Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold56
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: 1793205
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 19648 characters in sequence are not A, C, G, or T
File 5 of 11
Found at i:651132 original size:2 final size:2
Alignment explanation
Indices: 651120--651156 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
651110 ATTACTTCAA
*
651120 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
651157 CACAATGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:654037 original size:14 final size:16
Alignment explanation
Indices: 654009--654049 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
653999 AATTTGATTA
654009 ATTTTTAAAATAATTT
1 ATTTTTAAAATAATTT
654025 -TTTTTAAAA-AATTT
1 ATTTTTAAAATAATTT
*
654039 ATTTTTTAAAT
1 ATTTTTAAAAT
654050 TTAATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTTAAAATAATTT
Found at i:660535 original size:3 final size:3
Alignment explanation
Indices: 660527--660561 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
660517 AATTTACAAG
660527 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
660562 ATTTTTTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:662453 original size:100 final size:100
Alignment explanation
Indices: 662281--662483 Score: 329
Period size: 100 Copynumber: 2.0 Consensus size: 100
662271 CTCCTTTTTT
662281 TTTTCTTTTTTAATTTTTTTCTTTCTCTCCCAACTTAGTACTATCAATTAAAAAATTGACATCTA
1 TTTTCTTTTTTAATTTTTTTCTTTCTCTCCCAACTTAGTACTATCAATTAAAAAATTGACATCTA
* *
662346 TCAACATATT-AGGATTTGTGCAGTTAAAAATAAA
66 TCAACATATTAAGAATTTGTGCAATTAAAAATAAA
* *
662380 TTTTCTTTTTGTAATTTTTTTCTTTCTCTCCTAACTTAGTACTATCAATTAAAAAATTGACATGT
1 TTTTCTTTTT-TAATTTTTTTCTTTCTCTCCCAACTTAGTACTATCAATTAAAAAATTGACATCT
*
662445 AT-AGACATATTAAGAATTTGTGTAATTAAAAATAAA
65 ATCA-ACATATTAAGAATTTGTGCAATTAAAAATAAA
662481 TTT
1 TTT
662484 ATGTTAGATT
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
99 11 0.11
100 61 0.64
101 24 0.25
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (100 bp):
TTTTCTTTTTTAATTTTTTTCTTTCTCTCCCAACTTAGTACTATCAATTAAAAAATTGACATCTA
TCAACATATTAAGAATTTGTGCAATTAAAAATAAA
Found at i:662941 original size:2 final size:2
Alignment explanation
Indices: 662934--662968 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
662924 GAATTAGCAC
662934 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
662969 ATTTTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:665825 original size:32 final size:32
Alignment explanation
Indices: 665784--665844 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
665774 AAGACTTCTA
665784 AAATTCTACCCCCAAC-ACGACTTCATCATTTT
1 AAATTCTACCCCCAACGAC-ACTTCATCATTTT
665816 AAATTCTACCCCCAACGACACTTCATCAT
1 AAATTCTACCCCCAACGACACTTCATCAT
665845 AGTTATCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.28
Consensus pattern (32 bp):
AAATTCTACCCCCAACGACACTTCATCATTTT
Found at i:667298 original size:17 final size:18
Alignment explanation
Indices: 667267--667300 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
667257 TGGAATAAAT
*
667267 AAAAATCATTTTGTTTGG
1 AAAAATCATTGTGTTTGG
667285 AAAAATCA-TGTGTTTG
1 AAAAATCATTGTGTTTG
667301 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (18 bp):
AAAAATCATTGTGTTTGG
Found at i:668529 original size:20 final size:20
Alignment explanation
Indices: 668482--668556 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
668472 AAAAAGACAT
*
668482 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
668501 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
668522 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
668542 AATGTATCGATACAT
1 AATGTATCGATACAT
668557 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:668550 original size:40 final size:39
Alignment explanation
Indices: 668479--668556 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
668469 GGTAAAAAGA
* *
668479 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
668518 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
668557 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:669129 original size:32 final size:32
Alignment explanation
Indices: 669084--669638 Score: 824
Period size: 32 Copynumber: 16.8 Consensus size: 32
669074 AAAATGGTGA
* **
669084 TTTGAAATGGGTTGCCACCGACTTGCATGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
** *
669116 TTTTAAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
669148 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
669180 TTTGAAATGGGCTTATGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAAT--G-----GGTTGCCACCGACTTGTGTGGGC
669219 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
669251 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
669283 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
669315 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
669347 TTTGGAATGGGTTGCCACCGACTTGTGCTTGATGGTGCCCC
1 TTTGGAATGGGTTGCCACCGAC-T-TG--TG-TGG-G---C
669388 TTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 -TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
669421 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
669453 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
669485 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
669517 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* *
669549 TTCGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
669581 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* * *
669613 TTTGAAATGGG-TGCCACGGAGTTGTG
1 TTTGGAATGGGTTGCCACCGACTTGTG
669639 GATTTAAAAG
Statistics
Matches: 494, Mismatches: 12, Indels: 35
0.91 0.02 0.06
Matches are distributed among these distances:
31 13 0.03
32 407 0.82
33 2 0.00
34 3 0.01
36 3 0.01
37 7 0.01
38 3 0.01
39 30 0.06
40 2 0.00
41 2 0.00
42 22 0.04
ACGTcount: A:0.14, C:0.19, G:0.35, T:0.32
Consensus pattern (32 bp):
TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:669452 original size:170 final size:162
Alignment explanation
Indices: 669084--669638 Score: 814
Period size: 170 Copynumber: 3.4 Consensus size: 162
669074 AAAATGGTGA
* ** ** *
669084 TTTGAAATGGGTTGCCACCGACTTGCATGGGCTTTTAAATGGGTTGCCACCGACTTGTGTGGGTT
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
* *
669149 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGCTTATGGTTGCCACCGAC-T-TG
66 TTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAAT--G-----GGTTGCCACCGACTTGTG
669212 TGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
124 TGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
669251 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
669316 TTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGCTTGATG
66 TTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTG--TG-TG
669381 GTGCCCCTTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
128 G-G---C-TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
669421 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
669486 TTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGAC-T-TGTGTGGGC
66 TTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGTGGGC
* *
669549 TTCGAAATGGGTTGCCACCGACTTGTGTGGGC
131 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
669581 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGG-TGCCACGGAGTTGTG
1 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTG
669639 GATTTAAAAG
Statistics
Matches: 364, Mismatches: 14, Indels: 28
0.90 0.03 0.07
Matches are distributed among these distances:
159 13 0.04
160 84 0.23
161 2 0.01
162 2 0.01
164 3 0.01
165 7 0.02
166 3 0.01
167 96 0.26
168 2 0.01
169 2 0.01
170 150 0.41
ACGTcount: A:0.14, C:0.19, G:0.35, T:0.32
Consensus pattern (162 bp):
TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
TTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGTGGGC
TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:669655 original size:27 final size:27
Alignment explanation
Indices: 669621--670360 Score: 1140
Period size: 27 Copynumber: 27.0 Consensus size: 27
669611 GCTTTGAAAT
*
669621 GGGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
669648 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
669675 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
669702 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
669729 GGGATGCCACGGAGTTGTGGACTTACAAA
1 GGG-TGCCACGGAGTTGTGGACTTA-AAA
669758 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
669785 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
669812 GAGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
669839 AGGTGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
669866 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
669893 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
669920 GAGATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
