Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 212 of 235
Found at i:72094910 original size:6 final size:5
Alignment explanation
Indices: 72094837--72094920 Score: 69
Period size: 5 Copynumber: 15.6 Consensus size: 5
72094827 AAGATTTTTT
* * * *
72094837 TTTCA TTTCA TTTTAA TTTTA TTTCA TTCCAA TTTCA TTTCA TTCTAA
1 TTTCA TTTCA -TTTCA TTTCA TTTCA TTTC-A TTTCA TTTCA TT-TCA
*
72094885 TTTCA TTTCCA TTCTTA TTTCCA TTTCA TTTCA TTT
1 TTTCA TTT-CA TT-TCA TTT-CA TTTCA TTTCA TTT
72094921 AAATTATATT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
5 40 0.62
6 23 0.36
7 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:72094948 original size:21 final size:21
Alignment explanation
Indices: 72094913--72094997 Score: 88
Period size: 20 Copynumber: 4.1 Consensus size: 21
72094903 TTCCATTTCA
*
72094913 TTTCATTTAAA-TTATATTTT
1 TTTCAATTAAATTTATATTTT
72094933 TTTCAATTAAATTTAT-TTTT
1 TTTCAATTAAATTTATATTTT
*
72094953 TTCTCAATT-CATTTATATTATT
1 TT-TCAATTAAATTTATATT-TT
*
72094975 TTTAAATTTAAATTTA-ATTTT
1 TTTCAA-TTAAATTTATATTTT
72094996 TT
1 TT
72094998 CCTCATTTCA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
20 22 0.40
21 19 0.35
22 9 0.16
23 5 0.09
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTCAATTAAATTTATATTTT
Found at i:72094996 original size:43 final size:42
Alignment explanation
Indices: 72094924--72095017 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 42
72094914 TTCATTTAAA
* *
72094924 TTATATTTTTTTCAATTAAATTT-ATTTTTTTCTCAATTCAT
1 TTATATTTTTTTAAATTAAATTTAATTTTTTCCTCAATTCAT
*
72094965 TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCATTTCAT
1 TTATATT-TTTTTAAA-TTAAATTTAATTTTTTCCTCAATTCAT
*
72095009 TTAAATTTT
1 TTATATTTT
72095018 CTATTTTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 7 0.15
42 7 0.15
43 10 0.22
44 22 0.48
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (42 bp):
TTATATTTTTTTAAATTAAATTTAATTTTTTCCTCAATTCAT
Found at i:72095095 original size:52 final size:53
Alignment explanation
Indices: 72095032--72095188 Score: 199
Period size: 53 Copynumber: 3.0 Consensus size: 53
72095022 TTTTCAACGC
* * * *
72095032 AAATTTAATTTTTTAAATAC-TGGTGCCGGCCATTAACAGGCCAGCACCAAAA
1 AAATTTGATTTTTTTAGTACTTGGTGCCGGCCATTGACAGGCCAGCACCAAAA
* * * *
72095084 AAATTTGATTTTTTTTGTACTTGGTGCCTGCCATTGATAGGCCAACACCAAAA
1 AAATTTGATTTTTTTAGTACTTGGTGCCGGCCATTGACAGGCCAGCACCAAAA
* * * *
72095137 AAATTTGATTTTTTTCGTGCTTGGTGCCGGCCATTGGCACGCCAGCACCAAA
1 AAATTTGATTTTTTTAGTACTTGGTGCCGGCCATTGACAGGCCAGCACCAAA
72095189 TTTTTTTTAA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
52 16 0.18
53 73 0.82
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (53 bp):
AAATTTGATTTTTTTAGTACTTGGTGCCGGCCATTGACAGGCCAGCACCAAAA
Found at i:72095111 original size:53 final size:53
Alignment explanation
Indices: 72095052--72095188 Score: 202
Period size: 53 Copynumber: 2.6 Consensus size: 53
72095042 TTTTAAATAC
* *
72095052 TGGTGCCGGCCATTAACAGGCCAGCACCAAAAAAATTTGATTTTTTTTGTACT
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTGATTTTTTTCGTACT
* * * *
72095105 TGGTGCCTGCCATTGATAGGCCAACACCAAAAAAATTTGATTTTTTTCGTGCT
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTGATTTTTTTCGTACT
* *
72095158 TGGTGCCGGCCATTGGCACGCCAGCACCAAA
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAA
72095189 TTTTTTTTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 73 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (53 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTGATTTTTTTCGTACT
Found at i:72095704 original size:52 final size:53
Alignment explanation
Indices: 72095637--72095740 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 53
72095627 AATCAATTTT
* * **
72095637 TTTGGTGCTAGCCTGTTAATGGTC-GATACCAGAGTATGAGT-TTTAAAAAAAA
1 TTTGGTGCTAGCCTGTCAATGGCCAG-TACCAGAGTACCAGTATTTAAAAAAAA
* *
72095689 TTTGTTGCTGGCCTGTCAATGGCCAGTACCAGAGTACCAGTATTTAAAAAAA
1 TTTGGTGCTAGCCTGTCAATGGCCAGTACCAGAGTACCAGTATTTAAAAAAA
72095741 TTAAATTTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
52 33 0.75
53 11 0.25
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (53 bp):
TTTGGTGCTAGCCTGTCAATGGCCAGTACCAGAGTACCAGTATTTAAAAAAAA
Found at i:72095795 original size:22 final size:21
Alignment explanation
Indices: 72095763--72095853 Score: 62
Period size: 22 Copynumber: 4.2 Consensus size: 21
72095753 TGAAAAATAG
*
72095763 AAAATTTAAATGAATTGAGGAA
1 AAAATTAAAATGAATTGA-GAA
* *
72095785 AAAATTAAAATTAAATTTA-AA
1 AAAATTAAAA-TGAATTGAGAA
72095806 AATAA-TATAAATGAATTGAGAA
1 AA-AATTA-AAATGAATTGAGAA
* * *
72095828 AAAAATAAATTTAAATTGA-AA
1 AAAATTAAA-ATGAATTGAGAA
72095849 AAAAT
1 AAAAT
72095854 ATATAATTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
21 22 0.40
22 27 0.49
23 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (21 bp):
AAAATTAAAATGAATTGAGAA
Found at i:72095866 original size:49 final size:47
Alignment explanation
Indices: 72095734--72095869 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 47
72095724 ACCAGTATTT
** *
72095734 AAAAAAATTAAATTTGCATTGAAAAATAGAAAATTTAAATGAATTGAGG
1 AAAAAAA-TAAATTTAAATTGAAAAATA-ATAATTTAAATGAATTGAGG
* * *
72095783 AAAAAATTAAAATTAAATTTAAAAATAAT-A--TAAATGAATTGA-G
1 AAAAAAATAAATTTAAATTGAAAAATAATAATTTAAATGAATTGAGG
72095826 AAAAAAATAAATTTAAATTGAAAAAAATATATAATTTAAATGAA
1 AAAAAAATAAATTTAAATTG--AAAAATA-ATAATTTAAATGAA
72095870 ATGAAATGGG
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
43 18 0.25
44 12 0.17
45 7 0.10
46 3 0.04
47 2 0.03
48 16 0.22
49 14 0.19
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (47 bp):
AAAAAAATAAATTTAAATTGAAAAATAATAATTTAAATGAATTGAGG
Found at i:72095869 original size:22 final size:22
Alignment explanation
Indices: 72095803--72095870 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
72095793 AATTAAATTT
* * *
72095803 AAAAATAATATAAATGAATTGAGA
1 AAAAAT-ATATAATTTAAATGA-A
72095827 AAAAA-ATA-AATTTAAATTGAA
1 AAAAATATATAATTTAAA-TGAA
72095848 AAAAATATATAATTTAAATGAA
1 AAAAATATATAATTTAAATGAA
72095870 A
1 A
72095871 TGAAATGGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 11 0.29
22 14 0.37
23 8 0.21
24 5 0.13
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (22 bp):
AAAAATATATAATTTAAATGAA
Found at i:72095889 original size:6 final size:5
Alignment explanation
Indices: 72095863--72095946 Score: 60
Period size: 5 Copynumber: 15.6 Consensus size: 5
72095853 TATATAATTT
* * *
72095863 AAATG AAATG AAATGG GAATGG AAATGG AAATG AAATT AGAATG AAATA
1 AAATG AAATG AAAT-G AAAT-G AAAT-G AAATG AAATG A-AATG AAATG
* **
72095912 AAATTA AAATG AAATG AAAATG AAAAA AAATG AAA
1 AAA-TG AAATG AAATG -AAATG AAATG AAATG AAA
72095947 AAAGAAAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
5 36 0.55
6 29 0.45
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:72095915 original size:16 final size:16
Alignment explanation
Indices: 72095885--72095937 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
72095875 ATGGGAATGG
*
72095885 AAATGGAAATGAAATTA
1 AAAT-GAAATAAAATTA
*
72095902 GAATGAAATAAAATTA
1 AAATGAAATAAAATTA
*
72095918 AAATGAAATGAAAATGA
1 AAATGAAAT-AAAATTA
72095935 AAA
1 AAA
72095938 AAAATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 19 0.61
17 12 0.39
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGAAATAAAATTA
Found at i:72095922 original size:27 final size:27
Alignment explanation
Indices: 72095885--72095947 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
72095875 ATGGGAATGG
* * * *
72095885 AAATGGAAATGAAATTAGAATGAAATA
1 AAATGAAAATGAAATGAAAATGAAAAA
*
72095912 AAATTAAAATGAAATGAAAATGAAAAA
1 AAATGAAAATGAAATGAAAATGAAAAA
72095939 AAATGAAAA
1 AAATGAAAA
72095948 AAGAAAAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (27 bp):
AAATGAAAATGAAATGAAAATGAAAAA
Found at i:72095947 original size:6 final size:6
Alignment explanation
Indices: 72095863--72095947 Score: 51
Period size: 6 Copynumber: 15.5 Consensus size: 6
72095853 TATATAATTT
* * * * * *
72095863 AAATG- AAATG- AAATGG GAATGG AAATGG AAATG- AAATTA GAATG-
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
*
72095907 AAAT-A AAATTA AAATG- AAATGA AAATGA AAA--A AAATGA AAA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAA
72095948 AAGAAAAAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.06
5 26 0.39
6 36 0.55
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (6 bp):
AAATGA
Found at i:72099392 original size:59 final size:57
Alignment explanation
Indices: 72099322--72099478 Score: 153
Period size: 59 Copynumber: 2.8 Consensus size: 57
72099312 GAATAGATCA
72099322 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTGTGAACAAGTGTTAGAAAAAAATG
1 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTG-GAACAAGTGTTAGAAAAAAA-G
* ** * * *
72099381 AGTGCAAAGAGTTTGAGCCTGTGTTACTA-G----GGAACAAGTGTTAGAATAGAAG
1 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTGGAACAAGTGTTAGAAAAAAAG
* * * * *
72099433 AATGCATAGGGTTTGAGTACGAGTTGCTTGGACTTGGGAACAAGTG
1 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTT-GGAACAAGTG
72099479 CTATATAGGG
Statistics
Matches: 77, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
52 21 0.27
53 19 0.25
54 1 0.01
58 11 0.14
59 25 0.32
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (57 bp):
AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTGGAACAAGTGTTAGAAAAAAAG
Found at i:72107108 original size:107 final size:107
Alignment explanation
Indices: 72106974--72107186 Score: 336
Period size: 107 Copynumber: 2.0 Consensus size: 107
72106964 GCATATAACA
* * * *
72106974 CATCTAAGGTTTACTAAGGGGAAAAAATATTAGCAATTTCATATTTCCATTGCATGGGGCCTCAT
1 CATCTAAGGTTCACTAAGGGGAAAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
*
72107039 AACATATGAATCCATATTTCAGAGCAAACTTTCATGCTCAAT
66 AACATATGAATCCATAGTTCAGAGCAAACTTTCATGCTCAAT
**
72107081 CATCTAAGGTTCACTAAGGGGGGAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
