Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 96 of 198
Found at i:30693742 original size:18 final size:18
Alignment explanation
Indices: 30693731--30693780 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
30693721 CCCAAGTATT
30693731 CAACCCAACCCAATTACC
1 CAACCCAACCCAATTACC
30693749 CAACCCAACCCAATTACC
1 CAACCCAACCCAATTACC
30693767 CAACCCAACCCAAT
1 CAACCCAACCCAAT
30693781 AATAAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.40, C:0.50, G:0.00, T:0.10
Consensus pattern (18 bp):
CAACCCAACCCAATTACC
Found at i:30693898 original size:9 final size:9
Alignment explanation
Indices: 30693884--30693941 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
30693874 GTAGTGATTC
30693884 AATTCGGTT
1 AATTCGGTT
*
30693893 AATTCGGGT
1 AATTCGGTT
30693902 AATTCGGTT
1 AATTCGGTT
*
30693911 AATTCGGGT
1 AATTCGGTT
*
30693920 AATTCGATT
1 AATTCGGTT
30693929 AATTCGGTT
1 AATTCGGTT
30693938 AATT
1 AATT
30693942 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:30693907 original size:18 final size:18
Alignment explanation
Indices: 30693884--30693941 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
30693874 GTAGTGATTC
30693884 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
30693902 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* *
30693920 AATTCGATTAATTCGGTT
1 AATTCGGTTAATTCGGGT
30693938 AATT
1 AATT
30693942 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:30694801 original size:2 final size:2
Alignment explanation
Indices: 30694794--30694832 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
30694784 AAACATTCTT
30694794 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30694833 TAGCTAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30699349 original size:15 final size:15
Alignment explanation
Indices: 30699331--30699360 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30699321 TTTTTGTTTT
*
30699331 CTTAGTTTTATTTAA
1 CTTAGTTGTATTTAA
30699346 CTTAGTTGTATTTAA
1 CTTAGTTGTATTTAA
30699361 TTTCTACAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (15 bp):
CTTAGTTGTATTTAA
Found at i:30702387 original size:101 final size:101
Alignment explanation
Indices: 30702212--30702425 Score: 270
Period size: 101 Copynumber: 2.1 Consensus size: 101
30702202 TGACGGATAA
* * * * *
30702212 GACCATGGCAATATTTATATGTAAGATCATAGTTGGGCTATGACATTTTAATTAATATACCATAA
1 GACCATGGCAATATTTATAAGTAAGACCATAGTTGGGCTATGACATTCTAATGAATAGACCATAA
** *
30702277 CTAGGTTATGGCACTTTGAGTGTAAGACCATGGTTG
66 CTAGGTTATGGCACTACGAATGTAAGACCATGGTTG
* * *
30702313 GACCATTGCAATATTTATAAGTAAGACCATAGTTGGGCTATGATATTCTGATG-ATAAGACCATA
1 GACCATGGCAATATTTATAAGTAAGACCATAGTTGGGCTATGACATTCTAATGAAT-AGACCATA
* * *
30702377 ACTGGGTTATGGCACTACGAATGTAAGATCATGGCT-
65 ACTAGGTTATGGCACTACGAATGTAAGACCATGGTTG
30702413 GAGCCATGGCAAT
1 GA-CCATGGCAAT
30702426 GCATGTGTAA
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
100 4 0.04
101 92 0.96
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (101 bp):
GACCATGGCAATATTTATAAGTAAGACCATAGTTGGGCTATGACATTCTAATGAATAGACCATAA
CTAGGTTATGGCACTACGAATGTAAGACCATGGTTG
Found at i:30706169 original size:101 final size:101
Alignment explanation
Indices: 30705994--30706221 Score: 294
Period size: 101 Copynumber: 2.3 Consensus size: 101
30705984 AATTGAAGGA
* * * * *
30705994 TAAGACCATGGTTGGACCATGGCAATGTTTATATGTAAAACCATAGCTGTACTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATTTATAAGTAAAACCATAGCTGGACTATGACATTCTAA
* *
30706059 TGAAAAGACCATAACTAGGTTATGGCACTTTGAACG
66 TGAAAAGACCATAACTAGGTTATGACACTATGAACG
* * * * *
30706095 TAAGACCATGGTTGGACCATGGCAGTATTTATAAGTAAGAGCATAGCTGGGCTATGACATTCTGA
1 TAAGACCATGGTTGGACCATGGCAATATTTATAAGTAAAACCATAGCTGGACTATGACATTCTAA
* * *
30706160 TGATAAGACCATAACTGGGTTATGACACTATGAATG
66 TGAAAAGACCATAACTAGGTTATGACACTATGAACG
* * *
30706196 AAAGACCATGGCTGGGCCATGGCAAT
1 TAAGACCATGGTTGGACCATGGCAAT
30706222 GCATGTGTAA
Statistics
Matches: 108, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 108 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATTTATAAGTAAAACCATAGCTGGACTATGACATTCTAA
TGAAAAGACCATAACTAGGTTATGACACTATGAACG
Found at i:30706211 original size:33 final size:33
Alignment explanation
Indices: 30706130--30706212 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
30706120 TATTTATAAG
* * *
30706130 TAAGAGCATAGCTGGGCTATGACATTCTGATGA
1 TAAGACCATAGCTGGGCTATGACACTATGATGA
* *
30706163 TAAGACCATAACTGGGTTATGACACTATGAATGA
1 TAAGACCATAGCTGGGCTATGACACTATG-ATGA
*
30706197 -AAGACCATGGCTGGGC
1 TAAGACCATAGCTGGGC
30706213 CATGGCAATG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 37 0.90
34 4 0.10
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.24
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGACACTATGATGA
Found at i:30707631 original size:27 final size:27
Alignment explanation
Indices: 30707578--30707647 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
30707568 GTCATTTTAT
*
30707578 CCTAT-GGGGGTATTTCAACAATTTTA
1 CCTATCGGGGGTATTTCAACAATCTTA
** *
30707604 CCCT-TCGGGGGTATTTTGATAATCTTA
1 -CCTATCGGGGGTATTTCAACAATCTTA
*
30707631 CCTATCGAGGGTATTTC
1 CCTATCGGGGGTATTTC
30707648 GGTCATTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (27 bp):
CCTATCGGGGGTATTTCAACAATCTTA
Found at i:30723717 original size:10 final size:10
Alignment explanation
Indices: 30723702--30723749 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
30723692 TAAAATTTTG
30723702 AATTTTAATT
1 AATTTTAATT
*
30723712 AATTTTATGATA
1 AATTTTA--ATT
30723724 AATTTTAATT
1 AATTTTAATT
*
30723734 AATTTTTATT
1 AATTTTAATT
*
30723744 TATTTT
1 AATTTT
30723750 TGACAGATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 23 0.72
12 9 0.28
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:30732058 original size:46 final size:46
Alignment explanation
Indices: 30732001--30732097 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 46
30731991 TCTTGCGAAG
*
30732001 GTGTGACACAACTATGTATTTGCTTCAGTGGTTAAGTGTTCTAGGT
1 GTGTGACACAACTATGTATCTGCTTCAGTGGTTAAGTGTTCTAGGT
*
30732047 GTGTGACACAACTGTGTATCTGCTTCAGTGGTTAAGTGTTCTAGGT
1 GTGTGACACAACTATGTATCTGCTTCAGTGGTTAAGTGTTCTAGGT
30732093 GTGTG
1 GTGTG
30732098 TGAGGTCCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.38
Consensus pattern (46 bp):
GTGTGACACAACTATGTATCTGCTTCAGTGGTTAAGTGTTCTAGGT
Found at i:30732972 original size:9 final size:9
Alignment explanation
Indices: 30732958--30732982 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
30732948 TGCCTGCTGT
30732958 AGAGAAATA
1 AGAGAAATA
30732967 AGAGAAATA
1 AGAGAAATA
30732976 AGAGAAA
1 AGAGAAA
30732983 ATGATGCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (9 bp):
AGAGAAATA
Found at i:30733779 original size:26 final size:26
Alignment explanation
Indices: 30733743--30733804 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
30733733 CCTATAAGTG
30733743 TTCTGAAACTGATACATGCAATGATA
1 TTCTGAAACTGATACATGCAATGATA
* **
30733769 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCAATGATA
30733795 TTCTGAAACT
1 TTCTGAAACT
30733805 ATTGTAGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCAATGATA
Found at i:30751488 original size:27 final size:27
Alignment explanation
Indices: 30751458--30751531 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
30751448 CTCCACAGTG
30751458 GCTTTTCTTTCATA-TT-TCGCATCAAAA
1 GCTTTTCTTTCATATTTATC-CAT-AAAA
* *
30751485 GCTTTCCTTTCATATTTATCCATAAAG
1 GCTTTTCTTTCATATTTATCCATAAAA
*
30751512 GCTTTTCTTTCTTGATTTAT
1 GCTTTTCTTTCAT-ATTTAT
30751532 TTACGACATG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 27 0.68
28 11 0.28
29 2 0.05
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.50
Consensus pattern (27 bp):
GCTTTTCTTTCATATTTATCCATAAAA
Found at i:30758679 original size:101 final size:101
Alignment explanation
Indices: 30758541--30758752 Score: 336
Period size: 101 Copynumber: 2.1 Consensus size: 101
30758531 GAATTGATGG
* * *
30758541 ATAAGACCATAATTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACTATGGCTA-TGTTT
1 ATAAGACCATAACTGGGTTATGGAACTATGAACGTAAGACCATGGTTGGACCATGGC-AGTGTTT
* *
30758605 ATATGTAAGACCATAGCTGTGCTATGGCGTTCTAATC
65 ATATGTAAGACCATAGCTGGGCTATGGCATTCTAATC
*
30758642 ATAAGACCATAACTGGGTTATGGAATTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
1 ATAAGACCATAACTGGGTTATGGAACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
* *
30758707 TATGTAAGACCATAGCTGGGCTATGGCATTCTGATG
66 TATGTAAGACCATAGCTGGGCTATGGCATTCTAATC
30758743 ATAAGACCAT
1 ATAAGACCAT
30758753 GGCAGGGCCA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
100 1 0.01
101 101 0.99
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (101 bp):
ATAAGACCATAACTGGGTTATGGAACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
TATGTAAGACCATAGCTGGGCTATGGCATTCTAATC
Found at i:30758733 original size:35 final size:33
Alignment explanation
Indices: 30758542--30758767 Score: 109
Period size: 33 Copynumber: 6.7 Consensus size: 33
30758532 AATTGATGGA
** * * * * *
30758542 TAAGACCATAATTGGGTTATGGCACTATGAACG
1 TAAGACCATAGCTGGGCTATGGCAGTTTTAATG
* * *
30758575 TAAGACCATGGTTGGACTATGGCTA-TGTTTATATG
1 TAAGACCATAGCTGGGCTATGGC-AGT-TTTA-ATG
* * *
30758610 TAAGACCATAGCTGTGCTATGGC-GTTCTAATCA
1 TAAGACCATAGCTGGGCTATGGCAGTTTTAAT-G
* * * * *
30758643 TAAGACCATAACTGGGTTATGG-AATTATGAACG
1 TAAGACCATAGCTGGGCTATGGCAGTT-TTAATG
* * * *
30758676 TAAGACCATGGTTGGACCATGGCAGTGTTTATATG
1 TAAGACCATAGCTGGGCTATGGCAGT-TTTA-ATG
* *
30758711 TAAGACCATAGCTGGGCTATGGCA-TTCTGATG
1 TAAGACCATAGCTGGGCTATGGCAGTTTTAATG
* * *
30758743 ATAAGACCATGGCAGGGCCATGGCA
1 -TAAGACCATAGCTGGGCTATGGCA
30758768 ATGCATGTGT
Statistics
Matches: 143, Mismatches: 39, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
32 5 0.03
33 83 0.58
34 11 0.08
35 44 0.31
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCAGTTTTAATG
Found at i:30758764 original size:68 final size:66
Alignment explanation
Indices: 30758643--30758797 Score: 159
Period size: 68 Copynumber: 2.3 Consensus size: 66
30758633 GTTCTAATCA
* * ** * *
30758643 TAAGACCATAACTGGGTTATGGAATTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTAT
1 TAAGACCATAGCTGGGCTATGGAATTATGAACGTAAGACCATGGCAGGACCATGGCAATG--CAT
30758708 ATG
64 ATG
* * * * *
30758711 TAAGACCATAGCTGGGCTATGGCATTCTG-ATGATAAGACCATGGCAGGGCCATGGCAATGCATG
1 TAAGACCATAGCTGGGCTATGGAATTATGAACG-TAAGACCATGGCAGGACCATGGCAATGCATA
30758775 TG
65 TG
* *
30758777 TAAGACCATAGTTGGACTATG
1 TAAGACCATAGCTGGGCTATG
30758798 ACACAAAAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
66 23 0.32
67 2 0.03
68 48 0.66
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (66 bp):
TAAGACCATAGCTGGGCTATGGAATTATGAACGTAAGACCATGGCAGGACCATGGCAATGCATAT
G
Found at i:30758780 original size:101 final size:100
Alignment explanation
Indices: 30758572--30758793 Score: 277
Period size: 101 Copynumber: 2.2 Consensus size: 100
30758562 GGCACTATGA
* * *
30758572 ACGTAAGACCATGGTTGGACTATGGCTATGTTTATATGTAAGACCATAGCTGTGCTATGGCGTTC
1 ACGTAAGACCATGGTTGGACCATGGCTATGTTTATATGTAAGACCATAGCTGGGCTATGGCATTC
* ** *
30758637 TAATCATAAGACCATAACTGGGTTATGGAATTATG
66 TAATCATAAGACCATAACAGGGCCATGGAATCATG
30758672 AACGTAAGACCATGGTTGGACCATGGC-AGTGTTTATATGTAAGACCATAGCTGGGCTATGGCAT
1 -ACGTAAGACCATGGTTGGACCATGGCTA-TGTTTATATGTAAGACCATAGCTGGGCTATGGCAT
