0.03
13 4 0.03
14 12 0.08
15 99 0.69
17 1 0.01
18 6 0.04
19 7 0.05
20 1 0.01
22 6 0.04
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:776442 original size:69 final size:67
Alignment explanation
Indices: 776352--776564 Score: 228
Period size: 60 Copynumber: 3.3 Consensus size: 67
776342 AATCTATACT
*
776352 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTA-
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAAT-AATT-ATA-AAATAAATTAT
776415 TTTAA
63 TTTAA
* * * *
776420 AATAAATTATTTTAAACTAAATCAATCCATATTTTATAATAAATTATTTTAAAATAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATAATTATAAAATAAATTATTTT
*
776485 AT
66 AA
* * * * *
776487 AATAAATTGTTTT-AAA-ACA--AAT---TATTTTATAATAAATTATTTTAAAATAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATAATTATAAAATAAATTATTTT
*
776545 AT
66 AA
776547 AATAAATTATTTTAAAAT
1 AATAAATTATTTTAAAAT
776565 TTTAAAATAA
Statistics
Matches: 131, Mismatches: 10, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
60 50 0.38
61 3 0.02
63 3 0.02
65 2 0.02
66 11 0.08
67 18 0.14
68 12 0.09
69 32 0.24
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.44
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATAATTATAAAATAAATTATTTT
AA
Found at i:776462 original size:37 final size:37
Alignment explanation
Indices: 776352--776478 Score: 140
Period size: 37 Copynumber: 3.6 Consensus size: 37
776342 AATCTATACT
776352 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAA
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAA
* * * * * *
776388 AATAAATCAATTCATACT-AATAAAT---TA-TTTAA
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAA
* *
776420 AATAAATTATTTTAAACTAAATCAATCCATATTTTAT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAA
776457 AATAAATTATTTTAAAATAAAT
1 AATAAATTATTTTAAAATAAAT
776479 TATTTTATAA
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
32 19 0.26
33 8 0.11
36 16 0.22
37 30 0.41
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (37 bp):
AATAAATTATTTTAAAATAAATCAATCCATATTTTAA
Found at i:776483 original size:30 final size:30
Alignment explanation
Indices: 776449--776633 Score: 217
Period size: 30 Copynumber: 6.4 Consensus size: 30
776439 AATCAATCCA
776449 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
* *
776479 TATTTTATAATAAATTGTTTTAAAACAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
776509 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
776539 TATTTTATAATAAATTA-TTT----TAAA-
1 TATTTTATAATAAATTATTTTAAAATAAAT
*
776563 -ATTTTAAAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
* ** *
776592 AACCTTAT--TAAATTATTTTAATAAATAACT
1 TATTTTATAATAAATTATTTT-A-AAATAAAT
776622 ATATTTTATAAT
1 -TATTTTATAAT
776634 TATTCTTGAA
Statistics
Matches: 131, Mismatches: 12, Indels: 21
0.80 0.07 0.13
Matches are distributed among these distances:
23 15 0.11
24 3 0.02
25 4 0.03
28 15 0.11
29 4 0.03
30 84 0.64
31 5 0.04
33 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAAAATAAAT
Found at i:776567 original size:23 final size:23
Alignment explanation
Indices: 776540--776587 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
776530 AAAATAAATT
*
776540 ATTTTATAATAAATTATTTTAAA
1 ATTTTAAAATAAATTATTTTAAA
776563 ATTTTAAAATAAATTATTTTAAA