1 CATCTAAGGTTCACTAAGGGGAAAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
* * *
72107146 AACATATGAATCCATAGTTCAGAGCACACTTTTATGTTCAA
66 AACATATGAATCCATAGTTCAGAGCAAACTTTCATGCTCAA
72107187 CAAGCACTCT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 96 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (107 bp):
CATCTAAGGTTCACTAAGGGGAAAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
AACATATGAATCCATAGTTCAGAGCAAACTTTCATGCTCAAT
Found at i:72114087 original size:39 final size:39
Alignment explanation
Indices: 72114044--72114171 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
72114034 GGTCTTTAAC
** *
72114044 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
72114083 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
72114122 CCAGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
72114161 CTGGATATTTT
1 CCGGATATTTT
72114172 CAATCTCATA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:72118606 original size:29 final size:30
Alignment explanation
Indices: 72118547--72118616 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
72118537 AGATTTATCC
***
72118547 TTATTAAATTGAATATTTTTTTGTGAAAAA
1 TTATTAAATTGAATATTTGGATGTGAAAAA
*
72118577 -TATTAAATTGAATCTTTGGATG-GAATAAA
1 TTATTAAATTGAATATTTGGATGTGAA-AAA
72118606 TTGATTAAATT
1 TT-ATTAAATT
72118617 CGTTGGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 3 0.09
29 21 0.64
30 1 0.03
31 8 0.24
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (30 bp):
TTATTAAATTGAATATTTGGATGTGAAAAA
Found at i:72122034 original size:163 final size:165
Alignment explanation
Indices: 72121810--72122132 Score: 447
Period size: 169 Copynumber: 2.0 Consensus size: 165
72121800 ACTAAGTTTG
*
72121810 ATTAATTAAACTTCAATAGTTAAATGATTATTTAAAAAAAAAATATTTTCTGACTGTA-G-G-TG
1 ATTAATTAAACTTCAATAGATAAATGATTATTTAAAAAAAAAATATTTTCTGACTGTAGGTGATG
* * * *
72121872 ACATATTAGCAAATTATCTTTGTTTGTATTTGCCACACTATTAACCAAATGCCATATAGGAGTTA
66 ACATATTAGCAAATTATATTTGTATGCATTTGCCACACCATTAACCAAATGCCATATAGGAGTTA
*
72121937 AGAATGCTATTGCTAACATTAGCATTTTCCGTCCA
131 ACAATGCTATTGCTAACATTAGCATTTTCCGTCCA
* ** *
72121972 ATTAATTGAAACTTGAATAAGATAAATGATTATTT-AAAAAAGCATATTTTGTGACTGTAGGTGA
1 ATTAATT-AAACTTCAAT-AGATAAATGATTATTTAAAAAAAAAATATTTTCTGACTGTAGGTG-
* *
72122036 CAATGACATATTAGGAAATTATATTTGTATGCATTTGCCACACCATTAACCGAATGCCATATAGG
63 --ATGACATATTAGCAAATTATATTTGTATGCATTTGCCACACCATTAACCAAATGCCATATAGG
**
72122101 AGTTAACAATGCTATTGCTGGCATTAGCATTT
126 AGTTAACAATGCTATTGCTAACATTAGCATTT
72122133 CCATACAATT
Statistics
Matches: 139, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
162 7 0.05
163 30 0.22
164 16 0.12
165 1 0.01
169 85 0.61
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (165 bp):
ATTAATTAAACTTCAATAGATAAATGATTATTTAAAAAAAAAATATTTTCTGACTGTAGGTGATG
ACATATTAGCAAATTATATTTGTATGCATTTGCCACACCATTAACCAAATGCCATATAGGAGTTA
ACAATGCTATTGCTAACATTAGCATTTTCCGTCCA
Found at i:72123058 original size:22 final size:22
Alignment explanation
Indices: 72123030--72123074 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
72123020 ATTATACATG
72123030 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
72123052 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
72123074 T
1 T
72123075 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:72126956 original size:662 final size:662
Alignment explanation
Indices: 72125693--72127015 Score: 2646
Period size: 662 Copynumber: 2.0 Consensus size: 662
72125683 AAGCTCAACA
72125693 AGTCTCTATACGGGTTAAAACAATCACCCAGAGCTTGGTTCGAGAGGTTCACTAAAGTCATTCTT
1 AGTCTCTATACGGGTTAAAACAATCACCCAGAGCTTGGTTCGAGAGGTTCACTAAAGTCATTCTT
72125758 CAAAATGGCTACAAGCAGTCCCTTGCCGATCATACGCTTTTCATCAAGGTAACTTCTACAAATAA
66 CAAAATGGCTACAAGCAGTCCCTTGCCGATCATACGCTTTTCATCAAGGTAACTTCTACAAATAA
72125823 GAAAGCTATCCTAATTGTGTATGTGGATGACATCATTCTTACTGGAGATGATGAGGAAGAGATTA
131 GAAAGCTATCCTAATTGTGTATGTGGATGACATCATTCTTACTGGAGATGATGAGGAAGAGATTA
72125888 GCAATTTGAAGAAGTTGTTAAACAGGGAATTCGAAACCAAGGACTTGGGAAAGCTAAGGTATTTC
196 GCAATTTGAAGAAGTTGTTAAACAGGGAATTCGAAACCAAGGACTTGGGAAAGCTAAGGTATTTC
72125953 CTAGGAATGGAGGTGGCAAGATCAAAAGAAGGACTTGTGATCAACCAGAGAAAGTATGTACTTGA
261 CTAGGAATGGAGGTGGCAAGATCAAAAGAAGGACTTGTGATCAACCAGAGAAAGTATGTACTTGA
72126018 TTTACTCAAAGAAACTGGTTTTCTTGGCTGTAAGCCGGCTGATACACCAATGGAGGCAAACTTGA
326 TTTACTCAAAGAAACTGGTTTTCTTGGCTGTAAGCCGGCTGATACACCAATGGAGGCAAACTTGA
72126083 GATTCAATAAAGAAGATGAGTCCTTAGTAGACAGAGAGAAATTTCAAAGGTTAGTTGGGAAACTA
391 GATTCAATAAAGAAGATGAGTCCTTAGTAGACAGAGAGAAATTTCAAAGGTTAGTTGGGAAACTA
72126148 ATCTACTTATCCTTGACAAGGCCAGATATAGCTTTTCCCGTAAATGTGATAAGTCAACACATGAC
456 ATCTACTTATCCTTGACAAGGCCAGATATAGCTTTTCCCGTAAATGTGATAAGTCAACACATGAC
72126213 TAATCCTACTGAAGAGCATATGGCAGCAGCAAATAGAATTCTCAAGTACTTGAAGAAAACTCCAG
521 TAATCCTACTGAAGAGCATATGGCAGCAGCAAATAGAATTCTCAAGTACTTGAAGAAAACTCCAG
72126278 GACACGGCTTAATGTTTAAGAAGACACAAGACAGAACTGTTAAGATTTTTACAGACTCTAGTTGG
586 GACACGGCTTAATGTTTAAGAAGACACAAGACAGAACTGTTAAGATTTTTACAGACTCTAGTTGG
72126343 GCTGGAGATCTT
651 GCTGGAGATCTT
72126355 AGTCTCTATACGGGTTAAAACAATCACCCAGAGCTTGGTTCGAGAGGTTCACTAAAGTCATTCTT
1 AGTCTCTATACGGGTTAAAACAATCACCCAGAGCTTGGTTCGAGAGGTTCACTAAAGTCATTCTT
72126420 CAAAATGGCTACAAGCAGTCCCTTGCCGATCATACGCTTTTCATCAAGGTAACTTCTACAAATAA
66 CAAAATGGCTACAAGCAGTCCCTTGCCGATCATACGCTTTTCATCAAGGTAACTTCTACAAATAA
72126485 GAAAGCTATCCTAATTGTGTATGTGGATGACATCATTCTTACTGGAGATGATGAGGAAGAGATTA
131 GAAAGCTATCCTAATTGTGTATGTGGATGACATCATTCTTACTGGAGATGATGAGGAAGAGATTA
72126550 GCAATTTGAAGAAGTTGTTAAACAGGGAATTCGAAACCAAGGACTTGGGAAAGCTAAGGTATTTC
196 GCAATTTGAAGAAGTTGTTAAACAGGGAATTCGAAACCAAGGACTTGGGAAAGCTAAGGTATTTC
72126615 CTAGGAATGGAGGTGGCAAGATCAAAAGAAGGACTTGTGATCAACCAGAGAAAGTATGTACTTGA
261 CTAGGAATGGAGGTGGCAAGATCAAAAGAAGGACTTGTGATCAACCAGAGAAAGTATGTACTTGA
72126680 TTTACTCAAAGAAACTGGTTTTCTTGGCTGTAAGCCGGCTGATACACCAATGGAGGCAAACTTGA
326 TTTACTCAAAGAAACTGGTTTTCTTGGCTGTAAGCCGGCTGATACACCAATGGAGGCAAACTTGA
72126745 GATTCAATAAAGAAGATGAGTCCTTAGTAGACAGAGAGAAATTTCAAAGGTTAGTTGGGAAACTA
391 GATTCAATAAAGAAGATGAGTCCTTAGTAGACAGAGAGAAATTTCAAAGGTTAGTTGGGAAACTA
72126810 ATCTACTTATCCTTGACAAGGCCAGATATAGCTTTTCCCGTAAATGTGATAAGTCAACACATGAC
456 ATCTACTTATCCTTGACAAGGCCAGATATAGCTTTTCCCGTAAATGTGATAAGTCAACACATGAC
72126875 TAATCCTACTGAAGAGCATATGGCAGCAGCAAATAGAATTCTCAAGTACTTGAAGAAAACTCCAG
521 TAATCCTACTGAAGAGCATATGGCAGCAGCAAATAGAATTCTCAAGTACTTGAAGAAAACTCCAG
72126940 GACACGGCTTAATGTTTAAGAAGACACAAGACAGAACTGTTAAGATTTTTACAGACTCTAGTTGG
586 GACACGGCTTAATGTTTAAGAAGACACAAGACAGAACTGTTAAGATTTTTACAGACTCTAGTTGG
72127005 GCTGGAGATCT
651 GCTGGAGATCT
72127016 CACTGAAAGA
Statistics
Matches: 661, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
662 661 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (662 bp):
AGTCTCTATACGGGTTAAAACAATCACCCAGAGCTTGGTTCGAGAGGTTCACTAAAGTCATTCTT
CAAAATGGCTACAAGCAGTCCCTTGCCGATCATACGCTTTTCATCAAGGTAACTTCTACAAATAA
GAAAGCTATCCTAATTGTGTATGTGGATGACATCATTCTTACTGGAGATGATGAGGAAGAGATTA
GCAATTTGAAGAAGTTGTTAAACAGGGAATTCGAAACCAAGGACTTGGGAAAGCTAAGGTATTTC
CTAGGAATGGAGGTGGCAAGATCAAAAGAAGGACTTGTGATCAACCAGAGAAAGTATGTACTTGA
TTTACTCAAAGAAACTGGTTTTCTTGGCTGTAAGCCGGCTGATACACCAATGGAGGCAAACTTGA
GATTCAATAAAGAAGATGAGTCCTTAGTAGACAGAGAGAAATTTCAAAGGTTAGTTGGGAAACTA
ATCTACTTATCCTTGACAAGGCCAGATATAGCTTTTCCCGTAAATGTGATAAGTCAACACATGAC
TAATCCTACTGAAGAGCATATGGCAGCAGCAAATAGAATTCTCAAGTACTTGAAGAAAACTCCAG
GACACGGCTTAATGTTTAAGAAGACACAAGACAGAACTGTTAAGATTTTTACAGACTCTAGTTGG
GCTGGAGATCTT
Found at i:72127495 original size:22 final size:22
Alignment explanation
Indices: 72127467--72127511 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
72127457 AGGGGGAGTA
72127467 TAGGAATATTCTATAAATATTT
1 TAGGAATATTCTATAAATATTT
* *
72127489 TAGGAATATTTTGTAAATATTT
1 TAGGAATATTCTATAAATATTT
72127511 T
1 T
72127512 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTATAAATATTT
Found at i:72131908 original size:17 final size:16
Alignment explanation
Indices: 72131881--72131920 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
72131871 CCATAATTTA
72131881 TTTATAAAAAAATAAG
1 TTTATAAAAAAATAAG
72131897 TTTATAAAAAAATAAG
1 TTTATAAAAAAATAAG
*
72131913 TTTTTAAA
1 TTTATAAA
72131921 GTTATGACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
TTTATAAAAAAATAAG
Found at i:72135312 original size:30 final size:30
Alignment explanation
Indices: 72135248--72135312 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
72135238 TATATATAAC
* ** *
72135248 TATCAAGTAAGTATTTTTTAATTACATGAC
1 TATCAAGTAAGTATTTTTTAATTAAAAAAA
72135278 TATCAAGTAAGTATTTTTTAATTAAAAAAA
1 TATCAAGTAAGTATTTTTTAATTAAAAAAA
72135308 TATCA
1 TATCA
72135313 TAACAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (30 bp):
TATCAAGTAAGTATTTTTTAATTAAAAAAA
Found at i:72140759 original size:17 final size:19
Alignment explanation
Indices: 72140719--72140761 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
72140709 CAGGGGCAAA
*
72140719 ATGATTATTTTGCCAAAAT
1 ATGATTATTTTGACAAAAT
*
72140738 ATGATT-TTTTGACTAAAT
1 ATGATTATTTTGACAAAAT
72140756 -TGATTA
1 ATGATTA
72140762 GAATGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (19 bp):
ATGATTATTTTGACAAAAT
Found at i:72142072 original size:17 final size:19
Alignment explanation
Indices: 72142036--72142073 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
72142026 GTAATTAGCC
72142036 TTATCATATTTGATGTATGT
1 TTATCATA-TTGATGTATGT
72142056 TTATCATA-TGA-GTATGT
1 TTATCATATTGATGTATGT
72142073 T
1 T
72142074 AGTTTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
20 8 0.44
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (19 bp):
TTATCATATTGATGTATGT
Found at i:72143321 original size:18 final size:18
Alignment explanation
Indices: 72143295--72143329 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
72143285 ATTTGAGTTG
72143295 ACTCAAATAACTCGATTA
1 ACTCAAATAACTCGATTA
*
72143313 ACTCGAATAACTCGATT
1 ACTCAAATAACTCGATT
72143330 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:72143560 original size:28 final size:28