669948 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
669976 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
670003 GGGTGCCACGGAGTTGTGGACTTAAAGA
1 GGGTGCCACGGAGTTGTGGACTTAAA-A
* *
670031 GGGTGTCATGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
670059 GAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
670086 GGGTGCCACGGAGTTGTGGACTTTGAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
670114 -GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
670140 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* **
670168 GAGTGCCACGGAGTTGTGGACTTTGAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
670195 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
670222 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
670250 GAGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
670278 GAGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
670305 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
670333 GGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
670361 AGAAATGCCA
Statistics
Matches: 655, Mismatches: 46, Indels: 23
0.90 0.06 0.03
Matches are distributed among these distances:
26 5 0.01
27 395 0.60
28 244 0.37
29 11 0.02
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:669767 original size:110 final size:109
Alignment explanation
Indices: 669623--670360 Score: 1151
Period size: 110 Copynumber: 6.7 Consensus size: 109
669613 TTTGAAATGG
* *
669623 GTGCCACGGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
669688 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTC-TTAAAAGG
66 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGA
669731 GATGCCACGGAGTTGTGGACTTACAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 G-TGCCACGGAGTTGTGGACTTA-AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * *
669796 AGTTGTGGACTTAAAAGAGTGCCACAGAGTTGTGGACTTAAAAAG-
64 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGA
* *
669841 GTGCTACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
669906 TTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGAC-TTAAAAGG
66 TTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTTAAAAGA
*
669950 GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGA
1 G-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
* *
670015 GTTGTGGACTTAAAGAGGGTGTCATGGAGTTGTGGACTTTAAAAGA
65 GTTGTGGACTTAAA-AGGGTGCCACGGAGTTGTGGACTTTAAAAGA
* * * *
670061 GCGCTACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTGAAA-GGTGCCACAGA
1 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGA
670125 GTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGA
65 GTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGA
**
670170 GTGCCACGGAGTTGTGGACTTTGAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
670235 TTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGA
66 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGA
* * *
670280 GTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGA
1 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGA
670345 GTTGTGGACTTCAAAA
65 GTTGTGGACTT-AAAA
670361 AGAAATGCCA
Statistics
Matches: 581, Mismatches: 36, Indels: 23
0.91 0.06 0.04
Matches are distributed among these distances:
108 69 0.12
109 148 0.25
110 313 0.54
111 51 0.09
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (109 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGA
Found at i:669867 original size:137 final size:135
Alignment explanation
Indices: 669621--670360 Score: 1142
Period size: 137 Copynumber: 5.4 Consensus size: 135
669611 GCTTTGAAAT
*
669621 GGGTGCCACGGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
669686 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGAC
66 AGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGAC
669751 TTACAAA
130 TTA-AAA
* * *
669758 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
669823 AGTTGTGGACTTAAAAAGGTGCTACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACT
66 AGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
669888 TAAAA
131 TAAAA
669893 GGGTGCCACGGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCAC
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GATGCCACGGAGTTGTGGACTTAAAAGGG-TGCCAC
* *
669958 GGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
64 GGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
670023 CTTAAAGA
129 CTTAAA-A
* *
670031 GGGTGTCATGGAGTTGTGGACTTTAAAA-GA-GCGCTACGGAGTTGTGGACTTAAAAGGGTGCCA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGC-C-ACGGAGTTGTGGACTTAAAAGGGTGCCA
** *
670094 CGGAGTTGTGGACTTTGAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
63 CGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
670159 ACTTTAAAA
128 AC-TTAAAA
* ** *
670168 GAGTGCCACGGAGTTGTGGACTTTGAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
670233 AGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGA
66 AGTTGTGGACTTAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGA
*
670298 TTTAAAA
129 CTTAAAA
*
670305 GGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT-AAAA
670361 AGAAATGCCA
Statistics
Matches: 555, Mismatches: 35, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
135 31 0.06
136 101 0.18
137 312 0.56
138 101 0.18
139 10 0.02
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (135 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
TAAAA
Found at i:677853 original size:22 final size:23
Alignment explanation
Indices: 677825--677880 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
677815 TGGACATGTT
677825 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
677847 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
677870 AAAAATGCATG
1 AAAAATGCATG
677881 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:678838 original size:20 final size:20
Alignment explanation
Indices: 678791--678865 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
678781 AAAAAGACAT
*
678791 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
678810 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
678831 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
678851 AATGTATCGATACAT
1 AATGTATCGATACAT
678866 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:678859 original size:40 final size:39
Alignment explanation
Indices: 678788--678865 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
678778 GGTAAAAAGA
* *
678788 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
678827 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
678866 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:680480 original size:79 final size:77
Alignment explanation
Indices: 680339--680949 Score: 578
Period size: 79 Copynumber: 7.8 Consensus size: 77
680329 TTTTCATCTA
* * *
680339 TCCAACCCCATTTTTATTTTCAAAATATTAAATTTTTCATATCGGGAATACTCTAACCCCGTTAT
1 TCCAA-CCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCTAA-CCCGTTAT
*
680404 TTTCGAGGGGATAC
64 TTTCGAGAGGATAC
*** * ** * *
680418 TTCTGTCCCGTTTTTATTTTTAAAATATTAAATTTTACATCTCGAGGATACTCTAATCCCGTTAT
1 -TCCAACCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCTAA-CCCGTTAT
*
680483 TTT-GAG-GAAATAC
64 TTTCGAGAG-GATAC
*
680496 TCCAACCTCA-TTTTATTTCTAAAATATTAAATTTTTCATCTCGGGGATACTCTAATCCCGTTA-
1 TCCAACC-CATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCTAA-CCCGTTAT
680559 TTTCTGAGAGGATAC
64 TTTC-GAGAGGATAC
* * *
680574 TCCAACCCCATCTTTATTTCCAAAATATTAAATTTTTCATCTCTGAGATACTCTAACCTCGTTAT
1 TCCAA-CCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCTAACC-CGTTAT
*
680639 TTTCGAGAGTATAC
64 TTTCGAGAGGATAC
* *
680653 TCCAACCCTATTTTTATTTCCAAAATATTAAATTTTTAATCAT-GGGGATACTCCAACCCCGTTA
1 TCCAACCC-ATTTTTATTTCCAAAATATTAAATTTTTCATC-TCGGGGATACTCTAA-CCCGTTA
** *
680717 TTTTTTAGGGGATAC
63 TTTTCGAGAGGATAC
* *
680732 TTCAA-CCATTTTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCCTGTTA
1 TCCAACCCA--TTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCTAACCC-GTTA
680796 -TTTCTGAGAGGATAC
63 TTTTC-GAGAGGATAC
* * ** * * *
680811 TCTAACCCCGTTTTTATTTCCAAAATA-TCGATTTTTCATTATCGGAGATACTCCAACCC--TAT
1 TCCAA-CCCATTTTTATTTCCAAAATATTAAATTTTTCA-TCTCGGGGATACTCTAACCCGTTAT
*
680873 CATTTCTGAGAGGATCC
64 --TTTC-GAGAGGATAC
* * * * *
680890 TCTAACTC-TGTTTTCACTTCCAAAATATTAAATTTTTTCATCTCGAGGATACTCCAACCC
1 TCCAACCCAT-TTTT-ATTTCCAAAATATTAAA-TTTTTCATCTCGGGGATACTCTAACCC
680950 CGATTTTTAC
Statistics
Matches: 451, Mismatches: 53, Indels: 54
0.81 0.09 0.10
Matches are distributed among these distances:
76 5 0.01
77 57 0.13
78 51 0.11
79 301 0.67
80 28 0.06
81 9 0.02
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.39
Consensus pattern (77 bp):
TCCAACCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCTAACCCGTTATTT
TCGAGAGGATAC
Found at i:680730 original size:158 final size:158
Alignment explanation
Indices: 680339--680949 Score: 666