* * **
30758736 TCTGATGATAAGACCATGGCAGGGCCATGGCAATGCATG
64 TCTAATCATAAGACCATAACAGGGCCATGG-AAT-CATG
* *
30758775 -TGTAAGACCATAGTTGGAC
1 ACGTAAGACCATGGTTGGAC
30758794 TATGACACAA
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
100 1 0.01
101 98 0.93
102 3 0.03
103 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (100 bp):
ACGTAAGACCATGGTTGGACCATGGCTATGTTTATATGTAAGACCATAGCTGGGCTATGGCATTC
TAATCATAAGACCATAACAGGGCCATGGAATCATG
Found at i:30758781 original size:33 final size:32
Alignment explanation
Indices: 30758708--30758787 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 32
30758698 CAGTGTTTAT
* * *
30758708 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
1 ATGTAAGACCATAGCAGGGCCATGGCATGCTG
*
30758740 ATGATAAGACCATGGCAGGGCCATGGCAATGCATG
1 ATG-TAAGACCATAGCAGGGCCATGGC-ATGC-TG
30758775 -TGTAAGACCATAG
1 ATGTAAGACCATAG
30758788 TTGGACTATG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 3 0.08
33 30 0.75
34 5 0.12
35 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (32 bp):
ATGTAAGACCATAGCAGGGCCATGGCATGCTG
Found at i:30766485 original size:50 final size:50
Alignment explanation
Indices: 30766375--30766623 Score: 193
Period size: 50 Copynumber: 4.9 Consensus size: 50
30766365 ACATTTGGGT
* * *
30766375 GATGAGA--TCCCATTTAAGACCATGTTTGGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
*
30766426 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
** * * *
30766479 GATGAGAGGTCCCCCGTAAGACCGTGTTTGGGACATGGCATAGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * * *
30766529 TATGAGAACTCCCATGTAAGACCATATAC-AGGATATGGCATTGGCA--GTA
1 GATGAGAGGTCCCATGTAAGACCATGT-CTGGGACATGGCATTGGCACCG-A
* * * ** * *
30766578 CAAGAAACATCCCATGTAAGACCATGTCTGGCACATGGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30766624 TGTTATTATC
Statistics
Matches: 159, Mismatches: 31, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
48 2 0.01
49 35 0.22
50 77 0.48
51 1 0.01
53 3 0.02
54 6 0.04
55 1 0.01
56 34 0.21
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:30770206 original size:40 final size:40
Alignment explanation
Indices: 30770105--30770207 Score: 98
Period size: 40 Copynumber: 2.6 Consensus size: 40
30770095 GGGCATAAAT
* * * ** *
30770105 GTGCAAATAGGGGCACCGTAGTGTGAACAGGGACACCGAA
1 GTGCAAACAGAGGCACCGAAGTGAAAACAGGGACACCAAA
* * * ** *
30770145 GTGTATACAGAGGAATTGAAGTGAAAACAGGGGCACCAAA
1 GTGCAAACAGAGGCACCGAAGTGAAAACAGGGACACCAAA
30770185 GTGCAAACAGAGGCACCGAAGTG
1 GTGCAAACAGAGGCACCGAAGTG
30770208 CACTCCCATA
Statistics
Matches: 46, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.37, C:0.17, G:0.33, T:0.13
Consensus pattern (40 bp):
GTGCAAACAGAGGCACCGAAGTGAAAACAGGGACACCAAA
Found at i:30770208 original size:20 final size:20
Alignment explanation
Indices: 30770105--30770209 Score: 77
Period size: 20 Copynumber: 5.2 Consensus size: 20
30770095 GGGCATAAAT
* * *
30770105 GTGCAAATAGGGGCACCGTA
1 GTGCAAACAGAGGCACCGAA
**
30770125 GTGTGAACAG-GGACACCGAA
1 GTGCAAACAGAGG-CACCGAA
* * * **
30770145 GTGTATACAGAGGAATTGAA
1 GTGCAAACAGAGGCACCGAA
* * *
30770165 GTGAAAACAGGGGCACCAAA
1 GTGCAAACAGAGGCACCGAA
30770185 GTGCAAACAGAGGCACCGAA
1 GTGCAAACAGAGGCACCGAA
30770205 GTGCA
1 GTGCA
30770210 CTCCCATACA
Statistics
Matches: 64, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
19 2 0.03
20 60 0.94
21 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.32, T:0.12
Consensus pattern (20 bp):
GTGCAAACAGAGGCACCGAA
Found at i:30772961 original size:16 final size:15
Alignment explanation
Indices: 30772940--30772973 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
30772930 AGCTATCACA
30772940 TGAATTAAATTAATAT
1 TGAATTAAATTAAT-T
*
30772956 TGAATTAATTTAATT
1 TGAATTAAATTAATT
30772971 TGA
1 TGA
30772974 CAATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (15 bp):
TGAATTAAATTAATT
Found at i:30784992 original size:23 final size:24
Alignment explanation
Indices: 30784966--30785013 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
30784956 AACAACATCC
*
30784966 AAGTTCA-AACAAAAAAGGAAGCA
1 AAGTTCAGAAAAAAAAAGGAAGCA
30784989 AAGTTCAGAAAAAAAAAGGAAGCA
1 AAGTTCAGAAAAAAAAAGGAAGCA
30785013 A
1 A
30785014 CGTGGAAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.62, C:0.10, G:0.19, T:0.08
Consensus pattern (24 bp):
AAGTTCAGAAAAAAAAAGGAAGCA
Found at i:30785499 original size:28 final size:28
Alignment explanation
Indices: 30785466--30785522 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
30785456 AATTGTGTTC
30785466 ATCATCCTTGCTTGCTGCTAAAATTTGA
1 ATCATCCTTGCTTGCTGCTAAAATTTGA
30785494 ATCATCCTTGCTTGCTGCTAAAATTTGA
1 ATCATCCTTGCTTGCTGCTAAAATTTGA
30785522 A
1 A
30785523 GGAAGCCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (28 bp):
ATCATCCTTGCTTGCTGCTAAAATTTGA
Found at i:30786421 original size:50 final size:50
Alignment explanation
Indices: 30786314--30786486 Score: 145
Period size: 50 Copynumber: 3.5 Consensus size: 50
30786304 AAAGAGATCT
* * * **
30786314 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATGAGAACTCC
** * * *
30786364 CCCGTAAGACCGTGTCTGGGACATAGCATGGGCACCGATATGATAACTCC
1 CATGTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATGAGAACTCC
* * * * * * *
30786414 CATGTAAGACCATATATGGGATATGGCATTGGCA--GTACAAGA-AACATCC
1 CATGTAAGACCATGTCTGGGACATAGCATGGGCACCG-AGATGAGAAC-TCC
*
30786463 CATGTAAGACCATGTCTGGCACAT
1 CATGTAAGACCATGTCTGGGACAT
30786487 GGCTTTGGCA
Statistics
Matches: 97, Mismatches: 24, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
48 4 0.04
49 27 0.28
50 66 0.68
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATGAGAACTCC
Found at i:30788614 original size:24 final size:24
Alignment explanation
Indices: 30788587--30788636 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
30788577 TATCCTAAGA
30788587 AAGGATGTTTTAATTAATAAAGCT
1 AAGGATGTTTTAATTAATAAAGCT
30788611 AAGGATGTTTTAATTAATAAAGCT
1 AAGGATGTTTTAATTAATAAAGCT
30788635 AA
1 AA
30788637 ACAAGCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (24 bp):
AAGGATGTTTTAATTAATAAAGCT
Found at i:30792642 original size:13 final size:13
Alignment explanation
Indices: 30792624--30792655 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
30792614 TAAAAGACAA
30792624 GGAAATAGTACTT
1 GGAAATAGTACTT
30792637 GGAAATAGTACTT
1 GGAAATAGTACTT
*
30792650 GAAAAT
1 GGAAAT
30792656 GACTTCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (13 bp):
GGAAATAGTACTT
Found at i:30804797 original size:16 final size:14
Alignment explanation
Indices: 30804762--30804791 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30804752 AGTGAGAGAG
*
30804762 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
30804776 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
30804790 GA
1 GA
30804792 ATGAGAGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:30807469 original size:29 final size:29
Alignment explanation
Indices: 30807427--30807503 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
30807417 ATCGACGATC
* *
30807427 ATCGAATATGAAAAAGGATAGCTTCGGCT
1 ATCGATTATGAAAAGGGATAGCTTCGGCT
*
30807456 ATCGATTATGAAAAGGGATAGCTTCGGGT
1 ATCGATTATGAAAAGGGATAGCTTCGGCT
*
30807485 ATTGATTATGAAAAGGGAT
1 ATCGATTATGAAAAGGGAT
30807504 GGTGACGACA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.27
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATAGCTTCGGCT
Found at i:30807557 original size:30 final size:29
Alignment explanation
Indices: 30807491--30807565 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
30807481 GGGTATTGAT
30807491 TATGAAAAGGGATGGTGACGACAATCAAC
1 TATGAAAAGGGATGGTGACGACAATCAAC
** * * *
30807520 TATGAAAAGGGATGGTGGTGACCATCTAT
1 TATGAAAAGGGATGGTGACGACAATCAAC
30807549 TAATGAAAAGGGATGGT
1 T-ATGAAAAGGGATGGT
30807566 TTCGACCGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.37, C:0.09, G:0.31, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACAATCAAC
Found at i:30811139 original size:51 final size:51
Alignment explanation
Indices: 30811080--30811223 Score: 155
Period size: 51 Copynumber: 2.8 Consensus size: 51
30811070 AAAGTGATGG
* * * *
30811080 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCGA
1 TCACGTGTGTAGTACTATGTGTAGGATACTATGCGTACCGAATAGTAAT-GA
* * * * *
30811131 TCACGTGTGTAGTACTATGTGTAGGATACTACGTGTATCGAATGGTAATGG
1 TCACGTGTGTAGTACTATGTGTAGGATACTATGCGTACCGAATAGTAATGA
* * * *
30811182 TCACATGTGTAGTACTATGTGTAGGTTACTATGTGAACCGAA
1 TCACGTGTGTAGTACTATGTGTAGGATACTATGCGTACCGAA
30811224 CATCATTGAT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 77 0.99
52 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGTAGGATACTATGCGTACCGAATAGTAATGA
Found at i:30811287 original size:45 final size:45
Alignment explanation
Indices: 30811218--30811308 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
30811208 TACTATGTGA
* *
30811218 ACCGAACATCATTGATTAGCAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAACAAGGTGGTTGCTATGTGCTGAATCC
* *
30811263 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAACAAGGTGGTTGCTATGTGCTGAATCC
30811308 A
1 A
30811309 TCGAGTATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAACAAGGTGGTTGCTATGTGCTGAATCC
Found at i:30813546 original size:13 final size:13
Alignment explanation
Indices: 30813528--30813552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30813518 TTTGGAAATG
30813528 TATGTTTTTATGT
1 TATGTTTTTATGT
30813541 TATGTTTTTATG
1 TATGTTTTTATG
30813553 GTAATGCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (13 bp):
TATGTTTTTATGT
Found at i:30816653 original size:20 final size:18
Alignment explanation
Indices: 30816603--30816654 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
30816593 CTTCAAGATA
30816603 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
30816620 AATATTAAGA-TAATTACTTT
1 AATATTAA-ATTAA-TA-TTT
30816640 AATATTAAATTAATA
1 AATATTAAATTAATA
30816655 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 4 0.13
20 14 0.47
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:30819776 original size:383 final size:386
Alignment explanation
Indices: 30818776--30819812 Score: 1212
Period size: 383 Copynumber: 2.7 Consensus size: 386
30818766 TAAACAATTG
* * * *
30818776 AAAATCATTGAATAAGAAAACAAAAGAA-TAAC-TCGCTTCAATGTTCATAATTAACAATCGATT
1 AAAATAATTGAATAAGCAAACAAAA-AACTAACAT-GTTTCAATGTTCATAATTAACTATCGATT
* * **
30818839 CAGGGTTTCCCCAATTAGCTTGTAATTAACCTAGTTATTACCTCCCAGGCTTGAACTAGACTAAC
64 TAGGGTTTCCCCAATTAGCTAGTAATTAACCTAGTTATTACCTCCCAACCTT-AACTAGACTAAC
* *
30818904 TAGTCGACAAGAACTACTTATATCTCGACCTCATAATTCAAAC-CGAGGAAATTTGAGAGATGCG
128 TAGTCGACAAGAACTACTTATATCTCGACCTCATAATTCAAACTCG-GGCAATTTGAGAGATGCA
* *
30818968 CGATAGAGTTA-----TCAGCCTACCTACCTAAATTATTTTCTAAGGTCGTCAATCCTAGGGTTT
192 CGATAGAGTTATCCTCTCAGCCTACCTACCTAAATGACTTTCTAAGGTCGTCAATCCTAGGGTTT
* *
30819028 AATTTCACTCAACCTAATCCGGCTGATTCCTACACTAACAAGTCTAGACAATACTCAATCAAAAT
257 AATTTCACTCAACCTAATCCGACTAATTCCTACACTAACAAGTCTAGACAATACTCAATCAAAAT
*
30819093 CATAGTACGAAAAATCATAAGTATAAATATTCTGAAATAAAACACGCAAAATAAGAAAATAATAA
322 CATAGTACGAAAAATCATAAGTATAAATATTCTGAAATAAAACACGAAAAATAAG--AATAATAA
30819158 TA
385 TA
*
30819160 AAAATCATTGAATAAGCAAACAAAAAACTAACATGTTTCAATGTTCATAATTAACTATCGATTTA