Alignment explanation
Indices: 72143520--72143577 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
72143510 TTGAAAAACG
*
72143520 ACCTATTTTTGTCCACACGGGTAGAGAC
1 ACCTATTTTTGTCCACACGGGCAGAGAC
72143548 ACCTATTTTTGTCCACACGGGCAGAGAC
1 ACCTATTTTTGTCCACACGGGCAGAGAC
72143576 AC
1 AC
72143578 GAGTGTGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (28 bp):
ACCTATTTTTGTCCACACGGGCAGAGAC
Found at i:72143588 original size:28 final size:28
Alignment explanation
Indices: 72143529--72143588 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
72143519 GACCTATTTT
* * * *
72143529 TGTCCACACGGGTAGAGACACCTATTTT
1 TGTCCACACGGGCAGAGACACCGATGTG
72143557 TGTCCACACGGGCAGAGACA-CGAGTGTG
1 TGTCCACACGGGCAGAGACACCGA-TGTG
72143585 TGTC
1 TGTC
72143589 TTAGCCGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (28 bp):
TGTCCACACGGGCAGAGACACCGATGTG
Found at i:72143684 original size:12 final size:12
Alignment explanation
Indices: 72143667--72143697 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
72143657 TCAGTAGCTT
72143667 CACACGGCCTAG
1 CACACGGCCTAG
*
72143679 CACACGGCCTGG
1 CACACGGCCTAG
72143691 CACACGG
1 CACACGG
72143698 GCATGTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:72144589 original size:43 final size:42
Alignment explanation
Indices: 72144538--72144695 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 42
72144528 CAAAGGTTAG
* * *
72144538 CAGAATGCCACAAAGGCCATATCAGAATACTACAGAGGCTAA
1 CAGAATGCCACAAAGGCCATATCAAAATACAATAGAGGCTAA
* * * *
72144580 CCAGAATGCCACAAAGACTATATCAAAATACAATAGTGGTTAA
1 -CAGAATGCCACAAAGGCCATATCAAAATACAATAGAGGCTAA
* * * *
72144623 TAGAATTCCACAAAAGGCCATATCAAAATACCATAGAGGCTTA
1 CAGAATGCCAC-AAAGGCCATATCAAAATACAATAGAGGCTAA
* * * *
72144666 TAGAATACCACAAATGCCATGTCAAAATAC
1 CAGAATGCCACAAAGGCCATATCAAAATAC
72144696 GCCATAAAGG
Statistics
Matches: 96, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 26 0.27
43 70 0.73
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.19
Consensus pattern (42 bp):
CAGAATGCCACAAAGGCCATATCAAAATACAATAGAGGCTAA
Found at i:72144691 original size:85 final size:85
Alignment explanation
Indices: 72144539--72144695 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
72144529 AAAGGTTAGC
* * * *
72144539 AGAATGCCACAAAGGCCATATCAGAATACTACAGAGGCTAACCAGAATGCCACAAAGACTATATC
1 AGAATGCCACAAAGGCCATATCAAAATACCACAGAGGCTAACCAGAATACCACAAAGACCATATC
72144604 AAAATACAATAGTGGTTAAT
66 AAAATACAATAGTGGTTAAT
* * * * *
72144624 AGAATTCCACAAAAGGCCATATCAAAATACCATAGAGGCTTA-TAGAATACCACAAATG-CCATG
1 AGAATGCCAC-AAAGGCCATATCAAAATACCACAGAGGCTAACCAGAATACCACAAA-GACCATA
72144687 TCAAAATAC
64 TCAAAATAC
72144696 GCCATAAAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 33 0.54
86 28 0.46
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (85 bp):
AGAATGCCACAAAGGCCATATCAAAATACCACAGAGGCTAACCAGAATACCACAAAGACCATATC
AAAATACAATAGTGGTTAAT
Found at i:72144714 original size:44 final size:43
Alignment explanation
Indices: 72144522--72144720 Score: 122
Period size: 43 Copynumber: 4.6 Consensus size: 43
72144512 TTGATAGAGC
* * * *
72144522 ATACCACAAAGG-TTAGCAGAATGCCAC-AAAGGCCATATCAGA
1 ATACCATAAAGGCTTA-TAGAATACCACAAAAGGCCATATCAAA
* * * * * * * *
72144564 ATACTACAGAGGCTAACCAGAATGCCAC-AAAGACTATATCAAA
1 ATACCATAAAGGCTTA-TAGAATACCACAAAAGGCCATATCAAA
* ** *
72144607 ATACAATAGTGG-TTAATAGAATTCCACAAAAGGCCATATCAAA
1 ATACCATAAAGGCTT-ATAGAATACCACAAAAGGCCATATCAAA
* * *
72144650 ATACCATAGAGGCTTATAGAATACCAC-AAATGCCATGTCAAA
1 ATACCATAAAGGCTTATAGAATACCACAAAAGGCCATATCAAA
*
72144692 ATACGCCATAAAGGC-TAGTAGAATGCCAC
1 ATA--CCATAAAGGCTTA-TAGAATACCAC
72144721 CCAAACACCT
Statistics
Matches: 128, Mismatches: 22, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
42 36 0.28
43 71 0.55
44 21 0.16
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (43 bp):
ATACCATAAAGGCTTATAGAATACCACAAAAGGCCATATCAAA
Found at i:72148461 original size:14 final size:14
Alignment explanation
Indices: 72148442--72148468 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
72148432 TTGGTAACCT
72148442 GTAAAAGCTTTTCC
1 GTAAAAGCTTTTCC
72148456 GTAAAAGCTTTTC
1 GTAAAAGCTTTTC
72148469 AGGCTTTTTT
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:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (14 bp):
GTAAAAGCTTTTCC
Found at i:72148630 original size:6 final size:6
Alignment explanation
Indices: 72148612--72148656 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
72148602 GACTCTTCTT
* *
72148612 TTCCCC TTTCCCC TTCCCC TTCGCC TTCCCA TTCCCC TTCCCC TT
1 TTCCCC -TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC TT
72148657 GGGTTGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.02, C:0.58, G:0.02, T:0.38
Consensus pattern (6 bp):
TTCCCC
Found at i:72148721 original size:20 final size:21
Alignment explanation
Indices: 72148688--72148726 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
72148678 AAGGAGAACC
*
72148688 GAAGCCATTTTCAATGTTGAA
1 GAAGCCATTTTCAAAGTTGAA
72148709 GAAGCCA-TTTCAAAGTTG
1 GAAGCCATTTTCAAAGTTG
72148727 GCTTATCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (21 bp):
GAAGCCATTTTCAAAGTTGAA
Found at i:72154016 original size:30 final size:30
Alignment explanation
Indices: 72153982--72154038 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
72153972 AAACGGGTAA
*
72153982 CCTGATGTAATTTCAGCTTGTGTGAGCGAC
1 CCTGATATAATTTCAGCTTGTGTGAGCGAC
*
72154012 CCTGATATAATTTTAGCTTGTGTGAGC
1 CCTGATATAATTTCAGCTTGTGTGAGC
72154039 AACTTAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (30 bp):
CCTGATATAATTTCAGCTTGTGTGAGCGAC
Found at i:72160257 original size:26 final size:26
Alignment explanation
Indices: 72160210--72160278 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
72160200 GTATTACACC
* * *
72160210 CACAGCTCGTATAAGTAAGCCCATTT
1 CACAGCTCGTGTGAGCAAGCCCATTT
*
72160236 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAAGCCCATTT
72160262 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
72160279 TTGATGTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAAGCCCATTT
Found at i:72164628 original size:3 final size:3
Alignment explanation
Indices: 72164620--72164645 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
72164610 TTTAATTTAG
72164620 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
72164646 GAAATAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:72164969 original size:24 final size:24
Alignment explanation
Indices: 72164937--72164993 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
72164927 TGAAAGTATG
* *
72164937 ACAATTGTATGGTATTGATATTGT
1 ACAAATGTATGATATTGATATTGT
72164961 ACAAATGTATGATATTGATATTGT
1 ACAAATGTATGATATTGATATTGT
72164985 ACAAATGTA
1 ACAAATGTA
72164994 CAAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (24 bp):
ACAAATGTATGATATTGATATTGT
Found at i:72166336 original size:45 final size:45
Alignment explanation
Indices: 72166269--72166354 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
72166259 ATAAGTGTCG
*
72166269 CCTTACAGTTACTGTTCTGGATTCGTTCCGAAGAGGTACTCCGTA
1 CCTTACAGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTCCGTA
* * *
72166314 CCTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTC
1 CCTTACAGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTC
72166355 TGTGTACCGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (45 bp):
CCTTACAGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTCCGTA
Found at i:72166620 original size:18 final size:18
Alignment explanation
Indices: 72166511--72166616 Score: 106
Period size: 18 Copynumber: 5.9 Consensus size: 18
72166501 TAAATAAAGG
* *
72166511 TACTGAATAACTTACTGC
1 TACTGAATAACTGACTGT
72166529 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
* * *
72166547 TAATGGATAACTGACTGC
1 TACTGAATAACTGACTGT
*
72166565 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
* * * *
72166583 TACTAAATAATTTA-TCAT
1 TACTGAATAACTGACT-GT
72166601 TACTGAATAACTGACT
1 TACTGAATAACTGACT
72166617 ATTAAAGAGT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
17 1 0.01
18 69 0.97
19 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:72171153 original size:35 final size:35
Alignment explanation
Indices: 72171109--72171218 Score: 107
Period size: 35 Copynumber: 3.1 Consensus size: 35
72171099 GCAAAACATC
72171109 GTCGGTTTATCCGGCCAATGCAGGGCACAACTATT
1 GTCGGTTTATCCGGCCAATGCAGGGCACAACTATT
* * * *
72171144 GTCGGTTTATCCGACCAACGCTGGGTGCAAAAC-ATT
1 GTCGGTTTATCCGGCCAATGC-AGG-GCACAACTATT
* * * *
72171180 GTTGGTTTAACC-GACAAGTGTAGGGCACAACTATT
1 GTCGGTTTATCCGGCCAA-TGCAGGGCACAACTATT
72171215 GTCG
1 GTCG
72171219 ACATATCTGA
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
34 6 0.10
35 30 0.52
36 16 0.28
37 6 0.10
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (35 bp):
GTCGGTTTATCCGGCCAATGCAGGGCACAACTATT
Found at i:72171188 original size:36 final size:35
Alignment explanation
Indices: 72171076--72171194 Score: 114
Period size: 36 Copynumber: 3.3 Consensus size: 35
72171066 TGATATCATT
* * * *
72171076 GGTTTATCCGACCAGCGTTGGCCGCAAAACATCGTC
1 GGTTTATCCGACCAACGCTGG-GGCAAAACATTGTC
* * * *
72171112 GGTTTATCCGGCCAATGC-AGGGCACAACTATTGTC
1 GGTTTATCCGACCAACGCTGGGGCAAAAC-ATTGTC
*
72171147 GGTTTATCCGACCAACGCTGGGTGCAAAACATTGTT
1 GGTTTATCCGACCAACGCTGGG-GCAAAACATTGTC
*
72171183 GGTTTAACCGAC
1 GGTTTATCCGAC
72171195 AAGTGTAGGG
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
34 6 0.09
35 22 0.33
36 32 0.48
37 6 0.09
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (35 bp):
GGTTTATCCGACCAACGCTGGGGCAAAACATTGTC
Found at i:72171205 original size:71 final size:71
Alignment explanation
Indices: 72171076--72171218 Score: 189
Period size: 71 Copynumber: 2.0 Consensus size: 71
72171066 TGATATCATT
* * * *
72171076 GGTTTATCCGACCAGCGTTGGCCGCAAAACATCGTCGGTTTATCCGGCCAATGCAGGGCACAACT
1 GGTTTATCCGACCAACGCTGGCCGCAAAACATCGTCGGTTTAACCGGACAATGCAGGGCACAACT
