Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_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: 3296903
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 19
Found at i:1765028 original size:19 final size:19
Alignment explanation
Indices: 1764983--1765026 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1764973 CCACAAAACA
**
1764983 GAAT-AAATGAAATTAAAT
1 GAATAAAATGAAAAGAAAT
1765001 GAATAAAATGAAAAGAAAT
1 GAATAAAATGAAAAGAAAT
1765020 -AATAAAA
1 GAATAAAA
1765027 ATAAAAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.20
Consensus pattern (19 bp):
GAATAAAATGAAAAGAAAT
Found at i:1765165 original size:32 final size:32
Alignment explanation
Indices: 1765129--1765196 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
1765119 ACTATATACC
1765129 ATAT-AGTTTTCAAAAATGA-TTTTAAAAATATT
1 ATATAAGTTTTCAAAAAT-ATTTTTAAAAATA-T
* *
1765161 ATATAAGTTTTCCAAAATATTTTTAAAACTAT
1 ATATAAGTTTTCAAAAATATTTTTAAAAATAT
1765193 ATAT
1 ATAT
1765197 TATATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 10 0.31
33 22 0.69
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (32 bp):
ATATAAGTTTTCAAAAATATTTTTAAAAATAT
Found at i:1765214 original size:37 final size:36
Alignment explanation
Indices: 1765156--1765322 Score: 123
Period size: 35 Copynumber: 4.6 Consensus size: 36
1765146 GATTTTAAAA
*
1765156 ATATTATATAAGTTTTCCAAAATATTTTTAAAACTAT
1 ATATTATATAAATTTT-CAAAATATTTTTAAAACTAT
* *
1765193 ATATTATATAAATTTTTCAAAAATGTTTTTTTTAAACTAT
1 ATATTATATAAA-TTTTC-AAAA--TATTTTTAAAACTAT
* * *
1765233 ACA-T-TAT--ATTTTCAAAATGA-TTTCAAAAATAT
1 ATATTATATAAATTTTCAAAAT-ATTTTTAAAACTAT
* *
1765265 ATGTTATAT-AATTTTCAAAAT-GTTTTAAAACTTAT
1 ATATTATATAAATTTTCAAAATATTTTTAAAAC-TAT
*
1765300 ATATTGTATATAAGTTTTCAAAA
1 ATA-T-TATATAAATTTTCAAAA
1765323 ACGTTTTAAA
Statistics
Matches: 103, Mismatches: 14, Indels: 25
0.73 0.10 0.18
Matches are distributed among these distances:
32 11 0.11
33 1 0.01
34 14 0.14
35 21 0.20
36 2 0.02
37 17 0.17
38 21 0.20
39 1 0.01
40 15 0.15
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.47
Consensus pattern (36 bp):
ATATTATATAAATTTTCAAAATATTTTTAAAACTAT
Found at i:1765284 original size:107 final size:108
Alignment explanation
Indices: 1765130--1765329 Score: 268
Period size: 107 Copynumber: 1.9 Consensus size: 108
1765120 CTATATACCA
* *
1765130 TATAGTTTTCAAAAATGATTTTAAAAATATTATATAAGTTTTCCAAAATATTTTTAAAAC-TATA
1 TATAGTTTTCAAAAATGATTTAAAAAATATTATATAAGTTTTCCAAAAT-GTTTTAAAACTTATA
* *
1765194 TATTATATA-AATTTTTCAAAAATGTTTTTTTTAAACTATACAT
65 TATTATATATAAGTTTTCAAAAACGTTTTTTTTAAACTATACAT
1765237 TATA-TTTTC-AAAATGATTTCAAAAATATATGTTATATAA-TTTT-CAAAATGTTTTAAAACTT
1 TATAGTTTTCAAAAATGATTT-AAAAA-ATA--TTATATAAGTTTTCCAAAATGTTTTAAAACTT
*
1765298 ATATATTGTATATAAGTTTTCAAAAACGTTTT
62 ATATATTATATATAAGTTTTCAAAAACGTTTT
1765330 AAAAAAAACT
Statistics
Matches: 82, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
105 10 0.12
106 18 0.22
107 25 0.30
108 21 0.26
109 8 0.10
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (108 bp):
TATAGTTTTCAAAAATGATTTAAAAAATATTATATAAGTTTTCCAAAATGTTTTAAAACTTATAT
ATTATATATAAGTTTTCAAAAACGTTTTTTTTAAACTATACAT
Found at i:1765358 original size:40 final size:36
Alignment explanation
Indices: 1765257--1765358 Score: 105
Period size: 40 Copynumber: 2.6 Consensus size: 36
1765247 AAATGATTTC
*
1765257 AAAAATATATGTTATATAATTTTCAAAATGTTTTAAA
1 AAAAATATAT-TTATATAATTTTCAAAACGTTTTAAA
***
1765294 ACTTATATATTGTATATAAGTTTTCAAAAACGTTTTAAA
1 AAAAATATATT-TATATAA-TTTTC-AAAACGTTTTAAA
1765333 AAAAACTATATTATATATATATTTTC
1 AAAAA-TATATT-TATATA-ATTTTC
1765359 GGAAATCGTT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
36 1 0.02
37 14 0.27
38 5 0.10
39 14 0.27
40 17 0.33
41 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (36 bp):
AAAAATATATTTATATAATTTTCAAAACGTTTTAAA
Found at i:1768437 original size:23 final size:22
Alignment explanation
Indices: 1768406--1768449 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1768396 AATTTTTGTG
*
1768406 TTTTCTTTTAAAATATATTATAA
1 TTTTATTTTAAAA-ATATTATAA
*
1768429 TTTTATTTTAAAAATTTTATA
1 TTTTATTTTAAAAATATTATA
1768450 TAAAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTATTTTAAAAATATTATAA
Found at i:1773986 original size:15 final size:17
Alignment explanation
Indices: 1773961--1773998 Score: 53
Period size: 15 Copynumber: 2.3 Consensus size: 17
1773951 CCAAAGAAAG
1773961 AAAGAAGAAGAA-AA-AA
1 AAAG-AGAAGAATAAGAA
1773977 AAAGAGAAGAATAAGAA
1 AAAGAGAAGAATAAGAA
1773994 AAAGA
1 AAAGA
1773999 AAAAGGTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.35
16 6 0.30
17 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAGAGAAGAATAAGAA
Found at i:1773992 original size:21 final size:21
Alignment explanation
Indices: 1773953--1774001 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
1773943 GTGAAGCTCC
1773953 AAAG-AAAGAAAGAAGAAGAA
1 AAAGAAAAGAAAGAAGAAGAA
*
1773973 AAA-AAAAGAGAAGAATAAGAA
1 AAAGAAAAGA-AAGAAGAAGAA
1773994 AAAGAAAA
1 AAAGAAAA
1774002 AGGTGGGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 8 0.32
21 13 0.52
22 4 0.16
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAGAAAAGAAAGAAGAAGAA
Found at i:1773995 original size:18 final size:17
Alignment explanation
Indices: 1773954--1773999 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
1773944 TGAAGCTCCA
*
1773954 AAGAAAGAAAGAAGAAG
1 AAGAAAAAAAGAAGAAG
1773971 AA-AAAAAAAG-AGAAG
1 AAGAAAAAAAGAAGAAG
*
1773986 AATAAGAAAAAGAA
1 AAGAA-AAAAAGAA
1774000 AAAGGTGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.28
16 9 0.36
17 8 0.32
18 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAAGAAGAAG
Found at i:1773999 original size:15 final size:14
Alignment explanation
Indices: 1773957--1773999 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
1773947 AGCTCCAAAG
1773957 AAAGAAAGAAGAAGA
1 AAAGAAA-AAGAAGA
*
1773972 AAAAAAAAGAGAAGA
1 AAAGAAAA-AGAAGA
1773987 ATAAGAAAAAGAA
1 A-AAGAAAAAGAA
1774000 AAAGGTGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 1 0.04
15 17 0.71
16 6 0.25
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (14 bp):
AAAGAAAAAGAAGA
Found at i:1776013 original size:90 final size:90
Alignment explanation
Indices: 1775892--1776069 Score: 320
Period size: 90 Copynumber: 2.0 Consensus size: 90
1775882 TAATCCCGAA
* * *
1775892 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
1775957 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
1775982 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
*
1776047 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
1776070 GTGTGTTAGG
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
TAGGGTAACTTGGATATAAAAGGAT
Found at i:1781765 original size:2 final size:2
Alignment explanation
Indices: 1781758--1781786 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1781748 CTTTGAAACT
1781758 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1781787 ATACATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1785849 original size:18 final size:19
Alignment explanation
Indices: 1785810--1785850 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
1785800 AACTTCATTT
*
1785810 AACCAAACAATCAATCAAA
1 AACCAAACAATCAAACAAA
*
1785829 AACCAAA-AATCAAACAGA
1 AACCAAACAATCAAACAAA
1785847 AACC
1 AACC
1785851 CAGAGCAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.63, C:0.27, G:0.02, T:0.07
Consensus pattern (19 bp):
AACCAAACAATCAAACAAA
Found at i:1786807 original size:23 final size:25
Alignment explanation
Indices: 1786759--1786821 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 25
1786749 GTATTTTTAA
*
1786759 AATTATTTTAAATTTAGTTTTAATTT
1 AATTATTTT-ATTTTAGTTTTAATTT
*
1786785 TATTATTTTATTTTA-TTTT-ATTT
1 AATTATTTTATTTTAGTTTTAATTT
*
1786808 AATAATTTTATTTT
1 AATTATTTTATTTT
1786822 TAGATTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 16 0.48
24 4 0.12
25 5 0.15
26 8 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (25 bp):
AATTATTTTATTTTAGTTTTAATTT
Found at i:1786829 original size:24 final size:23
Alignment explanation
Indices: 1786789--1786834 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
1786779 TAATTTTATT
** *
1786789 ATTTTATTTTATTTTATTTAATA
1 ATTTTATTTTAGATTATATAATA
1786812 ATTTTATTTTTAGATTATATAAT
1 ATTTTA-TTTTAGATTATATAAT
1786835 TTGAATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTTTATTTTAGATTATATAATA
Found at i:1788681 original size:18 final size:18
Alignment explanation
Indices: 1788646--1788755 Score: 66
Period size: 18 Copynumber: 6.2 Consensus size: 18
1788636 TTCGTTCCCC
*
1788646 TATATATATATATATTTAT
1 TATAT-TATATTTATTTAT
* *
1788665 TATATTTTATTTATTTAA
1 TATATTATATTTATTTAT
***
1788683 TATATTCCCTTT-TTTAT
1 TATATTATATTTATTTAT
1788700 TATATTATA-TTATTT-T
1 TATATTATATTTATTTAT
* * *
1788716 CATA-TATATATATATAT
1 TATATTATATTTATTTAT
* *
1788733 ATATATATATATATATATAT
1 -TATAT-TATATTTATTTAT
1788753 TAT
1 TAT
1788756 GTATAGATGT
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
15 4 0.06
16 10 0.14
17 14 0.20
18 22 0.31
19 8 0.11
20 13 0.18
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTATATTTATTTAT
Found at i:1788724 original size:2 final size:2
Alignment explanation
Indices: 1788717--1788752 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1788707 TATTATTTTC
1788717 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
1788753 TATGTATAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1788813 original size:16 final size:14
Alignment explanation
Indices: 1788791--1788828 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 14
1788781 ATTTACTATG
1788791 TATATTTTTTTTTAT
1 TATATTTTTTTTT-T
1788806 TAATATTTTTTTTTT
1 T-ATATTTTTTTTTT
1788821 TATATTTT
1 TATATTTT
1788829 GTTTCTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 3 0.14
16 12 0.55
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATATTTTTTTTTT
Found at i:1788898 original size:17 final size:17
Alignment explanation
Indices: 1788844--1788898 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
1788834 TAATATCTAT
*
1788844 TTTTGTTTTTTA-TTTA
1 TTTTATTTTTTACTTTA
* *
1788860 TATATATTTTTTACTTTT
1 T-TTTATTTTTTACTTTA
1788878 TTTTATTTTTT-CTATTA
1 TTTTATTTTTTACT-TTA
1788895 TTTT
1 TTTT
1788899 TTTCTATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 3 0.10
17 24 0.77
18 4 0.13
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTTACTTTA
Found at i:1789036 original size:17 final size:17
Alignment explanation
Indices: 1789016--1789048 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1789006 ATTTTATTCA
1789016 TTTTTAATTTTTTTACC
1 TTTTTAATTTTTTTACC
*
1789033 TTTTTTATTTTTTTAC
1 TTTTTAATTTTTTTAC