Period size: 158 Copynumber: 3.9 Consensus size: 158
680329 TTTTCATCTA
* * *
680339 TCCAACCCCATTTTTATTTTCAAAATATTAAATTTTTCAT-ATCGGGAATACTCTAACCCCGTTA
1 TCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCATCGGGGATACTCCAACCCCGTTA
* * *** ** *
680403 TTT-TCGAGGGGATACTTCTGTCCCGTTTTTATTTTTAAAATATTAAATTTTACATCTCGAGGAT
66 TTTCT-GAGAGGATACTCCAACCCCGTTTTTATTTCCAAAATATTAAATTTTTCATCTCGAGGAT
*
680467 ACTCTAATCCCGTTATTTT-GAG-GAAATAC
130 ACTCCAA-CCCGTTATTTTCGAGAG-AATAC
* * * *
680496 TCCAACCTCA-TTTTATTTCTAAAATATTAAATTTTTCATC-TCGGGGATACTCTAATCCCGTTA
1 TCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCATCGGGGATACTCCAACCCCGTTA
* *
680559 TTTCTGAGAGGATACTCCAACCCCATCTTTATTTCCAAAATATTAAATTTTTCATCTCTGA-GAT
66 TTTCTGAGAGGATACTCCAACCCCGTTTTTATTTCCAAAATATTAAATTTTTCATCTC-GAGGAT
* *
680623 ACTCTAACCTCGTTATTTTCGAGAGTATAC
130 ACTCCAACC-CGTTATTTTCGAGAGAATAC
* *
680653 TCCAACCCTATTTTTATTTCCAAAATATTAAATTTTTAATCAT-GGGGATACTCCAACCCCGTTA
1 TCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCATCGGGGATACTCCAACCCCGTTA
* * * * *** *
680717 TTTTTTAGGGGATACTTCAACCATTTTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATA
66 TTTCTGAGAGGATACTCCAACCCCGTTTTTATTTCCAAAATATTAAATTTTTCATCTCGAGGATA
*
680782 CTCCAACCCTGTTA-TTTCTGAGAGGATAC
131 CTCCAACCC-GTTATTTTC-GAGAGAATAC
* * ** * * ** *
680811 TCTAACCCCGTTTTTATTTCCAAAATA-TCGATTTTTCATTATCGGAGATACTCCAACCCTATCA
1 TCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCATCGGGGATACTCCAACCCCGTTA
* * * * * *
680875 TTTCTGAGAGGATCCTCTAACTCTGTTTTCACTTCCAAAATATTAAATTTTTTCATCTCGAGGAT
66 TTTCTGAGAGGATACTCCAACCCCGTTTTTATTTCCAAAATATTAAA-TTTTTCATCTCGAGGAT
680940 ACTCCAACCC
130 ACTCCAACCC
680950 CGATTTTTAC
Statistics
Matches: 385, Mismatches: 56, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
155 2 0.01
156 113 0.29
157 44 0.11
158 199 0.52
159 27 0.07
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.39
Consensus pattern (158 bp):
TCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCATCGGGGATACTCCAACCCCGTTA
TTTCTGAGAGGATACTCCAACCCCGTTTTTATTTCCAAAATATTAAATTTTTCATCTCGAGGATA
CTCCAACCCGTTATTTTCGAGAGAATAC
Found at i:680861 original size:237 final size:234
Alignment explanation
Indices: 680339--680951 Score: 747
Period size: 237 Copynumber: 2.6 Consensus size: 234
680329 TTTTCATCTA
*
680339 TCCAACCCCATTTTTATTTTCAAAATATTAAATTTTTCATATCGG-GAATACTCTAACCCCGTTA
1 TCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATATCGGAG-ATACTCTAA-CCCGTTA
* ** **
680403 TTTTCGAGGGGATACTTCTGTCCC-GTTTTTATTTTTAAAATATTAAA-TTTTACATCTCGAGGA
64 TTTTCGAGAGGATAC-TCTAACCCTGTTTTTATTTCCAAAATATTAAATTTTTA-ATCTCGAGGA
* * *
680466 TACTCTAATCCCGTTATTTTGAGGAAATACTCCAACCTCATTTTATTTCTAAAATATTAAATTTT
127 TACTCCAACCCCGTTATTTTGAGGAAATACTCCAACCTCATTTTATTTCCAAAATATTAAATTTT
*
680531 TCATCTCGGGGATACTCTAATCCCGTTATTTCTGAGAGGATAC
192 TCATCTCGGGGATACTCCAATCCCGTTATTTCTGAGAGGATAC
* * *
680574 TCCAACCCCATCTTTATTTCCAAAATATTAAATTTTTCATCTCTGAGATACTCTAACCTCGTTAT
1 TCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATATCGGAGATACTCTAACC-CGTTAT
* * * *
680639 TTTCGAGAGTATACTCCAACCCTATTTTTATTTCCAAAATATTAAATTTTTAATCAT-GGGGATA
65 TTTCGAGAGGATACTCTAACCCTGTTTTTATTTCCAAAATATTAAATTTTTAATC-TCGAGGATA
* ** * **
680703 CTCCAACCCCGTTATTTTTTAGGGGATACTTCAACCATTTTTTTATTTCCAAAATATTAAATTTT
129 CTCCAACCCCGTTA-TTTTGAGGAAATACTCCAACC-TCATTTTATTTCCAAAATATTAAATTTT
680768 TCATCTCGGGGATACTCCAA-CCCTGTTATTTCTGAGAGGATAC
192 TCATCTCGGGGATACTCCAATCCC-GTTATTTCTGAGAGGATAC
* * ** *
680811 TCTAACCCCGTTTTTATTTCCAAAATA-TCGATTTTTCATTATCGGAGATACTCCAACCC--TAT
1 TCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCA-TATCGGAGATACTCTAACCCGTTAT
* * * * *
680873 CATTTCTGAGAGGATCCTCTAACTCTGTTTTCACTTCCAAAATATTAAATTTTTTCATCTCGAGG
65 --TTTC-GAGAGGATACTCTAACCCTGTTTTTATTTCCAAAATATTAAA-TTTTTAATCTCGAGG
680938 ATACTCCAACCCCG
126 ATACTCCAACCCCG
680952 ATTTTTACCA
Statistics
Matches: 324, Mismatches: 40, Indels: 25
0.83 0.10 0.06
Matches are distributed among these distances:
234 10 0.03
235 109 0.34
236 41 0.13
237 139 0.43
238 25 0.08
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (234 bp):
TCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATATCGGAGATACTCTAACCCGTTATT
TTCGAGAGGATACTCTAACCCTGTTTTTATTTCCAAAATATTAAATTTTTAATCTCGAGGATACT
CCAACCCCGTTATTTTGAGGAAATACTCCAACCTCATTTTATTTCCAAAATATTAAATTTTTCAT
CTCGGGGATACTCCAATCCCGTTATTTCTGAGAGGATAC
Found at i:683152 original size:2 final size:2
Alignment explanation
Indices: 683145--683197 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
683135 GGCTTGCATC
683145 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
683187 AT AT AT AT AT A
1 AT AT AT AT AT A
683198 AAATAGCAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:683365 original size:35 final size:36
Alignment explanation
Indices: 683322--683394 Score: 94
Period size: 36 Copynumber: 1.9 Consensus size: 36
683312 TTAAGTTAAA
683322 TTAATTAATTATATATAAATTATAAAG-TAAATTATTTTC
1 TTAATTAA-T-TA-ATAAATTA-AAAGTTAAATTATTTTC
*
683361 TTAATTAATTAATAATTTAAAAGTTAAATTATTT
1 TTAATTAATTAATAAATTAAAAGTTAAATTATTT
683395 AATTAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
35 4 0.12
36 17 0.53
37 2 0.06
38 1 0.03
39 8 0.25
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (36 bp):
TTAATTAATTAATAAATTAAAAGTTAAATTATTTTC
Found at i:683409 original size:31 final size:32
Alignment explanation
Indices: 683307--683411 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 32
683297 ATAAATTAAT
* * *
683307 TAATTT-T-AAGTTAAATTAATTAATTATATA
1 TAATTTATAAAGTTAAATTATTTAATTAAAAA
* *
683337 TAAATTATAAAG-TAAATTATTTTCTTAATTAATTAA
1 TAATTTATAAAGTTAAATTA---T-TTAATTAA-AAA
683373 TAATTTA-AAAGTTAAATTATTTAATTAAAAA
1 TAATTTATAAAGTTAAATTATTTAATTAAAAA
683404 TAATTTAT
1 TAATTTAT
683412 TTAATTTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
30 5 0.08
31 17 0.29
32 11 0.19
33 1 0.02
35 11 0.19
36 14 0.24
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
TAATTTATAAAGTTAAATTATTTAATTAAAAA
Found at i:683850 original size:18 final size:18
Alignment explanation
Indices: 683813--683854 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
683803 CACAAAACAG
**
683813 AAGATAATTACAAATTTA
1 AAGATAATTACAAAAGTA
*
683831 AAGATAATTATAAAAGTA
1 AAGATAATTACAAAAGTA
683849 AA-ATAA
1 AAGATAA
683855 CAAATAAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
AAGATAATTACAAAAGTA
Found at i:687677 original size:16 final size:16
Alignment explanation
Indices: 687617--687678 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 16
687607 AAATATTACG
* *
687617 TTTAAATTTGATTAATT
1 TTTAAATTT-AATATTT
*
687634 TTTAAA-ATAAT-TTT
1 TTTAAATTTAATATTT
687648 TTTAAAATTT--TATTT
1 TTT-AAATTTAATATTT
687663 TTTAAATTTAATATTT
1 TTTAAATTTAATATTT
687679 ATATCTAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
14 12 0.33
15 11 0.31
16 7 0.19
17 6 0.17
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTAAATTTAATATTT
Found at i:693187 original size:3 final size:3
Alignment explanation
Indices: 693179--693213 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
693169 AATTTACAAG
693179 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
693214 ATTTTTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:693850 original size:16 final size:17
Alignment explanation
Indices: 693829--693861 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
693819 TTATATTTTT
693829 AATT-AATTTTAATAAA
1 AATTAAATTTTAATAAA
*
693845 AATTAAATTTTATTAAA
1 AATTAAATTTTAATAAA
693862 TAATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTAAATTTTAATAAA
Found at i:695119 original size:101 final size:100
Alignment explanation
Indices: 694945--695148 Score: 338
Period size: 101 Copynumber: 2.0 Consensus size: 100
694935 CTCCTTTTTT
694945 TTTTCTTTTTTAATTTTTTTCTTTCTCTCCCAACTTAGTACTATCAATTAAAAAATTGACATCTA
1 TTTTCTTTTTTAATTTTTTTCTTTCTCTCCCAACTTAGTACTATCAATTAAAAAATTGACATCTA
* *
695010 TCAACATATTAGGAATTTGTGCAGTTAAAAATAAA
66 TCAACATATTAAGAATTTGTGCAATTAAAAATAAA
* *
695045 TTTTCTTTTTGTAATTTTTTTCTTTCTCTCCTAACTTAGTACTATCAATTAAAAAATTGACATGT
1 TTTTCTTTTT-TAATTTTTTTCTTTCTCTCCCAACTTAGTACTATCAATTAAAAAATTGACATCT
*
695110 AT-AGACATATTAAGAATTTGTGTAATTAAAAATAAA
65 ATCA-ACATATTAAGAATTTGTGCAATTAAAAATAAA
695146 TTT
1 TTT
695149 ATGTTAGATT
Statistics
Matches: 97, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
100 11 0.11
101 86 0.89
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (100 bp):
TTTTCTTTTTTAATTTTTTTCTTTCTCTCCCAACTTAGTACTATCAATTAAAAAATTGACATCTA
TCAACATATTAAGAATTTGTGCAATTAAAAATAAA
Found at i:695606 original size:2 final size:2
Alignment explanation
Indices: 695599--695631 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
695589 GAATTAGCAC
695599 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
695632 ATTTTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:698496 original size:32 final size:32