1 ATTTTAAAATAAATTATTTTAAA
776586 AT
1 AT
776588 AAATAACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTTAAAATAAATTATTTTAAA
Found at i:776588 original size:53 final size:51
Alignment explanation
Indices: 776510--776612 Score: 152
Period size: 53 Copynumber: 2.0 Consensus size: 51
776500 AAAACAAATT
* * **
776510 ATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAATTATTTTAAA
1 ATTTTAAAATAAATTATTTTAAAATAAATAACCTTAT--TAAATTATTTTAAA
776563 ATTTTAAAATAAATTATTTTAAAATAAATAACCTTATTAAATTATTTTAA
1 ATTTTAAAATAAATTATTTTAAAATAAATAACCTTATTAAATTATTTTAA
776613 TAAATAACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 13 0.28
53 33 0.72
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.49
Consensus pattern (51 bp):
ATTTTAAAATAAATTATTTTAAAATAAATAACCTTATTAAATTATTTTAAA
Found at i:776619 original size:68 final size:68
Alignment explanation
Indices: 776496--776634 Score: 165
Period size: 68 Copynumber: 2.0 Consensus size: 68
776486 TAATAAATTG
* * **
776496 TTTTAAAACAAATTATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT-TATTTT
1 TTTTAAAACAAATTATTTTAAAATAAATAACCTT-AAATAAATTATTTTATAATAAATATATTTT
776560 AAAA
65 AAAA
* * *
776564 TTTTAAAATAAATTATTTTAAAATAAATAACCTT-ATTAAATTATTTTAATAAATAACTATATTT
1 TTTTAAAACAAATTATTTTAAAATAAATAACCTTAAATAAATTATTTT-AT-AATAAATATATTT
*
776628 TATAA
64 TAAAA
776633 TT
1 TT
776635 ATTCTTGAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
66 12 0.20
67 2 0.03
68 35 0.58
69 11 0.18
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (68 bp):
TTTTAAAACAAATTATTTTAAAATAAATAACCTTAAATAAATTATTTTATAATAAATATATTTTA
AAA
Found at i:777198 original size:28 final size:30
Alignment explanation
Indices: 777166--777222 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
777156 ATCCTTTTAA
* *
777166 TTTTGAATA-TT-AAAATATAATTATATAC
1 TTTTGAATATTTCAAAATAAAATAATATAC
*
777194 TTTTGTATATTTCAAAATAAAATAATATA
1 TTTTGAATATTTCAAAATAAAATAATATA
777223 TGTTTAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 14 0.58
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (30 bp):
TTTTGAATATTTCAAAATAAAATAATATAC
Found at i:777407 original size:189 final size:190
Alignment explanation
Indices: 777073--777465 Score: 517
Period size: 190 Copynumber: 2.1 Consensus size: 190
777063 TTTTTTTACT
* * * * *
777073 ATTGTAAATTAAAATATAATTTTTAATTTGAATATAGTAGGATAATTACTCTTTTAATAAGTCAA
1 ATTGCAAATT-AAATATAATTTTTAATTTGAATATAATAGGATAATTACACTTTGAATAAGTAAA
* *
777138 TCTAAAAAGGTATTTGTTATCCTTTTAATTTTGAATATTAAAATATAATTATATACTTTTGTATA
65 TCTAAAAAGGTATTTGTTATCCTTTTAACTTTGAATATTAAAAGATAATTATATACTTTTGTATA
* * *
777203 TTTCAAAATAAAATAATATATGTTTAAGTTTGAATAGTAAAAGGA-TCTTACCTTTTGACC
130 TTTCAAAATAAAATAATACATATTTAAGTTTGAATAGTAAAAGGAGTCTTACCTTTTGAAC
* *
777263 ATTGCAAATTAAATAT-ATTATTTAATTTTAATATTAATAGGATAATTACACTTTGAATATGTAA
1 ATTGCAAATTAAATATAATT-TTTAATTTGAATA-TAATAGGATAATTACACTTTGAATAAGTAA
* *
777327 A-CTTAAAAAGGTATTTGTTA-CATTTTTAACTTTGAATATT-AAAGATAATTATATTCTTTTGT
64 ATC-TAAAAAGGTATTTGTTATC-CTTTTAACTTTGAATATTAAAAGATAATTATATACTTTTGT
* * * * * *
777389 ATATTTCAAATTAAAATAATACCTATTTAAGTTTGAATAGTAAAATGAGTTTTATCTTTTGAAT
127 ATATTTCAAAATAAAATAATACATATTTAAGTTTGAATAGTAAAAGGAGTCTTACCTTTTGAAC
*
777453 ATTTCAAATTAAA
1 ATTGCAAATTAAA
777466 AGATATTTTT