1 AAAATAATTGAATAAGCAAACAAAAAACTAACATGTTTCAATGTTCATAATTAACTATCGATTTA
* * *
30819225 GGGTTTCCCCAATTAGCTAGAAAGTAACCTAGTTATTACCTCCCAACCTTTAATTAGACTAACTA
66 GGGTTTCCCCAATTAGCTAGTAATTAACCTAGTTATTACCTCCCAACC-TTAACTAGACTAACTA
* * * * *
30819290 GTCGACAAAAACTACTTAGATCGTCG-CTTCATAACTCAAA-TCGGGACAATTTGAGAGATGCAT
130 GTCGACAAGAACTACTTATATC-TCGACCTCATAATTCAAACTCGGG-CAATTTGAGAGATGCAC
* * * * * *
30819353 GGTAAAGTTATCCTCGCAGCCTACCTACCTAAATGACTTTCTAAGGTCGTCAATCATAAGATTTA
193 GATAGAGTTATCCTCTCAGCCTACCTACCTAAATGACTTTCTAAGGTCGTCAATCCTAGGGTTTA
* * * * **
30819418 ATTTCACTTAATCC-AATCCGACTAATTCCTACACTAACAAGTCTAGATAGTGCTCAATTGAAAT
258 ATTTCACTCAA-CCTAATCCGACTAATTCCTACACTAACAAGTCTAGACAATACTCAATCAAAAT
* * * *
30819482 CGTAGTACGAAAAATCATAAGTATAAGTATTCTGAAATAAAATATGAAAAATAAG-A-AAT-A-A
322 CATAGTACGAAAAATCATAAGTATAAATATTCTGAAATAAAACACGAAAAATAAGAATAATAATA
* * * * * **
30819543 AAAATAATTGAATAAGCAAATAAAATACTAAC-TCGTTTTAGTGTTTATTGTTAACTA-CTGATT
1 AAAATAATTGAATAAGCAAACAAAAAACTAACAT-GTTTCAATGTTCATAATTAACTATC-GATT
** * * **
30819606 TAGGGTTTTACCAATTAGCTAGTAATTAACCTAGTTTTTACCTCTCATTCTCTAACTAGACTAAC
64 TAGGGTTTCCCCAATTAGCTAGTAATTAACCTAGTTATTACCTCCCAACCT-TAACTAGACTAAC
* * * * * * *
30819671 TAGTCGATAGGAACTACTTATATCCCGACCTCACAGTTCAAACTAGGGCAAGTTGAGAGATGCAC
128 TAGTCGACAAGAACTACTTATATCTCGACCTCATAATTCAAACTCGGGCAATTTGAGAGATGCAC
* * * * *
30819736 GATAGACTTATCCTCTCGGCCTATCTACC-ACAAGGACTTTCT-AGGATCGTTAATCCTAGGGTT
193 GATAGAGTTATCCTCTCAGCCTACCTACCTA-AATGACTTTCTAAGG-TCGTCAATCCTAGGGTT
*
30819799 TAATTTCATTCAAC
256 TAATTTCACTCAAC
30819813 TTGCTCTAAC
Statistics
Matches: 554, Mismatches: 80, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
382 10 0.02
383 212 0.38
384 173 0.31
385 9 0.02
386 1 0.00
389 147 0.27
390 2 0.00
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.30
Consensus pattern (386 bp):
AAAATAATTGAATAAGCAAACAAAAAACTAACATGTTTCAATGTTCATAATTAACTATCGATTTA
GGGTTTCCCCAATTAGCTAGTAATTAACCTAGTTATTACCTCCCAACCTTAACTAGACTAACTAG
TCGACAAGAACTACTTATATCTCGACCTCATAATTCAAACTCGGGCAATTTGAGAGATGCACGAT
AGAGTTATCCTCTCAGCCTACCTACCTAAATGACTTTCTAAGGTCGTCAATCCTAGGGTTTAATT
TCACTCAACCTAATCCGACTAATTCCTACACTAACAAGTCTAGACAATACTCAATCAAAATCATA
GTACGAAAAATCATAAGTATAAATATTCTGAAATAAAACACGAAAAATAAGAATAATAATA
Found at i:30823274 original size:21 final size:21
Alignment explanation
Indices: 30823234--30823275 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
30823224 AGGCAGAATG
**
30823234 CTAGCTTGGTGTTGTGACATC
1 CTAGCTTGGTGTTGCAACATC
30823255 CTAGCTTGGTGTTGCAACATC
1 CTAGCTTGGTGTTGCAACATC
30823276 ATCGATAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (21 bp):
CTAGCTTGGTGTTGCAACATC
Found at i:30824893 original size:19 final size:18
Alignment explanation
Indices: 30824853--30824887 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30824843 GTTTTATTAA
30824853 TAAAAACATGAAATAAAC
1 TAAAAACATGAAATAAAC
* *
30824871 TAAAAACTTGAACTAAA
1 TAAAAACATGAAATAAA
30824888 AGTAAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.11, G:0.06, T:0.20
Consensus pattern (18 bp):
TAAAAACATGAAATAAAC
Found at i:30825542 original size:23 final size:23
Alignment explanation
Indices: 30825515--30825560 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
30825505 ATAATCAATG
30825515 TTAGTATTTTGCGAAAACCTCAA
1 TTAGTATTTTGCGAAAACCTCAA
*
30825538 TTAGTATTTTGCGAAAGCCTCAA
1 TTAGTATTTTGCGAAAACCTCAA
30825561 ATTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (23 bp):
TTAGTATTTTGCGAAAACCTCAA
Found at i:30828166 original size:24 final size:25
Alignment explanation
Indices: 30828139--30828185 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
30828129 CCTGAGCCGA
*
30828139 ATTTTCACCATC-ATTCACTTAGTC
1 ATTTCCACCATCAATTCACTTAGTC
* *
30828163 ATTTCCATCATCAATTCATTTAG
1 ATTTCCACCATCAATTCACTTAG
30828186 CCAAATTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.43
Consensus pattern (25 bp):
ATTTCCACCATCAATTCACTTAGTC
Found at i:30831427 original size:15 final size:16
Alignment explanation
Indices: 30831393--30831426 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30831383 GTTAGAATGT
*
30831393 AAAA-ATTAAATTAAA
1 AAAATATTAAAATAAA
30831408 AAAATATTAAAATAAA
1 AAAATATTAAAATAAA
30831424 AAA
1 AAA
30831427 TGGCTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATATTAAAATAAA
Found at i:30839621 original size:45 final size:45
Alignment explanation
Indices: 30839552--30839728 Score: 216
Period size: 45 Copynumber: 4.0 Consensus size: 45
30839542 ACGTGTACCG
* *
30839552 GGTACCATTGATTATAAAAGTGGTTGATGTGTGCTGATTCCACCA
1 GGTACCATTGACTATAAAGGTGGTTGATGTGTGCTGATTCCACCA
* * *
30839597 GGTATCATTGATTATAAAGGTGGTTAATGTGTGCTGATTCCACCA
1 GGTACCATTGACTATAAAGGTGGTTGATGTGTGCTGATTCCACCA
* * * *
30839642 GGTACCATTGACTATGAAGGTGGTTGCTATGTGTTGATTCCACCTA
1 GGTACCATTGACTATAAAGGTGGTTGATGTGTGCTGATTCCACC-A
* * *
30839688 -GTATCATTGACTATAAGGGTGG-TGTTGTGTGCTGA-TCCACC
1 GGTACCATTGACTATAAAGGTGGTTGATGTGTGCTGATTCCACC
30839729 GTGTATCTGT
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
43 6 0.05
44 10 0.09
45 98 0.85
46 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (45 bp):
GGTACCATTGACTATAAAGGTGGTTGATGTGTGCTGATTCCACCA
Found at i:30844397 original size:45 final size:45
Alignment explanation
Indices: 30844346--30844527 Score: 201
Period size: 45 Copynumber: 4.1 Consensus size: 45
30844336 TACTACGTGT
* *
30844346 ACCGGGTACTGTTGATTATAAATGTGGTTGCTGTGTGCTGATTCC
1 ACCGGGTACTATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
* *
30844391 ACCGGGTA-TCATTGATTATAAAGGTGGTTGATGTGTGTTGATTCC
1 ACCGGGTACT-ATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
* * * *
30844436 ACCGGGCACCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGGGTACTATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
** * * *
30844481 ACCTAGTA-TCATTGACTATAAGGGTGG-TGTTGTGTGCTGA-TCC
1 ACCGGGTACT-ATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
30844524 ACCG
1 ACCG
30844528 TGTATCTGTT
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
43 6 0.05
44 11 0.09
45 99 0.85
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (45 bp):
ACCGGGTACTATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
Found at i:30844501 original size:90 final size:88
Alignment explanation
Indices: 30844357--30844527 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 88
30844347 CCGGGTACTG
* * * *
30844357 TTGATTATAAATGTGGTTGCTGTGTGCTGATTCCACCGGGTATCATTGATTATAAAGGTGGTTGA
1 TTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAGTATCATTGACTATAAAGGTGG-TGA
*
30844422 TGTGTGTTGATTCCACCGGGCACCA
65 TGTGTGCTGA-TCCACCGGGCACCA
* * * *
30844447 TTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCTAGTATCATTGACTATAAGGGTGGTGTT
1 TTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAGTATCATTGACTATAAAGGTGGTGAT
30844512 GTGTGCTGATCCACCG
66 GTGTGCTGATCCACCG
30844528 TGTATCTGTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 7 0.10
89 11 0.15
90 54 0.75
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.36
Consensus pattern (88 bp):
TTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAGTATCATTGACTATAAAGGTGGTGAT
GTGTGCTGATCCACCGGGCACCA
Found at i:30853344 original size:11 final size:11
Alignment explanation
Indices: 30853323--30853358 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
30853313 CATCCATATA
30853323 TAAAC-TTAAT
1 TAAACTTTAAT
30853333 TAAACTTTAAT
1 TAAACTTTAAT
30853344 TAAACTTTAAT
1 TAAACTTTAAT
30853355 TAAA
1 TAAA
30853359 ACAAATGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAACTTTAAT
Found at i:30857072 original size:37 final size:37
Alignment explanation
Indices: 30857022--30857097 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
30857012 GACTTAACCA
30857022 TTAGACCTCAAAAGGCAATAATTGGGTTTGGGTACTT
1 TTAGACCTCAAAAGGCAATAATTGGGTTTGGGTACTT
30857059 TTAGACCTCAAAAGGCAATAATTGGGTTTGGGTACTT
1 TTAGACCTCAAAAGGCAATAATTGGGTTTGGGTACTT
30857096 TT
1 TT
30857098 TTACCTTAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (37 bp):
TTAGACCTCAAAAGGCAATAATTGGGTTTGGGTACTT
Found at i:30860291 original size:20 final size:20
Alignment explanation
Indices: 30860266--30860304 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
30860256 TACTTTCTTC
30860266 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
30860286 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
30860305 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:30860648 original size:50 final size:50
Alignment explanation
Indices: 30860559--30860700 Score: 151
Period size: 50 Copynumber: 2.8 Consensus size: 50
30860549 CTGTACTGTA
* * * * ** *
30860559 AATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTACC
* * *
30860609 TATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACC
1 AATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTACC
* * *
30860659 AACT-CCATGTCCTAGACATGGTCTTATGTGGGACCTTTCATA
1 AA-TGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATA
30860701 ACCTCAATAA
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 74 0.99
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTACC
Found at i:30868148 original size:50 final size:50
Alignment explanation
Indices: 30868059--30868247 Score: 148
Period size: 50 Copynumber: 3.6 Consensus size: 50
30868049 CTGTACTGCA
* * * * * ** *
30868059 AATGTCATATCCCAGATATGGTCTTACATGAGAGTTCTCA-CATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATC-TCGGTACC
* *
30868109 CATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATCTCGGTACC
1 AATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTACC
* * **
30868159 AATGTCATGTCCCAGACATGGTCTTAC-GTGGGACCTTTCATAACCTCAATAATGCC
1 AATGCCATGTCCCAGACATGGTCTTACAG-GGGACCTCTCAT---CTCGGT-A--CC
*
30868215 AATGTCATGTCCCAGACATGGTCTTACATGGGG
1 AATGCCATGTCCCAGACATGGTCTTACA-GGGG
30868248 TCTCATCCCC
Statistics
Matches: 113, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
49 1 0.01
50 73 0.65
51 1 0.01
53 4 0.04
54 1 0.01
56 29 0.26
57 3 0.03
58 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTACC
Found at i:30881549 original size:43 final size:43
Alignment explanation
Indices: 30881496--30881635 Score: 199
Period size: 43 Copynumber: 3.3 Consensus size: 43
30881486 TTATGTGCAA
30881496 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTGCTAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTGCTAC
* * *
30881539 AAACGCCGCTAAAGATCATGACCTTTAGCTGCGCTTTTGCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTGCTAC
* * * **
30881582 AAACGCCGCTAAAAATCGTGACTTTTAGCGGCGCTTCTATTAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTGCTAC
*
30881625 AAATGCCGCTA
1 AAACGCCGCTA
30881636 TAAAGAAATG
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 85 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTGCTAC
Found at i:30881609 original size:86 final size:85
Alignment explanation
Indices: 30881496--30881686 Score: 226
Period size: 86 Copynumber: 2.2 Consensus size: 85
30881486 TTATGTGCAA
* * *
30881496 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTGCTACAAACGCCGC-TAAAGATCATGA
1 AAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTCTACTACAAACGCCGCATAAAGA-AATGA
*
30881560 CCTTTAGCTG-CGCTTTTGCCAC
65 CCTTTAGC-GACGATTTT-CCAC
* * * *
30881582 AAACGCCGCTAAAAATCGTGACTTTTAGCGGCGCTTCTATTACAAATGCCGCTATAAAGAAATGA