Alignment explanation
Indices: 698455--698515 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
698445 AAGACTTCTA
698455 AAATTCTACCCCCAAC-ACGACTTCATCATTTT
1 AAATTCTACCCCCAACGAC-ACTTCATCATTTT
698487 AAATTCTACCCCCAACGACACTTCATCAT
1 AAATTCTACCCCCAACGACACTTCATCAT
698516 AGTTATCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.28
Consensus pattern (32 bp):
AAATTCTACCCCCAACGACACTTCATCATTTT
Found at i:702154 original size:30 final size:30
Alignment explanation
Indices: 702120--702180 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
702110 TCCTGTCTTG
702120 ATAAATCTTAATTATTACCCTTTTCTTTCA
1 ATAAATCTTAATTATTACCCTTTTCTTTCA
*
702150 ATAAATCTTAATTATTACTCTTTTCTTTCA
1 ATAAATCTTAATTATTACCCTTTTCTTTCA
702180 A
1 A
702181 CTATGTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (30 bp):
ATAAATCTTAATTATTACCCTTTTCTTTCA
Found at i:702507 original size:2 final size:2
Alignment explanation
Indices: 702500--702526 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
702490 CATAAGCCTT
702500 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 T
702527 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:702531 original size:2 final size:2
Alignment explanation
Indices: 702526--702556 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
702516 TCTCTCTCTC
702526 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 T
702557 TATTTTTAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:703615 original size:2 final size:2
Alignment explanation
Indices: 703608--703634 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
703598 AAATGATACG
703608 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
703635 GATGATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:704689 original size:2 final size:2
Alignment explanation
Indices: 704682--704715 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
704672 TAATTATTTT
704682 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
704716 TATCTACAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:708121 original size:13 final size:13
Alignment explanation
Indices: 708103--708127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
708093 AGATTGCACA
708103 GTATCGATACATT
1 GTATCGATACATT
708116 GTATCGATACAT
1 GTATCGATACAT
708128 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:708140 original size:20 final size:20
Alignment explanation
Indices: 708115--708166 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
708105 ATCGATACAT
*
708115 TGTATCGATACATG-ACCAAA
1 TGTATCGATACATGTA-AAAA
*
708135 TGTATCGATACTTGTAAAAA
1 TGTATCGATACATGTAAAAA
708155 TGTATCGATACA
1 TGTATCGATACA
708167 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGTAAAAA
Found at i:708259 original size:33 final size:32
Alignment explanation
Indices: 708197--708260 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
708187 CTTAACTGTT
* * *
708197 TGTATCGATACACACAAGATGTATTGATACAA
1 TGTATCGACACACACAAAATGTATCGATACAA
*
708229 TGTATCGACACATCCCAAAATGTATCGATACA
1 TGTATCGACACA-CACAAAATGTATCGATACA
708261 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGACACACACAAAATGTATCGATACAA
Found at i:717163 original size:20 final size:19
Alignment explanation
Indices: 717138--717208 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
717128 AGACATAATG
717138 TATCGATACATTGAAGAATA
1 TATCGATACATTGAA-AATA
* * *
717158 TATCGATACATTCATACATT
1 TATCGATACATTGA-AAATA
* *
717178 TATCGATATATTGAAAAATG
1 TATCGATACATTG-AAAATA
717198 TATCGATACAT
1 TATCGATACAT
717209 CTGGGTAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 39 0.95
21 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (19 bp):
TATCGATACATTGAAAATA
Found at i:718367 original size:59 final size:59
Alignment explanation
Indices: 718005--718899 Score: 1244
Period size: 59 Copynumber: 15.2 Consensus size: 59
717995 AGTGTATCCT
* ** * *
718005 GCTCTTTGAGGACTAAAAACTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * *
718060 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCC
* ** * *
718121 GCTCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCA
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
** * *
718176 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGAGTCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * * *
718231 GCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCC
718292 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
718351 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
718410 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * *
718469 GCTCTTTGAGGACTGAAGGTGCCACCAACTTTTGTGGGCTTTAAAAGAAAAAGCGTACC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
718528 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTACC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
718587 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
718646 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
718705 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCTC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
** *
718764 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
** * * * *
718824 GCTCTTTGAGGACTGGAAAATGCCACCGACTTGTGGGGGCTTTTAAAAGGAAAAGGCATCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGC-TTTAAAA-GAAAAGGCGTCCC
718886 GCTCTTTGAGGACT
1 GCTCTTTGAGGACT
718900 AAAAAATGGA
Statistics
Matches: 776, Mismatches: 46, Indels: 29
0.91 0.05 0.03
Matches are distributed among these distances:
54 1 0.00
55 133 0.17
56 2 0.00
59 428 0.55
60 108 0.14
61 78 0.10
62 26 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (59 bp):
GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
Found at i:732601 original size:51 final size:50
Alignment explanation
Indices: 732386--732612 Score: 213
Period size: 52 Copynumber: 4.4 Consensus size: 50
732376 AGAGAAAAAC
* * * *
732386 ATCGGGATTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTTGGAAATAAA
1 ATCGGG-TTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTGGAAATAAA
* * * *
732438 ATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAA
1 ATCGG-GTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGGAAATAAA
* * *
732490 A-CTGGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGTAATAAA
1 ATC-GGG-TTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGGAAATAAA
* * * * *
732542 ACCGGGGTTGGAGTATCCCTGATTATGAAAAATCAATATTTTGGAAATAAA
1 ATC-GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAA
*
732593 GTCAGGGTTGGAGTATCCCC
1 ATC-GGGTTGGAGTATCCCC
732613 TTGGAAATAA
Statistics
Matches: 144, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
51 38 0.26
52 90 0.62
53 16 0.11
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (50 bp):
ATCGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAA
Found at i:735109 original size:13 final size:13
Alignment explanation
Indices: 735091--735116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
735081 ACAAAGATCC
735091 ATGTATCGATACA
1 ATGTATCGATACA
735104 ATGTATCGATACA
1 ATGTATCGATACA
735117 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:735112 original size:33 final size:33
Alignment explanation
Indices: 735070--735136 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
735060 AAAATTTCTA
***
735070 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
735103 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
735136 A
1 A
735137 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:735180 original size:19 final size:18
Alignment explanation
Indices: 735156--735223 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
735146 CAGTAGCTAA
735156 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
735175 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
735190 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
735207 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
735224 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:735196 original size:13 final size:13
Alignment explanation
Indices: 735178--735202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
735168 ACAATACTTA
735178 TGTATCGATACAT
1 TGTATCGATACAT
735191 TGTATCGATACA
1 TGTATCGATACA
735203 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:735200 original size:32 final size:32
Alignment explanation
Indices: 735159--735221 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
735149 TAGCTAATTA
*
735159 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
735191 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
735222 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:740088 original size:20 final size:20
Alignment explanation
Indices: 740037--740111 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
740027 AAAAAGACAT
*
740037 AATGTATCGATACATTGA-A
1 AATGTATCGATACATTCATA
* *