Statistics
Matches: 177, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
188 3 0.02
189 83 0.47
190 91 0.51
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.44
Consensus pattern (190 bp):
ATTGCAAATTAAATATAATTTTTAATTTGAATATAATAGGATAATTACACTTTGAATAAGTAAAT
CTAAAAAGGTATTTGTTATCCTTTTAACTTTGAATATTAAAAGATAATTATATACTTTTGTATAT
TTCAAAATAAAATAATACATATTTAAGTTTGAATAGTAAAAGGAGTCTTACCTTTTGAAC
Found at i:777476 original size:34 final size:34
Alignment explanation
Indices: 777438--777507 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
777428 GTAAAATGAG
*
777438 TTTTATCT-TTTGAATATTTCAA-ATTAAAAGATAT
1 TTTTATCTATTT-AAT-GTTCAATATTAAAAGATAT
*
777472 TTTTATCTATTTAATGTTGAATATTAAAAGATAT
1 TTTTATCTATTTAATGTTCAATATTAAAAGATAT
777506 TT
1 TT
777508 GGTTTGATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 4 0.12
34 25 0.78
35 3 0.09
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.51
Consensus pattern (34 bp):
TTTTATCTATTTAATGTTCAATATTAAAAGATAT
Found at i:781263 original size:190 final size:190
Alignment explanation
Indices: 780861--781269 Score: 540
Period size: 190 Copynumber: 2.1 Consensus size: 190
780851 AATTAATAGT
* *
780861 CCTTTTGACTATTGCAAATTAAAAGATAATTTTTAATTTGAATATTAGTATGATAATTACTCTTT
1 CCTTTTGACTATTTCAAATT-AAAGATAATTTTTAATTTGAATATTAGTAGGATAATTACTCTTT
* * * * * *
780926 TAATAAGTCAATTTAAAAAGGTATTTGTTATCTTTTTAATTTTGAATGTTAAAAGACAATTATAT
65 GAATAAGTCAACTTAAAAAGGTATTTGTTACCATTTTAACTTTGAATATTAAAAGACAATTATAT
** * *
780991 ACTTTTTTATATTTCAAATTAAAATAATATATGTTTAAGTTTGAATAGTAAAAGGAGTTTA
130 ACTTTTGCATATTTCAAATTAAAATAATACATATTTAAGTTTGAATAGTAAAAGGAGTTTA
* *
781052 CCATTTT-ACCATTGT-AAATTAAATAT-ATTATTTAATTTGAATATTAGTAGGATAATTACTCT
1 CC-TTTTGACTATT-TCAAATTAAAGATAATT-TTTAATTTGAATATTAGTAGGATAATTACTCT
* * *
781114 TTGAATATGTCAACTTAAAAAGGTATTTGTTACCATTTTAACTTTGAATATT-ACAGATAATTAT
63 TTGAATAAGTCAACTTAAAAAGGTATTTGTTACCATTTTAACTTTGAATATTAAAAGACAATTAT
*
781178 ATACTTTTGCATATTTCAAATTAAAATAATACATATTTAAGTTTGAATGGTAAATA-GAGTTTTA
128 ATACTTTTGCATATTTCAAATTAAAATAATACATATTTAAGTTTGAATAGTAAA-AGGAG-TTTA
* *
781242 TCTTTTGAATATTTCAAATTAAAAGATA
1 CCTTTTGACTATTTCAAATT-AAAGATA
781270 TTGTTATCTA
Statistics
Matches: 187, Mismatches: 22, Indels: 17
0.83 0.10 0.08
Matches are distributed among these distances:
189 70 0.37
190 96 0.51
191 17 0.09
192 4 0.02
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (190 bp):
CCTTTTGACTATTTCAAATTAAAGATAATTTTTAATTTGAATATTAGTAGGATAATTACTCTTTG
AATAAGTCAACTTAAAAAGGTATTTGTTACCATTTTAACTTTGAATATTAAAAGACAATTATATA
CTTTTGCATATTTCAAATTAAAATAATACATATTTAAGTTTGAATAGTAAAAGGAGTTTA
Found at i:784271 original size:61 final size:62
Alignment explanation
Indices: 784164--784284 Score: 142
Period size: 61 Copynumber: 2.0 Consensus size: 62
784154 CTCTACACCC
784164 AATGGGTCTAAGGGTAAGTCCTTATGGACCTAAGGCACCCCGTTAGGATTG-ATCTTATGCCA
1 AATGGGTCTAAGGGTAAGTCCTTATGGACCTAAGGCACCCCGTTAGG-TTGTATCTTATGCCA
* ** * *
784226 AATGGG-CTTAGGGTAAGTTTTTATGGATCC-AAGGCA-TCCGCTTAGGTTGTCTCTTATGC
1 AATGGGTCTAAGGGTAAGTCCTTATGGA-CCTAAGGCACCCCG-TTAGGTTGTATCTTATGC
784285 TTCGACTAGG
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
60 6 0.12
61 37 0.73
62 8 0.16
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (62 bp):