1789049 TCTATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTAATTTTTTTACC
Found at i:1792224 original size:13 final size:13
Alignment explanation
Indices: 1792193--1792242 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
1792183 AAAAGAGAAA
1792193 AAAGAGAAAGAAAGC
1 AAAGAGAAA-AAA-C
1792208 AAAGAGAAAATAA-
1 AAAGAGAAAA-AAC
*
1792221 AAAGATAAAAAAC
1 AAAGAGAAAAAAC
1792234 AAAG-GAAAA
1 AAAGAGAAAA
1792243 CTGAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 6 0.19
13 13 0.42
14 1 0.03
15 11 0.35
ACGTcount: A:0.74, C:0.04, G:0.18, T:0.04
Consensus pattern (13 bp):
AAAGAGAAAAAAC
Found at i:1793944 original size:37 final size:38
Alignment explanation
Indices: 1793897--1793971 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
1793887 GAAGATTTTA
* * *
1793897 TCTCGCTTGAGATAGTTTCCCTTGAAACA-AAAGATTG
1 TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
*
1793934 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
1 TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
1793972 AAAACATTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 26 0.79
38 7 0.21
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (38 bp):
TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
Found at i:1794045 original size:37 final size:37
Alignment explanation
Indices: 1793978--1794064 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
1793968 ATTGAAAACA
* * *
1793978 TTTCCCTTGAAAC-GAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1794014 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
1794051 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
1794065 TAAACATTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 13 0.28
37 33 0.72
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:1794067 original size:102 final size:102
Alignment explanation
Indices: 1793891--1794131 Score: 401
Period size: 102 Copynumber: 2.4 Consensus size: 102
1793881 TAAAAAGAAG
* *
1793891 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAAGATTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAAGATTGTCTCCCTTGAGACAGTTTCTCT
*
1793956 TGAAACATAAACATTGAAAACATTTCCCTTGAAACGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
**
1793993 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAAGATTGTCTCCCTTGAGACAGTTTCTCT
*
1794058 TGAAACATAAACATTGAAAACATTTCCCTTGAAATAA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
* * *
1794095 ATTTCGTGTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAA
1794132 TTATTTGAAT
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 130 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAAGATTGTCTCCCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
Found at i:1794119 original size:65 final size:65
Alignment explanation
Indices: 1794014--1794400 Score: 228
Period size: 65 Copynumber: 5.8 Consensus size: 65
1794004 CTTGAGATAG
*
1794014 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA-TTGAAAA
1 TTTCCCTTGAAA-AAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAACATTTGAAAA
1794078 CA
64 CA
* * * * ** * *
1794080 TTTCCCTTGAAATAAATTTCGTGTCTCTTGAGACAGTTTCCCTTGAAACAAATTATTTGAATATA
1 TTTCCCTTGAAAAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACATTTGAAAACA
*** * * * ** *
1794145 TTTTATTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAAAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AA-----AAC-AT-T
*
1794210 TG-AGACA
58 TGAAAACA
* * * * * **
1794217 GTTTCTCTTGAAACAAATTTCGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATC-TTTGAATT
1 -TTTCCCTTGAAAAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAA-CATTTGAAAA
*
1794281 TA
64 CA
* * * * *
1794283 TTTCCCCT-AAAACAAATTTTGTCTCCCTTGAGACAGATTCTCTTGAAACACAGA-ATCTTCAAA
1 TTTCCCTTGAAAA-AAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAACAT-TTGAAA
**
1794346 TTTA
63 -ACA
* * * * *
1794350 TTTCCCTTAAAACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACAA
1 TTTCCCTTGAAA-AAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
1794401 CAGATATCTT
Statistics
Matches: 250, Mismatches: 52, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
64 6 0.02
65 122 0.49
66 24 0.10
67 19 0.08
68 27 0.11
69 1 0.00
71 1 0.00
72 6 0.02
73 44 0.18
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.38
Consensus pattern (65 bp):
TTTCCCTTGAAAAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACATTTGAAAACA
Found at i:1794127 original size:36 final size:36
Alignment explanation
Indices: 1794080--1794269 Score: 162
Period size: 36 Copynumber: 5.4 Consensus size: 36
1794070 ATTGAAAACA
* *
1794080 TTTCCCTTGAAATAAATTTCGTGTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
1794116 TTTCCCTTGAAACAAA-----T-TAT-TTGA-ATATA
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
*** *
1794145 TTTTATTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * *
1794181 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
1794218 TTTCTCTTGAAACAAATTTCGTCTCTCTTAAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
1794254 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
1794270 ATCTTTGAAT
Statistics
Matches: 121, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
28 2 0.02
29 17 0.14
30 2 0.02
31 1 0.01
34 1 0.01
35 1 0.01
36 64 0.53
37 33 0.27
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:1794215 original size:37 final size:36
Alignment explanation
Indices: 1794151--1794269 Score: 166
Period size: 36 Copynumber: 3.3 Consensus size: 36
1794141 TATATTTTAT
* *
1794151 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTC
* * *
1794187 TTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTC
1 TTGAAAC-AAATTTCGTCTCTCTTGAGACAGTTTCTC
* *
1794224 TTGAAACAAATTTCGTCTCTCTTAAGACAGTTTCCC
1 TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTC
1794260 TTGAAACAAA
1 TTGAAACAAA
1794270 ATCTTTGAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
36 41 0.57
37 31 0.43
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (36 bp):
TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTC
Found at i:1795228 original size:106 final size:106
Alignment explanation
Indices: 1795073--1795554 Score: 541
Period size: 106 Copynumber: 4.6 Consensus size: 106
1795063 ATATCGTGCC
* *
1795073 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC-AGCTGGTTGTCAACAAACAATTTCC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGA-CTGATTGTCAACAAACAATTTCC
*
1795137 CAGTTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
1795179 ATTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGATTGTCAACAAACAATTTCCC
*
1795244 AATTTCAGAGA-CAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGA-ACCAATTTCAACTTCACAGCGAAGGATATTGG
** * * * * * * * *
1795285 ACTTAAGACAGCATAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAATAAACAACTTCCC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGATTGTCAACAAACAATTTCCC
** *
1795350 AATTTCAGGGCCAATTTCAACTTCCCAGCGAAGGATATTGG
66 AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
1795391 ACCCAAGACAATACAAGCTCAACTTCACGACGAAGGGGA-GGCTGATTGTCAAC-AA-AATTT--
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAA-GGGACGACTGATTGTCAACAAACAATTTCC
*** * * * *
1795451 C-A-TTCAGAGTTAATTTTAACTTCACAACGAATGATATTAG
65 CAATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
1795491 ACTCGAGACAGCACAAGCTCAACTTCACAATGAAGGGGCGACTGACTGTCAACAAACAATTTCC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGATTGTCAACAAACAATTTCC
1795555 AGAGCCAATT
Statistics
Matches: 319, Mismatches: 48, Indels: 20
0.82 0.12 0.05
Matches are distributed among these distances:
99 3 0.01
100 70 0.22
101 3 0.01
102 6 0.02
104 4 0.01
105 2 0.01
106 226 0.71
107 5 0.02
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGATTGTCAACAAACAATTTCCC
AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:1796980 original size:21 final size:21
Alignment explanation
Indices: 1796921--1796998 Score: 54
Period size: 21 Copynumber: 3.6 Consensus size: 21
1796911 TATATATATT
*
1796921 TTTA-ATTATATTTTTTATTTA
1 TTTATATTATATTATTT-TTTA
*
1796942 TTTACTA-TAT-TTCCTTTTTTA
1 TTTA-TATTATATT-ATTTTTTA
1796963 TTTATATTATATTATTTTCATTA
1 TTTATATTATATTATTTT--TTA
*
1796986 TATATATATATAT
1 TTTATAT-TATAT
1796999 ATATATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.04
21 21 0.46
22 8 0.17
23 10 0.22
24 5 0.11
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATATTATATTATTTTTTA
Found at i:1796991 original size:2 final size:2
Alignment explanation
Indices: 1796984--1797013 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1796974 TTATTTTCAT
*
1796984 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1797014 GATGTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1797064 original size:17 final size:17
Alignment explanation
Indices: 1797044--1797103 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
1797034 TTTACTATGT
1797044 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
* *
1797061 ATATTATATTTTATACGTTTTT
1 ATA-TATATTTT-T---TCTTA
1797083 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
1797100 ATAT
1 ATAT
1797104 TCTATTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 10 0.29
18 8 0.24
19 1 0.03
20 1 0.03
21 8 0.24
22 6 0.18
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
ATATATATTTTTTCTTA
Found at i:1797294 original size:10 final size:9
Alignment explanation
Indices: 1797279--1797322 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
1797269 GTACACATTA
1797279 TTTTTATTCT
1 TTTTTATT-T
1797289 TTTTTATTT
1 TTTTTATTT
**
1797298 TCTTTTACAT
1 T-TTTTATTT
1797308 TTTTTATTT
1 TTTTTATTT
1797317 TTTTTA
1 TTTTTA
1797323 CTCCATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATTT
Found at i:1797312 original size:19 final size:18
Alignment explanation
Indices: 1797276--1797323 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
1797266 TATGTACACA
*
1797276 TTATTTTTATT-C-TTTT
1 TTATTTTTTTTACATTTT
1797292 TTATTTTCTTTTACATTTT
1 TTATTTT-TTTTACATTTT
1797311 TTATTTTTTTTAC
1 TTATTTTTTTTAC
1797324 TCCATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 7 0.25
17 3 0.11
18 7 0.25
19 11 0.39
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (18 bp):
TTATTTTTTTTACATTTT
Found at i:1797379 original size:9 final size:9
Alignment explanation
Indices: 1797367--1797406 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
1797357 TTTTTTTAAA
*
1797367 ATTTTATTC
1 ATTTTATTT
*
1797376 ATTTTGTTT
1 ATTTTATTT
1797385 ATTTTATTT
1 ATTTTATTT
1797394 ATTTTA-TT
1 ATTTTATTT
1797402 ATTTT
1 ATTTT
1797407 TTACGTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (9 bp):
ATTTTATTT
Found at i:1797440 original size:25 final size:27