740056 GAATATATTGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
740077 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
740097 AATGTATCGATACAT
1 AATGTATCGATACAT
740112 CTGGGTAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:740094 original size:40 final size:39
Alignment explanation
Indices: 740034--740111 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
740024 GGTAAAAAGA
* *
740034 CATAATGTATCGATACATTGAAGAATATATTGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
740073 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
740112 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:740820 original size:13 final size:13
Alignment explanation
Indices: 740802--740826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
740792 CAGCATTCTC
740802 TGTATCGATACAT
1 TGTATCGATACAT
740815 TGTATCGATACA
1 TGTATCGATACA
740827 AAGGGTTTAT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:741293 original size:20 final size:21
Alignment explanation
Indices: 741261--741312 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
741251 CCTCTAGGCA
*
741261 GCACCCACCAGGTCGCGACC-G
1 GCACCC-CCAGGTCGCAACCGG
741282 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACCGG
741303 GCAGCCCCCA
1 GCA-CCCCCA
741313 CACTAGCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.43
21 10 0.36
22 6 0.21
ACGTcount: A:0.19, C:0.50, G:0.27, T:0.04
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCGG
Found at i:742714 original size:22 final size:22
Alignment explanation
Indices: 742689--742733 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
742679 AATTATTGTT
742689 AAATTGCCTT-ATTAAGGGGGAG
1 AAATT-CCTTGATTAAGGGGGAG
**
742711 AAATTTTTTGATTAAGGGGGAG
1 AAATTCCTTGATTAAGGGGGAG
742733 A
1 A
742734 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.31
Consensus pattern (22 bp):
AAATTCCTTGATTAAGGGGGAG
Found at i:743307 original size:13 final size:13
Alignment explanation
Indices: 743289--743313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
743279 AGATTGCACA
743289 GTATCGATACATT
1 GTATCGATACATT
743302 GTATCGATACAT
1 GTATCGATACAT
743314 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:743326 original size:20 final size:21
Alignment explanation
Indices: 743301--743353 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
743291 ATCGATACAT
*
743301 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
743321 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
743342 TGTATCGATACA
1 TGTATCGATACA
743354 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:748294 original size:20 final size:21
Alignment explanation
Indices: 748247--748299 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
748237 GCCAATCACC
*
748247 TGTATCGATACATTCTTTGTA
1 TGTATCGATACATTCTTGGTA
*
748268 AGTATCGATACA-T-TTGGTCA
1 TGTATCGATACATTCTTGGT-A
748288 TGTATCGATACA
1 TGTATCGATACA
748300 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTTGGTA
Found at i:748305 original size:13 final size:13
Alignment explanation
Indices: 748287--748311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
748277 ACATTTGGTC
748287 ATGTATCGATACA
1 ATGTATCGATACA
748300 ATGTATCGATAC
1 ATGTATCGATAC
748312 TGTGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:753531 original size:11 final size:10
Alignment explanation
Indices: 753514--753543 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
753504 CACCCAATCC
753514 TAAAAAAAAA
1 TAAAAAAAAA
753524 TCAAAAAAAAA
1 T-AAAAAAAAA
753535 TAAAAAAAA
1 TAAAAAAAA
753544 CCTTTTCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:754845 original size:137 final size:136
Alignment explanation
Indices: 754559--755041 Score: 718
Period size: 137 Copynumber: 3.5 Consensus size: 136
754549 ACTATGACCT
754559 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
* *
754624 CCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTCTTAAGTCCACAAGTCC
64 CCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
*
754689 GTGGCATC
129 GTGGCACC
* * *
754697 CTTTTAAGTCCACGACTCCGTGGCACCCTTTTAAGTCCACGACTCCGCGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
754762 ACGAATTC-CTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCC
66 AC-AACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCC
754826 GTGGCACC
129 GTGGCACC
*
754834 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * * *
754899 ATAACTCTGTGGCATCTCTTTT-AAGTCCACAACTCTGTGGCACCTTTTTAAAGTCCACAACTCC
66 ACAACTCTGTGGCA-CCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCC
*
754963 GTGGCACT
129 GTGGCACC
* ** *
754971 CTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAGTTTACAACTTCGTGGCACCCTTTTTAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGT
755036 CCACAA
64 CCACAA
755042 GGTGGTGGCA
Statistics
Matches: 313, Mismatches: 25, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
136 58 0.19
137 160 0.51
138 82 0.26
139 13 0.04
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (136 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
GGCACC
Found at i:755051 original size:28 final size:27
Alignment explanation
Indices: 754559--755041 Score: 698
Period size: 27 Copynumber: 17.6 Consensus size: 27
754549 ACTATGACCT
754559 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
754586 CTTTTAAAGTCCACAACTCCGTGGCATCC
1 CTTTT-AAGTCCACAACTCCGTGGCA-CC
*
754615 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
754642 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* * *
754670 CTCTTAAGTCCACAAGTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
754697 CTTTTAAGTCCACGACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
754724 CTTTTAAGTCCACGACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
754751 CTTTTAAGTCCACGAATTCC-TGGCACC
1 CTTTTAAGTCCAC-AACTCCGTGGCACC
754778 CTTTTAAAGTCCACAACTCCGTGGCATCC
1 CTTTT-AAGTCCACAACTCCGTGGCA-CC
754807 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
754834 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
754861 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
754888 CTTTTAAGTCCATAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
754916 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
754943 TTTTTAAAGTCCACAACTCCGTGGCACT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
754971 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
** *
754999 CTTTTAAGTTTACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
755026 CTTTTTAAGTCCACAA
1 C-TTTTAAGTCCACAA
755042 GGTGGTGGCA
Statistics
Matches: 415, Mismatches: 31, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
27 213 0.51
28 188 0.45
29 14 0.03
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:755127 original size:28 final size:28
Alignment explanation
Indices: 754771--755269 Score: 241
Period size: 28 Copynumber: 17.8 Consensus size: 28
754761 CACGAATTCC
* * * **
754771 TGGCACCCTTTTAAAGTCCACAACTCCG
1 TGGCACCTTTTTAAAGCCCACAAGTTAG
* * * **
754799 TGGCATCCCTTTT-AAGTCCACAACTCCG
1 TGGCA-CCTTTTTAAAGCCCACAAGTTAG
* * * **
754827 TGGCACCCTTTT-AAGTCCACAACTCCG
1 TGGCACCTTTTTAAAGCCCACAAGTTAG
* * *
754854 TGGCACCCTTTT-AAGTCCACAACTCT-G
1 TGGCACCTTTTTAAAGCCCACAAGT-TAG
* * * *
754881 TGGCACCCTTTT-AAGTCCATAACTCT-G
1 TGGCACCTTTTTAAAGCCCACAAGT-TAG
* * *
754908 TGGCATCTCTTTT-AAGTCCACAACTCT-G
1 TGGCACCT-TTTTAAAGCCCACAAGT-TAG
* * **
754936 TGGCACCTTTTTAAAGTCCACAACTCCG
1 TGGCACCTTTTTAAAGCCCACAAGTTAG
* *
754964 TGGCA-CTCTTTTAAAGTCCACAACTCT-G
1 TGGCACCT-TTTTAAAGCCCACAAGT-TAG
* *** * *
754992 TGGCACCCTTTT-AAGTTTACAACTTCG
1 TGGCACCTTTTTAAAGCCCACAAGTTAG
* * *
755019 TGGCACCCTTTTT-AAGTCCACAAGGTGG
1 TGGCA-CCTTTTTAAAGCCCACAAGTTAG
* *
755047 TGGCATTCCCTTCTAAAGCCCACAAGTTAG
1 TGGCA--CCTTTTTAAAGCCCACAAGTTAG
* *
755077 TGGCACCATTTTCAAAGCTCACAAGTTAG
1 TGGCACC-TTTTTAAAGCCCACAAGTTAG
* *
755106 TGGCATCTTTTTAAAGCCCACAAGTCAG
1 TGGCACCTTTTTAAAGCCCACAAGTTAG
* * *
755134 TGGCATCTTTTCAAAGTCCACACAAGTTGG
1 TGGCACCTTTTTAAAG-CC-CACAAGTTAG
* * *
755164 TGGCATCTTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTTAAAGCCCACAAGTTAG
* *
755192 TGGCATCC-TTTCAAAGCCCACAAGTCAG
1 TGGCA-CCTTTTTAAAGCCCACAAGTTAG
* ** *
755220 TGGCACCATTTCGAAGCCCACAAGTCAG
1 TGGCACCTTTTTAAAGCCCACAAGTTAG
* *
755248 TGGCACCATTTCAAAGCCCACA
1 TGGCACCTTTTTAAAGCCCACA
755270 CAAGTCGGTG
Statistics
Matches: 415, Mismatches: 39, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
26 1 0.00
27 103 0.25
28 229 0.55
29 41 0.10
30 41 0.10
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (28 bp):
TGGCACCTTTTTAAAGCCCACAAGTTAG
Found at i:755294 original size:32 final size:32
Alignment explanation
Indices: 755142--755614 Score: 539
Period size: 32 Copynumber: 15.2 Consensus size: 32
755132 AGTGGCATCT
* * * *
755142 TTTCAAAGTCCACACAAGTTGGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
755172 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