1 AAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTCTACTACAAACGCCGC-ATAAAGAAATGA
* *
30881647 CTTTTAGCGACGATTTTTCAC
65 CCTTTAGCGACGATTTTCCAC
*
30881668 AAACGTCGCTAAAAA-CATG
1 AAACGCCGCTAAAAATCATG
30881687 CTTTTAAAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
85 3 0.03
86 64 0.71
87 17 0.19
88 6 0.07
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (85 bp):
AAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTCTACTACAAACGCCGCATAAAGAAATGAC
CTTTAGCGACGATTTTCCAC
Found at i:30883244 original size:5 final size:5
Alignment explanation
Indices: 30883234--30883270 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
30883224 CTTTCTTGCC
30883234 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
30883271 AACAAGAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:30883311 original size:28 final size:28
Alignment explanation
Indices: 30883279--30883339 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
30883269 AAAACAAGAA
*
30883279 TCAAATTAGTTCAA-CTCCAAGTCCTTAG
1 TCAAATCAGTTCAACCT-CAAGTCCTTAG
* *
30883307 TCAAATCAGTTCAACCTCAAGTTCTTTG
1 TCAAATCAGTTCAACCTCAAGTCCTTAG
30883335 TCAAA
1 TCAAA
30883340 AGAAAAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (28 bp):
TCAAATCAGTTCAACCTCAAGTCCTTAG
Found at i:30887294 original size:15 final size:15
Alignment explanation
Indices: 30887274--30887329 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
30887264 CTAACCCGAC
30887274 CCCTAAATCCCTAAA
1 CCCTAAATCCCTAAA
* * *
30887289 CCCT-AA-CTC-GAC
1 CCCTAAATCCCTAAA
*
30887301 CCCTAAATCCTTAAA
1 CCCTAAATCCCTAAA
30887316 CCCTAAATCCCTAA
1 CCCTAAATCCCTAA
30887330 CTCTTAACCC
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
12 5 0.17
13 4 0.13
14 3 0.10
15 18 0.60
ACGTcount: A:0.36, C:0.41, G:0.02, T:0.21
Consensus pattern (15 bp):
CCCTAAATCCCTAAA
Found at i:30887295 original size:27 final size:27
Alignment explanation
Indices: 30887250--30887321 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
30887240 AACCTTAAAT
30887250 CCTAAA-CCCT-AACCCTAACCCGACC
1 CCTAAATCCCTAAACCCTAACCCGACC
*
30887275 CCTAAATCCCTAAACCCTAACTCGACC
1 CCTAAATCCCTAAACCCTAACCCGACC
*
30887302 CCTAAATCCTTAAACCCTAA
1 CCTAAATCCCTAAACCCTAA
30887322 ATCCCTAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 6 0.14
26 4 0.09
27 33 0.77
ACGTcount: A:0.35, C:0.44, G:0.03, T:0.18
Consensus pattern (27 bp):
CCTAAATCCCTAAACCCTAACCCGACC
Found at i:30887353 original size:42 final size:42
Alignment explanation
Indices: 30887307--30887386 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
30887297 CGACCCCTAA
* * *
30887307 ATCCT-TAAACCCTAAATCCCTAACTCTTAACCCTTAACCTCT
1 ATCCTCTAAACCCT-AACCCCTAACCCTTAAACCTTAACCTCT
*
30887349 ATCCTCTAACCCCTAACCCCTAACCCTTAAACCTTAAC
1 ATCCTCTAAACCCTAACCCCTAACCCTTAAACCTTAAC
30887387 GTGTTGAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 26 0.79
43 7 0.21
ACGTcount: A:0.31, C:0.41, G:0.00, T:0.28
Consensus pattern (42 bp):
ATCCTCTAAACCCTAACCCCTAACCCTTAAACCTTAACCTCT
Found at i:30898797 original size:44 final size:44
Alignment explanation
Indices: 30898742--30899186 Score: 287
Period size: 44 Copynumber: 10.3 Consensus size: 44
30898732 TCGCATCCAG
30898742 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCAA
* * * * **
30898786 TCCTATCTCCCTAAAGTTGTAGTGGAGCAGA-TTAA-AAACACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAAC-CA-A
* * * * * * *
30898830 TTTTATCTCTCTGAAGTTACAGT--AG-AG-CAGATCGCATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGA-AGAAACCAA
*
30898871 TCTTATCTCCCTGAAGTTGTAGTGGAGTAGACAGAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCAA
* ** ** *
30898915 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AAACATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAAC-CA-A
* * ** * *
30898959 TCTTATCTCTCTAAAGTTGCAGT--AG-AG-CAGATCACATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGA-AACCAA
*
30899000 TCTTATCTCCCTGAAGATGCAGTGGAGTAGACAGAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCAA
* ** **
30899044 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AAACACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAAC-CA-A
** * * * * *
30899088 TCTTATCTCTTTGAAGTTGCA--GCAG-AG-CAGATCGCATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGA-AGAAACCAA
* * * *
30899129 TCTTATCTCTCTAAAGTTGTAGTGGAGTAGATAGAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCAA
*
30899173 TCCTATCTCCCTGA
1 TCTTATCTCCCTGA
30899187 GATTAAAAAC
Statistics
Matches: 295, Mismatches: 79, Indels: 54
0.69 0.18 0.13
Matches are distributed among these distances:
41 64 0.22
42 25 0.08
43 24 0.08
44 170 0.58
45 12 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCAA
Found at i:30898877 original size:129 final size:129
Alignment explanation
Indices: 30898647--30899322 Score: 988
Period size: 129 Copynumber: 5.4 Consensus size: 129
30898637 GACAGATCAA
* * * * *
30898647 AAGAAACCAATGCTATCTCCCTGAAGTTGCAGTGGATCGGATTAAAACCACATATCTTATCTCTC
1 AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTC
*
30898712 TGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAG
66 TGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAG
* * *
30898776 AAGAAACCAATCCTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAAACACAGATTTTATCTCTC
1 AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTC
* *
30898841 TGAAGTTACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACAG
66 TGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAG
* *
30898905 AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACATAGATCTTATCTCTC
1 AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTC
* * *
30898970 TAAAGTTGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGATGCAGTGGAGTAGACAG
66 TGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAG
* *
30899034 AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTT
1 AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTC
* * * * *
30899099 TGAAGTTGCAGCAGAGCAGATCGCATCCAGTCTTATCTCTCTAAAGTTGTAGTGGAGTAGATAG
66 TGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAG
30899163 AAGAAACCAATCCTATCT-CC--------C--T---G-AGATTAAAAACACAGATCTTATCTCTC
1 AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTC
* *
30899213 TGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAG
66 TGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAG
* *
30899277 TAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGA-CTAGATTAAA
1 AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAA
30899323 GCCACAAATC
Statistics
Matches: 492, Mismatches: 39, Indels: 32
0.87 0.07 0.06
Matches are distributed among these distances:
114 101 0.21
115 3 0.01
118 1 0.00
120 1 0.00
123 1 0.00
125 1 0.00
128 2 0.00
129 382 0.78
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (129 bp):
AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTC
TGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAG
Found at i:30899136 original size:85 final size:84
Alignment explanation
Indices: 30898660--30899186 Score: 352
Period size: 85 Copynumber: 6.1 Consensus size: 84
30898650 AAACCAATGC
* * * * * *
30898660 TATCTCCCTGAAGTTGCAGTGGATCGGATTA-AAACCACATATCTTATCTCTCTGAAGTTGTAGT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGA-TAGAAA-C-CA-GTCTTATCTCCCTAAAGTTGTAGT
* *** *
30898724 AGAGCAGA-TCGCATCCAG-TCT
62 GGAGCAGATTAAAAACCAGATCT
* *
30898745 TATCTCCCTGAAGTTGCAGTGGAGTAGACAGA-AGAAACCAATCCTATCTCCCTAAAGTTGTAGT
1 TATCTCCCTGAAGTTGCAGT--AG-AG-CAGATAGAAACCAGTCTTATCTCCCTAAAGTTGTAGT
*
30898809 GGAGCAGATTAAAAACACAGATTT
62 GGAGCAGATTAAAAAC-CAGATCT
* * * * * *
30898833 TATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAACCAGTCTTATCTCCCTAAAGTTGTAGTGGAG
* ** *
30898898 TAGACAGAAGAAACCA-ATCC
66 CAGA-TTAA-AAACCAGATCT
* * * * * * *
30898918 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACATAGATCTTATCTCTCTAAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGA-TAGAAAC-CAG-TCTTATCTCCCTAAAGTTGTAGTG
* * *
30898983 GAGCAGA-TCACATCCAG-TCT
63 GAGCAGATTAAAAACCAGATCT
* * * * *
30899003 TATCTCCCTGAAGATGCAGTGGAGTAGACAGA-AGAAACCAATCCTATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGT--AG-AG-CAGATAGAAACCAGTCTTATCTCCCTAAAGTTGTAGT
*
30899067 GGAGCGGATTAAAAACACAGATCT
62 GGAGCAGATTAAAAAC-CAGATCT
** * * * * *
30899091 TATCTCTTTGAAGTTGCAGCAGAGCAGATCGCATCCAGTCTTATCTCTCTAAAGTTGTAGTGGAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAACCAGTCTTATCTCCCTAAAGTTGTAGTGGAG
* * *
30899156 TAGATAGAAGAAACCA-ATCC
66 CAGAT-TAA-AAACCAGATCT
30899176 TATCTCCCTGA
1 TATCTCCCTGA
30899187 GATTAAAAAC
Statistics
Matches: 341, Mismatches: 76, Indels: 50
0.73 0.16 0.11
Matches are distributed among these distances:
84 8 0.02
85 205 0.60
86 26 0.08
87 25 0.07
88 71 0.21
89 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAACCAGTCTTATCTCCCTAAAGTTGTAGTGGAG
CAGATTAAAAACCAGATCT
Found at i:30899275 original size:114 final size:114
Alignment explanation
Indices: 30899073--30899300 Score: 393
Period size: 114 Copynumber: 2.0 Consensus size: 114
30899063 CAGTGGAGCG
*
30899073 GATTAAAAACACAGATCTTATCTCTTTGAAGTTGCAGCAGAGCAGATCGCATCCAGTCTTATCTC
1 GATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATCGCATCCAGTCTTATCTC
* * *
30899138 TCTAAAGTTGTAGTGGAGTAGATAGAAGAAACCAATCCTATCTCCCTGA
66 CCTAAAGTTGCAGTGGAGCAGATAGAAGAAACCAATCCTATCTCCCTGA
*
30899187 GATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTC
1 GATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATCGCATCCAGTCTTATCTC
* *
30899252 CCTGAAGTTGCAGTGGAGCAGATAGTAGAAACCAATCCTATCTCCCTGA
66 CCTAAAGTTGCAGTGGAGCAGATAGAAGAAACCAATCCTATCTCCCTGA
30899301 AGTTACAGTG
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 107 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (114 bp):
GATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATCGCATCCAGTCTTATCTC
CCTAAAGTTGCAGTGGAGCAGATAGAAGAAACCAATCCTATCTCCCTGA
Found at i:30900796 original size:14 final size:14
Alignment explanation
Indices: 30900777--30900828 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
30900767 AAACCCCATA
*
30900777 ATTTTTTATTTTTT
1 ATTTTTTATTTTCT
30900791 ATTTTTTTCTATTTTCT
1 A--TTTTT-TATTTTCT
*
30900808 ATTTTCTATTTTCT
1 ATTTTTTATTTTCT
30900822 -TTTTTTA
1 ATTTTTTA
30900829 AATCAGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 6 0.19
14 9 0.28
15 4 0.12
16 5 0.16
17 8 0.25
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTTATTTTCT
Found at i:30900803 original size:17 final size:16
Alignment explanation
Indices: 30900778--30900812 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
30900768 AACCCCATAA
*
30900778 TTTTTTATTTTTTATT
1 TTTTTTATTTTCTATT
30900794 TTTTTCTATTTTCTATT
1 TTTTT-TATTTTCTATT
30900811 TT
1 TT
30900813 CTATTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTATTTTCTATT
Found at i:30901512 original size:106 final size:106
Alignment explanation
Indices: 30901327--30901629 Score: 446
Period size: 106 Copynumber: 2.9 Consensus size: 106
30901317 AGTTTTAAAA
*
30901327 TAAGGCAATATTTTGCGTTTGGAAATTCGA-GAAAGCGTGCCCTAACGTGCTGGGTTCCGATTTC
1 TAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAA-CGTGCCCTAACGTGCTGGGTTTCGATTTC
* *
30901391 TCGTTCGACCAAATAGCTAAATATCCTTTTAATATTTGAAAG