AATGGGTCTAAGGGTAAGTCCTTATGGACCTAAGGCACCCCGTTAGGTTGTATCTTATGCCA
Found at i:785085 original size:30 final size:30
Alignment explanation
Indices: 785049--785120 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
785039 TTCTCCTGTG
785049 TCCCAGTATCTTATTCGCTATCCTCTCCTA
1 TCCCAGTATCTTATTCGCTATCCTCTCCTA
785079 TCCCAGTATCTTATTCGCTATCCTCTCCTA
1 TCCCAGTATCTTATTCGCTATCCTCTCCTA
785109 TCCCAGTATCTT
1 TCCCAGTATCTT
785121 CAACTCCATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.17, C:0.36, G:0.07, T:0.40
Consensus pattern (30 bp):
TCCCAGTATCTTATTCGCTATCCTCTCCTA
Found at i:789285 original size:13 final size:13
Alignment explanation
Indices: 789269--789314 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
789259 GCTCAATGAA
789269 CGTCATAAATGCG
1 CGTCATAAATGCG
*
789282 CGTCATAAATGTG
1 CGTCATAAATGCG
*
789295 TGTCATAAATGCG
1 CGTCATAAATGCG
789308 CGTCATA
1 CGTCATA
789315 GATTTATGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:789287 original size:84 final size:84
Alignment explanation
Indices: 789127--789288 Score: 197
Period size: 84 Copynumber: 1.9 Consensus size: 84
789117 ATACAATCAC
* *
789127 GACACACGAATGTGTGTCATCTTTTCTAATGACATGTGCTTCAATGACACGCAATGTAAGTCATA
1 GACACACAAATGTGTGTCATCTTTTCTAATGACA-GGGCTTCAATGACACGCAATGTAAGTCATA
* *
789192 CATGCGTGTCATATATTTAT
65 AATGCGCGTCATATATTTAT
* *
789212 GACACACAAATGTGTGTCATCTTAATT-T-ATGAC-GGGACTTCAATGACGCTCAATG-AACGTC
1 GACACACAAATGTGTGTCATCTT--TTCTAATGACAGGG-CTTCAATGACACGCAATGTAA-GTC
789273 ATAAATGCGCGTCATA
62 ATAAATGCGCGTCATA
789289 AATGTGTGTC
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
83 4 0.06
84 33 0.49
85 27 0.40
86 1 0.01
87 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (84 bp):
GACACACAAATGTGTGTCATCTTTTCTAATGACAGGGCTTCAATGACACGCAATGTAAGTCATAA
ATGCGCGTCATATATTTAT
Found at i:789292 original size:26 final size:26
Alignment explanation
Indices: 789263--789314 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
789253 AATGACGCTC
789263 AATGAACGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
***
789289 AATGTGTGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
789315 GATTTATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (26 bp):
AATGAACGTCATAAATGCGCGTCATA
Found at i:793290 original size:37 final size:37
Alignment explanation
Indices: 793249--793324 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
793239 AAATAATTCC
793249 AAGTGTAATGATTAATTAGTATAACAATTAACCTTAA
1 AAGTGTAATGATTAATTAGTATAACAATTAACCTTAA
793286 AAGTGTAATGATTAATTAGTATAACAATTAACCTTAA
1 AAGTGTAATGATTAATTAGTATAACAATTAACCTTAA
793323 AA
1 AA
793325 TCCTTAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (37 bp):
AAGTGTAATGATTAATTAGTATAACAATTAACCTTAA
Found at i:798134 original size:2 final size:2
Alignment explanation
Indices: 798127--798162 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
798117 GATTATACAT
798127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
798163 GAATATAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:799985 original size:22 final size:22
Alignment explanation
Indices: 799959--800004 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
799949 CTACAAGAGA
*
799959 AATAAAAAATAAAAATATTAAT
1 AATAAAAAATAAAAATAGTAAT
** *
799981 AATAATTAATAATAATAGTAAT