Alignment explanation
Indices: 1797392--1797442 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
1797382 TTTATTTTAT
*
1797392 TTATTTTATTATTTTTTACGTGTTTTG
1 TTATTTTATCATTTTTTACGTGTTTTG
*
1797419 TTATTTT-TCATTTTTT-CTTGTTTT
1 TTATTTTATCATTTTTTACGTGTTTT
1797443 ATTTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 8 0.36
27 7 0.32
ACGTcount: A:0.12, C:0.06, G:0.08, T:0.75
Consensus pattern (27 bp):
TTATTTTATCATTTTTTACGTGTTTTG
Found at i:1799414 original size:9 final size:9
Alignment explanation
Indices: 1799400--1799439 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
1799390 ATGGGGGTAT
*
1799400 TATTCTCAC
1 TATTCTCTC
1799409 TATTCTCTC
1 TATTCTCTC
1799418 TATTCTCTC
1 TATTCTCTC
* *
1799427 TATACCCTC
1 TATTCTCTC
1799436 TATT
1 TATT
1799440 TCGTATGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (9 bp):
TATTCTCTC
Found at i:1804327 original size:2 final size:2
Alignment explanation
Indices: 1804320--1804389 Score: 104
Period size: 2 Copynumber: 35.0 Consensus size: 2
1804310 GTAAACAAAC
* * *
1804320 AT AT AT AT AT AT AC AT GT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1804362 GT 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
1804390 GTCGCAACCG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1804356 original size:26 final size:26
Alignment explanation
Indices: 1804320--1804384 Score: 130
Period size: 26 Copynumber: 2.5 Consensus size: 26
1804310 GTAAACAAAC
1804320 ATATATATATATACATGTATATATAT
1 ATATATATATATACATGTATATATAT
1804346 ATATATATATATACATGTATATATAT
1 ATATATATATATACATGTATATATAT
1804372 ATATATATATATA
1 ATATATATATATA
1804385 TATATGTCGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (26 bp):
ATATATATATATACATGTATATATAT
Found at i:1804733 original size:6 final size:6
Alignment explanation
Indices: 1804722--1804767 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
1804712 CAGATTGGAA
* *
1804722 AAAAAT AAAAAT AAAAAT AAAGAT AAAGAT AGAAAAGT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAA-T AAAAAT AA
1804768 GAATGTTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 27 0.75
7 7 0.19
8 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:1806258 original size:14 final size:14
Alignment explanation
Indices: 1806230--1806274 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
1806220 TGAACAATTA
*
1806230 AAATGAAAATAAAAT
1 AAATAAAAAT-AAAT
*
1806245 TAATAAAAATAAAT
1 AAATAAAAATAAAT
1806259 AAATAAAAATAAAT
1 AAATAAAAATAAAT
1806273 AA
1 AA
1806275 CAACGATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 19 0.70
15 8 0.30
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:1806360 original size:36 final size:36
Alignment explanation
Indices: 1806296--1806639 Score: 204
Period size: 36 Copynumber: 9.8 Consensus size: 36
1806286 ATAATAATAT
*
1806296 AAAATATTTTCTACAAACTATATA--ATATTTATTTTC
1 AAAATGTTTT-TA-AAACTATATATTATATTTATTTTC
* *
1806332 AAAA-GTATTTTAAAATTATATATTATATTT-TTTTT
1 AAAATGT-TTTTAAAACTATATATTATATTTATTTTC
* * *
1806367 AAAACG-TTTTCAAA--AT-TA-TATA---GTTTTC
1 AAAATGTTTTTAAAACTATATATTATATTTATTTTC
**
1806395 AAAAATGTTTTTAAAACTATATATTATAAGT-TTTT-
1 -AAAATGTTTTTAAAACTATATATTATATTTATTTTC
* * * *
1806430 AAAATGATTTCAAAACTATATAATATATATATGGTTTC
1 AAAATGTTTTTAAAACTATATATTATATTTAT--TTTC
** *
1806468 AAAATGTTTCTTTTTAA--A-A-ATTATATTTATTTTA
1 AAAATG-TT-TTTAAAACTATATATTATATTTATTTTC
** * *
1806502 AAAATGTTTTTTAAAACCGTATAATATATTT-TTTTA
1 AAAATG-TTTTTAAAACTATATATTATATTTATTTTC
** *
1806538 AAAACATTTTAAAAACTATATATTATATTTATTTTC
1 AAAATGTTTTTAAAACTATATATTATATTTATTTTC
* * * **
1806574 AAAGTGTTTTAAAAACTATATAATATATAAATGTTTC
1 AAAATGTTTTTAAAACTATATATTATATTTAT-TTTC
*
1806611 AAATATGTTTTCAAAACTATATATTATAT
1 AAA-ATGTTTTTAAAACTATATATTATAT
1806640 ATATATATAT
Statistics
Matches: 242, Mismatches: 39, Indels: 52
0.73 0.12 0.16
Matches are distributed among these distances:
28 4 0.02
29 5 0.02
30 11 0.05
31 2 0.01
32 4 0.02
33 7 0.03
34 57 0.24
35 32 0.13
36 67 0.28
37 19 0.08
38 29 0.12
39 1 0.00
40 4 0.02
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (36 bp):
AAAATGTTTTTAAAACTATATATTATATTTATTTTC
Found at i:1806388 original size:35 final size:36
Alignment explanation
Indices: 1806314--1806388 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
1806304 TTCTACAAAC
*
1806314 TATATAATATTTATTTTCAAAAGTATTTTAAAATTA
1 TATATAATATTTATTTTCAAAAGTATTTCAAAATTA
* *
1806350 TATATTATATTT-TTTTTAAAACGT-TTTCAAAATTA
1 TATATAATATTTATTTTCAAAA-GTATTTCAAAATTA
1806385 TATA
1 TATA
1806389 GTTTTCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 22 0.63
36 13 0.37
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (36 bp):
TATATAATATTTATTTTCAAAAGTATTTCAAAATTA
Found at i:1806441 original size:63 final size:63
Alignment explanation
Indices: 1806327--1806451 Score: 164
Period size: 63 Copynumber: 2.0 Consensus size: 63
1806317 ATAATATTTA
* ** * *
1806327 TTTTCAAAAGTATTTTAAAATTATATATTATATTTTTTTTAAAACGTTTTCAAAATTATATAG
1 TTTTCAAAAGTATTTTAAAACTATATATTATATAGTTTTTAAAACGATTTCAAAACTATATAG
*
1806390 TTTTCAAAAATGT-TTTTAAAACTATATATTATA-AGTTTTTAAAATGATTTCAAAACTATATA
1 TTTTC-AAAA-GTATTTTAAAACTATATATTATATAGTTTTTAAAACGATTTCAAAACTATATA
1806452 ATATATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
63 29 0.54
64 23 0.43
65 2 0.04
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (63 bp):
TTTTCAAAAGTATTTTAAAACTATATATTATATAGTTTTTAAAACGATTTCAAAACTATATAG
Found at i:1806505 original size:106 final size:106
Alignment explanation
Indices: 1806373--1806582 Score: 248
Period size: 106 Copynumber: 2.0 Consensus size: 106
1806363 TTTTAAAACG
* * * **
1806373 TTTTCAAAATTATATAGTTTTCAAAAATG-TTTTTAAAACTATATATTATAAGTTTTTAAAATGA
1 TTTTAAAAATTATATAGTTTTCAAAAATGTTTTTTAAAACCATATAATATAAGTTTTTAAAAACA
*
1806437 -TTTCAAAACTATATAATATATATATGGTTTCAAAATGTTTCT
66 TTTTAAAAACTATATAATATATATAT--TTTCAAAATGTTTCT
* **
1806479 TTTTAAAAATTATATTTA-TTTT-AAAAATGTTTTTTAAAACCGTATAATATATTTTTTTAAAAA
1 TTTTAAAAATTATA--TAGTTTTCAAAAATGTTTTTTAAAACCATATAATATAAGTTTTTAAAAA
* * *
1806542 CATTTTAAAAACTATATATTATATTTATTTTCAAAGTGTTT
64 CATTTTAAAAACTATATAATATATATATTTTCAAAATGTTT
1806583 TAAAAACTAT
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
106 32 0.36
107 32 0.36
108 24 0.27
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (106 bp):
TTTTAAAAATTATATAGTTTTCAAAAATGTTTTTTAAAACCATATAATATAAGTTTTTAAAAACA
TTTTAAAAACTATATAATATATATATTTTCAAAATGTTTCT
Found at i:1807397 original size:84 final size:83
Alignment explanation
Indices: 1807285--1807992 Score: 723
Period size: 84 Copynumber: 8.5 Consensus size: 83
1807275 CGGGAGTCTT
* *
1807285 TGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCATATGATGTGCCTTGGAGCTGAGCGTAGTC
1 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
1807350 GAACTCAAAGGTCTTTTGG
66 GAACTCAAAGGTC-TTTGG
** * * * * * * * * *
1807369 TAACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGT
* ***
1807434 CAAACTCGGGGGTC-TT--
65 CGAACTCAAAGGTCTTTGG
* * *
1807450 TGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGT
1 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGT
*
1807514 CGAACTCAAAGGTCTTTTGT
65 CGAACTCAAAGGTC-TTTGG
* * * * ** *
1807534 TGCCAGACAACCCTTCTAGACTTAAGTTGTAATGCAAATGATATGCCTTGGAGCTGAGCGTAGTC
1 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
*
1807599 GAACTCGAAGGTCTTTGG
66 GAACTCAAAGGTCTTTGG
* * *
1807617 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAA
1 -TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
***
1807682 TCGAACTCGGGGGTC-TT--
64 TCGAACTCAAAGGTCTTTGG
* * * * *
1807699 TGGCAGATAGCCTTTCTCGACTTAAGCTATACTGCAAATGATGTGTCGTT-GAGCTGAGCGTAGT
1 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGT
*
1807763 CGAACTCAAAGGTCTTTTGT
65 CGAACTCAAAGGTC-TTTGG
* * * * ** *
1807783 TGCCAGACAACCCTTCTAGACTTAAGTTGTGCTATAAATGATATGCCTTGGAGCTGAGCGTAGTC
1 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* *
1807848 GAACACGAAGGTCTTTGG
66 GAACTCAAAGGTCTTTGG
* *
1807866 TTGGCAGACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCGTT-GAGCTGCGCGTAG
1 -TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
* *
1807930 TCAAACTCAAAGGTCTTTTGT
64 TCGAACTCAAAGGTC-TTTGG
* * * * *
1807951 TGGCAGACAACCCTTCTAGACTTAAATTGTACTGCAAATGAT
1 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
1807993 TTGTTTTTTT
Statistics
Matches: 508, Mismatches: 99, Indels: 34
0.79 0.15 0.05
Matches are distributed among these distances:
80 45 0.09
81 80 0.16
82 4 0.01
83 15 0.03
84 305 0.60
85 59 0.12
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (83 bp):
TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
GAACTCAAAGGTCTTTGG
Found at i:1807442 original size:165 final size:164
Alignment explanation
Indices: 1807239--1807992 Score: 700
Period size: 165 Copynumber: 4.5 Consensus size: 164
1807229 GCTATGTTGT
* * * * * *
1807239 AAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCG-GGAGTC-TTTGGCAGATAGCCCTTCT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAG-GTCTTTTGGCAGATAACCCTTCT
*
1807302 CGACTTAAGTTATGCTGCATATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTT
65 CGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTT
* * * * *
1807367 GGTAACAGATAACCCTTCTAGCCTTGAGTTATGATGT
129 GGT-GCAGACAACCCTTCTAGACTTAAGTTATGATGC
* * ** *
1807404 AAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGGGGGTC-TTTGGCAGATAGCCCTTCTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTC
* *
1807468 GACTTAAGCTATACTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTT
66 GACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTT
* * *
1807532 GTTGCCAGACAACCCTTCTAGACTTAAGTTGTAATGC
129 GGTG-CAGACAACCCTTCTAGACTTAAGTTATGATGC
* * * *
1807569 AAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC-TT--TTGGCAGATAACCCTT
* * * ***
1807633 CTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCGGGGGTCT
63 CTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCT
* * * * *
1807698 TT-G-GCAGATAGCCTTTCTCGACTTAAGCTAT-ACTGC
127 TTGGTGCAGACAACCCTTCTAGACTTAAGTTATGA-TGC
* * * * * *
1807734 AAATGATGTGTCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGCCAGACAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTTG--G-CAGATAACCCTT
* * ** * * *
1807798 CTAGACTTAAGTTGTGCTATAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACACGAAGGTCTT
63 CTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTT
* *
1807863 TGGTTGGCAGACAACCCTTCTCGACTTAAGTTATGCTGC
128 TGG-T-GCAGACAACCCTTCTAGACTTAAGTTATGATGC
* * * * * * *
1807902 AAATGATGTGCCGTTG-AGCTGCGCGTAGTCAAACTCAAAGGTCTTTTGTTGGCAGACAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC--TT-TTGGCAGATAACCCTT
* * * *