65 TCGTTCGACCAAATAGCTAAATATCCTTTTAAAATTTCAAAG
* * *
30901433 TAAGGCGATATTTTGCGTTTGGAAATTTGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAGTTCT
1 TAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATTTCT
30901498 CGTTCGACCAAATAGCTAAATATCCTTTTAAAATTTCAAAG
66 CGTTCGACCAAATAGCTAAATATCCTTTTAAAATTTCAAAG
* * * ** * * *
30901539 TAAAGTAATATGTTGCGTTTAAAAATTCGAGAAAACGTGCCCTAACGTGTTGGGTTTCAATTTCT
1 TAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATTTCT
**
30901604 CGTTCGACCAAATAGCCGAATATCCT
66 CGTTCGACCAAATAGCTAAATATCCT
30901630 CATAAATCTC
Statistics
Matches: 177, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
106 173 0.98
107 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (106 bp):
TAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATTTCT
CGTTCGACCAAATAGCTAAATATCCTTTTAAAATTTCAAAG
Found at i:30914664 original size:45 final size:45
Alignment explanation
Indices: 30914600--30914685 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
30914590 TTTTCCTCAC
*
30914600 ATGGTTTTTGCATGGAAAGCAAAATTGAACCAATTGTTGCTCATT
1 ATGGTTTTTGCATGGAAAGCAAAATAGAACCAATTGTTGCTCATT
* *
30914645 ATGGTTTTTGCATGGAAAGCAAAATAGATCTAATTGTTGCT
1 ATGGTTTTTGCATGGAAAGCAAAATAGAACCAATTGTTGCT
30914686 TATTGGTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (45 bp):
ATGGTTTTTGCATGGAAAGCAAAATAGAACCAATTGTTGCTCATT
Found at i:30919085 original size:30 final size:30
Alignment explanation
Indices: 30918972--30919179 Score: 185
Period size: 30 Copynumber: 7.0 Consensus size: 30
30918962 GAAGTGTAAT
*
30918972 TTCGATGGTAGTCACCATCCCTTTTCATAAA
1 TTCGATGGTCGTCACCATCCCTTTTCAT-AA
* *** *
30919003 TT-GATAG-CCAAAGCTATCCCTTTTCATAA
1 TTCGATGGTCGTCA-CCATCCCTTTTCATAA
** * * *
30919032 TTCGACAGTCGAT-GCTATGCCTTTTCATAA
1 TTCGATGGTCG-TCACCATCCCTTTTCATAA
*
30919062 TTCGATGGTTGTCACCATCCCTTTTCATAA
1 TTCGATGGTCGTCACCATCCCTTTTCATAA
* * *
30919092 TTCAATGGTCGTTACCATCCATTTTCATAA
1 TTCGATGGTCGTCACCATCCCTTTTCATAA
*
30919122 TTCGATGGTCGTCA-CATCCCTCTTCAT--
1 TTCGATGGTCGTCACCATCCCTTTTCATAA
*
30919149 TGCCGATGGTCGTCACCATCCCTTTTCATAA
1 T-TCGATGGTCGTCACCATCCCTTTTCATAA
30919180 ATAGATTGCC
Statistics
Matches: 141, Mismatches: 27, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
27 1 0.01
28 12 0.09
29 29 0.21
30 96 0.68
31 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (30 bp):
TTCGATGGTCGTCACCATCCCTTTTCATAA
Found at i:30919262 original size:30 final size:30
Alignment explanation
Indices: 30919210--30919311 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
30919200 GGTTATCACG
* * *
30919210 ATCCCTTTTCATAAATCGATAGCCGAAGCT
1 ATCCTTTTTCATAATTCGATAGCCGAAACT
* *
30919240 ATCCTTTTTTATAATTTGATAGCCGAAACT
1 ATCCTTTTTCATAATTCGATAGCCGAAACT
30919270 AT-CTCTTTTCATAATTCGATAGCCGAAACT
1 ATCCT-TTTTCATAATTCGATAGCCGAAACT
*
30919300 ATCCCTTTTCAT
1 ATCCTTTTTCAT
30919312 TTGGTCGATG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 2 0.03
30 59 0.95
31 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (30 bp):
ATCCTTTTTCATAATTCGATAGCCGAAACT
Found at i:30927876 original size:30 final size:31
Alignment explanation
Indices: 30927842--30927920 Score: 101
Period size: 30 Copynumber: 2.6 Consensus size: 31
30927832 GGTAGTCACC
* *
30927842 ATCCCTTTTCATAAATT-GATAGCCGAAGTT
1 ATCCCTTTTCATAAATTCGACAGCCGAAGAT
* *
30927872 ATCCCTTTTTAT-AATTCGACAGCTGAAGAT
1 ATCCCTTTTCATAAATTCGACAGCCGAAGAT
30927902 ATCCCTTTTCAT-AATTCGA
1 ATCCCTTTTCATAAATTCGA
30927921 TGGTTGTCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 4 0.09
30 39 0.91
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (31 bp):
ATCCCTTTTCATAAATTCGACAGCCGAAGAT
Found at i:30937796 original size:75 final size:74
Alignment explanation
Indices: 30937711--30937858 Score: 185
Period size: 75 Copynumber: 2.0 Consensus size: 74
30937701 GGAAACCAAA
* * *
30937711 GATTATTCTCTTATTATTAGAGAA-AACCAATGGATAGTTAGAAAAA-GAAATTATATAT-TTTC
1 GATTATTCTCTTATTAATAGAGAAGAA--AATGGAAAGTTAGAAAAATG-AATAATAT-TCTTTC
30937773 CAAAAGAATATAC
62 CAAAAGAATATAC
* *
30937786 GATTATTCTCTTATTAATATAGAAGGAAAATGGAAAGTTAGAAAAATGAATAATATTCTTTTCAA
1 GATTATTCTCTTATTAATAGAGAA-GAAAATGGAAAGTTAGAAAAATGAATAATATTCTTTCCAA
30937851 AAGAATAT
65 AAGAATAT
30937859 TAATTTCCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
74 1 0.02
75 60 0.94
76 1 0.02
77 2 0.03
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (74 bp):
GATTATTCTCTTATTAATAGAGAAGAAAATGGAAAGTTAGAAAAATGAATAATATTCTTTCCAAA
AGAATATAC
Found at i:30938093 original size:138 final size:137
Alignment explanation
Indices: 30937838--30938284 Score: 594
Period size: 138 Copynumber: 3.2 Consensus size: 137
30937828 AAAATGAATA
* * * * * *
30937838 ATATTCTTTTCAAAAGAATATTAATTTCCCTGTCTTCTATATTTTGACCAAAATTAATTAATATA
1 ATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTACTACA
* *
30937903 ACTTTTTATATTAATAAATTCGATAAAAATATATACAATTAAT-TTTTTTATGAACCAAATTCAT
66 A-TTTTTATATTAATAAATTTGAT-AAAATATATACAATTAATATTTTGTATGAACCAAATTCAT
30937967 ATATTAATT
129 ATATTAATT
*** *
30937976 ATATTCTTTCCAAATTTATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTTCTACA
1 ATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTACTACA
* * * *
30938041 ATTGTTTGTATTAATAAATTTGATAAAATATATACAATTACTATTTAGTATGAATCAAATTCATA
66 ATT-TTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAACCAAATTCATA
*
30938106 TATGAATT
130 TATTAATT
* * * * *
30938114 ATATTCTTTCCAAAAGAATATTAATTTTCATGTATTTTATATTTTGACAAAAATTAATTCCTACA
1 ATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTACTACA
** *
30938179 ACAATTTATATTAATAAA-TTCAGTAAAATATATACAATTAATATTTTGTATGAATCC-AATTCA
66 A-TTTTTATATTAATAAATTTGA-TAAAATATATACAATTAATATTTTGTATGAA-CCAAATTCA
30938242 TATATTAATT
128 TATATTAATT
30938252 ATATTCTTTCCAAAAAAATATTAATTTCCATGT
1 ATATTCTTTCCAAAAAAATATTAATTTCCATGT
30938285 GTTCCTACAA
Statistics
Matches: 271, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
137 22 0.08
138 248 0.92
139 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (137 bp):
ATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTACTACA
ATTTTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAACCAAATTCATAT
ATTAATT
Found at i:30938319 original size:18 final size:17
Alignment explanation
Indices: 30938296--30938331 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
30938286 TTCCTACAAC
30938296 TGTTTATATTAATATAAT
1 TGTTTATATTAATA-AAT
30938314 TGTTTATATTAATAAAT
1 TGTTTATATTAATAAAT
30938331 T
1 T
30938332 CGATAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TGTTTATATTAATAAAT
Found at i:30938608 original size:39 final size:39
Alignment explanation
Indices: 30938554--30938631 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
30938544 GACCCTATAG
30938554 GCTCTTGTAACGTAGGTAGTAATACTAGAACTTTTCTAA
1 GCTCTTGTAACGTAGGTAGTAATACTAGAACTTTTCTAA
30938593 GCTCTTGTAACGTAGGTAGTAATACTAGAACTTTTCTAA
1 GCTCTTGTAACGTAGGTAGTAATACTAGAACTTTTCTAA
30938632 CATTACAAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (39 bp):
GCTCTTGTAACGTAGGTAGTAATACTAGAACTTTTCTAA
Found at i:30940325 original size:23 final size:23
Alignment explanation
Indices: 30940299--30940349 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
30940289 TCCCACCTGG
30940299 TGTAATA-TCCCGAAAATTACTAC
1 TGTAATACT-CCGAAAATTACTAC
30940322 TGTAATACTCCGAAAATTACTAC
1 TGTAATACTCCGAAAATTACTAC
*
30940345 AGTAA
1 TGTAA
30940350 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACTCCGAAAATTACTAC
Found at i:30954049 original size:43 final size:43
Alignment explanation
Indices: 30953980--30954248 Score: 396
Period size: 43 Copynumber: 6.3 Consensus size: 43
30953970 TTATTTCTAT
* *
30953980 AAACGCCGCTATAGATCATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
30954023 AAATGTCGCTATAGATCAGGAGCTTTAGCGGCGCTGTTT-CCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCT-TTTCCCAC
* *
30954066 AAACGCCGCTATAGATCAAGACCTTTAGCGGTGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
30954109 AAACGTCGCTATAGATCATGACCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
30954152 AAACGCCGCTATAGATCAAGACCTTTAGCGGTGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
30954195 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
*
30954238 AAACGTCGCTA
1 AAACGCCGCTA
30954249 AAAACATATC
Statistics
Matches: 201, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 3 0.01
43 195 0.97
44 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:30954210 original size:129 final size:129
Alignment explanation
Indices: 30953980--30954248 Score: 439
Period size: 129 Copynumber: 2.1 Consensus size: 129
30953970 TTATTTCTAT
* * * * * *
30953980 AAACGCCGCTATAGATCATGACCTTTAGCGGCACTTTTCCCACAAATGTCGCTATAGATCAGGAG
1 AAACGTCGCTATAGATCATGACCTTTAGCGGCACTTTACCCACAAACGCCGCTATAGATCAAGAC
* *
30954045 CTTTAGCGGCGCTGTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGTGCTTTTTCCAC
66 CTTTAGCGGCGCTGTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
*
30954109 AAACGTCGCTATAGATCATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTATAGATCAAGAC
1 AAACGTCGCTATAGATCATGACCTTTAGCGGCACTTTACCCACAAACGCCGCTATAGATCAAGAC
* *
30954174 CTTTAGCGGTGCTTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
66 CTTTAGCGGCGCTGTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
30954238 AAACGTCGCTA
1 AAACGTCGCTA
30954249 AAAACATATC
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (129 bp):
AAACGTCGCTATAGATCATGACCTTTAGCGGCACTTTACCCACAAACGCCGCTATAGATCAAGAC
CTTTAGCGGCGCTGTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:30954587 original size:42 final size:43
Alignment explanation
Indices: 30954518--30954601 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 43
30954508 ATATGCAAGA
** *
30954518 TAATAAAACATACAATGTATTTTCTTAAT-AA-GTAAATCTTGG
1 TAATAAAACATACAATACATTTACTTAATCAATG-AAATCTTGG
* *
30954560 TAATAAAAGATATAATACATTTACTTAATCAATGAAATCTTG
1 TAATAAAACATACAATACATTTACTTAATCAATGAAATCTTG
30954602 TACATCATTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 24 0.69
43 10 0.29
44 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (43 bp):
TAATAAAACATACAATACATTTACTTAATCAATGAAATCTTGG
Found at i:30957739 original size:7 final size:7
Alignment explanation
Indices: 30957727--30957802 Score: 55
Period size: 7 Copynumber: 10.4 Consensus size: 7
30957717 CTAACTATTG
30957727 AAACCCT
1 AAACCCT
30957734 AAACCCT
1 AAACCCT
30957741 AAATCCCT
1 AAA-CCCT
*
30957749 AACCCCT
1 AAACCCT
*
30957756 AACCCCT
1 AAACCCT
30957763 AAATCCCCT
1 AAA--CCCT
30957772 -AACCCTT
1 AAACCC-T
* *
30957779 AAAGCAT
1 AAACCCT
*
30957786 AACCCCT
1 AAACCCT
*
30957793 AATCCCT
1 AAACCCT
30957800 AAA
1 AAA
30957803 GCATAACATC
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
6 3 0.05
7 37 0.67
8 11 0.20
9 4 0.07
ACGTcount: A:0.38, C:0.42, G:0.01, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:30957752 original size:21 final size:22
Alignment explanation
Indices: 30957730--30957850 Score: 88
Period size: 21 Copynumber: 5.5 Consensus size: 22
30957720 ACTATTGAAA
*
30957730 CCCTAAACCCTAAATCCCTAAC
1 CCCTAAACCATAAATCCCTAAC
* *
30957752 CCCTAACCCCTAAATCCCCTAAC
1 CCCTAAACCATAAAT-CCCTAAC
* * * *
30957775 CCTTAAAGCAT-AACCCCTAAT
1 CCCTAAACCATAAATCCCTAAC
*
30957796 CCCTAAAGCATAACAT--CTAAC
1 CCCTAAACCATAA-ATCCCTAAC
* * *
30957817 CCCTAAACCTTAAATCAC-AAA