1 AATAAAAAATAAAAATAGTAAT
800003 AA
1 AA
800005 CATAAAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AATAAAAAATAAAAATAGTAAT
Found at i:800769 original size:41 final size:42
Alignment explanation
Indices: 800720--800816 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
800710 TTATGGATGG
* * *
800720 CCCAAAGGATTTAT-CATCTTGCTCGAAAGGCTTACAGATAA
1 CCCAAAGGATTTATGCATCATGCTCGAAAGACTTACAGACAA
* * * *
800761 CCCGAAGGATTTATGCATCATGCTTGAAAGACTTACTGACGA
1 CCCAAAGGATTTATGCATCATGCTCGAAAGACTTACAGACAA
800803 CCCAAAGGATTTAT
1 CCCAAAGGATTTAT
800817 AAATTTTGGA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 13 0.28
42 34 0.72
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
CCCAAAGGATTTATGCATCATGCTCGAAAGACTTACAGACAA
Found at i:801025 original size:233 final size:233
Alignment explanation
Indices: 800688--801609 Score: 1344
Period size: 233 Copynumber: 4.0 Consensus size: 233
800678 AAAATCATAC
* *
800688 GAAAACATCCTGCTCGAAGGACTTATGGATGGCCCAAAGGATTTATCATCTTGCTCGAAAGGCTT
1 GAAAACATCCTGCCCGAAGGACTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGCTT
* * * * * *
800753 ACAGATAACCCGAAGGATTTATGCATCATGCTTGAAAGACTTACTGACGACCCAAAGGATTTATA
66 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTATA
* * * * *
800818 AATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTTTTACTTTTCAACAATTTTAAATCTCAGAT
131 AATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTCAAAT
*
800883 TTAAATGAGAAACATTTCTCATATTTTAATAGACATTT
196 TTAAATGAGAAACATTTCTCATATTTTAATAGACATGT
* *
800921 GAAAACATCATGCCCGAAGGACTTATGGATGGACCAAAGGACTTATCATCTTGCTCGAAAGGCTT
1 GAAAACATCCTGCCCGAAGGACTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGCTT
*
800986 ACGGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTATA
66 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTATA
* * *
801051 AATTTTGGAAATAGTTTATTGGGTAAGAAACCTTTCTTACTTTTCAAAAATTTC-AATTTCATAT
131 AATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTCAAAT
* * *
801115 TTAAATGAGAAACATTTCCCATATTTCAATAGACATGC
196 TTAAATGAGAAACATTTCTCATATTTTAATAGACATGT
* * * **
801153 GAAAACATCCTGCTCAAAGGTCTTATGGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGGCTT
1 GAAAACATCCTGCCCGAAGGACTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGCTT
* * * * *
801218 ACGGATGACCCAAAGGATTTAAGCATCATGTTCAAAAGACTTACTGATGGCCCGAAGGACTTATA
66 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTATA
* * * *
801283 AATTTTAGAAATAGTTTACTAGGTAATAAACCTTTCTTACTTTTTAAAAATTTCAATTTTCAAAT
131 AATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTCAAAT
* * *
801348 TTGAATGAGAAACCTTTCTCATATTTTGATAGACATGT
196 TTAAATGAGAAACATTTCTCATATTTTAATAGACATGT
* * * *
801386 GAAAACATCCTGCCCGAAAGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTT
1 GAAAACATCCTGCCCGAAGGACTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGCTT
* * * * *
801451 ACAGATGACCCGAAGGATTTAATCATCGTGCTCGAAAGACTTACTAATGGCCCGAATGACTTATA
66 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTATA
* *
801516 AATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTAATTTTCAAAAATTTCAATTTTCAAAT
131 AATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTCAAAT
* *
801581 TTGAATGAGAAATC-TTTCTCATTTTTTAA
196 TTAAATGAGAAA-CATTTCTCATATTTTAA
801610 CTTATAAAAC