72171141 ATTGTC
66 ATTGTC
** * * *
72171147 GGTTTATCCGACCAACGCTGGGTGCAAAACATTGTTGGTTTAACC-GACAAGTGTAGGGCACAAC
1 GGTTTATCCGACCAACGCTGGCCGCAAAACATCGTCGGTTTAACCGGACAA-TGCAGGGCACAAC
72171211 TATTGTC
65 TATTGTC
72171218 G
1 G
72171219 ACATATCTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
70 4 0.06
71 58 0.94
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (71 bp):
GGTTTATCCGACCAACGCTGGCCGCAAAACATCGTCGGTTTAACCGGACAATGCAGGGCACAACT
ATTGTC
Found at i:72174297 original size:19 final size:19
Alignment explanation
Indices: 72174273--72174340 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
72174263 AGCCTTAAAC
72174273 ACCAACAATCAATGCAACA
1 ACCAACAATCAATGCAACA
* *
72174292 ACCAACAAACAAATG-ATTAAA
1 ACCAACAATC-AATGCA--ACA
72174313 CACCAACAATCAATGCAACA
1 -ACCAACAATCAATGCAACA
72174333 ACCAACAA
1 ACCAACAA
72174341 ACAAATGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
19 18 0.45
20 6 0.15
21 6 0.15
22 10 0.25
ACGTcount: A:0.56, C:0.29, G:0.04, T:0.10
Consensus pattern (19 bp):
ACCAACAATCAATGCAACA
Found at i:72174312 original size:41 final size:41
Alignment explanation
Indices: 72174267--72174350 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
72174257 TCAATTAGCC
72174267 TTAAACACCAACAATCAATGCAACAACCAACAAACAAATGA
1 TTAAACACCAACAATCAATGCAACAACCAACAAACAAATGA
72174308 TTAAACACCAACAATCAATGCAACAACCAACAAACAAATGA
1 TTAAACACCAACAATCAATGCAACAACCAACAAACAAATGA
72174349 TT
1 TT
72174351 TGAACATCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.55, C:0.26, G:0.05, T:0.14
Consensus pattern (41 bp):
TTAAACACCAACAATCAATGCAACAACCAACAAACAAATGA
Found at i:72174320 original size:22 final size:23
Alignment explanation
Indices: 72174288--72174350 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 23
72174278 CAATCAATGC
72174288 AACAACCAACAAACAAATGATTA
1 AACAACCAACAAACAAATGATTA
* *
72174311 AAC-ACCAACAATC-AATG---C
1 AACAACCAACAAACAAATGATTA
72174329 AACAACCAACAAACAAATGATT
1 AACAACCAACAAACAAATGATT
72174351 TGAACATCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
18 3 0.09
19 9 0.28
20 4 0.12
21 4 0.12
22 9 0.28
23 3 0.09
ACGTcount: A:0.57, C:0.25, G:0.05, T:0.13
Consensus pattern (23 bp):
AACAACCAACAAACAAATGATTA
Found at i:72182768 original size:41 final size:41
Alignment explanation
Indices: 72182722--72182799 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
72182712 ATTATAATAG
72182722 ATACAGAACATGCTTAACAGATAACAAATTATACACAACTT
1 ATACAGAACATGCTTAACAGATAACAAATTATACACAACTT
** * *
72182763 ATACAGATTATGCTTAATAGATAACATATTATACACA
1 ATACAGAACATGCTTAACAGATAACAAATTATACACA
72182800 TAGAGCTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (41 bp):
ATACAGAACATGCTTAACAGATAACAAATTATACACAACTT
Found at i:72186060 original size:49 final size:49
Alignment explanation
Indices: 72186003--72186109 Score: 187
Period size: 49 Copynumber: 2.2 Consensus size: 49
72185993 CAAAGAGATT
72186003 ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
1 ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
* *
72186052 ATCGGGAAGCTTATCTAGGCTATATAACTGGAAGCTCATAAGAGCCATA
1 ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
*
72186101 ATTGGGAAG
1 ATCGGGAAG
72186110 TTTACAAAGA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (49 bp):
ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
Found at i:72186062 original size:24 final size:24
Alignment explanation
Indices: 72186032--72186109 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
72186022 CTATATAACT
72186032 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCG
* * * * *
72186056 GGAAGCTTATCTAG-GCTATATAACT
1 GGAAGCTCAT-AAGAGCCATA-ATCG
*
72186081 GGAAGCTCATAAGAGCCATAATTG
1 GGAAGCTCATAAGAGCCATAATCG
72186105 GGAAG
1 GGAAG
72186110 TTTACAAAGA
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
24 22 0.55
25 18 0.45
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.22
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:72186086 original size:25 final size:25
Alignment explanation
Indices: 72186007--72186087 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
72185997 GAGATTATCG
72186007 GGAAGCTTATCCAA-GCTATATAACT
1 GGAAGCTTAT-CAAGGCTATATAACT
* * * *
72186032 GGAAGCTCAT-AAGAGCCATA-ATCG
1 GGAAGCTTATCAAG-GCTATATAACT
*
72186056 GGAAGCTTATCTAGGCTATATAACT
1 GGAAGCTTATCAAGGCTATATAACT
72186081 GGAAGCT
1 GGAAGCT
72186088 CATAAGAGCC
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
23 2 0.05
24 16 0.37
25 25 0.58
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (25 bp):
GGAAGCTTATCAAGGCTATATAACT
Found at i:72186150 original size:23 final size:23
Alignment explanation
Indices: 72186113--72186169 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
72186103 TGGGAAGTTT
*
72186113 ACAAAGAACCATATC-AATAAGCTC
1 ACAAAGAGCC-TATCGAA-AAGCTC
**
72186137 ATGAAGAGCCTATCGAAAAGCTC
1 ACAAAGAGCCTATCGAAAAGCTC
72186160 ACAAAGAGCC
1 ACAAAGAGCC
72186170 ATGTAACGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.46, C:0.25, G:0.16, T:0.14
Consensus pattern (23 bp):
ACAAAGAGCCTATCGAAAAGCTC
Found at i:72191385 original size:8 final size:8
Alignment explanation
Indices: 72191372--72191403 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
72191362 TCATTCCTTG
72191372 AATTGAAT
1 AATTGAAT
72191380 AATTGAAT
1 AATTGAAT
72191388 AATTGAAT
1 AATTGAAT
72191396 AATTGAAT
1 AATTGAAT
72191404 TCTATCCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
AATTGAAT
Found at i:72194829 original size:228 final size:229
Alignment explanation
Indices: 72194420--72194879 Score: 672
Period size: 228 Copynumber: 2.0 Consensus size: 229
72194410 TACTACTTTA
*
72194420 TTAATTTTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTACCATATTTTT
1 TTAATATTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTA-CATATTTTT
* * * * *
72194485 TGTAAAATGCATTGCATTCATGCTAATTACTGTTTTGATTGTTTTTTTGTTGCATGGTAAAATGG
65 TGTAAAATGCATTGCACTCATGCTAATTACTGTTTAGATTGTTCTTTTGTTGCATAGTAAAACGG
*
72194550 CCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCATGGCAGC
130 CCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAGGGCAGC
* * *
72194615 CTAAATGACACCATCTTAGTACTGGCTGCAGTGTG
195 CTAAAAGACACCATCTTACTACAGGCTGCAGTGTG
* * * * * *
72194650 TTAATATTCTTCAACTGGTTGTTTTGTGTTTTTAGTTGAGGGAACCCTAGTTGTA-ATGTCTTTT
1 TTAATATTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTACATAT-TTTT
* * * *
72194714 TGTGAACTGCATTGCACTCATGTTAATTACTGTTTAGATTG-TCTTTTGTTGCATAGTAATACGG
65 TGTAAAATGCATTGCACTCATGCTAATTACTGTTTAGATTGTTCTTTTGTTGCATAGTAAAACGG
**
72194778 CCCATCAAAATTATAACTGTTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAGGGCAGC
130 CCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAGGGCAGC
* *
72194843 CTAAAAGACACCTTCTTACTACAGGCTGGAGTGTG
195 CTAAAAGACACCATCTTACTACAGGCTGCAGTGTG
72194878 TT
1 TT
72194880 TGTTAGTGCC
Statistics
Matches: 205, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
228 116 0.57
229 40 0.20
230 49 0.24
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (229 bp):
TTAATATTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTACATATTTTTT
GTAAAATGCATTGCACTCATGCTAATTACTGTTTAGATTGTTCTTTTGTTGCATAGTAAAACGGC
CCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAGGGCAGCC
TAAAAGACACCATCTTACTACAGGCTGCAGTGTG
Found at i:72196119 original size:387 final size:387
Alignment explanation
Indices: 72195405--72196180 Score: 1381
Period size: 387 Copynumber: 2.0 Consensus size: 387
72195395 GTGTTTCAGT
72195405 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
1 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
*
72195470 AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTTTTAGCATTTGTTTATATAAT
66 AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
**
72195535 CATGTTCTTGAAAGCCATCTATATTCTTGTTAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
131 CATGTTCTTGAAAGCCATCTATATTCTTAATAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
* *
72195600 GCTTGTAACTGGTACACTACAAGATTTAGCATCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
196 GCTTATAACTGGTACACTACAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
* *
72195665 ATGTTTTGACATATCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATTTGAGAGCTTAGATA
261 ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATCTGAGAGCTTAGATA
72195730 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
326 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
* *
72195792 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCATGTGTTTGTAGGTATAATAGTTCTT
1 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
* * *
72195857 AGTGGTTCGTTAGGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
66 AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
*
72195922 CATGTTCTTGAAAGCCATCTATATTCTTAATCAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
131 CATGTTCTTGAAAGCCATCTATATTCTTAATAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
* * * *
72195987 TCTTATCACTGGTACACTATAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAGAAGTAAGAAT
196 GCTTATAACTGGTACACTACAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
*
72196052 ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGGTCTGAGAGCTTAGATA
261 ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATCTGAGAGCTTAGATA
*
72196117 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACGTACACAACTAAAAGTATAATAGC
326 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
72196179 TG
1 TG
72196181 CTTTACTTTG
Statistics
Matches: 370, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
387 370 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (387 bp):
TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
CATGTTCTTGAAAGCCATCTATATTCTTAATAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
GCTTATAACTGGTACACTACAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATCTGAGAGCTTAGATA
CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