1 CCCTAAACCATAAATCCCTAAC
30957838 CCCTAAATCCATA
1 CCCTAAA-CCATA
30957851 CCCCGGCCTA
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
20 2 0.03
21 40 0.51
22 22 0.28
23 15 0.19
ACGTcount: A:0.39, C:0.40, G:0.02, T:0.20
Consensus pattern (22 bp):
CCCTAAACCATAAATCCCTAAC
Found at i:30957772 original size:16 final size:16
Alignment explanation
Indices: 30957751--30957781 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30957741 AAATCCCTAA
30957751 CCCCTAACCCCTAAAT
1 CCCCTAACCCCTAAAT
*
30957767 CCCCTAACCCTTAAA
1 CCCCTAACCCCTAAA
30957782 GCATAACCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.19
Consensus pattern (16 bp):
CCCCTAACCCCTAAAT
Found at i:30957776 original size:37 final size:38
Alignment explanation
Indices: 30957730--30957802 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
30957720 ACTATTGAAA
*
30957730 CCCTAAACCC-TAAATCCCTAACCCCTAACCCCTAAATC
1 CCCTAAACCCTTAAA-CCATAACCCCTAACCCCTAAATC
* *
30957768 CCCT-AACCCTTAAAGCATAACCCCTAATCCCTAAA
1 CCCTAAACCCTTAAACCATAACCCCTAACCCCTAAA
30957803 GCATAACATC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 23 0.74
38 8 0.26
ACGTcount: A:0.36, C:0.44, G:0.01, T:0.19
Consensus pattern (38 bp):
CCCTAAACCCTTAAACCATAACCCCTAACCCCTAAATC
Found at i:30958306 original size:113 final size:113
Alignment explanation
Indices: 30958123--30958491 Score: 533
Period size: 113 Copynumber: 3.3 Consensus size: 113
30958113 CTCGGAGCAG
* ** * * * *
30958123 TTGGGCTTAGTTTTTTTTGCGGTGCTTTCCCAAAAACGCCGCTAAAGCGC-TAAACATTAGCGGC
1 TTGGGCTTAG-TTTTTTTGCGGCGCTTTCCTGAAAATGTCGCTAAAGC-CATGAGCATTAGCGGC
30958187 GCTTTCTTAAAAACGTTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCA
64 GCTTTCTTAAAAACGTTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCA
**
30958237 TTGGGCTTAGTTTTTTTGCGGCGCTTTCCTGAAAATGTCGCTAAAGCCATGAGCATTAGCGGCAT
1 TTGGGCTTAGTTTTTTTGCGGCGCTTTCCTGAAAATGTCGCTAAAGCCATGAGCATTAGCGGCGC
*
30958302 TTTCTTAAAAAGGTTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCA
66 TTTCTTAAAAACGTTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCA
30958350 TTGGGCTTAGTTTTTTTGCGGCGCTTTCCTGAAAATGTCGCTAAAGCCATGAGCATTAGCGGCGC
1 TTGGGCTTAGTTTTTTTGCGGCGCTTTCCTGAAAATGTCGCTAAAGCCATGAGCATTAGCGGCGC
* * * * * * *
30958415 TTTCCTAAAAATGCTGCTAAATCCCTGAAAGCTCAGAAAACGGCACCG
66 TTTCTTAAAAACGTTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCA
* **
30958463 TTGGGCTTATTTTTTTTGCAACGCTTTCC
1 TTGGGCTTAGTTTTTTTGCGGCGCTTTCC
30958492 CAAAAACGCC
Statistics
Matches: 232, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
112 1 0.00
113 221 0.95
114 10 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (113 bp):
TTGGGCTTAGTTTTTTTGCGGCGCTTTCCTGAAAATGTCGCTAAAGCCATGAGCATTAGCGGCGC
TTTCTTAAAAACGTTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCA
Found at i:30958505 original size:113 final size:113
Alignment explanation
Indices: 30958070--30958506 Score: 523
Period size: 113 Copynumber: 3.9 Consensus size: 113
30958060 AATCCCTTAA
** * *
30958070 CATTAGCGGCGCTTTCTTAAAAATGCCACTAAATCCCCGAGAGCTC-------GG-AGCAGTTGG
1 CATTAGCGGCGCTTTCTTAAAAATGCTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCA-TTGG
* * *
30958127 GCTTAGTTTTTTTTGCGGTGCTTTCCCAAAAACGCCGCTAAAGCGC-TAAA
65 GCTTAG-TTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGC-CATGAG
* *
30958177 CATTAGCGGCGCTTTCTTAAAAACGTTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCATTGGG
1 CATTAGCGGCGCTTTCTTAAAAATGCTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCATTGGG
** * *
30958242 CTTAGTTTTTTTGCGGCGCTTTCCTGAAAATGTCGCTAAAGCCATGAG
66 CTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCATGAG
** * *
30958290 CATTAGCGGCATTTTCTTAAAAAGGTTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCATTGGG
1 CATTAGCGGCGCTTTCTTAAAAATGCTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCATTGGG
** * *
30958355 CTTAGTTTTTTTGCGGCGCTTTCCTGAAAATGTCGCTAAAGCCATGAG
66 CTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCATGAG
* * * * *
30958403 CATTAGCGGCGCTTTCCTAAAAATGCTGCTAAATCCCTGAAAGCTCAGAAAACGGCACCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAATGCTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCATTGGG
* **
30958468 CTTATTTTTTTTGCAACGCTTTCCCAAAAACGCCGCTAA
66 CTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
30958507 TGCTGCTTTA
Statistics
Matches: 289, Mismatches: 32, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
107 41 0.14
112 1 0.00
113 232 0.80
114 12 0.04
115 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (113 bp):
CATTAGCGGCGCTTTCTTAAAAATGCTGCTAAATCCCCGAAAGCTCAAAAAATGGCACCATTGGG
CTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCATGAG
Found at i:30958775 original size:111 final size:110
Alignment explanation
Indices: 30958512--30958803 Score: 370
Period size: 111 Copynumber: 2.6 Consensus size: 110
30958502 GCTAATGCTG
* * *
30958512 CTTTATTAAAAACACCGCTAAATCCAC-GATAGCTAAGAAAACGGCGCCGTTGGGCTTTTTTTTG
1 CTTTATTAAAAACGCCGCTAAATCC-CTGAAAGCTAAGAAAATGGCGCCGTTGGGCTTTTTTTTG
* *
30958576 CGGCGCTTTCCCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCG
65 CGGCACTTTCCCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCA
* * * * *
30958622 CTTTCTTAAAAATGCCGCTAAATCCCTGAAAGCTCAGAAAATGGCTCCGTTGGGATTTTTTTTTG
1 CTTTATTAAAAACGCCGCTAAATCCCTGAAAGCTAAGAAAATGGCGCCGTTGGG-CTTTTTTTTG
* *
30958687 TGGCACTTTCCCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGTA
65 CGGCACTTTCCCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCA
* ** * * *
30958733 CTTTTTTAAAAACGCCGCTAAATCCCTGAAAGCTTGGTAAATGGCGTCGCTGGGCTTAGGTTTTT
1 CTTTATTAAAAACGCCGCTAAATCCCTGAAAGCTAAGAAAATGGCGCCGTTGGGCTT---TTTTT
30958798 TGCGGC
63 TGCGGC
30958804 GCTGTTTGGA
Statistics
Matches: 155, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
109 1 0.01
110 47 0.30
111 97 0.63
113 10 0.06
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (110 bp):
CTTTATTAAAAACGCCGCTAAATCCCTGAAAGCTAAGAAAATGGCGCCGTTGGGCTTTTTTTTGC
GGCACTTTCCCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCA
Found at i:30960441 original size:40 final size:41
Alignment explanation
Indices: 30960371--30960516 Score: 197
Period size: 41 Copynumber: 3.6 Consensus size: 41
30960361 AATGAGATAA
*
30960371 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
* *
30960412 TTCAGACTTT-TGTCTAGCAAGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
** *
30960452 TTCAGACTTTACGTCTAGCAGGCTTGATGCTAGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
* *
30960493 TTCAGGCATT-CTGTCTAGCAGGCT
1 TTCAGACTTTAC-GTCTAGCAGGCT
30960517 AATTGCTGGT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 38 0.41
41 55 0.59
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
Found at i:30967673 original size:24 final size:25
Alignment explanation
Indices: 30967641--30967690 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
30967631 GATGAATTAT
*
30967641 AATTTAAAGTAT-ATTGGTTGAATA
1 AATTAAAAGTATGATTGGTTGAATA
30967665 AATTAAAAGTATGATTGGTTGAATA
1 AATTAAAAGTATGATTGGTTGAATA
30967690 A
1 A
30967691 TTTACATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (25 bp):
AATTAAAAGTATGATTGGTTGAATA
Found at i:30967692 original size:24 final size:23
Alignment explanation
Indices: 30967639--30967692 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
30967629 TTGATGAATT
*
30967639 ATAATTTAAAGTATATTGGTTGA
1 ATAATTAAAAGTATATTGGTTGA
30967662 ATAAATTAAAAGTATGATTGGTTGA
1 AT-AATTAAAAGTAT-ATTGGTTGA
30967687 ATAATT
1 ATAATT
30967693 TACATGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 2 0.07
24 15 0.54
25 11 0.39
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.41
Consensus pattern (23 bp):
ATAATTAAAAGTATATTGGTTGA
Found at i:30969145 original size:21 final size:21
Alignment explanation
Indices: 30969119--30969158 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30969109 CAAATAATAT
30969119 AATTTAAC-CAATTAATTAATC
1 AATTT-ACTCAATTAATTAATC
*
30969140 AATTTACTTAATTAATTAA
1 AATTTACTCAATTAATTAA
30969159 ATCCCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTACTCAATTAATTAATC
Found at i:30971417 original size:50 final size:50
Alignment explanation
Indices: 30971308--30971486 Score: 211
Period size: 50 Copynumber: 3.6 Consensus size: 50
30971298 ACATGTTAAA
* * *
30971308 GCCATGTCCCAGACATGGTTTTACATGGGATGTT-TCATGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACAAGGGA-GTTCTCATAT-CGGTGCCAAT
* *
30971357 GCCATATCCCAGATATGGTCTTACAAGGGAGTTCTCATATCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACAAGGGAGTTCTCATATCGGTGCCAAT
* ** ** * *
30971407 GCCATGTCCCAGACTTGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAAGGGAGTTCTCATATCGGTGCCAAT
30971457 GCCATGTCCCAGACATGGTCTTACAAGGGA
1 GCCATGTCCCAGACATGGTCTTACAAGGGA
30971487 CCTCTTTACC
Statistics
Matches: 110, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
48 4 0.04
49 31 0.28
50 75 0.68
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACAAGGGAGTTCTCATATCGGTGCCAAT
Found at i:30975425 original size:12 final size:11
Alignment explanation
Indices: 30975399--30975424 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30975389 ATAAAAAGTA
30975399 TTTTAAAATTC
1 TTTTAAAATTC
30975410 TTTTAAAATTC
1 TTTTAAAATTC
30975421 TTTT
1 TTTT
30975425 TCGACCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATTC
Found at i:30977288 original size:7 final size:7
Alignment explanation
Indices: 30977268--30977323 Score: 85
Period size: 7 Copynumber: 7.7 Consensus size: 7
30977258 TTCAGCAACT
30977268 CTAAACC
1 CTAAACC
*
30977275 TTAAAACC
1 CT-AAACC
30977283 CTAAACC
1 CTAAACC
30977290 CTAAACC
1 CTAAACC
30977297 CTAAACC
1 CTAAACC
30977304 CTAAAACC
1 CT-AAACC
30977312 CTAAACC
1 CTAAACC
30977319 CTAAA
1 CTAAA
30977324 TCCTTGAGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 32 0.71
8 13 0.29
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:30977288 original size:15 final size:15
Alignment explanation
Indices: 30977268--30977323 Score: 96
Period size: 15 Copynumber: 3.8 Consensus size: 15
30977258 TTCAGCAACT
*
30977268 CTAAACCTTAAAACC
1 CTAAACCCTAAAACC
30977283 CTAAACCCT-AAACC
1 CTAAACCCTAAAACC
30977297 CTAAACCCTAAAACC
1 CTAAACCCTAAAACC
30977312 CTAAACCCTAAA
1 CTAAACCCTAAA
30977324 TCCTTGAGCA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
14 14 0.36
15 25 0.64
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (15 bp):
CTAAACCCTAAAACC
Found at i:30977296 original size:22 final size:23
Alignment explanation
Indices: 30977268--30977323 Score: 89
Period size: 22 Copynumber: 2.5 Consensus size: 23
30977258 TTCAGCAACT
*
30977268 CTAAACCTTAAAACCCT-AAACC
1 CTAAACCCTAAAACCCTAAAACC
30977290 CTAAACCCT-AAACCCTAAAACC
1 CTAAACCCTAAAACCCTAAAACC
30977312 CTAAACCCTAAA
1 CTAAACCCTAAA
30977324 TCCTTGAGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 7 0.23
22 22 0.71
23 2 0.06
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (23 bp):
CTAAACCCTAAAACCCTAAAACC
Found at i:30981445 original size:19 final size:19
Alignment explanation
Indices: 30981408--30981446 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30981398 TAAAATTATT
*
30981408 TTTTCTAAACATATTTTTC
1 TTTTCCAAACATATTTTTC
30981427 TTTTCCAAA-ATATTATTTC
1 TTTTCCAAACATATT-TTTC
30981446 T
1 T