Statistics
Matches: 622, Mismatches: 65, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
232 210 0.34
233 411 0.66
234 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (233 bp):
GAAAACATCCTGCCCGAAGGACTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGCTT
ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTATA
AATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTCAAAT
TTAAATGAGAAACATTTCTCATATTTTAATAGACATGT
Found at i:801046 original size:20 final size:20
Alignment explanation
Indices: 800979--801048 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
800969 TCTTGCTCGA
*
800979 AAGG-CTTACGGATGACCCG
1 AAGGACTTACTGATGACCCG
* * *
800998 AAGGATTTAAGCATCATG-CTCG
1 AAGGACTT-A-C-TGATGACCCG
*
801020 AAAGACTTACTGATGACCCG
1 AAGGACTTACTGATGACCCG
801040 AAGGACTTA
1 AAGGACTTA
801049 TAAATTTTGG
Statistics
Matches: 37, Mismatches: 9, Indels: 9
0.67 0.16 0.16
Matches are distributed among these distances:
19 8 0.22
20 14 0.38
21 2 0.05
22 10 0.27
23 3 0.08
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (20 bp):
AAGGACTTACTGATGACCCG
Found at i:801224 original size:41 final size:40
Alignment explanation
Indices: 801158--801281 Score: 113
Period size: 42 Copynumber: 3.0 Consensus size: 40
801148 CATGCGAAAA
* * *
801158 CATCCTGCTCAAAGGTCTTATGGATGGCCTGAAGGACTTAT
1 CATCATGCTCAAAGG-CTTACGGATGGCCCGAAGGACTTAT
* * * * *
801199 CATCTTGCTCGAAAGGCTTACGGATGACCCAAAGGATTTAAG
1 CATCATGCTC-AAAGGCTTACGGATGGCCCGAAGGACTT-AT
* * *
801241 CATCATGTTCAAAAGACTTACTGATGGCCCGAAGGACTTAT
1 CATCATGCTC-AAAGGCTTACGGATGGCCCGAAGGACTTAT
801282 AAATTTTAGA
Statistics
Matches: 65, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
41 28 0.43
42 37 0.57
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (40 bp):
CATCATGCTCAAAGGCTTACGGATGGCCCGAAGGACTTAT
Found at i:801463 original size:41 final size:42
Alignment explanation
Indices: 801391--801514 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 42
801381 CATGTGAAAA
* * * *
801391 CATCCTGCCCGAAAGTCTTA-TGGATGGCCCGAAGGACTTAT
1 CATCGTGCTCGAAAGACTTACTAGATGGCCCGAAGGACTTAT
* * *
801432 CATCTTGCTCGAAAGACTTAC-AGATGACCCGAAGGATTTAAT
1 CATCGTGCTCGAAAGACTTACTAGATGGCCCGAAGGACTT-AT
*
801474 CATCGTGCTCGAAAGACTTACTA-ATGGCCCGAATGACTTAT
1 CATCGTGCTCGAAAGACTTACTAGATGGCCCGAAGGACTTAT
801515 AAATTTTGGA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 34 0.49
42 35 0.50
43 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (42 bp):
CATCGTGCTCGAAAGACTTACTAGATGGCCCGAAGGACTTAT
Found at i:801562 original size:465 final size:466
Alignment explanation
Indices: 800687--801592 Score: 1393
Period size: 465 Copynumber: 1.9 Consensus size: 466
800677 GAAAATCATA
* *
800687 CGAAAACATCCTGCTCGAAGGACTTATGGATGGCCCAAAGGATTTATCATCTTGCTCGAAAGGCT
1 CGAAAACATCCTGCTCAAAGGACTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGCT
* * * *
800752 TACAGATAACCCGAAGGATTTATGCATCATGCTTGAAAGACTTACTGACGACCCAAAGGATTTAT
66 TACAGATAACCCAAAGGATTTAAGCATCATGCTTAAAAGACTTACTGACGACCCAAAGGACTTAT
* * * * *
800817 AAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTTTTACTTTTCAACAATTTTAAATCTCAGA
131 AAATTTTAGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATCTCAAA
* *
800882 TTTAAATGAGAAACATTTCTCATATTTTAATAGACATTTGAAAACATCATGCCCGAAGGACTTAT