1807966 CTAGACTTAAATTGTACTGCAAATGAT
63 CTCGACTTAAGTTATGCTGCAAATGAT
1807993 TTGTTTTTTT
Statistics
Matches: 501, Mismatches: 66, Indels: 41
0.82 0.11 0.07
Matches are distributed among these distances:
162 3 0.01
164 60 0.12
165 248 0.50
166 10 0.02
168 150 0.30
169 25 0.05
170 2 0.00
171 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (164 bp):
AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTC
GACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
TGCAGACAACCCTTCTAGACTTAAGTTATGATGC
Found at i:1807733 original size:249 final size:249
Alignment explanation
Indices: 1807295--1807937 Score: 1029
Period size: 249 Copynumber: 2.6 Consensus size: 249
1807285 TGGCAGATAG
* * * * *
1807295 CCCTTCTCGACTTAAGTTATGCTGCATATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAG
1 CCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
** * * * * * *
1807360 GTCTTTTGG-TAACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTCGAAGC
66 GTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGC
1807424 TGAGTGTAATCAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAAT
130 TGAGTGTAATCAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAAT
1807489 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGCCAGACAA
195 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGCCAGACAA
**
1807544 CCCTTCTAGACTTAAGTTGTAATGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1807609 GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCT
66 GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCT
* *
1807674 GAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCTTTCTCGACTTAAGCTATACTGCAAATG
131 GAGTGTAATCAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATG
*
1807739 ATGTGTCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGCCAGACAA
196 ATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGCCAGACAA
** *
1807793 CCCTTCTAGACTTAAGTTGTGCTATAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACACGAAG
1 CCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* *
1807858 GTCTTTGGTTGGCAGACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCGTTG-AGCT
66 GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCT
* * *
1807922 GCGCGTAGTCAAACTC
131 GAGTGTAATCAAACTC
1807938 AAAGGTCTTT
Statistics
Matches: 364, Mismatches: 29, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
248 21 0.06
249 343 0.94
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (249 bp):
CCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCT
GAGTGTAATCAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATG
ATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGCCAGACAA
Found at i:1812883 original size:6 final size:6
Alignment explanation
Indices: 1812872--1812917 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
1812862 CAGATTGGAA
* *
1812872 AAAAAT AAAAAT AAAAAT AAAGAT AAAGAT AGAAAAGT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAA-T AAAAAT AA
1812918 GAATGCTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 27 0.75
7 7 0.19
8 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:1814405 original size:14 final size:14
Alignment explanation
Indices: 1814377--1814436 Score: 84
Period size: 15 Copynumber: 4.1 Consensus size: 14
1814367 TGGACAACTA
*
1814377 AAATGAAAATAAAAT
1 AAATAAAAAT-AAAT
*
1814392 TAATAAAAATAAAT
1 AAATAAAAATAAAT
1814406 AAATAAAAAATAAAT
1 AAAT-AAAAATAAAT
1814421 AAATAAAAATAAAT
1 AAATAAAAATAAAT
1814435 AA
1 AA
1814437 CAACGATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
14 19 0.46
15 22 0.54
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:1814407 original size:4 final size:4
Alignment explanation
Indices: 1814398--1814436 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
1814388 AAATTAATAA
1814398 AAAT AAAT AAAT AAA- AAAT AAAT AAAT -AA- AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1814437 CAACGATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 7 0.22
4 25 0.78
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:1814407 original size:19 final size:20
Alignment explanation
Indices: 1814383--1814433 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
1814373 ACTAAAATGA
* *
1814383 AAATAAAATTAATAA-AAAT
1 AAATAAAATAAAAAATAAAT
1814402 AAAT-AAATAAAAAATAAAT
1 AAATAAAATAAAAAATAAAT
1814421 AAATAAAAATAAA
1 AAAT-AAAATAAA
1814434 TAACAACGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.30
19 12 0.44
21 7 0.26
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (20 bp):
AAATAAAATAAAAAATAAAT
Found at i:1814451 original size:29 final size:28
Alignment explanation
Indices: 1814383--1814436 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
1814373 ACTAAAATGA
*
1814383 AAATAA-AATTAATAAAAATAAATAAAT
1 AAATAATAATAAATAAAAATAAATAAAT
*
1814410 AAAAAATAAATAAATAAAAATAAATAA
1 AAATAAT-AATAAATAAAAATAAATAA
1814437 CAACGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
29 18 0.78
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (28 bp):
AAATAATAATAAATAAAAATAAATAAAT
Found at i:1814456 original size:25 final size:23
Alignment explanation
Indices: 1814383--1814456 Score: 60
Period size: 25 Copynumber: 3.0 Consensus size: 23
1814373 ACTAAAATGA
* *
1814383 AAAT-AAAATTAATAAAAATAAAT
1 AAATAAAAAATAATAATAAT-AAT
*
1814406 AAATAAAAAATAAATAAATAAAAAT
1 AAATAAAAAAT-AAT-AATAATAAT
*
1814431 AAATAACAACGATAATAATAATAAT
1 AAATAA-AA-AATAATAATAATAAT
1814456 A
1 A
1814457 TAAAATATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.10
24 5 0.12
25 21 0.51
26 9 0.22
27 2 0.05
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (23 bp):
AAATAAAAAATAATAATAATAAT
Found at i:1814554 original size:39 final size:41
Alignment explanation
Indices: 1814476--1814554 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 41
1814466 TTCTACAAAC
* *
1814476 TATATAATATATATTTTCAAAAGTATTTTAAAATTATATAT
1 TATATAATATATATTTTAAAAAGTATTTCAAAATTATATAT
1814517 TATAT-ATATAT-TTTTAAAAACGT-TTTCAAAATTATATA
1 TATATAATATATATTTTAAAAA-GTATTTCAAAATTATATA
1814555 GTTTTCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 22 0.63
40 8 0.23
41 5 0.14
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.48
Consensus pattern (41 bp):
TATATAATATATATTTTAAAAAGTATTTCAAAATTATATAT
Found at i:1814570 original size:29 final size:28
Alignment explanation
Indices: 1814521--1814585 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
1814511 ATATATTATA
* *
1814521 TATATATTTTTAAAAACGTTTTCAAAAT
1 TATATATTTTCAAAAACGTTTTCAAAAC
* *
1814549 TATATAGTTTTCAAAAATGTTTTTAAAAC
1 TATATA-TTTTCAAAAACGTTTTCAAAAC
1814578 TATATATT
1 TATATATT
1814586 ATAAGTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (28 bp):
TATATATTTTCAAAAACGTTTTCAAAAC
Found at i:1814601 original size:34 final size:34
Alignment explanation
Indices: 1814547--1814798 Score: 116
Period size: 35 Copynumber: 7.0 Consensus size: 34
1814537 CGTTTTCAAA
*
1814547 ATTATATAGTTTTCAAAAATGTTTTTAAAACTATAT
1 ATTATA-AGTTTT-TAAAATGTTTTTAAAACTATAT
* *
1814583 ATTATAAGTTTTTAAAATGATTTCAAAACTATAT
1 ATTATAAGTTTTTAAAATGTTTTTAAAACTATAT
* *
1814617 AATATATATATGTTTTCAAAATGTTTCTTTTTAAAAAT-TAT
1 -AT-TATA-A-GTTTTTAAAATG----TTTTTAAAACTATAT
* ** **
1814658 ATT-T-A-TTTTAAAAAAAATTTTTAAAACCGTAT
1 ATTATAAGTTTT-TAAAATGTTTTTAAAACTATAT
* ** * *
1814690 AATATATTTTTTTAAAAACGTTTTAAAAACTATAT
1 ATTATAAGTTTTT-AAAATGTTTTTAAAACTATAT
** * *
1814725 ATTATATTTATTTTCAAAGTGTTTTAAAAACTATAT
1 ATTATAAGT-TTTT-AAAATGTTTTTAAAACTATAT
* * *
1814761 AATATATAAATGTTTCAAATATGTTTTCAAAACTATAT
1 -AT-TATAAGT-TTTTAAA-ATGTTTTTAAAACTATAT
1814799 TATATATATA
Statistics
Matches: 168, Mismatches: 30, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
31 9 0.05
32 5 0.03
33 1 0.01
34 23 0.14
35 40 0.24
36 34 0.20
37 6 0.04
38 36 0.21
39 1 0.01
40 2 0.01
41 3 0.02
42 8 0.05
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (34 bp):
ATTATAAGTTTTTAAAATGTTTTTAAAACTATAT
Found at i:1814750 original size:36 final size:36
Alignment explanation
Indices: 1814556--1814805 Score: 156
Period size: 36 Copynumber: 6.9 Consensus size: 36
1814546 AATTATATAG
* * **
1814556 TTTTCAAAAATGTTTTTAAAACTATATATTATAAGT-
1 TTTTC-AAAATGTTTTAAAAACTATATAATATATTTA
* * *
1814592 TTTT-AAAATGATTTCAAAACTATATAATATATATATG
1 TTTTCAAAATGTTTTAAAAACTATATAATATAT-T-TA
**
1814629 TTTTCAAAATGTTTCTTTTTAAA--A-AT--TATATTTA
1 TTTTCAAAATG--T-TTTAAAAACTATATAATATATTTA
* ** * **
1814663 TTTTAAAAAAAATTTTTAAAACCGTATAATATATTT-
1 TTTT-CAAAATGTTTTAAAAACTATATAATATATTTA
* * *
1814699 TTTTAAAAACGTTTTAAAAACTATATATTATATTTA
1 TTTTCAAAATGTTTTAAAAACTATATAATATATTTA
* **
1814735 TTTTCAAAGTGTTTTAAAAACTATATAATATATAAA
1 TTTTCAAAATGTTTTAAAAACTATATAATATATTTA
* *
1814771 TGTTTCAAATATGTTTTCAAAACTATATTATATAT
1 T-TTTCAAA-ATGTTTTAAAAACTATATAATATAT
1814806 ATATATATAA
Statistics
Matches: 169, Mismatches: 29, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
32 7 0.04
33 1 0.01
34 29 0.17
35 32 0.19
36 45 0.27
37 18 0.11
38 30 0.18
39 1 0.01
41 6 0.04
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTTCAAAATGTTTTAAAAACTATATAATATATTTA
Found at i:1820597 original size:12 final size:12
Alignment explanation
Indices: 1820580--1820609 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1820570 CCTCTTGAAT
1820580 TATATTTAAACA
1 TATATTTAAACA
1820592 TATATTTAAACA
1 TATATTTAAACA
1820604 TATATT
1 TATATT
1820610 ACCTTGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATTTAAACA
Found at i:1821344 original size:21 final size:21
Alignment explanation
Indices: 1821320--1821367 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
1821310 ACCGTAAATA
*
1821320 TTATTATTTCTACCGATTTTG
1 TTATTATTTCTACCAATTTTG
* *
1821341 TTATTTTTTTCTACCAATTTTT
1 TTA-TTATTTCTACCAATTTTG
1821363 TTATT
1 TTATT
1821368 GTTGGGCACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.19, C:0.12, G:0.04, T:0.65
Consensus pattern (21 bp):
TTATTATTTCTACCAATTTTG
Found at i:1821354 original size:22 final size:22
Alignment explanation
Indices: 1821326--1821367 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1821316 AATATTATTA
*
1821326 TTTCTACCGATTTTGTTATTTT
1 TTTCTACCAATTTTGTTATTTT
*
1821348 TTTCTACCAATTTTTTTATT
1 TTTCTACCAATTTTGTTATT
1821368 GTTGGGCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.14, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTACCAATTTTGTTATTTT
Found at i:1828167 original size:164 final size:164
Alignment explanation
Indices: 1827896--1828212 Score: 548
Period size: 164 Copynumber: 1.9 Consensus size: 164
1827886 ATCATTAAAT
1827896 AATTATATAATGTATTTGGACCAAAAAAATTATATAATGTATTGAATTTCAAATGTTTTATTTTT
1 AATTATATAATGTATTTGGACCAAAAAAATTATATAATGTATTGAATTTCAAATGTTTTATTTTT
* *