Found at i:72202088 original size:24 final size:25
Alignment explanation
Indices: 72202032--72202088 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
72202022 TAAAAAATAA
72202032 TTTTAATATTTAAAAATATTAAAAT
1 TTTTAATATTTAAAAATATTAAAAT
* **
72202057 ATTT-ATATTTAATCATA-TAAAAT
1 TTTTAATATTTAAAAATATTAAAAT
72202080 TTTTAATAT
1 TTTTAATAT
72202089 ACAGTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.33
24 15 0.56
25 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTAATATTTAAAAATATTAAAAT
Found at i:72202152 original size:20 final size:20
Alignment explanation
Indices: 72202129--72202176 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
72202119 AATACTAAAA
72202129 AATAATTTTAA-ATTTTATGT
1 AATAATTTTAATATTTTAT-T
72202149 AAT-ATTCTTAATATTTTATT
1 AATAATT-TTAATATTTTATT
*
72202169 AAAAATTT
1 AATAATTT
72202177 ATATTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 10 0.42
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
AATAATTTTAATATTTTATT
Found at i:72208950 original size:52 final size:50
Alignment explanation
Indices: 72208866--72208969 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 50
72208856 TGAAGAACTT
* *
72208866 AACCGGATTTTAAATGCATTGTAATCCGTTATATATGAGATATTCTTATGAA
1 AACCAGATTTTAAATGCATTGTAATCCATTATATATGAG--ATTCTTATGAA
* *
72208918 AACCAGATTTTAATTGCCTTGTAATCCATTATATATGAGATTCTTATGAA
1 AACCAGATTTTAAATGCATTGTAATCCATTATATATGAGATTCTTATGAA
72208968 AA
1 AA
72208970 AGAGCATACT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 13 0.27
52 35 0.73
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (50 bp):
AACCAGATTTTAAATGCATTGTAATCCATTATATATGAGATTCTTATGAA
Found at i:72211637 original size:36 final size:36
Alignment explanation
Indices: 72211596--72211668 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
72211586 ACACAGTTTC
72211596 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
1 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
72211632 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
1 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
72211668 A
1 A
72211669 CTCCTATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (36 bp):
AACCAAAATTATCATTCAAAGTAAACACATTCATTA
Found at i:72214657 original size:21 final size:20
Alignment explanation
Indices: 72214611--72214658 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
72214601 TTTTCACCCT
* * *
72214611 TATTTTGTTATTGTTTGTTG
1 TATTTTGGTATTATTTGTTA
72214631 TCATTTTGGTATTATATTGTTA
1 T-ATTTTGGTATTAT-TTGTTA
72214653 TATTTT
1 TATTTT
72214659 ATTATTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.70
22 6 0.26
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.67
Consensus pattern (20 bp):
TATTTTGGTATTATTTGTTA
Found at i:72215347 original size:2 final size:2
Alignment explanation
Indices: 72215340--72215375 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
72215330 CTATTGGGAT
72215340 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
72215376 ATTTTGTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:72224662 original size:480 final size:480
Alignment explanation
Indices: 72223761--72224720 Score: 1902
Period size: 480 Copynumber: 2.0 Consensus size: 480
72223751 TAAAATTTTG
72223761 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
1 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
72223826 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
66 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
72223891 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
131 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
72223956 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
196 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
*
72224021 ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
261 ATAAATATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
*
72224086 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCTATTTCTC
326 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCAATTTCTC
72224151 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
391 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
72224216 TCTATCTCTTTCACCTACTTGTTCT
456 TCTATCTCTTTCACCTACTTGTTCT
72224241 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
1 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
72224306 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
66 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
72224371 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
131 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
72224436 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
196 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
72224501 ATAAATATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
261 ATAAATATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
72224566 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCAATTTCTC
326 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCAATTTCTC
72224631 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
391 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
72224696 TCTATCTCTTTCACCTACTTGTTCT
456 TCTATCTCTTTCACCTACTTGTTCT
72224721 GCATGAAGTA
Statistics
Matches: 478, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
480 478 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (480 bp):
TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
ATAAATATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCAATTTCTC
CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
TCTATCTCTTTCACCTACTTGTTCT
Found at i:72225782 original size:5 final size:6
Alignment explanation
Indices: 72225765--72225792 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
72225755 TAGAAAATTA
72225765 GAGGGG GAGGGG GAGGGG GAGGGG GAGG
1 GAGGGG GAGGGG GAGGGG GAGGGG GAGG
72225793 AAAGGAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.82, T:0.00
Consensus pattern (6 bp):
GAGGGG
Found at i:72225902 original size:2 final size:2
Alignment explanation
Indices: 72225895--72225925 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
72225885 CAGTGCTCCT
72225895 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
72225926 GTTCACTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:72228915 original size:20 final size:20
Alignment explanation
Indices: 72228875--72228916 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
72228865 TTTTTAGTTA
* **
72228875 TTTTATATATTTATACTTTT
1 TTTTATAAATTTATAAATTT
72228895 TTTTATAAATTTATAAATTT
1 TTTTATAAATTTATAAATTT
72228915 TT
1 TT
72228917 AGTCCTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATAAATTTATAAATTT
Found at i:72241630 original size:9 final size:10
Alignment explanation
Indices: 72241610--72241641 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
72241600 AGCTGATGAT
72241610 AAAT-AAGAA
1 AAATGAAGAA
72241619 AAATGAAGAA
1 AAATGAAGAA
72241629 AAATGAAGAA
1 AAATGAAGAA
72241639 AAA
1 AAA
72241642 CCTAGATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (10 bp):
AAATGAAGAA
Found at i:72251330 original size:39 final size:39
Alignment explanation
Indices: 72251283--72251422 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
72251273 ATCGTGATCT
** * * *
72251283 AAAGCCCGAAGTTTAGCTGAAGTACATAAGTGCTAAAAG
1 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
* * *
72251322 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
1 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
*
72251361 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
*
72251400 AAATCCCGAAGGCTAACTGAAGC
1 AAAGCCCGAAGGCTAACTGAAGC
72251423 TCATCAGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.14
Consensus pattern (39 bp):
AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
Found at i:72253013 original size:40 final size:40
Alignment explanation
Indices: 72252968--72253043 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
72252958 TTTTCCCACT
*
72252968 ATCTTTTATATTCTTAGATT-GTTCTATAAAGAATTACACC
1 ATCTTTTATATTCTTAGATTAG-TATATAAAGAATTACACC
72253008 ATCTTTTATATTCTTAGATTAGTATATAAAGAATTA
1 ATCTTTTATATTCTTAGATTAGTATATAAAGAATTA
72253044 TTGTAGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.46
Consensus pattern (40 bp):
ATCTTTTATATTCTTAGATTAGTATATAAAGAATTACACC
Found at i:72253588 original size:23 final size:22
Alignment explanation
Indices: 72253553--72253605 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
72253543 GTTAACAATA
72253553 TTAACAATGTTAAA-ATAATTTAAT
1 TTAA-AATGTTAAACAT-A-TTAAT
*
72253577 TTAAAATTTTAAACATATTAAT
1 TTAAAATGTTAAACATATTAAT
*
72253599 TAAAAAT
1 TTAAAAT
72253606 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 11 0.42
23 9 0.35
24 6 0.23
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAATGTTAAACATATTAAT
Found at i:72254504 original size:19 final size:19
Alignment explanation
Indices: 72254480--72254523 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
72254470 TGAAAGCAAC
72254480 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
72254499 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
72254518 ACAACA
1 ACAACA
72254524 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:72257257 original size:91 final size:91
Alignment explanation
Indices: 72257150--72257458 Score: 442
Period size: 91 Copynumber: 3.4 Consensus size: 91
72257140 ATTAAAAATT
* *
72257150 AATTAATATAATAGTACAGCAGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACATTTTAAA
1 AATTAATATAATAGTACAACAGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACAGTTTAAA
72257215 CTTTAAAGTTAGTTAATTGAAGCCTA
66 CTTTAAAGTTAGTTAATTGAAGCCTA
* * *
72257241 AATTAATAGAATAGTACAAGTACAATAGCATAAATTAAAC--AAAAAAAGTATCTTAAACTATAG
1 AATTAATATAATAGTAC-A--AC---AGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACAG
72257304 TTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
60 TTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