755200 TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
755228 TTTCGAAG-CC-CACAAGTCAGTGGC-A-CCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
755256 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
755288 TTTCAAAGCCCACATAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
755320 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
755352 TTTCAAAGCCCACACAAGTCGGTGGCTACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
755384 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
755416 TTTCAAAGCCCACACAAGTCGGTGGTAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
755448 TTTCAAAGCCCACACAAGTCGATGGCAATCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
755480 TTTCAAAGCCCACACAAGTTGGTGGCAACCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * * *
755511 TTTGCAAAGCCCATACAAATTGATGGGAACCTC-
1 TTT-CAAAGCCCACACAAGTCGGTGGCAACC-CA
* ** *
755544 TTTCAAAAGTCCACAC-TTTCGGTGGCAACCCT
1 TTTC-AAAGCCCACACAAGTCGGTGGCAACCCA
* * * *
755576 TTTAAAAGCCCACGCAAGTCAGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
755608 TTTCAAA
1 TTTCAAA
755615 TCACCATTTT
Statistics
Matches: 395, Mismatches: 37, Indels: 20
0.87 0.08 0.04
Matches are distributed among these distances:
27 2 0.01
28 72 0.18
29 5 0.01
30 21 0.05
31 14 0.04
32 268 0.68
33 13 0.03
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
Found at i:760198 original size:12 final size:12
Alignment explanation
Indices: 760181--760210 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
760171 ACATGTAAAA
760181 TGAACTACAAAG
1 TGAACTACAAAG
760193 TGAACTACAAAG
1 TGAACTACAAAG
*
760205 TTAACT
1 TGAACT
760211 TGGTGATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (12 bp):
TGAACTACAAAG
Found at i:760394 original size:20 final size:20
Alignment explanation
Indices: 760371--760409 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
760361 TTTTATACTC
* *
760371 ATTTTATATTTATTTTTTAT
1 ATTTTATAATTAATTTTTAT
*
760391 ATTTTTTAATTAATTTTTA
1 ATTTTATAATTAATTTTTA
760410 ATGTTGCGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTATAATTAATTTTTAT
Found at i:761312 original size:18 final size:18
Alignment explanation
Indices: 761285--761327 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
761275 TTAACTTCAA
*
761285 ATTT-AATTACTATAAAAT
1 ATTTAAATTAC-AAAAAAT
761303 -TTTAAATTACAAAAAAT
1 ATTTAAATTACAAAAAAT
761320 ATTTAAAT
1 ATTTAAAT
761328 AAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAAATTACAAAAAAT
Found at i:761436 original size:17 final size:17
Alignment explanation
Indices: 761416--761449 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
761406 CTCCTGGGAG
761416 TAAAATTCTAGTTAGAT
1 TAAAATTCTAGTTAGAT
761433 TAAAATTCTAGTTAGAT
1 TAAAATTCTAGTTAGAT
761450 CTAATTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
TAAAATTCTAGTTAGAT
Found at i:761535 original size:14 final size:15
Alignment explanation
Indices: 761516--761546 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
761506 TAAAAATATA
761516 TTTATAT-TTTTTAT
1 TTTATATATTTTTAT
761530 TTTATATATTTTTAT
1 TTTATATATTTTTAT
761545 TT
1 TT
761547 ATTGGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATATATTTTTAT
Found at i:761547 original size:14 final size:13
Alignment explanation
Indices: 761514--761548 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
761504 TTTAAAAATA
761514 TATTTATATTTTT
1 TATTTATATTTTT
761527 TATTTTATATATTTT
1 TA-TTTATAT-TTTT
761542 TATTTAT
1 TATTTAT
761549 TGGTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 12 0.60
15 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTTATATTTTT
Found at i:761577 original size:2 final size:2
Alignment explanation
Indices: 761572--761600 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
761562 GTATACATGT
761572 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 T
761601 GTTTTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:761737 original size:20 final size:20
Alignment explanation
Indices: 761697--761741 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
761687 ATGTAATTTT
*
761697 TATTATTTGTATTATAAATA
1 TATTATTTGAATTATAAATA
761717 TATTATTTGAATT-TAACATA
1 TATTATTTGAATTATAA-ATA
761737 T-TTAT
1 TATTAT
761742 CTTAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TATTATTTGAATTATAAATA
Found at i:761879 original size:22 final size:22
Alignment explanation
Indices: 761854--761913 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
761844 AATAATTTTT
*
761854 TTATAAATAAAATTATAAAGTA
1 TTATAAATAAATTTATAAAGTA
* * *
761876 TTATAAATTAATTTAAAAATTA
1 TTATAAATAAATTTATAAAGTA
761898 TTA-AAA-AAATTTATAA
1 TTATAAATAAATTTATAA
761914 TTATAATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 8 0.25
21 3 0.09
22 21 0.66
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TTATAAATAAATTTATAAAGTA
Found at i:761969 original size:19 final size:17
Alignment explanation
Indices: 761944--761996 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 17
761934 TTTTTAAATA
761944 AATTATAAAAAAATTTT
1 AATTATAAAAAAATTTT
* *
761961 ACGATTATAATAAATATTAT
1 A--ATTATAA-AAAAATTTT
*
761981 AATTATAATAAAATTT
1 AATTATAAAAAAATTT
761997 ATTATATTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
17 6 0.21
18 7 0.25
19 7 0.25
20 8 0.29
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AATTATAAAAAAATTTT
Found at i:761998 original size:18 final size:18
Alignment explanation
Indices: 761944--761998 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
761934 TTTTTAAATA
*
761944 AATTATAAAAAAATTT-T
1 AATTATAATAAAATTTAT
761961 ACGATTATAAT-AAATATTAT
1 A--ATTATAATAAAAT-TTAT
761981 AATTATAATAAAATTTAT
1 AATTATAATAAAATTTAT
761999 TATATTCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
17 1 0.03
18 16 0.50
19 13 0.41
20 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
AATTATAATAAAATTTAT
Found at i:762957 original size:2 final size:2
Alignment explanation
Indices: 762950--762978 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
762940 TAACAAAATC
762950 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
762979 AATAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:764492 original size:101 final size:101
Alignment explanation
Indices: 764339--764550 Score: 327
Period size: 101 Copynumber: 2.1 Consensus size: 101
764329 ATATACTTAG
* *
764339 AGTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTGGTGAATAATCGTCAACAATAATG
1 AGTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTGGTGAAGAATCGTCAACAATAACG
*
764404 GCCACCTCTCTCCATTTGTCAAAGGTTGGTGAAGAAT
66 ACCACCTCTCTCCA-TTGTCAAAGGTTGGTGAAGAAT
* * * *
764441 CGTCAACAATTATGGCCACCTCTCTCTA-TTGTCAAAGGTTGGTGAAGAATCGTCAACAATTACG
1 AGTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTGGTGAAGAATCGTCAACAATAACG
* *
764505 ACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGGAT
66 ACCACCTCTCTCCATTGTCAAAGGTTGGTGAAGAAT
764541 AGTCAACAAT
1 AGTCAACAAT
764551 GGCAACAACT
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 30 0.30
101 45 0.45
102 25 0.25
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (101 bp):
AGTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTGGTGAAGAATCGTCAACAATAACG
ACCACCTCTCTCCATTGTCAAAGGTTGGTGAAGAAT
Found at i:764494 original size:50 final size:51
Alignment explanation
Indices: 764340--764550 Score: 327
Period size: 50 Copynumber: 4.2 Consensus size: 51
764330 TATACTTAGA
*
764340 GTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTGGTGAATAATC
1 GTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTGGTGAAGAATC
764391 GTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTGGTGAAGAATC
* *
764442 GTCAACAATTATGGCCACCTCTCTCTA-TTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTGGTGAAGAATC
* * * * * *
764492 GTCAACAATTACGACCACCTCTCTCTA-TTGTCAAAGGTTGGTGAAGGATA
1 GTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTGGTGAAGAATC
764542 GTCAACAAT
1 GTCAACAAT
764551 GGCAACAACT
Statistics
Matches: 153, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
50 78 0.51
51 75 0.49
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (51 bp):
GTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTGGTGAAGAATC
Found at i:769092 original size:50 final size:50
Alignment explanation
Indices: 768966--769198 Score: 369
Period size: 50 Copynumber: 4.6 Consensus size: 50
768956 ATGGCCACAT
*
768966 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCCA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTA
*
769016 TTTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCCACCTCTCTCTA
1 -TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTA
769067 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTA
* * ***
769117 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATTACGATTACCTCTCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTA
*
769167 TTGTCAAAGGTTGGTGAATG-ATAGTCAACAAT