1827961 TATTCTAAAAATTTCAAATAAACTAAGAGGCTGTTTGTTTATTCAGAATGATTAAGCGTTAAATG
66 TATTCTAAAAATTTCAAATAAACTAAGAGGCTGTTTGTTTATTCAGAATGATTAAACGCTAAATG
*
1828026 ATTCAAATGCTAAATGATTCAAAGGTTCTGTATG
131 ATTCAAATACTAAATGATTCAAAGGTTCTGTATG
1828060 AATTATATAATG-ATTTGGACCAAAAAAATTATATAATGTATTGAATTTCAAATGTTTTATTTTT
1 AATTATATAATGTATTTGGACCAAAAAAATTATATAATGTATTGAATTTCAAATGTTTTA-TTTT
* *
1828124 TTATTCTAAAAATTTCAAATAAACTAA-AGGGTTGTTTGTTTATTCAGAATGGTTAAACGCTAAA
65 TTATTCTAAAAATTTCAAATAAACTAAGA-GGCTGTTTGTTTATTCAGAATGATTAAACGCTAAA
*
1828188 TGATTCAAATACTGAATGATTCAAA
129 TGATTCAAATACTAAATGATTCAAA
1828213 TACTGAATGA
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
163 48 0.33
164 97 0.67
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (164 bp):
AATTATATAATGTATTTGGACCAAAAAAATTATATAATGTATTGAATTTCAAATGTTTTATTTTT
TATTCTAAAAATTTCAAATAAACTAAGAGGCTGTTTGTTTATTCAGAATGATTAAACGCTAAATG
ATTCAAATACTAAATGATTCAAAGGTTCTGTATG
Found at i:1828207 original size:16 final size:16
Alignment explanation
Indices: 1828186--1828226 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
1828176 TTAAACGCTA
1828186 AATGATTCAAATACTG
1 AATGATTCAAATACTG
1828202 AATGATTCAAATACTG
1 AATGATTCAAATACTG
1828218 AATGATTCA
1 AATGATTCA
1828227 GATGCTCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (16 bp):
AATGATTCAAATACTG
Found at i:1831457 original size:34 final size:34
Alignment explanation
Indices: 1831410--1831477 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
1831400 AAAAGACAAA
*
1831410 AAAACGTAACTCATGATCATCATGTGTGAGTAAC
1 AAAACATAACTCATGATCATCATGTGTGAGTAAC
*
1831444 AAAACATAGCTCATGATCATCATGTGTGAGTAAC
1 AAAACATAACTCATGATCATCATGTGTGAGTAAC
1831478 TTGTAGTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (34 bp):
AAAACATAACTCATGATCATCATGTGTGAGTAAC
Found at i:1833415 original size:19 final size:17
Alignment explanation
Indices: 1833365--1833420 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 17
1833355 AACTTTTTTA
1833365 TTTTATTTA-TTATGAATT
1 TTTTATTTAGTTAT--ATT
1833383 TTTTATTTAGTTAT-TT
1 TTTTATTTAGTTATATT
1833399 TTTTAGTATTAGTTTATATT
1 TTTTA-T-TTAG-TTATATT
1833419 TT
1 TT
1833421 AATTTGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.21
17 1 0.03
18 13 0.39
19 8 0.24
20 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (17 bp):
TTTTATTTAGTTATATT
Found at i:1834286 original size:101 final size:102
Alignment explanation
Indices: 1834067--1834286 Score: 237
Period size: 101 Copynumber: 2.2 Consensus size: 102
1834057 TATGATATCG
* * * * * *
1834067 ATATTTAGGTCAAATAAGCTGGTAGTTGAATGCATTCCCCTTGAACTTGAAGGCATCGTGTCATA
1 ATATTTAGGTCAAAGAAGCTCGCAGTTGAATGCACTCCCCTGGAACTTGAAGGCATCGTGTCAAA
** * * *
1834132 CAAGTTTTGAACTGAGTGTTGTGTCGCAGGCATCTCT
66 CAAGTACTGAACAGAGTGATGTGTCGCAGGCATCTCC
* * * *
1834169 ACATTGAGGTCGAAGAAGCTCGCAGTTGAATGC-CTCCCCTGGAACTTGAAGGTATCGTGTCAAA
1 ATATTTAGGTCAAAGAAGCTCGCAGTTGAATGCACTCCCCTGGAACTTGAAGGCATCGTGTCAAA
*** *
1834233 TGGGTACTGAACAGATTGATGTGTCG-AGGGCATCTCC
66 CAAGTACTGAACAGAGTGATGTGTCGCA-GGCATCTCC
*
1834270 ATATTTAGGTAAAAGAA
1 ATATTTAGGTCAAAGAA
1834287 ATGGCAGATG
Statistics
Matches: 94, Mismatches: 23, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
100 1 0.01
101 66 0.70
102 27 0.29
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (102 bp):
ATATTTAGGTCAAAGAAGCTCGCAGTTGAATGCACTCCCCTGGAACTTGAAGGCATCGTGTCAAA
CAAGTACTGAACAGAGTGATGTGTCGCAGGCATCTCC
Found at i:1835139 original size:19 final size:20
Alignment explanation
Indices: 1835117--1835164 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
1835107 AAGTTTGGCC
1835117 AAATAATTA-AATATAA-AA
1 AAATAATTATAATATAATAA
*
1835135 TAAATATAATATAATATAATAA
1 -AAATA-ATTATAATATAATAA
1835157 AAATAATT
1 AAATAATT
1835165 TTAGCTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 5 0.21
20 5 0.21
21 12 0.50
22 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAATTATAATATAATAA
Found at i:1835150 original size:10 final size:11
Alignment explanation
Indices: 1835119--1835161 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
1835109 GTTTGGCCAA
1835119 ATAAT-TAAAT
1 ATAATATAAAT
*
1835129 ATAAAATAAAT
1 ATAATATAAAT
1835140 ATAATAT-AAT
1 ATAATATAAAT
*
1835150 ATAATAAAAAT
1 ATAATATAAAT
1835161 A
1 A
1835162 ATTTTAGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 13 0.46
11 15 0.54
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:1836317 original size:9 final size:9
Alignment explanation
Indices: 1836303--1836385 Score: 75
Period size: 9 Copynumber: 9.2 Consensus size: 9
1836293 TATTTACTTT
*
1836303 TTATTTTTC
1 TTATTTTTA
1836312 TTA-TTTTA
1 TTATTTTTA
1836320 TTTATTTCTT-
1 -TTATTT-TTA
1836330 TT-TTTCTT-
1 TTATTT-TTA
*
1836338 TTCTTTTTA
1 TTATTTTTA
1836347 TTATTTTTA
1 TTATTTTTA
1836356 TTATTTTTA
1 TTATTTTTA
1836365 TTATTTTATA
1 TTATTTT-TA
*
1836375 TTAGTTTTA
1 TTATTTTTA
1836384 TT
1 TT
1836386 TATATATTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
8 14 0.22
9 39 0.60
10 10 0.15
11 2 0.03
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (9 bp):
TTATTTTTA
Found at i:1836489 original size:12 final size:11
Alignment explanation
Indices: 1836467--1836592 Score: 55
Period size: 11 Copynumber: 10.9 Consensus size: 11
1836457 TTTGAATTTC
1836467 TTTTA-TTTTA
1 TTTTATTTTTA
1836477 TTCTTATTTTTA
1 TT-TTATTTTTA
**
1836489 TTTTATTTTGC
1 TTTTATTTTTA
* *
1836500 TCGTTATCTTTA
1 T-TTTATTTTTA
1836512 TTTTGATTATTT-
1 TTTT-ATT-TTTA
1836524 TATTTATTTTGATTA
1 T-TTTA-TTT--TTA
1836539 TTTTATTTTT-
1 TTTTATTTTTA
* *
1836549 TATGT-TCTTTA
1 T-TTTATTTTTA
1836560 TTTTATTTAGTT-
1 TTTTATTT--TTA
*
1836572 TTTTATCTTTA
1 TTTTATTTTTA
1836583 TTTTATTTTT
1 TTTTATTTTT
1836593 TTATGTATTT
Statistics
Matches: 86, Mismatches: 14, Indels: 31
0.66 0.11 0.24
Matches are distributed among these distances:
10 11 0.13
11 29 0.34
12 26 0.30
13 13 0.15
14 6 0.07
15 1 0.01
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:1836568 original size:9 final size:9
Alignment explanation
Indices: 1836508--1836655 Score: 76
Period size: 9 Copynumber: 15.8 Consensus size: 9
1836498 GCTCGTTATC
1836508 TTTATTTTGA
1 TTTATTTT-A
1836518 -TTATTTTA
1 TTTATTTTA
1836526 TTTATTTTGA
1 TTTATTTT-A
1836536 -TTATTTTA
1 TTTATTTTA
* *
1836544 TTTTTTATGTTC
1 ---TTTATTTTA
1836556 TTTATTTTA
1 TTTATTTTA
*
1836565 TTTAGTTT-
1 TTTATTTTA
1836573 TTTATCTTTA
1 TTTAT-TTTA
1836583 TTTTATTTT-
1 -TTTATTTTA
*
1836592 TTTA-TGTA
1 TTTATTTTA
1836600 TTT-TCTTTA
1 TTTAT-TTTA
1836609 TCTTATTTT-
1 T-TTATTTTA
*
1836618 TTCTTTTTTCA
1 TT-TATTTT-A
1836629 TTTATTTTA
1 TTTATTTTA
*
1836638 TTTTTCTTTA
1 TTTAT-TTTA
1836648 GTTTATTT
1 -TTTATTT
1836656 ATCTTCATTG
Statistics
Matches: 107, Mismatches: 12, Indels: 38
0.68 0.08 0.24
Matches are distributed among these distances:
7 2 0.02
8 14 0.13
9 53 0.50
10 20 0.19
11 12 0.11
12 6 0.06
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:1836581 original size:71 final size:70
Alignment explanation
Indices: 1836485--1836619 Score: 180
Period size: 70 Copynumber: 1.9 Consensus size: 70
1836475 TATTCTTATT
* * * *
1836485 TTTATTTTATTTTGCTCGTTATCTTTATTTTGATTATTTTATTTATTTTGATTATTTTATTTTTT
1 TTTATTTTATTTAGCTCGTTATCTTTATTTT-ATTATTTTATGTATTTTCATTATCTTATTTTTT
1836550 ATGTTC
65 ATGTTC
* ** * *
1836556 TTTATTTTATTTAGTTTTTTATCTTTATTTTATTTTTTTATGTATTTTCTTTATCTTATTTTTT
1 TTTATTTTATTTAGCTCGTTATCTTTATTTTATTATTTTATGTATTTTCATTATCTTATTTTTT
1836620 CTTTTTTCAT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
70 28 0.51
71 27 0.49
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (70 bp):
TTTATTTTATTTAGCTCGTTATCTTTATTTTATTATTTTATGTATTTTCATTATCTTATTTTTTA
TGTTC
Found at i:1836584 original size:44 final size:46
Alignment explanation
Indices: 1836536--1836660 Score: 121
Period size: 49 Copynumber: 2.6 Consensus size: 46
1836526 TTTATTTTGA
*
1836536 TTATTTTATTTTTTATG-TTCTTTATTTTATTTAGTT-TTTTATC-T
1 TTATTTTATTTTTTATGTTTCTTTATCTTATTT-GTTCTTTTATCAT
* *
1836580 TTATTTTATTTTTTTATGTATTTTCTTTATCTTATTTTTTCTTTTTTCAT
1 TTATTTTA-TTTTTTATG---TTTCTTTATCTTATTTGTTCTTTTATCAT
* *
1836630 TTATTTTATTTTTCTTTAGTTTATTTATCTT
1 TTATTTTATTTTT-TAT-GTTTCTTTATCTT
1836661 CATTGCCTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
44 8 0.12
45 9 0.13
48 13 0.19
49 25 0.37
50 11 0.16
51 1 0.01
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.75
Consensus pattern (46 bp):
TTATTTTATTTTTTATGTTTCTTTATCTTATTTGTTCTTTTATCAT
Found at i:1836608 original size:49 final size:49
Alignment explanation
Indices: 1836536--1836642 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 49
1836526 TTTATTTTGA
* *
1836536 TTATTTTATTTTTTATGTTCTTTATTTTATTTAGTT-TTTTATC-TTTATT
1 TTATTTT-TTTTGTATGTTCTTTATCTTATTT-GTTCTTTTATCATTTATT
* * *
1836585 TTATTTTTTTATGTATTTTCTTTATCTTATTTTTTCTTTTTTCATTTATT
1 TTATTTTTTT-TGTATGTTCTTTATCTTATTTGTTCTTTTATCATTTATT
1836635 TTATTTTT
1 TTATTTTT
1836643 CTTTAGTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
48 5 0.10
49 31 0.62
50 14 0.28
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.77
Consensus pattern (49 bp):
TTATTTTTTTTGTATGTTCTTTATCTTATTTGTTCTTTTATCATTTATT
Found at i:1836626 original size:23 final size:23
Alignment explanation
Indices: 1836467--1836646 Score: 97
Period size: 23 Copynumber: 7.7 Consensus size: 23
1836457 TTTGAATTTC
*
1836467 TTTTATTTTATTC-TTATT-TTTA
1 TTTTATTTT-TTCTTTTTTCTTTA
* * *
1836489 TTTTA-TTTTGCTCGTTATCTTTA
1 TTTTATTTTTTCT-TTTTTCTTTA
*
1836512 TTTTGATTATTTTATTTATTT-TGATTA
1 TTTT-ATT-TTTTCTTT-TTTCT--TTA
* *
1836539 TTTTA-TTTTT-TATGTTCTTTA
1 TTTTATTTTTTCTTTTTTCTTTA
* *
1836560 TTTTATTTAGTT-TTTTATCTTTA
1 TTTTATTT-TTTCTTTTTTCTTTA
*
1836583 TTTTATTTTTTTATGTATTTTCTTTA
1 TTTTA-TTTTTTCT-T-TTTTCTTTA
*
1836609 TCTTATTTTTTCTTTTTTCATTTA
1 TTTTATTTTTTCTTTTTTC-TTTA
1836633 TTTTA-TTTTTCTTT
1 TTTTATTTTTTCTTT
1836647 AGTTTATTTA
Statistics
Matches: 122, Mismatches: 19, Indels: 33
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.02
21 11 0.09
22 11 0.09
23 42 0.34
24 18 0.15
25 12 0.10
26 19 0.16
27 7 0.06
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTTATTTTTTCTTTTTTCTTTA
Found at i:1836632 original size:24 final size:23
Alignment explanation
Indices: 1836600--1836660 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
1836590 TTTTTATGTA
1836600 TTTTC-TTTATCTTATTTTTTCTT
1 TTTTCATTTATCTTA-TTTTTCTT
*
1836623 TTTTCATTTATTTTATTTTTCTT
1 TTTTCATTTATCTTATTTTTCTT
1836646 TAGTTT-ATTTATCTT
1 T--TTTCATTTATCTT
1836661 CATTGCCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 14 0.42
24 16 0.48
25 3 0.09
ACGTcount: A:0.13, C:0.10, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTCATTTATCTTATTTTTCTT
Found at i:1836642 original size:6 final size:5