30981447 CTATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTCCAAACATATTTTTC
Found at i:30986353 original size:26 final size:26
Alignment explanation
Indices: 30986297--30986354 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
30986287 ATTCTACAAA
*
30986297 AATAAAAAAATAAAAAAACTTGAACAG
1 AATAAAAAAATAAAAAAAATT-AACAG
*
30986324 AATAAAAAAATAAAATAAAATT-ACAT
1 AATAAAAAAATAAAA-AAAATTAACAG
30986350 AATAA
1 AATAA
30986355 TAAATTCCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 8 0.29
27 15 0.54
28 5 0.18
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.19
Consensus pattern (26 bp):
AATAAAAAAATAAAAAAAATTAACAG
Found at i:30994582 original size:20 final size:20
Alignment explanation
Indices: 30994559--30994598 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30994549 TTAGCCTCTC
30994559 CATTTTT-ACCTTTTCATTTT
1 CATTTTTCA-CTTTTCATTTT
*
30994579 CATTTTTCATTTTTCATTTT
1 CATTTTTCACTTTTCATTTT
30994599 TTACCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCACTTTTCATTTT
Found at i:30994585 original size:7 final size:7
Alignment explanation
Indices: 30994569--30994599 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
30994559 CATTTTTACC
30994569 TTTTCA-
1 TTTTCAT
30994575 TTTTCAT
1 TTTTCAT
30994582 TTTTCAT
1 TTTTCAT
30994589 TTTTCAT
1 TTTTCAT
30994596 TTTT
1 TTTT
30994600 TACCTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTCAT
Found at i:30995502 original size:29 final size:29
Alignment explanation
Indices: 30995431--30995502 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
30995421 TTTATTTTTC
*
30995431 TTTTTCATACTTTTATTTTGACTTTGATTGA
1 TTTTTC-TTCTTTTATTTTGACTTTGATT-A
30995462 TTTTTCTT-TTTTATTTTGACTTTGATT-
1 TTTTTCTTCTTTTATTTTGACTTTGATTA
*
30995489 TTTCTTTTTCTTTT
1 TTT-TTCTTCTTTT
30995503 TTTGTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 3 0.08
28 4 0.11
29 23 0.62
30 1 0.03
31 6 0.16
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (29 bp):
TTTTTCTTCTTTTATTTTGACTTTGATTA
Found at i:30995511 original size:21 final size:21
Alignment explanation
Indices: 30995482--30995526 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
30995472 TTATTTTGAC
* **
30995482 TTTGATTTTTCTTTTTCTTTT
1 TTTGATTTTTATTTTGATTTT
*
30995503 TTTGTTTTTTATTTTGATTTT
1 TTTGATTTTTATTTTGATTTT
30995524 TTT
1 TTT
30995527 TGAATCTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.82
Consensus pattern (21 bp):
TTTGATTTTTATTTTGATTTT
Found at i:31011359 original size:20 final size:21
Alignment explanation
Indices: 31011327--31011382 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
31011317 TGAGGAGGAG
*
31011327 ACACGCCCATGTGAAGGA-AC
1 ACACGCCCGTGTGAAGGAGAC
* * *
31011347 ACATGCCCGTGTGGGAGGAGGC
1 ACACGCCCGTGT-GAAGGAGAC
31011369 ACACGCCCGTGTGA
1 ACACGCCCGTGTGA
31011383 GCTAGGGACA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 10 0.36
21 6 0.21
22 12 0.43
ACGTcount: A:0.25, C:0.29, G:0.34, T:0.12
Consensus pattern (21 bp):
ACACGCCCGTGTGAAGGAGAC
Found at i:31013108 original size:22 final size:22
Alignment explanation
Indices: 31013078--31013119 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
31013068 TAGGGATGGT
*
31013078 TACATGTTAGGGGTGTTACAGA
1 TACAGGTTAGGGGTGTTACAGA
*
31013100 TACAGGTTAGGGGTTTTACA
1 TACAGGTTAGGGGTGTTACA
31013120 CAATGGGAGA
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:0.26, C:0.10, G:0.31, T:0.33
Consensus pattern (22 bp):
TACAGGTTAGGGGTGTTACAGA
Found at i:31014547 original size:73 final size:72
Alignment explanation
Indices: 31014431--31014571 Score: 228
Period size: 73 Copynumber: 1.9 Consensus size: 72
31014421 ACAGCACCGC
* * * *
31014431 AAAAAACCTAAGCCCAACGATGCCGTTTTCTGAACTTTCGGGGATTTAGTGTCGTTTTTGAGAAA
1 AAAAAACATAAGCCCAACGATGCCGTTTTATGAACTTTCGGGGATTTAGCGGCGTTTTT-AGAAA
31014496 GCGCAGCA
65 GCGCAGCA
*
31014504 AAAAAACATAAGCCCAACGATGCCGTTTTATGAGCTTTCGGGGATTTAGCGGCGTTTTTAGAAAG
1 AAAAAACATAAGCCCAACGATGCCGTTTTATGAACTTTCGGGGATTTAGCGGCGTTTTTAGAAAG
31014569 CGC
66 CGC
31014572 CGCTAATGCT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 9 0.14
73 54 0.86
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (72 bp):
AAAAAACATAAGCCCAACGATGCCGTTTTATGAACTTTCGGGGATTTAGCGGCGTTTTTAGAAAG
CGCAGCA
Found at i:31014721 original size:114 final size:114
Alignment explanation
Indices: 31014483--31015007 Score: 757
Period size: 114 Copynumber: 4.6 Consensus size: 114
31014473 GATTTAGTGT
* * * *
31014483 CGTTTTTGAGAAAGCGCAGCAAAAAAACATAAGCCCAACGATGCCGTTTTATGAGCTTTCGGGGA
1 CGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGA
*
31014548 TTTAGCGGCGTTTTTAG-AAAGCGCCGCTAATGCTCAGGTCTTTAGCGG
66 TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
*
31014596 CGTTTTTGAGAAAGCGTCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGA
1 CGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGA
* * * *
31014661 TTTAGCGGTGTTTTTCGAAAAGCACCGCTAATGCTCAGGGCTTTAGCAG
66 TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
* * *
31014710 CGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGTCATTTTGTGAGCTTTCGGGGA
1 CGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGA
* * * * * *
31014775 TTTAGCAGCATTTTTA-AGAAAGCGGCGCTAATGCTTAAGTCTTTAGCGG
66 TTTAGCGGCGTTTTTAGA-AAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
* *
31014824 CATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAAAGACGCCGTTTTGTGAGCTTTCGGGGA
1 CGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGA
* * *
31014889 TTTAGCGGCGTTTTTAGGAAAGCGTCGCTAATGCTCAGGGCTTTAGTGG
66 TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
* * * * **
31014938 CGTTTTTGAGAATGTGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTAGGGA
1 CGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGA
31015003 TTTAG
66 TTTAG
31015008 TGGCCAAAAA
Statistics
Matches: 364, Mismatches: 45, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
113 76 0.21
114 288 0.79
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (114 bp):
CGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGA
TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
Found at i:31015077 original size:41 final size:41
Alignment explanation
Indices: 31015016--31015099 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
31015006 AGTGGCCAAA
* *
31015016 AATGTTGGGGGCTTTGGCGGCATTTTTGAAAAAGCGCTGCT
1 AATGTTGGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCT
*
31015057 AATGTTGGGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCT
1 AATGTTGGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCT
31015098 AA
1 AA
31015100 AAATATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.30
Consensus pattern (41 bp):
AATGTTGGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCT
Found at i:31015384 original size:14 final size:14
Alignment explanation
Indices: 31015365--31015402 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
31015355 GAGTATGGGT
31015365 TTAGGGATTATAGA
1 TTAGGGATTATAGA
*
31015379 TTAGGGATTATGGA
1 TTAGGGATTATAGA
*
31015393 TTATGGATTA
1 TTAGGGATTA
31015403 GGGGTTGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (14 bp):
TTAGGGATTATAGA
Found at i:31015387 original size:7 final size:7
Alignment explanation
Indices: 31015350--31015414 Score: 51
Period size: 7 Copynumber: 9.3 Consensus size: 7
31015340 ATTTTAAGGT
31015350 TTAGGGA
1 TTAGGGA
* *
31015357 GTATGGGT
1 TTA-GGGA
31015365 TTAGGGA
1 TTAGGGA
**
31015372 TTATAGA
1 TTAGGGA
31015379 TTAGGGA
1 TTAGGGA
*
31015386 TTATGGA
1 TTAGGGA
*
31015393 TTATGGA
1 TTAGGGA
*
31015400 TTAGGGG
1 TTAGGGA
31015407 TT-GGGA
1 TTAGGGA
31015413 TT
1 TT
31015415 TAAGGTTTAG
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
6 5 0.11
7 35 0.78
8 5 0.11
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.37
Consensus pattern (7 bp):
TTAGGGA
Found at i:31015690 original size:14 final size:15
Alignment explanation
Indices: 31015655--31015695 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
31015645 TATTTTAAGG
*
31015655 TTTAGGGAGTATGAA
1 TTTAGGGATTATGAA
*
31015670 TTTAGGGTTTATGAA
1 TTTAGGGATTATGAA
31015685 -TTAGGGATTAT
1 TTTAGGGATTAT
31015696 CGTTTAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (15 bp):
TTTAGGGATTATGAA
Found at i:31015916 original size:296 final size:302
Alignment explanation
Indices: 31015247--31015917 Score: 830
Period size: 306 Copynumber: 2.2 Consensus size: 302
31015237 ATTATTTAAA
* * * * * * *
31015247 ATAATTGTAAAAGAGATAATAATAAATTTGTT-TAGAGTTTTTAGTTTAGGGTCTATGATTTATT
1 ATAATTGTAAAAGAGATAATAATAAATTTATTGAAGA-TTATGAGTATA-GGTATAT-AATTATT
* **
31015311 TAAGATTTAAGGTCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGGTTTAGGGATTAT
63 TAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGAATTTAGGGATTAT
* *
31015376 AGATTAGGGATTATGGATTATGGATTAGGGGTTGGGATTTAAGGTTTAGGGGTTAAAGGGTTAGG
128 AGATTAGGGATTATCGATTAT-GA-TAGGGGTTGGGATTTAAGGTTTAGGGGTTAAAGGGTTAGA
* * * * *
31015441 GGTTTAGCGGTTAGACGTGTTAGGGGTTCAAAGTTAGGGATTTAGGGGTCGAGTTAGGGTTTTGG
191 GGTTTAGCGGTTAGACGAGTTAGGGATTCAAAGTTAGGGATTCAGGGGTCGAGTTAAGGTTTTGA
*
31015506 GTTTAGATTAATTATTTTTTTAATTTATATTTTAAATATGTTCTTAT
256 GTTTAGATTAATTATTTTTTAAATTTATATTTTAAATATGTTCTTAT
* * * * * * *
31015553 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAAGGTTTTTAGTTTAGGGTATATGATTAATTT
1 ATAATTGTAAAAGAGATAATAATAAATTTATTGAAGATTATGAGTATA-GGTATATAATT-ATTT
*
31015618 AAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGAATTTAGGGTTTAT-
64 AAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGAATTTAGGGATTATA
* *
31015682 GAATTAGGGATTATCG-TT-T-A-A-GGGTTGGGATTTAAGGTTTAGGGGTT-AGGGGTTAGATG
129 G-ATTAGGGATTATCGATTATGATAGGGGTTGGGATTTAAGGTTTAGGGGTTAAAGGGTTAGAGG
* * *
31015741 -TTAGGGGTTA-A-GAGTTAGGGATTTAAGGTTTAGGGATTCAGGGGTCGAGTTAAGGTTTTGAG
193 TTTAGCGGTTAGACGAGTTAGGGATTCAAAG-TTAGGGATTCAGGGGTCGAGTTAAGGTTTTGAG
31015803 TTTAGATTAATTATTTTTTAAATTTATATTTTAAATATGTTCTTAT
257 TTTAGATTAATTATTTTTTAAATTTATATTTTAAATATGTTCTTAT
*
31015849 ATAATTGTAAAAGAGATAATAATAAATCAAATATATTGAA-ATTATGAGTATA-GTTTA-AATTA
1 ATAATTGTAAAAGAGATAATAATAAAT----T-TATTGAAGATTATGAGTATAGGTATATAATTA
31015911 TTTAAGA
61 TTTAAGA
31015918 GATATATAAT
Statistics
Matches: 326, Mismatches: 30, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
295 13 0.04
296 111 0.34
297 12 0.04
298 13 0.04
299 26 0.08
300 10 0.03
301 5 0.02
302 1 0.00
304 1 0.00
305 5 0.02
306 127 0.39
307 2 0.01
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.41
Consensus pattern (302 bp):
ATAATTGTAAAAGAGATAATAATAAATTTATTGAAGATTATGAGTATAGGTATATAATTATTTAA
GATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGAATTTAGGGATTATAGA
TTAGGGATTATCGATTATGATAGGGGTTGGGATTTAAGGTTTAGGGGTTAAAGGGTTAGAGGTTT
AGCGGTTAGACGAGTTAGGGATTCAAAGTTAGGGATTCAGGGGTCGAGTTAAGGTTTTGAGTTTA
GATTAATTATTTTTTAAATTTATATTTTAAATATGTTCTTAT
Found at i:31019836 original size:20 final size:18
Alignment explanation
Indices: 31019792--31019843 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
31019782 AAAAATAAAA
31019792 TAAAATAAAATATTTATCAT
1 TAAAAT-AAATA-TTATCAT
*
31019812 AAAAATAAATATTATCTGAT
1 TAAAATAAATATTATC--AT
31019832 TAAAAT-AATATT
1 TAAAATAAATATT
31019844 TTTAAATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 5 0.18
19 11 0.39
20 12 0.43