1 TTGTCAAAGGTTGGTGAA-GAATCGTCAACAAT
769199 GACAACAACT
Statistics
Matches: 172, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
50 123 0.72
51 49 0.28
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (50 bp):
TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTA
Found at i:772888 original size:18 final size:18
Alignment explanation
Indices: 772867--772902 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
772857 TTATTCACTT
772867 AAAAAAATTGCTTTCTTA
1 AAAAAAATTGCTTTCTTA
772885 AAAAAAATTGCTTTCTTA
1 AAAAAAATTGCTTTCTTA
772903 TTTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (18 bp):
AAAAAAATTGCTTTCTTA
Found at i:776594 original size:4 final size:4
Alignment explanation
Indices: 776585--776643 Score: 109
Period size: 4 Copynumber: 14.8 Consensus size: 4
776575 TCCGGTATGA
776585 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
*
776633 ATCT ACCT ATC
1 ATCT ATCT ATC
776644 AAGAACTGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.47
Consensus pattern (4 bp):
ATCT
Found at i:779151 original size:44 final size:44
Alignment explanation
Indices: 779088--779178 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
779078 TTTGAAACAG
*
779088 TAAATATGCAATTGAGTGGCTATGCTAATCCACGGAAAAATAAA
1 TAAATATGCAATTGAGTGGCTATGCCAATCCACGGAAAAATAAA
*
779132 TAAATATGCAATTGGGTGGCTATGCCAATCCACGGAAAAATAAA
1 TAAATATGCAATTGAGTGGCTATGCCAATCCACGGAAAAATAAA
779176 TAA
1 TAA
779179 TAAAAACACA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (44 bp):
TAAATATGCAATTGAGTGGCTATGCCAATCCACGGAAAAATAAA
Found at i:782062 original size:2 final size:2
Alignment explanation
Indices: 782055--782079 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
782045 ACTGTACATA
782055 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
782080 TTTTCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:782373 original size:17 final size:17
Alignment explanation
Indices: 782351--782385 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
782341 CATTGGAAAT
782351 AAATACAATGATAGTAC
1 AAATACAATGATAGTAC
782368 AAATACAATGATAGTAC
1 AAATACAATGATAGTAC
782385 A
1 A
782386 CACTAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (17 bp):
AAATACAATGATAGTAC
Found at i:783782 original size:2 final size:2
Alignment explanation
Indices: 783775--783808 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
783765 TTAAGGAATA
783775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
783809 TTTGTTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:784416 original size:54 final size:49
Alignment explanation
Indices: 784331--784440 Score: 116
Period size: 54 Copynumber: 2.1 Consensus size: 49
784321 CATAAAATAT
*
784331 TATTATTAAGATATCTTTTATAAATTATTAAATATATTAGCAAATATTTAAACA
1 TATTATTAAGATATCTGTTATAAATTATTAAATA-A-TA-CAAATATTT-AA-A
* *
784385 TATTATTAAGTATAT-TGTTA-AAATATTTTAAATAATATAAATATTTAAA
1 TATTATTAAG-ATATCTGTTATAAAT-TATTAAATAATACAAATATTTAAA
784434 TATTATT
1 TATTATT
784441 TTAAATAACT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
49 8 0.16
50 2 0.04
51 8 0.16
52 2 0.04
53 5 0.10
54 22 0.43
55 4 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (49 bp):
TATTATTAAGATATCTGTTATAAATTATTAAATAATACAAATATTTAAA
Found at i:784456 original size:30 final size:30
Alignment explanation
Indices: 784408--784464 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
784398 ATTGTTAAAA
784408 TATTTTAAATAATATAAATAT-TTAAATAT
1 TATTTTAAATAATATAAATATCTTAAATAT
784437 TATTTTAAATAACTATAAATATCTTAAA
1 TATTTTAAATAA-TATAAATATCTTAAA
784465 ATAATTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 12 0.46
30 9 0.35
31 5 0.19
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (30 bp):
TATTTTAAATAATATAAATATCTTAAATAT
Found at i:784560 original size:19 final size:21
Alignment explanation
Indices: 784515--784569 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
784505 TTTTAAAAAA
* *
784515 ATTATTAAGATATTAATATAT
1 ATTATTAACATATTAATATAG
784536 ATTATTAACAT-TTAA-ATAG
1 ATTATTAACATATTAATATAG
*
784555 ATTATTAAAATATTA
1 ATTATTAACATATTA
784570 TTTTTAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.43
20 7 0.23
21 10 0.33
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (21 bp):
ATTATTAACATATTAATATAG
Found at i:784584 original size:15 final size:14
Alignment explanation
Indices: 784559--784588 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
784549 AAATAGATTA
784559 TTAAAATATTATTT
1 TTAAAATATTATTT
784573 TTAAATATATTATTT
1 TTAAA-ATATTATTT
784588 T
1 T
784589 GATGTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTAAAATATTATTT
Found at i:785001 original size:21 final size:20
Alignment explanation
Indices: 784969--785008 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
784959 AGAAAGTAAA
784969 AAATAATAAAAAATTAAAAAG
1 AAATAAT-AAAAATTAAAAAG
784990 AAATACAT-AAAATTAAAAA
1 AAATA-ATAAAAATTAAAAA
785009 TATGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 5 0.28
22 2 0.11
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (20 bp):
AAATAATAAAAATTAAAAAG
Found at i:790582 original size:2 final size:2
Alignment explanation
Indices: 790571--790604 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
790561 ACTAAAAAAA
*
790571 TG TG TT TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
790605 AGAGAGAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:797394 original size:19 final size:18
Alignment explanation
Indices: 797370--797408 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
797360 TTAATTAACT
797370 ATTTA-TTATATACATATAA
1 ATTTATTTAT-TACAT-TAA
797389 ATTTATTTATTACATTAA
1 ATTTATTTATTACATTAA
797407 AT
1 AT
797409 AAATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 10 0.53
20 4 0.21
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTATTTATTACATTAA
Found at i:797472 original size:21 final size:19
Alignment explanation
Indices: 797431--797468 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
797421 TAGAATATTT
*
797431 AAGTAAAAATAAATTAATA
1 AAGTAAAAATAAAATAATA
797450 AAGTGAAAAATAAAATAAT
1 AAGT-AAAAATAAAATAAT
797469 TAAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (19 bp):
AAGTAAAAATAAAATAATA
Found at i:798380 original size:63 final size:64
Alignment explanation
Indices: 798303--798431 Score: 188
Period size: 63 Copynumber: 2.0 Consensus size: 64
798293 CATTATAATA
* *
798303 ATTAATTCAACTCACTATTATTTTTAATTTTA-TAAAAATCAATTTCATTATCCATTCAAAATT
1 ATTAATTCAACTCACTATTATTTTTAATTTTACTAAAAACCAATTTCATCATCCATTCAAAATT
* * * **
798366 ATTAATTTATCTCACTTTTATTTTTAATTTTACTAAAAACCGTTTTCATCATCCATTCAAAATT
1 ATTAATTCAACTCACTATTATTTTTAATTTTACTAAAAACCAATTTCATCATCCATTCAAAATT
798430 AT
1 AT
798432 CTCATGCATC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 29 0.50
64 29 0.50
ACGTcount: A:0.36, C:0.16, G:0.01, T:0.47
Consensus pattern (64 bp):
ATTAATTCAACTCACTATTATTTTTAATTTTACTAAAAACCAATTTCATCATCCATTCAAAATT
Found at i:799965 original size:14 final size:14
Alignment explanation
Indices: 799946--799977 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
799936 TAATTAAAAA
*
799946 TGAGAGAGAGAGAG
1 TGAGAGAGAGAGAC
799960 TGAGAGAGAGAGAC
1 TGAGAGAGAGAGAC
799974 TGAG
1 TGAG
799978 GAAACGAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.47, T:0.09
Consensus pattern (14 bp):
TGAGAGAGAGAGAC
Found at i:801059 original size:30 final size:33
Alignment explanation
Indices: 801007--801077 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 33
800997 ACATATATAT
* * *
801007 ATTTTTTATTTACATACATCA-TTATTTTTA-A
1 ATTTTTTATTTAAATACATCATTTAATTTAACA
801038 ATTTTTTA-TTAAAT-CAGTCATTTAATTTAACA
1 ATTTTTTATTTAAATACA-TCATTTAATTTAACA
801070 ATTTTTTA
1 ATTTTTTA
801078 AACATTTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 2 0.06
30 8 0.24
31 15 0.44
32 9 0.26
ACGTcount: A:0.34, C:0.08, G:0.01, T:0.56
Consensus pattern (33 bp):
ATTTTTTATTTAAATACATCATTTAATTTAACA
Found at i:806415 original size:12 final size:12
Alignment explanation
Indices: 806391--806491 Score: 86
Period size: 12 Copynumber: 8.3 Consensus size: 12
806381 AATATCTAAT
806391 TTTTTTCTCTTTC
1 TTTTTTCT-TTTC
806404 TTTTTTCTTTTC
1 TTTTTTCTTTTC
*
806416 TTATTTCTTTTC
1 TTTTTTCTTTTC
*
806428 -TTATT-TTTTC
1 TTTTTTCTTTTC
806438 TTTTTTCTCTTTC
1 TTTTTTCT-TTTC
806451 TTATTTT-TTCTT-
1 TT-TTTTCTT-TTC
*
806463 TTCTTTCATTTTC
1 TTTTTTC-TTTTC
806476 -TTTTTCTCTTTC
1 TTTTTTCT-TTTC
806488 TTTT
1 TTTT
806492 AATTTTTTAG
Statistics
Matches: 72, Mismatches: 6, Indels: 20
0.73 0.06 0.20
Matches are distributed among these distances:
10 5 0.07
11 11 0.15
12 30 0.42
13 22 0.31
14 4 0.06
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:806436 original size:28 final size:25
Alignment explanation
Indices: 806390--806491 Score: 92
Period size: 23 Copynumber: 4.2 Consensus size: 25
806380 GAATATCTAA
806390 TTTT-TTTCTCTTTC---TTTTTTC