* * * *
72257336 AATTAATATAATAGTACAATAGCATAAAGTAAACAAAAAAAAAGTCTGTTAAACCACAGTTTAAA
1 AATTAATATAATAGTACAACAGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACAGTTTAAA
72257401 CTTTAAAGTTAGTTAATTGAAGCCTA
66 CTTTAAAGTTAGTTAATTGAAGCCTA
* * *
72257427 AATCAATATAATAGTACAACAACTTAAATTAA
1 AATTAATATAATAGTACAACAGCATAAATTAA
72257459 TTAATAAAAA
Statistics
Matches: 193, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
89 13 0.07
91 94 0.49
92 2 0.01
94 2 0.01
95 68 0.35
97 14 0.07
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (91 bp):
AATTAATATAATAGTACAACAGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACAGTTTAAA
CTTTAAAGTTAGTTAATTGAAGCCTA
Found at i:72257300 original size:95 final size:95
Alignment explanation
Indices: 72257145--72257445 Score: 402
Period size: 95 Copynumber: 3.2 Consensus size: 95
72257135 ATTAAATTAA
* **
72257145 AAATTAATTAATA-TA-ATAGTACAGCAGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACA
1 AAATTAATAAATAGTACA-AGTACAATAGCATAAATTAAAC-AAAAAAAAGTATGTTAAACTACA
*
72257208 TTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
64 GTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
* *
72257240 AAATTAATAGAATAGTACAAGTACAATAGCATAAATTAAAC-AAAAAAAGTATCTTAAACTATAG
1 AAATTAATA-AATAGTACAAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAG
72257304 TTTAAACTTTAAAGTTAGTTAATTGAAGCCT
65 TTTAAACTTTAAAGTTAGTTAATTGAAGCCT
* * * *
72257335 AAATTAAT--ATA--A-TAGTACAATAGCATAAAGTAAACAAAAAAAAAGTCTGTTAAACCACAG
1 AAATTAATAAATAGTACAAGTACAATAGCATAAATTAAAC-AAAAAAAAGTATGTTAAACTACAG
72257395 TTTAAACTTTAAAGTTAGTTAATTGAAGCCT
65 TTTAAACTTTAAAGTTAGTTAATTGAAGCCT
*
72257426 AAATCAATATAATAGTACAA
1 AAATTAATA-AATAGTACAA
72257446 CAACTTAAAT
Statistics
Matches: 181, Mismatches: 14, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
89 21 0.12
90 1 0.01
91 57 0.31
92 3 0.02
94 3 0.02
95 67 0.37
96 5 0.03
97 23 0.13
98 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (95 bp):
AAATTAATAAATAGTACAAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGT
TTAAACTTTAAAGTTAGTTAATTGAAGCCT
Found at i:72257667 original size:17 final size:17
Alignment explanation
Indices: 72257645--72257679 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
72257635 TTTTCTCTAT
*
72257645 TAATATTACGTTATTAC
1 TAATATTACATTATTAC
*
72257662 TAATATTATATTATTAC
1 TAATATTACATTATTAC
72257679 T
1 T
72257680 TTGGGAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:72262384 original size:21 final size:21
Alignment explanation
Indices: 72262359--72262400 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
72262349 ATACCATATA
72262359 AAAGGTATCAATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
*
72262380 AAAGGTATCGATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
72262401 GTAAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (21 bp):
AAAGGTATCAATACTTTTTGT
Found at i:72262601 original size:22 final size:24
Alignment explanation
Indices: 72262573--72262616 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
72262563 ATTTTGTTCA
72262573 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
72262595 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
72262617 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:72262775 original size:39 final size:39
Alignment explanation
Indices: 72262717--72262806 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
72262707 AATGAGATAT
*
72262717 TGAAAGTATGTAAGACATGCCACTGA-ATTGAAATTGAAA
1 TGAAAGTATGTAAGACATGCCACT-ATATAGAAATTGAAA
* *
72262756 TGGAAGTATGTGAAG-CATGCCACTATATAGAAATTGTAA
1 TGAAAGTATGT-AAGACATGCCACTATATAGAAATTGAAA
*
72262795 TGAAAGCATGTA
1 TGAAAGTATGTA
72262807 CTTAAGGTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.05
39 39 0.89
40 3 0.07
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (39 bp):
TGAAAGTATGTAAGACATGCCACTATATAGAAATTGAAA
Found at i:72264091 original size:10 final size:9
Alignment explanation
Indices: 72264072--72264096 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
72264062 ATACTCCAAA
72264072 TTTTTATTT
1 TTTTTATTT
72264081 TTTTTATTT
1 TTTTTATTT
72264090 TTTTTAT
1 TTTTTAT
72264097 AAATTTCGAC
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTATTT
Found at i:72265130 original size:3 final size:3
Alignment explanation
Indices: 72265122--72265167 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
72265112 TATTAACTTT
*
72265122 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATT ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
72265168 ATATCTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:72265579 original size:11 final size:11
Alignment explanation
Indices: 72265563--72265589 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
72265553 TAGGAAATTC
72265563 TATTTTAAGTT
1 TATTTTAAGTT
72265574 TATTTTAAGTT
1 TATTTTAAGTT
72265585 TATTT
1 TATTT
72265590 ATTTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (11 bp):
TATTTTAAGTT
Found at i:72265621 original size:16 final size:15
Alignment explanation
Indices: 72265573--72265627 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
72265563 TATTTTAAGT
72265573 TTATTTTAAGTTTAT-
1 TTATTTTAA-TTTATA
72265588 TTATTTTTAA-TTATTA
1 TTA-TTTTAATTTA-TA
72265604 TTATTTTAGATTTATA
1 TTATTTTA-ATTTATA
72265620 TTAATTTT
1 TT-ATTTT
72265628 CTTAAGCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.09
15 9 0.26
16 14 0.41
17 8 0.24
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
TTATTTTAATTTATA
Found at i:72273898 original size:22 final size:22
Alignment explanation
Indices: 72273873--72273915 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
72273863 TCTTCACACC
*
72273873 CGACCTTGCGCCGCGCCACCGT
1 CGACCTCGCGCCGCGCCACCGT
**
72273895 CGACCTCGTTCCGCGCCACCG
1 CGACCTCGCGCCGCGCCACCG
72273916 ACGANNNNNN
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.51, G:0.26, T:0.14
Consensus pattern (22 bp):
CGACCTCGCGCCGCGCCACCGT
Found at i:72277758 original size:20 final size:21
Alignment explanation
Indices: 72277735--72277797 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 21
72277725 GTCTTTATTT
*
72277735 TAATTTAT-TTTTAATAATAA
1 TAATTTATAATTTAATAATAA
*
72277755 TAA-TCATAATTTAATAAT-A
1 TAATTTATAATTTAATAATAA
*
72277774 TAAATTATAATTTAATAA-AA
1 TAATTTATAATTTAATAATAA
72277794 TAAT
1 TAAT
72277798 AAATAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 7 0.19
20 29 0.81
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTTATAATTTAATAATAA
Found at i:72277806 original size:23 final size:21
Alignment explanation
Indices: 72277744--72277806 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
72277734 TTAATTTATT
*
72277744 TTTAATAATAAT-AATCATAA
1 TTTAATAATAATAAATAATAA
*
72277764 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAATAAATAATAA
72277784 TTTAATAAAATAATAAATAATAA
1 TTTAAT--AATAATAAATAATAA
72277807 ATATCTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.05
20 22 0.59
22 3 0.08
23 10 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAATAATAATAAATAATAA
Found at i:72277854 original size:38 final size:37
Alignment explanation
Indices: 72277790--72277864 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
72277780 ATAATTTAAT
*
72277790 AAAATAATAAATAATAAATATCTATATACTTAAATAA
1 AAAATAATAAATAATAAATATATATATACTTAAATAA
* * *
72277827 AAAAGTAATTAATAATTAAAT-TATATATATTTACATAA
1 AAAA-TAATAAATAA-TAAATATATATATACTTAAATAA
72277865 TTAAAATCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 4 0.12
38 23 0.72
39 5 0.16
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (37 bp):
AAAATAATAAATAATAAATATATATATACTTAAATAA
Found at i:72279522 original size:60 final size:60
Alignment explanation
Indices: 72279457--72279574 Score: 200
Period size: 60 Copynumber: 2.0 Consensus size: 60
72279447 ACCTTAGGTT
* *
72279457 ACATTTTAGTTACTTATATTTGAAATGTTAAGTTTTAGTCACTAACGTTATCGTGTTATA
1 ACATTTTAGTCACTTATATTTGAAATGTTAAGTTTTAGTCACTAACATTATCGTGTTATA
* *
72279517 ACATTTTAGTCACTTATATTTGAAGTGTTACGTTTTAGTCACTAACATTATCGTGTTA
1 ACATTTTAGTCACTTATATTTGAAATGTTAAGTTTTAGTCACTAACATTATCGTGTTA
72279575 ACGTTATCGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.46
Consensus pattern (60 bp):
ACATTTTAGTCACTTATATTTGAAATGTTAAGTTTTAGTCACTAACATTATCGTGTTATA
Found at i:72279559 original size:29 final size:29
Alignment explanation
Indices: 72279454--72279559 Score: 85
Period size: 29 Copynumber: 3.6 Consensus size: 29
72279444 TGAACCTTAG
* *
72279454 GTTACATTTTAGTTACTTATATTTGAAAT
1 GTTACATTTTAGTCACTTATATTTGAAGT
* *
72279483 GTTA-AGTTTTAGTCAC-TA-ACGTT-ATCGT
1 GTTACA-TTTTAGTCACTTATA-TTTGA-AGT
72279511 GTTATAACATTTTAGTCACTTATATTTGAAGT
1 G-T-T-ACATTTTAGTCACTTATATTTGAAGT
*
72279543 GTTACGTTTTAGTCACT
1 GTTACATTTTAGTCACT
72279560 AACATTATCG
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
27 2 0.03
28 7 0.12
29 27 0.45
30 2 0.03
31 12 0.20
32 8 0.13
33 2 0.03
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.47
Consensus pattern (29 bp):
GTTACATTTTAGTCACTTATATTTGAAGT
Found at i:72279578 original size:29 final size:29
Alignment explanation
Indices: 72279482--72279579 Score: 94
Period size: 29 Copynumber: 3.3 Consensus size: 29
72279472 ATATTTGAAA
*
72279482 TGTTAA-GTTTTAGTCACTAACGTTATCG
1 TGTTAACGTTTTAGTCACTAACATTATCG
* * * *
72279510 TGTTATAACATTTTAGTCACTTATATT-TGAAG
1 TG-T-TAACGTTTTAGTCACTAACATTAT--CG
72279542 TGTT-ACGTTTTAGTCACTAACATTATCG
1 TGTTAACGTTTTAGTCACTAACATTATCG
72279570 TGTTAACGTT
1 TGTTAACGTT
72279580 ATCGTGTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
28 7 0.13
29 23 0.43
30 6 0.11
31 15 0.28
32 3 0.06
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (29 bp):
TGTTAACGTTTTAGTCACTAACATTATCG
Found at i:72279581 original size:14 final size:14
Alignment explanation
Indices: 72279559--72279588 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
72279549 TTTTAGTCAC
72279559 TAACATTATCGTGT
1 TAACATTATCGTGT
*