Alignment explanation
Indices: 1836467--1836655 Score: 69
Period size: 5 Copynumber: 36.6 Consensus size: 5
1836457 TTTGAATTTC
* *
1836467 TTTTA TTTTA TTCTTA TTTTTA TTTTA TTTTGC TCGTTA TCTTTA TTTTGA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTT-A T-TTTA T-TTTA TTTT-A
1836518 --TTA TTTTA -TTTA TTTTGA --TTA TTTTA TTTT- TTATGT- TCTTTA
1 TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TT-T-TA T-TTTA
* * *
1836560 TTTTA TTTAGTT TTTTA TCTTTA TTTTA TTTTT TTATGTA TTTT- CTTTA
1 TTTTA TTT--TA TTTTA T-TTTA TTTTA TTTTA TT-T-TA TTTTA TTTTA
* *
1836609 TCTTA TTTT- TTCTT- TTTTCA -TTTA TTTTA TTTT- TCTTTA GTTTA
1 TTTTA TTTTA TT-TTA TTTT-A TTTTA TTTTA TTTTA T-TTTA TTTTA
1836653 TTT
1 TTT
1836656 ATCTTCATTG
Statistics
Matches: 143, Mismatches: 14, Indels: 54
0.68 0.07 0.26
Matches are distributed among these distances:
3 2 0.01
4 19 0.13
5 84 0.59
6 26 0.18
7 12 0.08
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:1836642 original size:18 final size:17
Alignment explanation
Indices: 1836301--1836642 Score: 93
Period size: 18 Copynumber: 19.6 Consensus size: 17
1836291 TATATTTACT
1836301 TTTTATTTTTCTTATTT-
1 TTTTATTTTT-TTATTTA
1836318 TATTTATTTCTTTT-TTT-
1 T-TTTATTT-TTTTATTTA
* *
1836335 CTTT-TCTTTTTA-TTA
1 TTTTATTTTTTTATTTA
1836350 TTTTTATTATTTTTA-TTA
1 -TTTTATT-TTTTTATTTA
1836368 TTTTATATTAGTTTTATTTA
1 TTTTAT-TT--TTTTATTTA
* * *
1836388 -TATATTTTGTT-TTCA
1 TTTTATTTTTTTATTTA
* *
1836403 TTTGTACTTTCCTCTTGTTTA
1 TTT-TA-TTT--TTTTATTTA
*
1836424 -TTTATTTATTTATTTA
1 TTTTATTTTTTTATTTA
* * * * * *
1836440 TTATGTATATATAATTA
1 TTTTATTTTTTTATTTA
*
1836457 TTTGAATTTCTTTTATTTTA
1 TTT-TATTT-TTTTA-TTTA
*
1836477 TTCTTATTTTTAT-TTTA
1 TT-TTATTTTTTTATTTA
* ** * *
1836494 TTTTGCTCGTTATCTTTA
1 TTTT-ATTTTTTTATTTA
*
1836512 TTTTGATTATTTTATTTA
1 TTTT-ATTTTTTTATTTA
*
1836530 TTTTGATTATTTTA-TT-
1 TTTT-ATTTTTTTATTTA
*
1836546 TTTTATGTTCTTTATTT-
1 TTTTAT-TTTTTTATTTA
*
1836563 TATTTAGTTTTTTATCTTTA
1 T-TTTA-TTTTTT-TATTTA
*
1836583 TTTTATTTTTTTATGTA
1 TTTTATTTTTTTATTTA
* *
1836600 TTTTCTTTATCTTA-TT-
1 TTTTATTT-TTTTATTTA
* *
1836616 TTTTCTTTTTTCATTTA
1 TTTTATTTTTTTATTTA
1836633 TTTTATTTTT
1 TTTTATTTTT
1836643 CTTTAGTTTA
Statistics
Matches: 245, Mismatches: 47, Indels: 66
0.68 0.13 0.18
Matches are distributed among these distances:
14 6 0.02
15 10 0.04
16 37 0.15
17 64 0.26
18 78 0.32
19 28 0.11
20 18 0.07
21 4 0.02
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.73
Consensus pattern (17 bp):
TTTTATTTTTTTATTTA
Found at i:1837820 original size:18 final size:18
Alignment explanation
Indices: 1837797--1837849 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
1837787 ATATGTTTAG
1837797 TGTGAACAGGTTCTCTTA
1 TGTGAACAGGTTCTCTTA
1837815 TGTGAACAGGTTCTCTTA
1 TGTGAACAGGTTCTCTTA
*
1837833 TGTGAACAGGTTTTCTT
1 TGTGAACAGGTTCTCTT
1837850 CAAGTTCACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.42
Consensus pattern (18 bp):
TGTGAACAGGTTCTCTTA
Found at i:1842100 original size:13 final size:13
Alignment explanation
Indices: 1842069--1842106 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
1842059 TTCCATTTTT
1842069 TTAAATTTTTAAA
1 TTAAATTTTTAAA
1842082 -TAAATTTTTAAA
1 TTAAATTTTTAAA
*
1842094 TTTAA-TTTTAAA
1 TTAAATTTTTAAA
1842106 T
1 T
1842107 GATATATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 20 0.87
13 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAAATTTTTAAA
Found at i:1842161 original size:12 final size:12
Alignment explanation
Indices: 1842144--1842168 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1842134 TTTTAAAATT
1842144 TATAATTTAATC
1 TATAATTTAATC
1842156 TATAATTTAATC
1 TATAATTTAATC
1842168 T
1 T
1842169 TTAGATTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TATAATTTAATC
Found at i:1851002 original size:16 final size:17
Alignment explanation
Indices: 1850977--1851009 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1850967 TTATATTTTA
1850977 ATTTTAAAATTA-AAAT
1 ATTTTAAAATTATAAAT
*
1850993 ATTTTGAAATTATAAAT
1 ATTTTAAAATTATAAAT
1851010 TTGATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTTTAAAATTATAAAT
Found at i:1851008 original size:24 final size:23
Alignment explanation
Indices: 1850969--1851035 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
1850959 TTGAAAATTT
*
1850969 ATATTTT-AATTTTAAAATTAAA
1 ATATTTTAAATTATAAAATTAAA
* * *
1850991 ATATTTTGAAATTATAAATTTGAT
1 ATATTTT-AAATTATAAAATTAAA
*
1851015 ATTTTTATAAATTATAAAATT
1 ATATTT-TAAATTATAAAATT
1851036 TTAAGAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 7 0.19
24 28 0.78
25 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATTATAAAATTAAA
Found at i:1855825 original size:3 final size:3
Alignment explanation
Indices: 1855817--1855885 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
1855807 CCATTTTTAT
* * * * *
1855817 TTA TTA TTA TTA TTA TAA TAA TTA TTA TTA TAA TAA TAA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1855864 ATA TATA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA
1855886 AAAAAATAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:1855842 original size:15 final size:15
Alignment explanation
Indices: 1855822--1855877 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
1855812 TTTATTTATT
1855822 ATTATTATTATAATA
1 ATTATTATTATAATA
1855837 ATTATTATTATAATA
1 ATTATTATTATAATA
*
1855852 ATAATTATTATAAT-
1 ATTATTATTATAATA
1855866 ATATATTATTAT
1 AT-TATTATTAT
1855878 TATTATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 2 0.05
15 36 0.95
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTATTATAATA
Found at i:1855842 original size:18 final size:18
Alignment explanation
Indices: 1855819--1855883 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
1855809 ATTTTTATTT
1855819 ATTATTATTATTATAATA
1 ATTATTATTATTATAATA
*
1855837 ATTATTATTATAATAATA
1 ATTATTATTATTATAATA
*
1855855 ATTATTA-TAATAT-AT-
1 ATTATTATTATTATAATA
1855870 ATTATTATTATTAT
1 ATTATTATTATTAT
1855884 TAAAAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
15 7 0.17
16 7 0.17
17 4 0.10
18 24 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTATTATTATTATAATA
Found at i:1857179 original size:28 final size:26
Alignment explanation
Indices: 1857135--1857189 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
1857125 ATTTTAAATA
*
1857135 ATTAATTAAATTAAGTATTTAATTTT
1 ATTAATTAAATTAAGTAATTAATTTT
*
1857161 ATTAGATTATAATTTAGTAATTAATTTT
1 ATTA-ATTA-AATTAAGTAATTAATTTT
1857189 A
1 A
1857190 AATATTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 4 0.16
28 17 0.68
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (26 bp):
ATTAATTAAATTAAGTAATTAATTTT
Found at i:1857283 original size:19 final size:17
Alignment explanation
Indices: 1857242--1857343 Score: 63
Period size: 18 Copynumber: 6.1 Consensus size: 17
1857232 TTATTATTGT
* *
1857242 TTATTTATGTTTTAATT
1 TTATTTATATTTTAATA
1857259 TTATTTATATATTTAA-A
1 TTATTTATAT-TTTAATA
*
1857276 -TA-TTAT-TTTTATTA
1 TTATTTATATTTTAATA
**
1857290 TTATTATATAGTCATAA-A
1 TTATT-TATA-TTTTAATA
*
1857308 TTATTTTTATTTTAATA
1 TTATTTATATTTTAATA
1857325 TTTATTTAT-TTTTCAATA
1 -TTATTTATATTTT-AATA
1857343 T
1 T
1857344 CAAAGAAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
13 4 0.06
14 2 0.03
15 6 0.09
16 7 0.11
17 21 0.32
18 22 0.34
19 3 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATTTATATTTTAATA
Found at i:1857299 original size:30 final size:29
Alignment explanation
Indices: 1857246--1857333 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 29
1857236 TATTGTTTAT
1857246 TTATGTTTTAATTTTATTTATATATTTA-AATA
1 TTAT-TTTT-ATTTTA-TTATATATTTATAA-A
* *
1857278 TTATTTTTATTATTATTATATAGTCATAAA
1 TTATTTTTATT-TTATTATATATTTATAAA
* *
1857308 TTATTTTTATTTTAATATTTATTTAT
1 TTATTTTTATTTTATTATATATTTAT
1857334 TTTTCAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 11 0.23
30 24 0.50
31 9 0.19
32 4 0.08
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (29 bp):
TTATTTTTATTTTATTATATATTTATAAA
Found at i:1868739 original size:10 final size:9
Alignment explanation
Indices: 1868719--1868769 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 9
1868709 ATTATGCTTG
1868719 AAGAAAAAA
1 AAGAAAAAA
1868728 AAGAATAAAA
1 AAGAA-AAAA
1868738 AAGAAAGAGAA
1 AAGAAA-A-AA
*
1868749 AAAAGAAAAA
1 AAGA-AAAAA
1868759 AAGAAAAAA
1 AAGAAAAAA
1868768 AA
1 AA
1868770 AGGTCAAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 13 0.36
10 15 0.42
11 6 0.17
12 2 0.06
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:1868750 original size:23 final size:21
Alignment explanation
Indices: 1868719--1868770 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 21
1868709 ATTATGCTTG
1868719 AAGAAAAAAAAGAATAAAAAAGA
1 AAGAAAAAAAAG-A-AAAAAAGA
*
1868742 AAGAGAAAAAAGAAAAAAAGA
1 AAGAAAAAAAAGAAAAAAAGA
1868763 AA-AAAAAA
1 AAGAAAAAA
1868771 GGTCAAGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 1 0.04
23 11 0.41
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (21 bp):
AAGAAAAAAAAGAAAAAAAGA
Found at i:1868760 original size:8 final size:8
Alignment explanation
Indices: 1868723--1868768 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
1868713 TGCTTGAAGA
1868723 AAAAAAAG
1 AAAAAAAG
*
1868731 -AATAAA-
1 AAAAAAAG
*
1868737 AAAGAAAG
1 AAAAAAAG
1868745 AGAAAAAAG
1 A-AAAAAAG
1868754 AAAAAAAG
1 AAAAAAAG
1868762 AAAAAAA
1 AAAAAAA
1868769 AAGGTCAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
7 10 0.31
8 15 0.47
9 7 0.22
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1869138 original size:18 final size:18
Alignment explanation
Indices: 1869102--1869146 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
1869092 AAATTCCAAG
*
1869102 TTCAATTTA--TTTGAGA
1 TTCAATTTATTTTTGAAA
1869118 TTCAATTTATTTTTGAAA
1 TTCAATTTATTTTTGAAA
1869136 TTCAATTTATT
1 TTCAATTTATT
1869147 CTTTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 9 0.35
18 17 0.65
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TTCAATTTATTTTTGAAA
Found at i:1869742 original size:229 final size:227
Alignment explanation
Indices: 1869343--1869800 Score: 898
Period size: 229 Copynumber: 2.0 Consensus size: 227
1869333 CAAGTTTTAC
1869343 TGTCAACTAAACCGTTCCATGATTCGAAAAGATGGATATATTGGAGCAGCAGAAGAGACAGTTTG
1 TGTCAACTAAACCGTTCCATGATTCGAAAAGATGGATATATTGGAGCAGCAGAAGAGACAGTTTG
1869408 TTGTAGCAATCATTGCAAGTAAATGCACCAACAAAATCTTCAAGCCCATCACAATGATGTTTATT
66 TTGTAGCAATCATTGCAAGTAAATGCACCAACAAAATCTTCAAGCCCATCACAATGATGTTTATT
1869473 TCTTCCAGTAAGGTTGTTACGCTGGATGCCACCGACAAAAAGGTCGAGTCCGTTAAAACTACTCA
131 TCTTCCAGTAAGGTTGTTACGCTGGATGCCACCGACAAAAAGGTCGAGTCCGTTAAAACTACTCA
1869538 TCAATTACTCCAACCGATCATCATTCAGTTCT