196 TTTAAATGAGAAACATTTCTCATATTTTAATAGACATGTGAAAACATCATGCCCGAAAGACTTAT
* *
800947 GGATGGACCAAAGGACTTATCATCTTGCTCGAAAGGCTTACGGATGACCCGAAGGATTTAAGCAT
261 GGATGGACCAAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCAT
* * *
801012 CATGCTCGAAAGACTTACTGATGACCCGAAGGACTTATAAATTTTGGAAATAGTTTATTGGGTAA
326 CATGCTCGAAAGACTTACTAATGACCCGAAGGACTTATAAATTTTGGAAATAGTTTACTAGGTAA
* *
801077 GAAACCTTTCTTACTTTTCAAAAATTTCAA-TTTCATATTTAAATGAGAAACATTTCCCATATTT
391 GAAACCTTTCTTAATTTTCAAAAATTTCAATTTTCAAATTTAAATGAGAAACATTTCCCATATTT
801141 CAATAGACATG
456 CAATAGACATG
* **
801152 CGAAAACATCCTGCTCAAAGGTCTTATGGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGGCT
1 CGAAAACATCCTGCTCAAAGGACTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGCT
* * * * *
801217 TACGGATGACCCAAAGGATTTAAGCATCATG-TTCAAAAGACTTACTGATGGCCCGAAGGACTTA
66 TACAGATAACCCAAAGGATTTAAGCATCATGCTT-AAAAGACTTACTGACGACCCAAAGGACTTA
* * * *
801281 TAAATTTTAGAAATAGTTTACTAGGTAATAAACCTTTCTTACTTTTTAAAAATTTCAATTTTCAA
130 TAAATTTTAGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATCTCAA
* * * * *
801346 ATTTGAATGAGAAACCTTTCTCATATTTTGATAGACATGTGAAAACATCCTGCCCGAAAGTCTTA
195 ATTTAAATGAGAAACATTTCTCATATTTTAATAGACATGTGAAAACATCATGCCCGAAAGACTTA
* * *
801411 TGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAATCA
260 TGGATGGACCAAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCA
* * *
801476 TCGTGCTCGAAAGACTTACTAATGGCCCGAATGACTTATAAATTTTGGAAATAGTTTACTAGGTA
325 TCATGCTCGAAAGACTTACTAATGACCCGAAGGACTTATAAATTTTGGAAATAGTTTACTAGGTA
*
801541 AGAAACCTTTCTTAATTTTCAAAAATTTCAATTTTCAAATTTGAATGAGAAA
390 AGAAACCTTTCTTAATTTTCAAAAATTTCAATTTTCAAATTTAAATGAGAAA
801593 TCTTTCTCAT
Statistics
Matches: 395, Mismatches: 44, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
464 2 0.01
465 375 0.95
466 18 0.05
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (466 bp):
CGAAAACATCCTGCTCAAAGGACTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGCT
TACAGATAACCCAAAGGATTTAAGCATCATGCTTAAAAGACTTACTGACGACCCAAAGGACTTAT
AAATTTTAGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATCTCAAA
TTTAAATGAGAAACATTTCTCATATTTTAATAGACATGTGAAAACATCATGCCCGAAAGACTTAT
GGATGGACCAAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCAT
CATGCTCGAAAGACTTACTAATGACCCGAAGGACTTATAAATTTTGGAAATAGTTTACTAGGTAA
GAAACCTTTCTTAATTTTCAAAAATTTCAATTTTCAAATTTAAATGAGAAACATTTCCCATATTT
CAATAGACATG
Found at i:803813 original size:2 final size:2
Alignment explanation
Indices: 803806--803871 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
803796 ACAACAAGGG
803806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
803848 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
803872 TTAAAAGGAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:815887 original size:23 final size:23
Alignment explanation
Indices: 815859--815921 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
815849 ATCCCCCCAT
815859 GGGGAACCGATTCCCCCTTTGAA
1 GGGGAACCGATTCCCCCTTTGAA
815882 GGGGAACCGATTCCCCCTTTGAA
1 GGGGAACCGATTCCCCCTTTGAA
*
815905 GGGGAATCGATTCCCCC
1 GGGGAACCGATTCCCCC
815922 CACAGGGGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.32, G:0.27, T:0.21
Consensus pattern (23 bp):
GGGGAACCGATTCCCCCTTTGAA
Done.