72279573 TAACGTTATCGTGT
1 TAACATTATCGTGT
72279587 TA
1 TA
72279589 TAACATTTTA
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:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (14 bp):
TAACATTATCGTGT
Found at i:72279587 original size:74 final size:74
Alignment explanation
Indices: 72279499--72279647 Score: 271
Period size: 74 Copynumber: 2.0 Consensus size: 74
72279489 TTTTAGTCAC
*
72279499 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAGTGTTACGTTTTAGTCACTAACA
1 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACA
*
72279564 TTATCGTGT
66 TTAACGTGT
*
72279573 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAATA
1 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACA
72279638 TTAACGTGT
66 TTAACGTGT
72279647 T
1 T
72279648 GTAACATTTT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (74 bp):
TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACA
TTAACGTGT
Found at i:72279661 original size:31 final size:32
Alignment explanation
Indices: 72279582--72279663 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 32
72279572 TTAACGTTAT
*
72279582 CGTGTTATAACATTTTAGTCACTTATATTTGAA
1 CGTGTT-TAACATTTTAGTCACTAATATTTGAA
* *
72279615 -ATG-TT-ACGTTTTAGTCACTAATA-TT-AA
1 CGTGTTTAACATTTTAGTCACTAATATTTGAA
72279642 CGTGTTGTAACATTTTAGTCAC
1 CGTGTT-TAACATTTTAGTCAC
72279664 AAAGTCATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
27 2 0.05
28 4 0.10
29 17 0.43
30 2 0.05
31 13 0.32
32 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (32 bp):
CGTGTTTAACATTTTAGTCACTAATATTTGAA
Found at i:72279842 original size:22 final size:21
Alignment explanation
Indices: 72279817--72279881 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
72279807 TTTAACTTTT
72279817 TTTTTCTTTATTTTCCATTATG
1 TTTTTCTTTATTTT-CATTATG
* * *
72279839 TTTTACTTTCTTTTAACTTA-G
1 TTTTTCTTTATTTTCA-TTATG
*
72279860 TTTTTCTATATTTTCATT-TG
1 TTTTTCTTTATTTTCATTATG
72279880 TT
1 TT
72279882 AAAATTAGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 5 0.15
21 14 0.41
22 15 0.44
ACGTcount: A:0.15, C:0.12, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTCTTTATTTTCATTATG
Found at i:72280539 original size:3 final size:3
Alignment explanation
Indices: 72280531--72280562 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
72280521 TAGTCGTTTC
72280531 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
72280563 ACTGTTGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:72285313 original size:2 final size:2
Alignment explanation
Indices: 72285306--72285366 Score: 104
Period size: 2 Copynumber: 30.0 Consensus size: 2
72285296 TGGGAACATG
72285306 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
72285348 GA GA GA GA GG GA GA TGA GA
1 GA GA GA GA GA GA GA -GA GA
72285367 CATGGTCTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 54 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.51, T:0.02
Consensus pattern (2 bp):
GA
Found at i:72290396 original size:20 final size:20
Alignment explanation
Indices: 72290371--72290413 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
72290361 CAGAAAATGA
72290371 TTTCTGAAAAATGATTTA-TT
1 TTTCTG-AAAATGATTTACTT
*
72290391 TTTCTGGAAATGATTTACTT
1 TTTCTGAAAATGATTTACTT
72290411 TTT
1 TTT
72290414 TGGTGTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTCTGAAAATGATTTACTT
Found at i:72290855 original size:46 final size:46
Alignment explanation
Indices: 72290785--72290906 Score: 208
Period size: 46 Copynumber: 2.7 Consensus size: 46
72290775 AATAATATTA
* * *
72290785 TCCAAATGCATAATTAGTAGTACACCACATGATAACAACAACATTG
1 TCCAAATGCATAACTAATATTACACCACATGATAACAACAACATTG
*
72290831 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
1 TCCAAATGCATAACTAATATTACACCACATGATAACAACAACATTG
72290877 TCCAAATGCATAACTAATATTACACCACAT
1 TCCAAATGCATAACTAATATTACACCACAT
72290907 TAAAAGTATT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (46 bp):
TCCAAATGCATAACTAATATTACACCACATGATAACAACAACATTG
Found at i:72291464 original size:46 final size:46
Alignment explanation
Indices: 72291394--72291515 Score: 208
Period size: 46 Copynumber: 2.7 Consensus size: 46
72291384 AATAATATTA
* * *
72291394 TCCAAATGCATAATTAGTAGTACACCACATGATAACAACAACATTG
1 TCCAAATGCATAACTAATATTACACCACATGATAACAACAACATTG
*
72291440 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
1 TCCAAATGCATAACTAATATTACACCACATGATAACAACAACATTG
72291486 TCCAAATGCATAACTAATATTACACCACAT
1 TCCAAATGCATAACTAATATTACACCACAT
72291516 TAAAAGTATT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (46 bp):
TCCAAATGCATAACTAATATTACACCACATGATAACAACAACATTG
Found at i:72291730 original size:609 final size:609
Alignment explanation
Indices: 72290572--72291789 Score: 2436
Period size: 609 Copynumber: 2.0 Consensus size: 609
72290562 ATATTTTTAC
72290572 ATATATTGCAATGATTTATTTATTTATAAATAAATCATTTTAAATATATAATAATGCTCAATTAT
1 ATATATTGCAATGATTTATTTATTTATAAATAAATCATTTTAAATATATAATAATGCTCAATTAT
72290637 TAAACTAGAATATTAACCTTCATAAATTGAAAACAAACGAAGTCAAATAAATTATTTGTAATTGT
66 TAAACTAGAATATTAACCTTCATAAATTGAAAACAAACGAAGTCAAATAAATTATTTGTAATTGT
72290702 GTTATAAAAAAATAAAAAACAAGAATTGAATAATTATAAATTAACTTCCAAACCACAATTAATAC
131 GTTATAAAAAAATAAAAAACAAGAATTGAATAATTATAAATTAACTTCCAAACCACAATTAATAC
72290767 TAGAAATTAATAATATTATCCAAATGCATAATTAGTAGTACACCACATGATAACAACAACATTGT
196 TAGAAATTAATAATATTATCCAAATGCATAATTAGTAGTACACCACATGATAACAACAACATTGT
72290832 CCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTGTCCAAATGCATAACTAATAT
261 CCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTGTCCAAATGCATAACTAATAT
72290897 TACACCACATTAAAAGTATTAATATCTTCAACCTTGAGAAAATTTTTGAAGTCAAATTTTTCTAT
326 TACACCACATTAAAAGTATTAATATCTTCAACCTTGAGAAAATTTTTGAAGTCAAATTTTTCTAT
72290962 GCTTCTTACTTTTAACTAAAAAAACTTTTGCCTCAGATTCATGACTCACTAGATAATCAAACACA
391 GCTTCTTACTTTTAACTAAAAAAACTTTTGCCTCAGATTCATGACTCACTAGATAATCAAACACA
72291027 GAACACATGAAGTCATCATCAAATCCTTCTACCTCTATTGACATCACTTCTTCGTAAAGATGTGG
456 GAACACATGAAGTCATCATCAAATCCTTCTACCTCTATTGACATCACTTCTTCGTAAAGATGTGG
72291092 TGTCTTATCCGCAGTAAATTGTTCCAAAGCATTAGCAATTTTTCCAAGTTGTTCACCCACAAATT
521 TGTCTTATCCGCAGTAAATTGTTCCAAAGCATTAGCAATTTTTCCAAGTTGTTCACCCACAAATT
72291157 TAATTTGTTCATCAACGAAACTTT
586 TAATTTGTTCATCAACGAAACTTT
72291181 ATATATTGCAATGATTTATTTATTTATAAATAAATCATTTTAAATATATAATAATGCTCAATTAT
1 ATATATTGCAATGATTTATTTATTTATAAATAAATCATTTTAAATATATAATAATGCTCAATTAT
72291246 TAAACTAGAATATTAACCTTCATAAATTGAAAACAAACGAAGTCAAATAAATTATTTGTAATTGT
66 TAAACTAGAATATTAACCTTCATAAATTGAAAACAAACGAAGTCAAATAAATTATTTGTAATTGT
72291311 GTTATAAAAAAATAAAAAACAAGAATTGAATAATTATAAATTAACTTCCAAACCACAATTAATAC
131 GTTATAAAAAAATAAAAAACAAGAATTGAATAATTATAAATTAACTTCCAAACCACAATTAATAC
72291376 TAGAAATTAATAATATTATCCAAATGCATAATTAGTAGTACACCACATGATAACAACAACATTGT
196 TAGAAATTAATAATATTATCCAAATGCATAATTAGTAGTACACCACATGATAACAACAACATTGT
72291441 CCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTGTCCAAATGCATAACTAATAT
261 CCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTGTCCAAATGCATAACTAATAT
72291506 TACACCACATTAAAAGTATTAATATCTTCAACCTTGAGAAAATTTTTGAAGTCAAATTTTTCTAT
326 TACACCACATTAAAAGTATTAATATCTTCAACCTTGAGAAAATTTTTGAAGTCAAATTTTTCTAT
72291571 GCTTCTTACTTTTAACTAAAAAAACTTTTGCCTCAGATTCATGACTCACTAGATAATCAAACACA
391 GCTTCTTACTTTTAACTAAAAAAACTTTTGCCTCAGATTCATGACTCACTAGATAATCAAACACA
72291636 GAACACATGAAGTCATCATCAAATCCTTCTACCTCTATTGACATCACTTCTTCGTAAAGATGTGG
456 GAACACATGAAGTCATCATCAAATCCTTCTACCTCTATTGACATCACTTCTTCGTAAAGATGTGG
72291701 TGTCTTATCCGCAGTAAATTGTTCCAAAGCATTAGCAATTTTTCCAAGTTGTTCACCCACAAATT
521 TGTCTTATCCGCAGTAAATTGTTCCAAAGCATTAGCAATTTTTCCAAGTTGTTCACCCACAAATT
72291766 TAATTTGTTCATCAACGAAACTTT
586 TAATTTGTTCATCAACGAAACTTT
72291790 CTTGAGCATT
Statistics
Matches: 609, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
609 609 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (609 bp):
ATATATTGCAATGATTTATTTATTTATAAATAAATCATTTTAAATATATAATAATGCTCAATTAT
TAAACTAGAATATTAACCTTCATAAATTGAAAACAAACGAAGTCAAATAAATTATTTGTAATTGT
GTTATAAAAAAATAAAAAACAAGAATTGAATAATTATAAATTAACTTCCAAACCACAATTAATAC
TAGAAATTAATAATATTATCCAAATGCATAATTAGTAGTACACCACATGATAACAACAACATTGT
CCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTGTCCAAATGCATAACTAATAT
TACACCACATTAAAAGTATTAATATCTTCAACCTTGAGAAAATTTTTGAAGTCAAATTTTTCTAT
GCTTCTTACTTTTAACTAAAAAAACTTTTGCCTCAGATTCATGACTCACTAGATAATCAAACACA
GAACACATGAAGTCATCATCAAATCCTTCTACCTCTATTGACATCACTTCTTCGTAAAGATGTGG
TGTCTTATCCGCAGTAAATTGTTCCAAAGCATTAGCAATTTTTCCAAGTTGTTCACCCACAAATT
TAATTTGTTCATCAACGAAACTTT
Found at i:72298293 original size:24 final size:24
Alignment explanation
Indices: 72298266--72298322 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
72298256 TTTCAAAACT
72298266 TAAGTACATAATTTATACAATACC
1 TAAGTACATAATTTATACAATACC
*
72298290 TAAGTACACAATTTATACAATACC
1 TAAGTACATAATTTATACAATACC
*
72298314 AAAGTACAT
1 TAAGTACAT
72298323 GCCACTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.30
Consensus pattern (24 bp):
TAAGTACATAATTTATACAATACC
Found at i:72298808 original size:23 final size:23
Alignment explanation
Indices: 72298782--72298842 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
72298772 TGAATTCCAA
72298782 CCAAACACACCAGAATAAACCAC
1 CCAAACACACCAGAATAAACCAC
*
72298805 CCAAACACACCAAAATAAACCAC
1 CCAAACACACCAGAATAAACCAC
72298828 CCAAACACACCAGAA
1 CCAAACACACCAGAA
72298843 CGGCACTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.54, C:0.39, G:0.03, T:0.03
Consensus pattern (23 bp):
CCAAACACACCAGAATAAACCAC
Found at i:72299844 original size:3 final size:3
Alignment explanation
Indices: 72299838--72299873 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
72299828 TTTATACTTT
72299838 ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
72299874 TAAATATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:72299856 original size:14 final size:14
Alignment explanation
Indices: 72299837--72299866 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