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (18 bp):
TAAAATAAATATTATCAT
Found at i:31019934 original size:43 final size:43
Alignment explanation
Indices: 31019887--31020167 Score: 264
Period size: 43 Copynumber: 6.6 Consensus size: 43
31019877 AGAAGCGTCA
* *
31019887 CTAAAGGT-TTGTTCTATAGCGGCATTTTTTGATAAAAGCGCCG
1 CTAAAGGTCTTGATCTATAGCGGC-TTTTTTGAGAAAAGCGCCG
** * *
31019930 CTAAAGGTCTTGATCTATAGCGGGGTTTGT-ACAAAAAGCGCCG
1 CTAAAGGTCTTGATCTATAGCGGCTTTTTTGA-GAAAAGCGCCG
* * * * *
31019973 CTAAAGGTCTTGATCTACAGCGGCGTTTGTGGGAAAATCGCCG
1 CTAAAGGTCTTGATCTATAGCGGCTTTTTTGAGAAAAGCGCCG
* * * *
31020016 CTAAAGGTCTTAAGCTATAGCGGCGTTTGTTG-TAAAAGCGCCG
1 CTAAAGGTCTTGATCTATAGCGGC-TTTTTTGAGAAAAGCGCCG
* * * * * *
31020059 CTAAAGATCCTAATCTATAGCGACGTTTATG-GAAAAGCGCCG
1 CTAAAGGTCTTGATCTATAGCGGCTTTTTTGAGAAAAGCGCCG
* * * *
31020101 CTAAAGGTCCTGATCTATAGCGGCGTTTGTGAGGAAAGCGCCG
1 CTAAAGGTCTTGATCTATAGCGGCTTTTTTGAGAAAAGCGCCG
* *
31020144 CTAAAGGTCATGGTCTATAGCGGC
1 CTAAAGGTCTTGATCTATAGCGGC
31020168 ATTTATTTCT
Statistics
Matches: 200, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
42 42 0.21
43 141 0.70
44 17 0.09
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (43 bp):
CTAAAGGTCTTGATCTATAGCGGCTTTTTTGAGAAAAGCGCCG
Found at i:31020024 original size:86 final size:84
Alignment explanation
Indices: 31019920--31020173 Score: 310
Period size: 85 Copynumber: 3.0 Consensus size: 84
31019910 ATTTTTTGAT
* *
31019920 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGGGTTTGTACAAAAAGCGCCGCTAAAGGTCTTG
1 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTA-AAAAAGCGCCGCTAAAGGTCATG
* *
31019985 ATCTACAGCGGCGTTTGTGGG
65 ATCTATAGCGGCGTTTAT-GG
* * * ** * * *
31020006 AAAATCGCCGCTAAAGGTCTTAAGCTATAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGATCCTA
1 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTG-TAAAAAAGCGCCGCTAAAGGTCATG
*
31020071 ATCTATAGCGACGTTTATGG
65 ATCTATAGCGGCGTTTATGG
* **
31020091 AAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGAGGAAAGCGCCGCTAAAGGTCATG
1 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-AAAAAAGCGCCGCTAAAGGTCATG
* *
31020156 GTCTATAGCGGCATTTAT
65 ATCTATAGCGGCGTTTAT
31020174 TTCTAAAAAT
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
84 1 0.01
85 70 0.50
86 69 0.49
87 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (84 bp):
AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAAAAAAGCGCCGCTAAAGGTCATGA
TCTATAGCGGCGTTTATGG
Found at i:31020173 original size:85 final size:83
Alignment explanation
Indices: 31019899--31020173 Score: 307
Period size: 86 Copynumber: 3.2 Consensus size: 83
31019889 AAAGGTTTGT
* * * *
31019899 TCTATAGCGGCATTTTTTGATAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGGGTTTGTACAA
1 TCTATAGCGGCA-TTTATG-GAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGT--GA
*
31019964 AAAGCGCCGCTAAAGGTCTTGA
62 AAAGCGCCGCTAAAGGTCATGA
* * * * * *
31019986 TCTACAGCGGCGTTTGTGGGAAAATCGCCGCTAAAGGTCTTAAGCTATAGCGGCGTTTGTTGTAA
1 TCTATAGCGGCATTTAT-GGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTG-TG-AA
* * *
31020051 AAGCGCCGCTAAAGATCCTAA
63 AAGCGCCGCTAAAGGTCATGA
* * *
31020072 TCTATAGCGACGTTTATGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGAGGAA
1 TCTATAGCGGCATTTATGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGA--AA
*
31020137 AGCGCCGCTAAAGGTCATGG
64 AGCGCCGCTAAAGGTCATGA
31020157 TCTATAGCGGCATTTAT
1 TCTATAGCGGCATTTAT
31020174 TTCTAAAAAT
Statistics
Matches: 158, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
83 1 0.01
84 2 0.01
85 70 0.44
86 73 0.46
87 12 0.08
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (83 bp):
TCTATAGCGGCATTTATGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAAG
CGCCGCTAAAGGTCATGA
Found at i:31020288 original size:21 final size:22
Alignment explanation
Indices: 31020259--31020301 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
31020249 TACTTTTAGC
*
31020259 GGCACTAAAAAGCGCCGCTAAA
1 GGCACTAAAAAACGCCGCTAAA
31020281 GGCA-TAAAAAACGCCGCTAAA
1 GGCACTAAAAAACGCCGCTAAA
31020302 AACCTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.44, C:0.26, G:0.21, T:0.09
Consensus pattern (22 bp):
GGCACTAAAAAACGCCGCTAAA
Found at i:31026895 original size:14 final size:14
Alignment explanation
Indices: 31026876--31026902 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31026866 CAAGCCCCTG
31026876 TGTTCTTTCTATTT
1 TGTTCTTTCTATTT
31026890 TGTTCTTTCTATT
1 TGTTCTTTCTATT
31026903 ATGTAATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.07, T:0.70
Consensus pattern (14 bp):
TGTTCTTTCTATTT
Found at i:31033851 original size:33 final size:33
Alignment explanation
Indices: 31033814--31033881 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
31033804 AAAGTAAGAA
31033814 AACAAAACTAAATCTACAAAAAGCATCTAGGCT
1 AACAAAACTAAATCTACAAAAAGCATCTAGGCT
* *
31033847 AACAAAACTAAATCTACGAAAAGCATTTAGGCT
1 AACAAAACTAAATCTACAAAAAGCATCTAGGCT
31033880 AA
1 AA
31033882 TGGAATGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.19
Consensus pattern (33 bp):
AACAAAACTAAATCTACAAAAAGCATCTAGGCT
Found at i:31034965 original size:23 final size:23
Alignment explanation
Indices: 31034928--31034974 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
31034918 GACCCTTACC
* *
31034928 CACTCACTACCTTATTTCTTCTT
1 CACTCACCACCTTATTTCTCCTT
*
31034951 CACTCACCACTTTATTTCTCCTT
1 CACTCACCACCTTATTTCTCCTT
31034974 C
1 C
31034975 TCCCACCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.38, G:0.00, T:0.45
Consensus pattern (23 bp):
CACTCACCACCTTATTTCTCCTT
Found at i:31046411 original size:51 final size:50
Alignment explanation
Indices: 31046284--31046626 Score: 269
Period size: 51 Copynumber: 6.8 Consensus size: 50
31046274 TTTATCATTC
*
31046284 GGTACACGTAGTAGCCTTCACATAGTATTACACACGTGATCAAG-TTTTA
1 GGTACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGCTTTTA
* * *
31046333 CGGTTCATGTAATAGCCTTCACATAGTACTACACACGTGATCAAAGCTTTTA
1 -GGTACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGCTTTTA
* * * * * * *
31046385 GGTACACATAGTAGCCTTCACTTAGTACTACACATGTG-GCCATCATTTATC
1 GGTACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGC-TTT-TA
* * * * * * *
31046436 GATACACGTTGTAGCCTTCACACAGTACTACACACGTGACTAAAACTTCTC
1 GGTACACGTAGTAGCCTTCACATAGTACTACACACGTGA-TCAAGCTTTTA
* * * * ***
31046487 GGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCA
1 GGTACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGCTTT-T-A
* * * * *** *
31046539 -ATACACGTAGTAGCCTTCACACAGTAATACACACGTGACCATTATTTATC
1 GGTACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGCTTT-TA
* * *
31046589 GATACACGTAGTAGCCTTCACACAATACTACACACGTG
1 GGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
31046627 TTCATCGATA
Statistics
Matches: 237, Mismatches: 47, Indels: 17
0.79 0.16 0.06
Matches are distributed among these distances:
49 2 0.01
50 44 0.19
51 182 0.77
52 7 0.03
53 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (50 bp):
GGTACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGCTTTTA
Found at i:31046417 original size:26 final size:26
Alignment explanation
Indices: 31046387--31046521 Score: 68
Period size: 26 Copynumber: 5.3 Consensus size: 26
31046377 AGCTTTTAGG
31046387 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* * *
31046413 TACACAT-GTGGCCATCATTTA-T-C
1 TACACATAGTAGCCTTCACTTAGTAC
* * **
31046436 GATACACGTTGTAGCCTTCACACAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
* * ** *
31046464 TACACA-CGT-GACTAAAACTT-CT-C
1 TACACATAGTAGCCT-TCACTTAGTAC
31046487 GGTACACATAGTAGCCTTCACTTAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
31046515 TACACAT
1 TACACAT
31046522 GTGACCATTA
Statistics
Matches: 75, Mismatches: 22, Indels: 24
0.62 0.18 0.20
Matches are distributed among these distances:
23 2 0.03
24 5 0.07
25 27 0.36
26 34 0.45
27 5 0.07
28 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:31046491 original size:102 final size:102
Alignment explanation
Indices: 31046282--31046609 Score: 372
Period size: 102 Copynumber: 3.2 Consensus size: 102
31046272 CTTTTATCAT
* * * * * *** ** * * *
31046282 TCGGTACACGTAGTAGCCTTCACATAGTATTACACACGTGATCAAGTTTTA-CGGTTCATGTAAT
1 TCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATACACGTAGT
* * *
31046346 AGCCTTCACATAGTACTACACACGTGA-TCAAAGCTTT
66 AGCCTTCACACAGTACTACACACGTGACT-AAAACTTA
* * * *
31046383 TAGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGGCCATCATTTATCGATACACGTTGT
1 TCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATACACGTAGT
*
31046448 AGCCTTCACACAGTACTACACACGTGACTAAAACTTC
66 AGCCTTCACACAGTACTACACACGTGACTAAAACTTA
*
31046485 TCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCAATACACGTAGT
1 TCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATACACGTAGT
* * ** *
31046550 AGCCTTCACACAGTAATACACACGTGACCATTATTTA
66 AGCCTTCACACAGTACTACACACGTGACTAAAACTTA
* *
31046587 TCGATACACGTAGTAGCCTTCAC
1 TCGGTACACATAGTAGCCTTCAC
31046610 ACAATACTAC
Statistics
Matches: 194, Mismatches: 31, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
101 41 0.21
102 152 0.78
103 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (102 bp):
TCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATACACGTAGT
AGCCTTCACACAGTACTACACACGTGACTAAAACTTA
Found at i:31055149 original size:56 final size:52
Alignment explanation
Indices: 31055074--31055211 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 52
31055064 GAGATCCCAT
* * **
31055074 GTAAGACCATGTTTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG-TCTCAC
1 GTAAGACCATGTCTAGGACATGGCATTGGCA-TACCGA-G--ATGAGAGGTTC-CAC
* *
31055130 GTAAGACCATGTCTAGGACATGGCGTTGGC--ACCGAGATGAGAGGTTCCTC
1 GTAAGACCATGTCTAGGACATGGCATTGGCATACCGAGATGAGAGGTTCCAC
*
31055180 GTAAGACCATGTCTAGGACATGGCATGGGCAT
1 GTAAGACCATGTCTAGGACATGGCATTGGCAT
31055212 CGATATGAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
50 38 0.54
51 2 0.03
52 1 0.01
53 3 0.04
56 27 0.38
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (52 bp):
GTAAGACCATGTCTAGGACATGGCATTGGCATACCGAGATGAGAGGTTCCAC
Found at i:31055174 original size:50 final size:50
Alignment explanation
Indices: 31055116--31055235 Score: 152
Period size: 50 Copynumber: 2.4 Consensus size: 50
31055106 TATTGAGGTT
* *
31055116 ATGAGAGGTCTCACGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCTCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
* * *
31055166 ATGAGAGGT-TCCTCGTAAGACCATGTCTAGGACATGGCATGGGCATCGAT
1 ATGAGAGGTCT-CACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
** *
31055216 ATGAGAACTCTCATGTAAGA
1 ATGAGAGGTCTCACGTAAGA
31055236 ATATCTGGGA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 1 0.02
50 57 0.97
51 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCTCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:31058682 original size:18 final size:18
Alignment explanation
Indices: 31058644--31058682 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
31058634 AATAAACCAC
*
31058644 AAAGTAATATCAAGATGA
1 AAAGTAATATCAAGATAA
*
31058662 AAAGTAATATCACGATAA
1 AAAGTAATATCAAGATAA
31058680 AAA
1 AAA
31058683 AAATTGTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.08, G:0.13, T:0.21
Consensus pattern (18 bp):
AAAGTAATATCAAGATAA
Done.