196 TCAATTACTCCAACCGATCATCATTCAGTTCT
1869570 TGTCAACTAAACCGTTCCATGATTCGAAAAGATGGGATATATTGGAGCAGCAGAAGAGACAGTTT
1 TGTCAACTAAACCGTTCCATGATTCGAAAAGAT-GGATATATTGGAGCAGCAGAAGAGACAGTTT
1869635 GTTGTAGCAATCATTGCAAGTAAATGCACCAACAAAAATCTTCAAGCCCATCACAATGATGTTTA
65 GTTGTAGCAATCATTGCAAGTAAATGCACCAAC-AAAATCTTCAAGCCCATCACAATGATGTTTA
1869700 TTTCTTCCAGTAAGGTTGTTACGCTGGATGCCACCGACAAAAAGGTCGAGTCCGTTAAAACTACT
129 TTTCTTCCAGTAAGGTTGTTACGCTGGATGCCACCGACAAAAAGGTCGAGTCCGTTAAAACTACT
1869765 CATCAATTACTCCAACCGATCATCATTCAGTTCT
194 CATCAATTACTCCAACCGATCATCATTCAGTTCT
1869799 TG
1 TG
1869801 CACATCTGTT
Statistics
Matches: 229, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
227 33 0.14
228 64 0.28
229 132 0.58
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (227 bp):
TGTCAACTAAACCGTTCCATGATTCGAAAAGATGGATATATTGGAGCAGCAGAAGAGACAGTTTG
TTGTAGCAATCATTGCAAGTAAATGCACCAACAAAATCTTCAAGCCCATCACAATGATGTTTATT
TCTTCCAGTAAGGTTGTTACGCTGGATGCCACCGACAAAAAGGTCGAGTCCGTTAAAACTACTCA
TCAATTACTCCAACCGATCATCATTCAGTTCT
Found at i:1870297 original size:115 final size:114
Alignment explanation
Indices: 1870092--1870436 Score: 559
Period size: 115 Copynumber: 3.0 Consensus size: 114
1870082 AGCAAGTGCC
1870092 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1870157 ATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGA
66 ATCTGGTTTGGTATGAA-CCCAAAAACCAATCATTGGATTTGAAAGATGA
1870207 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
* *
1870272 ATCTAGTTTGGTATGAACCCTAAAAACCAATCATTAGATTTGAAAGATGA
66 ATCTGGTTTGGTATGAACCC-AAAAACCAATCATTGGATTTGAAAGATGA
* *
1870322 ATTTGCTCATAGTACAAATAA-AGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 ATGTGCTCATAGTAGAAATAAGA-AGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
* * * * *
1870386 GATCTGGTTCGGTAGGAA-CCACAGAACCAATCATTGGAATTAAAAGATGA
65 GATCTGGTTTGGTATGAACCCA-AAAACCAATCATTGGATTTGAAAGATGA
1870436 A
1 A
1870437 CTGCATGATC
Statistics
Matches: 216, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
113 1 0.00
114 31 0.14
115 184 0.85
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (114 bp):
ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
ATCTGGTTTGGTATGAACCCAAAAACCAATCATTGGATTTGAAAGATGA
Found at i:1871301 original size:113 final size:113
Alignment explanation
Indices: 1871102--1871386 Score: 543
Period size: 113 Copynumber: 2.5 Consensus size: 113
1871092 TAGCAAAGAT
1871102 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCTG
1871167 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
1871216 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1871281 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
1871329 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATAAGAAGAACT
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACT
1871387 TGTTCAACTT
Statistics
Matches: 168, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
113 134 0.80
114 34 0.20
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (113 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:1871444 original size:73 final size:73
Alignment explanation
Indices: 1871288--1871459 Score: 186
Period size: 73 Copynumber: 2.4 Consensus size: 73
1871278 TGAAGAAGGA
* ** *
1871288 AGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATC
1 AGAA-AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATCAGATGGAAC
** *
1871352 AGCTTTTCC
65 AGCAGTACC
* * * *
1871361 AGAAAAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCAG-TGGAAC
1 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCA-TCAGATGGAAC
1871425 AGCAGTACC
65 AGCAGTACC
** *
1871434 AGTTAGAGTTCATAATGAGAAGAACT
1 AGAAAAAGTTCATAATGAGAAGAACT
1871460 CATCTAAAGA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
72 3 0.04
73 77 0.94
74 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (73 bp):
AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATCAGATGGAACA
GCAGTACC
Found at i:1871497 original size:186 final size:186
Alignment explanation
Indices: 1871175--1871572 Score: 494
Period size: 186 Copynumber: 2.1 Consensus size: 186
1871165 TGAAGAAGGA
* * ** *
1871175 AGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATC
1 AGAA-AAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATCAGATGGAAC
** * *
1871239 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
65 AGCAGTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAATTCATAAT
* ** * *
1871304 GAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCC
130 GAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGCATTACC
* * *
1871361 AGAAAAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCAG-TGGAAC
1 AGAAAAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCA-TCAGATGGAAC
** * *
1871425 AGCAGTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAGTTCATAAT
65 AGCAGTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAATTCATAAT
* ** * *
1871490 GAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCATCATTACC
130 GAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGCATTACC
****
1871547 AGTTCGAGTTCATAATAAGAAGAACT
1 AGAAAAAGTTCATAATAAGAAGAACT
1871573 CATCTGAAGA
Statistics
Matches: 180, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
185 3 0.02
186 175 0.97
187 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (186 bp):
AGAAAAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATCAGATGGAACA
GCAGTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAATTCATAATG
AGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGCATTACC
Found at i:1871568 original size:113 final size:112
Alignment explanation
Indices: 1871361--1871846 Score: 568
Period size: 113 Copynumber: 4.3 Consensus size: 112
1871351 CAGCTTTTCC
* * * * * *
1871361 AGAAAAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCAGTGGAACA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCAATGGATCA
*
1871426 GCAGTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAGGA
66 GCATTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAA-GA
* *
1871474 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCAATGGATCA
* * * *
1871539 TCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGA
66 GCATTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAA-GA
* * ** *
1871587 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCAATGGATCA
* * * * **
1871652 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTC-ATCTGAAGA
66 GCATTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTA-AAGAAGA
* * * * *
1871699 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTT-GATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCA-TTCAATGGATC
* * ** * *
1871763 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT-T--TGAAGA
65 AGCATTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAGA
* *
1871808 AGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
1871847 ACATAATTTT
Statistics
Matches: 327, Mismatches: 43, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
109 41 0.13
112 89 0.27
113 197 0.60
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (112 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCAATGGATCA
GCATTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAGA
Found at i:1871683 original size:299 final size:299
Alignment explanation
Indices: 1871141--1871685 Score: 829
Period size: 299 Copynumber: 1.8 Consensus size: 299
1871131 TCCAGAAAAA
* *
1871141 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC
** * * *
1871206 AACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
66 AACCTTTTGCTCAAATCCATCATTCAATGGATCAGCATTACCAGAGAAAGTTCATAATAAGAAGA
1871271 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
131 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
* * *
1871336 CATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTG
196 CATCATTTGATGGATCAACATTGCCAGAAAAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTG
1871401 CTTAAATTCATCACTCAGTGGAACAGCAGTACCAGTTAG
261 CTTAAATTCATCACTCAGTGGAACAGCAGTACCAGTTAG
*
1871440 AGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC
* ** * * ****
1871505 AACTTTTTGCTTGAATTCATCATTCAATGGATCATCATTACCAGTTCGAGTTCATAATAAGAAGA
66 AACCTTTTGCTCAAATCCATCATTCAATGGATCAGCATTACCAGAGAAAGTTCATAATAAGAAGA
* * * *
1871570 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATT
131 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
* ** * *
1871635 CATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACT
196 CATCATTTGATGGATCAACATTGCCAGAAAAAGTTCATAATAAGAAGAACT
1871686 CGTCATCTGA
Statistics
Matches: 217, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
299 217 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (299 bp):
AGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTCAAATCCATCATTCAATGGATCAGCATTACCAGAGAAAGTTCATAATAAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
CATCATTTGATGGATCAACATTGCCAGAAAAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTG
CTTAAATTCATCACTCAGTGGAACAGCAGTACCAGTTAG
Found at i:1871984 original size:124 final size:124
Alignment explanation
Indices: 1871767--1872059 Score: 352
Period size: 124 Copynumber: 2.4 Consensus size: 124
1871757 TGGATCAGCT
* *
1871767 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATTTG---AAG-AAGAAGAAGTTCACAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAAAAGAAAGAAAAAGTTCACAATGAGA
* * * * * *
1871828 AGAGCTTGTTCAACCTTTTACATAATTTTATCACAGAA-GAAGATATATTAGCATCAACC
66 AGAGCTTATTCAACCTTTTACATAACTCTATCACAGAAGGAA-ATAGATCAACATCAACC
*
1871887 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAAAAGAAAGAAAAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAAAAGAAAGAAAAAGTTCACAATGAGA
* * *
1871952 AGAGCTTATTCAACCTTTTGA-ATGACTCTATCACAGAAGGAAATAGGTCAACATCATCC
66 AGAGCTTATTCAACCTTTT-ACATAACTCTATCACAGAAGGAAATAGATCAACATCAACC
* *
1872011 ---CCAGCGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
1 TTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATATGAA-AAAGA-AAGAA
1872060 TTTATTCAAA
Statistics
Matches: 150, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
120 36 0.24
121 4 0.03
122 30 0.20
123 8 0.05
124 68 0.45
125 4 0.03
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (124 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAAAAGAAAGAAAAAGTTCACAATGAGA
AGAGCTTATTCAACCTTTTACATAACTCTATCACAGAAGGAAATAGATCAACATCAACC
Found at i:1872212 original size:3 final size:3
Alignment explanation
Indices: 1872204--1872275 Score: 83
Period size: 3 Copynumber: 24.0 Consensus size: 3
1872194 CAATTTTTAT
* * *
1872204 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TAA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1872251 ATA TAGA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA
1872276 AAAATAATAG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
2 2 0.03
3 56 0.93
4 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:1872226 original size:15 final size:15
Alignment explanation
Indices: 1872206--1872275 Score: 97
Period size: 15 Copynumber: 4.7 Consensus size: 15
1872196 ATTTTTATTT
1872206 ATTATTATTATTATA
1 ATTATTATTATTATA
1872221 ATTATTATTATTATA
1 ATTATTATTATTATA
*
1872236 ATAATTATTATTATA
1 ATTATTATTATTATA
* *
1872251 A-TATAGATTATTATT
1 ATTAT-TATTATTATA
1872266 ATTATTATTA
1 ATTATTATTA
1872276 AAAATAATAG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
14 2 0.04
15 43 0.90
16 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (15 bp):
ATTATTATTATTATA
Found at i:1872227 original size:18 final size:18
Alignment explanation
Indices: 1872204--1872273 Score: 106
Period size: 18 Copynumber: 3.9 Consensus size: 18
1872194 CAATTTTTAT
1872204 TTATTATTATTATTATAA
1 TTATTATTATTATTATAA
*
1872222 TTATTATTATTATAATAA
1 TTATTATTATTATTATAA
*
1872240 TTATTATTA-TAATATAGA
1 TTATTATTATTATTATA-A
1872258 TTATTATTATTATTAT
1 TTATTATTATTATTAT
1872274 TAAAAATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
17 5 0.11
18 36 0.78
19 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (18 bp):
TTATTATTATTATTATAA
Found at i:1873567 original size:28 final size:26
Alignment explanation
Indices: 1873523--1873577 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
1873513 ATTTTAAATA
*
1873523 ATTAATTAAATTAAGTATTTAATTTT
1 ATTAATTAAATTAAGTAATTAATTTT
*
1873549 ATTAGATTATAATTTAGTAATTAATTTT
1 ATTA-ATTA-AATTAAGTAATTAATTTT
1873577 A
1 A
1873578 AATATTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 4 0.16
28 17 0.68
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (26 bp):
ATTAATTAAATTAAGTAATTAATTTT
Found at i:1873671 original size:19 final size:17
Alignment explanation
Indices: 1873630--1873731 Score: 63
Period size: 18 Copynumber: 6.1 Consensus size: 17
1873620 TTATTATTGT
* *
1873630 TTATTTATGTTTTAATT
1 TTATTTATATTTTAATA
1873647 TTATTTATATATTTAA-A
1 TTATTTATAT-TTTAATA
*
1873664 -TA-TTAT-TTTTATTA
1 TTATTTATATTTTAATA
**
1873678 TTATTATATAGTCATAA-A
1 TTATT-TATA-TTTTAATA
*
1873696 TTATTTTTATTTTAATA
1 TTATTTATATTTTAATA
1873713 TTTATTTAT-TTTTCAATA
1 -TTATTTATATTTT-AATA
1873731 T
1 T
1873732 CAAAGAAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
13 4 0.06
14 2 0.03
15 6 0.09
16 7 0.11
17 21 0.32
18 22 0.34
19 3 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATTTATATTTTAATA
Found at i:1873687 original size:30 final size:29
Alignment explanation
Indices: 1873634--1873721 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 29
1873624 TATTGTTTAT
1873634 TTATGTTTTAATTTTATTTATATATTTA-AATA
1 TTAT-TTTT-ATTTTA-TTATATATTTATAA-A
* *
1873666 TTATTTTTATTATTATTATATAGTCATAAA
1 TTATTTTTATT-TTATTATATATTTATAAA
* *
1873696 TTATTTTTATTTTAATATTTATTTAT
1 TTATTTTTATTTTATTATATATTTAT
1873722 TTTTCAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 11 0.23
30 24 0.50
31 9 0.19
32 4 0.08
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (29 bp):
TTATTTTTATTTTATTATATATTTATAAA
Found at i:1873813 original size:19 final size:19
Alignment explanation
Indices: 1873785--1873828 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1873775 GTATTTTAAA
*
1873785 ATTAAATATTATAAAATTT
1 ATTAATTATTATAAAATTT
* *
1873804 TTTAATTATTATAATATTT
1 ATTAATTATTATAAAATTT
1873823 ATTAAT
1 ATTAAT
1873829 ATCAAAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTAATTATTATAAAATTT
Found at i:1877473 original size:30 final size:29
Alignment explanation
Indices: 1877452--1877555 Score: 127
Period size: 30 Copynumber: 3.5 Consensus size: 29
1877442 TAGAATTGCG
**
1877452 GGATCAAATAAATATTTAATTAAAACTGTG
1 GGATCAAATAAAT-TTTAATTAAAACTGCA
1877482 GGATCAAATAAACTTTTAATTAAAACTGCA
1 GGATCAAATAAA-TTTTAATTAAAACTGCA
* * *
1877512 AGATCAAATAAATTTTTAATTATAATTGCA
1 GGATCAAATAAA-TTTTAATTAAAACTGCA
*
1877542 GGATCAAATGAATT
1 GGATCAAATAAATT
1877556 ATTATTCATT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
29 2 0.03
30 62 0.95
31 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.34
Consensus pattern (29 bp):
GGATCAAATAAATTTTAATTAAAACTGCA
Found at i:1878122 original size:91 final size:92
Alignment explanation
Indices: 1878015--1878197 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 92
1878005 TCCTAACAAA
1878015 AAAATATTAACATATTAGTCATTATTTTAAAAATATTTACTAAATTAGCACCTAATTTTTACACG
1 AAAATATTAACATATTAGTCATTATTTTAAAAATATTTACTAAATTAGCACCTAATTTTTACACG
1878080 ATCACATAAGGCGCGGTGCATGAGCTG
66 ATCACATAAGGCGCGGTGCATGAGCTG
1878107 AAAA-ATTAACATATTAGTCATTATTTTAAAAATATTTACTAAATTAGCACCTAATTTTTACACG
1 AAAATATTAACATATTAGTCATTATTTTAAAAATATTTACTAAATTAGCACCTAATTTTTACACG
1878171 ATCACATAAGGCGCGGTGCATGAGCTG
66 ATCACATAAGGCGCGGTGCATGAGCTG
1878198 CGTCTTATTC
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 87 0.96
92 4 0.04
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (92 bp):
AAAATATTAACATATTAGTCATTATTTTAAAAATATTTACTAAATTAGCACCTAATTTTTACACG
ATCACATAAGGCGCGGTGCATGAGCTG
Found at i:1879979 original size:20 final size:20
Alignment explanation
Indices: 1879954--1880004 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1879944 CACGGAATGT
1879954 AAGATTACCAGTAGTAATAA
1 AAGATTACCAGTAGTAATAA
*
1879974 AAGATTACCAGTGGTAATAA
1 AAGATTACCAGTAGTAATAA
1879994 AAGATTACCAG
1 AAGATTACCAG
1880005 GGAATATGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (20 bp):
AAGATTACCAGTAGTAATAA
Found at i:1880177 original size:15 final size:15
Alignment explanation
Indices: 1880159--1880189 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1880149 AAATTCTAAA
1880159 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
1880174 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
1880189 T
1 T
1880190 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:1883566 original size:36 final size:36
Alignment explanation
Indices: 1883526--1883605 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
1883516 GTCTACATCT
1883526 AGAAGGTGAATAATATAAGAGATTAGGAAAAAAAGA
1 AGAAGGTGAATAATATAAGAGATTAGGAAAAAAAGA
* *
1883562 AGAAGGTGAATATTATAAGAGATTAGGAAAAGAAGA
1 AGAAGGTGAATAATATAAGAGATTAGGAAAAAAAGA
1883598 AGAAGGTG
1 AGAAGGTG
1883606 TTGATGAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (36 bp):
AGAAGGTGAATAATATAAGAGATTAGGAAAAAAAGA
Found at i:1884148 original size:14 final size:15
Alignment explanation
Indices: 1884129--1884161 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1884119 ATCATCTTTC
*
1884129 TTAATTTTTTAA-AT
1 TTAATTATTTAATAT
1884143 TTAATTATTTAATAT
1 TTAATTATTTAATAT
1884158 TTAA
1 TTAA
1884162 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTAATTATTTAATAT
Found at i:1884177 original size:24 final size:25
Alignment explanation
Indices: 1884145--1884197 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
1884135 TTTTAAATTT
*
1884145 AATTATTTAATATTTAAAATTTTAA
1 AATTATTTAATATGTAAAATTTTAA
*
1884170 AATT-TTTAATATGTAATATTTTAA
1 AATTATTTAATATGTAAAATTTTAA
1884194 AATT
1 AATT
1884198 CAAATCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
AATTATTTAATATGTAAAATTTTAA
Found at i:1888607 original size:21 final size:21
Alignment explanation
Indices: 1888492--1888607 Score: 60
Period size: 21 Copynumber: 5.6 Consensus size: 21
1888482 GTGAAATAAA
**
1888492 AATCGCAACGCGA-TCCCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
1888512 AATCGCAAATC-AGTTTCCAA
1 AATCGCAACGCGATTTTCCAG
* *
1888532 AATCGCAACGCGATTCTT-GAC
1 AATCGCAACGCGATT-TTCCAG
* ** *
1888553 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
1888573 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
1888595 AATCGCAACGCGA
1 AATCGCAACGCGA
1888608 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 40 0.57
22 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:1888620 original size:20 final size:20
Alignment explanation
Indices: 1888595--1888787 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
1888585 GATTTTCCAG
* ** *
1888595 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1888615 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1888635 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1888655 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1888675 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1888695 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1888715 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1888735 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
1888756 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1888776 AATCGCAACGCG
1 AATCGCAACGCG
1888788 ATTTTTAAAG
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
19 1 0.01
20 131 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1889183 original size:33 final size:33
Alignment explanation
Indices: 1889144--1889214 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1889134 TTCACTTAGA
1889144 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1889177 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1889210 TTTCA
1 TTTCA
1889215 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1889371 original size:26 final size:27
Alignment explanation
Indices: 1889339--1889391 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
1889329 CTATCTGCAA
1889339 CGAG-AAAATGAAAATCGCAACGAGAG
1 CGAGAAAAATGAAAATCGCAACGAGAG
1889365 CGAGAAAAATGAAAATCGCAACGAGAG
1 CGAGAAAAATGAAAATCGCAACGAGAG
1889392 AATCGCAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.51, C:0.15, G:0.26, T:0.08
Consensus pattern (27 bp):
CGAGAAAAATGAAAATCGCAACGAGAG
Found at i:1889390 original size:21 final size:20
Alignment explanation
Indices: 1889293--1889363 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 20
1889283 TGCAGAAGAG
* *
1889293 TCGCAACGAGATAATG-AGA
1 TCGCAACGAGAAAATGAAAA
* **
1889312 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
1889332 TCTGCAACGAGAAAATGAAAA
1 TC-GCAACGAGAAAATGAAAA
1889353 TCGCAACGAGA
1 TCGCAACGAGA
1889364 GCGAGAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 14 0.33
20 12 0.28
21 17 0.40
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:1889397 original size:14 final size:14
Alignment explanation
Indices: 1889378--1889434 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1889368 GAAAAATGAA
1889378 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1889392 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1889411 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1889425 AATCGCAACG
1 AATCGCAACG
1889435 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Done.