72299827 TTTTATACTT
72299837 TATAATAATAATAA
1 TATAATAATAATAA
72299851 TATAATAATAATAA
1 TATAATAATAATAA
72299865 TA
1 TA
72299867 ATTAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:72302760 original size:11 final size:11
Alignment explanation
Indices: 72302744--72302774 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
72302734 TCTACATGTG
72302744 TAATAATTATA
1 TAATAATTATA
72302755 TAATAATTATA
1 TAATAATTATA
72302766 TAATAATTA
1 TAATAATTA
72302775 ATTAACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATAATTATA
Found at i:72303463 original size:25 final size:24
Alignment explanation
Indices: 72303421--72303478 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
72303411 AAAATATATT
* *
72303421 TAAAAATTCAAAAAATAATAA-TA
1 TAAAAAATCAAAAAATAAAAACTA
72303444 TAAAAAATCAAAATATATAAAAACTA
1 TAAAAAATCAAAA-A-ATAAAAACTA
72303470 -AAAAAATCA
1 TAAAAAATCA
72303479 TTCAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 12 0.40
24 1 0.03
25 15 0.50
26 2 0.07
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (24 bp):
TAAAAAATCAAAAAATAAAAACTA
Found at i:72310918 original size:24 final size:24
Alignment explanation
Indices: 72310891--72310946 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
72310881 ATTAAAGTTC
72310891 AAAATAGAAAA-AAAAATAAACATA
1 AAAATA-AAAATAAAAATAAACATA
72310915 AAAATAAAAATAAAAATAAACATA
1 AAAATAAAAATAAAAATAAACATA
*
72310939 AAGATAAA
1 AAAATAAA
72310947 TGGACTCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (24 bp):
AAAATAAAAATAAAAATAAACATA
Found at i:72310921 original size:6 final size:6
Alignment explanation
Indices: 72310891--72310946 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
72310881 ATTAAAGTTC
* *
72310891 AAAATA GAAAA-A AAAATA AACATA AAAATA AAAATA AAAATA AACATA
1 AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
72310939 AAGATA AA
1 AAAATA AA
72310947 TGGACTCAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
5 4 0.09
6 36 0.82
7 4 0.09
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:72312625 original size:3 final size:3
Alignment explanation
Indices: 72312619--72312731 Score: 95
Period size: 3 Copynumber: 37.7 Consensus size: 3
72312609 ATATTAAAGA
* * * * * *
72312619 AAT AAT AAG AAT AAT AAT AAA AAT AAT AAG AAG AAG AAT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** **
72312667 ATT GACC AAT AAT AGAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AGG
1 AAT -AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
72312713 AA- AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
72312732 AGAAAAATAT
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
2 4 0.04
3 82 0.91
4 4 0.04
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:72312718 original size:23 final size:22
Alignment explanation
Indices: 72312619--72312750 Score: 87
Period size: 21 Copynumber: 6.2 Consensus size: 22
72312609 ATATTAAAGA
* *
72312619 AATAAT-AAGAATAATAATAAA
1 AATAATAAAGAAAAATAATAAT
* * *
72312640 AATAAT-AAGAAGAAGAATACT
1 AATAATAAAGAAAAATAATAAT
** **
72312661 AATAATATTGACCAATAATAGAT
1 AATAATAAAGAAAAATAATA-AT
* *
72312684 AA-AAT-AATAATAATAATAAT
1 AATAATAAAGAAAAATAATAAT
*
72312704 AATAAT--AGGAAAATAATAAT
1 AATAATAAAGAAAAATAATAAT
* *
72312724 AATAATAAAGAAAAATATTATT
1 AATAATAAAGAAAAATAATAAT
72312746 AATAA
1 AATAA
72312751 ATAACCGAAA
Statistics
Matches: 85, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
20 21 0.25
21 34 0.40
22 27 0.32
23 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (22 bp):
AATAATAAAGAAAAATAATAAT
Found at i:72312753 original size:23 final size:23
Alignment explanation
Indices: 72312674--72312750 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
72312664 AATATTGACC
* * *
72312674 AATAATAGATAAAATAATAATAAT
1 AATAATA-ATAATAGAAAAATAAT
*
72312698 AATAATAATAATAGGAAAATAAT
1 AATAATAATAATAGAAAAATAAT
*
72312721 AATAATAATAA-AGAAAAATATT
1 AATAATAATAATAGAAAAATAAT
*
72312743 ATTAATAA
1 AATAATAA
72312751 ATAACCGAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
22 16 0.35
23 23 0.50
24 7 0.15
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (23 bp):
AATAATAATAATAGAAAAATAAT
Found at i:72312913 original size:23 final size:22
Alignment explanation
Indices: 72312867--72312916 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
72312857 ACGGAATGGT
72312867 AAGGG-GAAAGGAAAGAAGAAA
1 AAGGGAGAAAGGAAAGAAGAAA
*
72312888 AAGGGAGAAAGAGGAAGAA-AAGA
1 AAGGGAGAAAG-GAAAGAAGAA-A
72312911 AAGGGA
1 AAGGGA
72312917 AGAGAATGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 5 0.20
22 7 0.28
23 13 0.52
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (22 bp):
AAGGGAGAAAGGAAAGAAGAAA
Found at i:72317815 original size:30 final size:30
Alignment explanation
Indices: 72317779--72317837 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
72317769 CACGGGCTAC
*
72317779 CACATGGGCGTGTGGCT-AGCTCGTGTGGAT
1 CACATGGGCGTGT-GCTCAGCCCGTGTGGAT
72317809 CACATGGGCGTGTGCTCAGCCCGTGTGGA
1 CACATGGGCGTGTGCTCAGCCCGTGTGGA
72317838 AATGGTCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.14, C:0.24, G:0.39, T:0.24
Consensus pattern (30 bp):
CACATGGGCGTGTGCTCAGCCCGTGTGGAT
Found at i:72318476 original size:115 final size:115
Alignment explanation
Indices: 72318274--72318485 Score: 379
Period size: 115 Copynumber: 1.8 Consensus size: 115
72318264 TAGGGTGTTA
*
72318274 TAGAAATCATTAACAAATGGACTTAATTGATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
1 TAGAAATCATTAACAAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
72318339 AATTATATCAAGTAGCTTAATTGATTTTTTTTAAAATTTCTCTCGAGAAT
66 AATTATATCAAGTAGCTTAATTGATTTTTTTTAAAATTTCTCTCGAGAAT
* *
72318389 TAGAAATCATTGACGAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
1 TAGAAATCATTAACAAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
* *
72318454 AATTATATCAAGTGGGTTAATTGATTTTTTTT
66 AATTATATCAAGTAGCTTAATTGATTTTTTTT
72318486 TTTTTAAATT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 92 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (115 bp):
TAGAAATCATTAACAAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
AATTATATCAAGTAGCTTAATTGATTTTTTTTAAAATTTCTCTCGAGAAT
Found at i:72334624 original size:12 final size:12
Alignment explanation
Indices: 72334607--72334640 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
72334597 CGACCCACTC
72334607 ATATTAATTTTT
1 ATATTAATTTTT
*
72334619 ATATTATTTTTT
1 ATATTAATTTTT
72334631 ATA-TAATTTT
1 ATATTAATTTT
72334641 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:72334721 original size:13 final size:13
Alignment explanation
Indices: 72334700--72334734 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
72334690 TCCTAACAAA
72334700 TTAAAAATAAATT
1 TTAAAAATAAATT
*
72334713 TTGAAAATAAATT
1 TTAAAAATAAATT
72334726 TTAAAAATA
1 TTAAAAATA
72334735 TATATATACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
TTAAAAATAAATT
Found at i:72334822 original size:30 final size:30
Alignment explanation
Indices: 72334778--72334840 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
72334768 ATTTAACAAG
*
72334778 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
*
72334808 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
72334838 CAA
1 CAA
72334841 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:72334895 original size:22 final size:22
Alignment explanation
Indices: 72334870--72334912 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
72334860 TATCCAAACA
72334870 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
72334892 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
72334913 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:72334916 original size:11 final size:11
Alignment explanation
Indices: 72334877--72334917 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
72334867 ACAATAACAA
72334877 CAAAATAGTAG
1 CAAAATAGTAG
* *
72334888 CAACATAATAG
1 CAAAATAGTAG
*
72334899 TAAAATAGTAG
1 CAAAATAGTAG
72334910 CAAAATAG
1 CAAAATAG
72334918 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:72340258 original size:20 final size:19
Alignment explanation
Indices: 72340235--72340288 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
72340225 TTTATTTTAT
72340235 ATATTATTATTTTTAAACCA
1 ATATTATTATTTTTAAA-CA
* * *
72340255 ATATATTTTATTTTTATATA
1 ATAT-TATTATTTTTAAACA
72340275 ATTATTATTATTTT
1 A-TATTATTATTTT
72340289 ATTATATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTATTATTTTTAAACA
Found at i:72340305 original size:25 final size:25
Alignment explanation
Indices: 72340258--72340306 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
72340248 TAAACCAATA
*
72340258 TATTTTATTTTTATATAATTATTAT
1 TATTTTATTTATATATAATTATTAT
*
72340283 TATTTTA-TTATATATTATATATTA
1 TATTTTATTTATATATAAT-TATTA
72340307 AATACTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TATTTTATTTATATATAATTATTAT
Found at i:72340330 original size:25 final size:26
Alignment explanation
Indices: 72340296--72340344 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
72340286 TTTATTATAT
72340296 ATTATATATTAAATA-CTATTTTTAAA
1 ATTATATATTAAATATC-ATTTTTAAA
72340322 ATTAT-TATTAAATATCATTTTTA
1 ATTATATATTAAATATCATTTTTA
72340345 TTTGTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (26 bp):
ATTATATATTAAATATCATTTTTAAA
Found at i:72340332 original size:12 final size:13
Alignment explanation
Indices: 72340270--72340336 Score: 59
Period size: 12 Copynumber: 5.3 Consensus size: 13
72340260 TTTTATTTTT
*
72340270 ATATAATTATT-A
1 ATATTATTATTAA
* *
72340282 TTATT-TTATTAT
1 ATATTATTATTAA
72340294 ATATTATATATTAA
1 ATATTAT-TATTAA
* *
72340308 ATACTATTTTTAA
1 ATATTATTATTAA
72340321 A-ATTATTATTAA
1 ATATTATTATTAA
72340333 ATAT
1 ATAT
72340337 CATTTTTATT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
11 5 0.12
12 17 0.40
13 9 0.21
14 11 0.26
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATTATTATTAA
Done.