1 TTTTCTTTCTCTTTCTTATTTTTTC
*
806411 TTTTCTTATTTCTTTTCTTATTTTTTC
1 TTTTCTT-TCTC-TTTCTTATTTTTTC
806438 -TTT-TTTCTCTTTCTTATTTTTTC
1 TTTTCTTTCTCTTTCTTATTTTTTC
*
806461 TTTTCTTTCAT-TTTCTTTTTCTCTTTC
1 TTTTCTTTC-TCTTTCTTATT-T-TTTC
806488 TTTT
1 TTTT
806492 AATTTTTTAG
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.06
22 2 0.03
23 17 0.25
24 10 0.15
25 14 0.21
26 5 0.07
27 15 0.22
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTCTTTCTCTTTCTTATTTTTTC
Found at i:806439 original size:22 final size:23
Alignment explanation
Indices: 806394--806462 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
806384 ATCTAATTTT
*
806394 TTTCTCTTTCTTTTTTCTTTTCTTA
1 TTTCTCTTTC-TTATT-TTTTCTTA
*
806419 TTTCT-TTTCTTATTTTTTCTTT
1 TTTCTCTTTCTTATTTTTTCTTA
806441 TTTCTCTTTCTTATTTTTTCTT
1 TTTCTCTTTCTTATTTTTTCTT
806463 TTCTTTCATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.29
23 20 0.49
24 4 0.10
25 5 0.12
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTCTCTTTCTTATTTTTTCTTA
Found at i:806474 original size:10 final size:9
Alignment explanation
Indices: 806390--806491 Score: 72
Period size: 9 Copynumber: 11.4 Consensus size: 9
806380 GAATATCTAA
806390 TTTT-TTTC
1 TTTTCTTTC
806398 TCTTTC-TT-
1 T-TTTCTTTC
806406 TTTTCTTT-
1 TTTTCTTTC
* *
806414 TCTTATTTC
1 TTTTCTTTC
*
806423 TTTTCTTATT
1 TTTTCTT-TC
806433 TTTTCTTT-
1 TTTTCTTTC
806441 TTTCTCTTTC
1 TTT-TCTTTC
*
806451 TTATTTTTTC
1 TT-TTCTTTC
806461 TTTTCTTTC
1 TTTTCTTTC
806470 ATTTTCTTT-
1 -TTTTCTTTC
*
806479 TTCTCTTTC
1 TTTTCTTTC
806488 TTTT
1 TTTT
806492 AATTTTTTAG
Statistics
Matches: 75, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
7 4 0.05
8 20 0.27
9 25 0.33
10 25 0.33
11 1 0.01
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:806480 original size:23 final size:22
Alignment explanation
Indices: 806390--806490 Score: 68
Period size: 25 Copynumber: 4.4 Consensus size: 22
806380 GAATATCTAA
806390 TTTT-TTTCTCTTTC-TTTTTTC
1 TTTTCTTTCT-TTTCTTTTTTTC
806411 TTTTCTTATTTCTTTTCTTATTTTT-
1 TTTTC---TTTCTTTTCTT-TTTTTC
806436 TCTTT-TTTCTCTTTCTTATTTTTTC
1 T-TTTCTTTCT-TTTC-T-TTTTTTC
*
806461 TTTTCTTTCATTTTCTTTTTCTC
1 TTTTCTTTC-TTTTCTTTTTTTC
806484 -TTTCTTT
1 TTTTCTTT
806491 TAATTTTTTA
Statistics
Matches: 66, Mismatches: 1, Indels: 25
0.72 0.01 0.27
Matches are distributed among these distances:
21 4 0.06
22 12 0.18
23 10 0.15
24 14 0.21
25 17 0.26
26 9 0.14
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTCTTTCTTTTCTTTTTTTC
Found at i:806496 original size:23 final size:21
Alignment explanation
Indices: 806411--806497 Score: 60
Period size: 20 Copynumber: 4.2 Consensus size: 21
806401 TTCTTTTTTC
806411 TTTTCTTATTTCTTTTC-TT-A
1 TTTTCTT-TTTCTTTTCTTTAA
*
806431 TTTT-TTCTTT-TTTCTCTTT-C
1 TTTTCTT-TTTCTTT-TCTTTAA
* *
806451 TTAT-TTTTTCTTTTCTTTCA
1 TTTTCTTTTTCTTTTCTTTAA
806471 TTTTCTTTTTCTCTTTCTTTTAA
1 TTTTCTTTTTCT-TTTC-TTTAA
806494 TTTT
1 TTTT
806498 TTAGTAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
18 3 0.06
19 15 0.28
20 17 0.31
21 7 0.13
22 4 0.07
23 8 0.15
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTCTTTTTCTTTTCTTTAA
Found at i:808471 original size:33 final size:32
Alignment explanation
Indices: 808408--808471 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
808398 TAGCCAAACT
*
808408 TGTATCGATACACAAAGTATGTATCAATACAA
1 TGTATCGATACACAAAATATGTATCAATACAA
*
808440 TGTATCGATACACCAAAA-ATTGTATCGATACA
1 TGTATCGATACA-CAAAATA-TGTATCAATACA
808472 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAATATGTATCAATACAA
Found at i:808536 original size:20 final size:22
Alignment explanation
Indices: 808505--808548 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
808495 GTTATATTTT
808505 CAAATATGTATCAATACA-TCA
1 CAAATATGTATCAATACATTCA
*
808526 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCAATACATTCA
808547 CA
1 CA
808549 CGAGAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCAATACATTCA
Found at i:814657 original size:13 final size:13
Alignment explanation
Indices: 814639--814677 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
814629 ACATCTTTCT
814639 TTGTATCGATACA
1 TTGTATCGATACA
*
814652 TTGTATTGATACA
1 TTGTATCGATACA
*
814665 CTGTATCGATACA
1 TTGTATCGATACA
814678 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:817203 original size:19 final size:20
Alignment explanation
Indices: 817178--817229 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
817168 GTAGCCAAAC
*
817178 TTGTATCGATACA-C-AAAG
1 TTGTATCGATACACCAAAAA
817196 TATGTATCGATACACCAAAAA
1 T-TGTATCGATACACCAAAAA
817217 TTGTATCGATACA
1 TTGTATCGATACA
817230 TTGCCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 12 0.40
20 13 0.43
21 4 0.13
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACCAAAAA
Found at i:817294 original size:20 final size:22
Alignment explanation
Indices: 817263--817306 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
817253 GTTATATTTT
817263 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
817284 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
817305 CA
1 CA
817307 CAGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:819904 original size:21 final size:21
Alignment explanation
Indices: 819878--819919 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
819868 TTTGGAAGCA
*
819878 ATTGTATTGATACAACATCAT
1 ATTGTATCGATACAACATCAT
*
819899 ATTGTATCGATACAATATCAT
1 ATTGTATCGATACAACATCAT
819920 GTTTTTCATG
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:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATTGTATCGATACAACATCAT
Found at i:821604 original size:20 final size:19
Alignment explanation
Indices: 821581--821665 Score: 50
Period size: 20 Copynumber: 4.3 Consensus size: 19
821571 AAATTTATAC
821581 ATTTTCATGCCATTTTAGTA
1 ATTTTCATG-CATTTTAGTA
**
821601 ATTTTTTCATG-A-TTTAGGG
1 A--TTTTCATGCATTTTAGTA
* *
821620 ATTTTTATGTCATTTCA-TA
1 ATTTTCATG-CATTTTAGTA
*
821639 TATTTTAATGGCATTTTAGTA
1 -ATTTTCAT-GCATTTTAGTA
821660 ATTTTC
1 ATTTTC
821666 TATGATTTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
17 7 0.15
19 7 0.15
20 23 0.48
21 3 0.06
22 8 0.17
ACGTcount: A:0.25, C:0.09, G:0.12, T:0.54
Consensus pattern (19 bp):
ATTTTCATGCATTTTAGTA
Found at i:821692 original size:29 final size:29
Alignment explanation
Indices: 821593--821692 Score: 75
Period size: 29 Copynumber: 3.4 Consensus size: 29
821583 TTTCATGCCA
* * *
821593 TTTTA-GTAATTTTTTCATGATTTAGGGAT
1 TTTTATGTAATTTTCT-ATGATTTAAGGAC
*
821622 TTTTATGTCA-TTTCATAT-ATTTTAATGG-C
1 TTTTATGTAATTTTC-TATGA-TTTAA-GGAC
821651 ATTTTA-GTAATTTTCTATGATTTAAGGAC
1 -TTTTATGTAATTTTCTATGATTTAAGGAC
*
821680 TTTTATGTTATTT
1 TTTTATGTAATTT
821693 CATGCACTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
28 8 0.14
29 32 0.57
30 16 0.29
ACGTcount: A:0.25, C:0.06, G:0.13, T:0.56
Consensus pattern (29 bp):
TTTTATGTAATTTTCTATGATTTAAGGAC
Found at i:821705 original size:58 final size:58
Alignment explanation
Indices: 821450--821734 Score: 220
Period size: 58 Copynumber: 4.9 Consensus size: 58
821440 TAGTTACTAG
* * * * * * *
821450 TATGCAATTTCATGCACTTTAAAGTTATTTTAATTATTTT-TCATGTTTTAAGGA-TTAT
1 TATGTAATTTCATGCATTTTAATGTCATTTTAGTAATTTTCT-ATGATTTAAGGACTT-T
* * * *
821508 TATGTAATTGT-ATGCATTTTAA-GATCATTTTAGTCATTTTCTATAATTTAGGGACTAT
1 TATGTAATT-TCATGCATTTTAATG-TCATTTTAGTAATTTTCTATGATTTAAGGACTTT
* * * * * * *
821566 TATGCAAATTT-ATACATTTTCATGCCATTTTAGTAATTTTTTCATGATTTAGGGATTTT
1 TATG-TAATTTCATGCATTTTAATGTCATTTTAGTAATTTTCT-ATGATTTAAGGACTTT
* ** *
821625 TATGTCATTTCATATATTTTAATGGCATTTTAGTAATTTTCTATGATTTAAGGACTTT
1 TATGTAATTTCATGCATTTTAATGTCATTTTAGTAATTTTCTATGATTTAAGGACTTT
* * * * * * *
821683 TATGTTATTTCATGCACTTTAATGTCGTTTTTGTAAATTCCAATGATTTAAG
1 TATGTAATTTCATGCATTTTAATGTCATTTTAGTAATTTTCTATGATTTAAG
821735 ACCATTTATG
Statistics
Matches: 183, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
57 1 0.01
58 130 0.71
59 52 0.28
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.50
Consensus pattern (58 bp):
TATGTAATTTCATGCATTTTAATGTCATTTTAGTAATTTTCTATGATTTAAGGACTTT
Found at i:821912 original size:57 final size:57
Alignment explanation
Indices: 821794--821912 Score: 134
Period size: 57 Copynumber: 2.1 Consensus size: 57
821784 GTCATTAGGT
* * *
821794 ATTTCCATGATCTAAAGATTTCTATGTAATTTTATGAATGTTCAGATTATTTAGGTA
1 ATTTTCATGATCTAAAGATTTCTATGTAATTTTATAAATGTTCAGATTATTTAAGTA
* * * * *
821851 ATTTTCATGATCTAAGGGCTTT-TATGTAATTTTATAAATTTTATAGA-TATTTAAGTC
1 ATTTTCATGATCTAA-AGATTTCTATGTAATTTTATAAATGTT-CAGATTATTTAAGTA
821908 ATTTT
1 ATTTT
821913 ATATGACTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
57 45 0.87
58 7 0.13
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.49
Consensus pattern (57 bp):
ATTTTCATGATCTAAAGATTTCTATGTAATTTTATAAATGTTCAGATTATTTAAGTA
Found at i:823596 original size:461 final size:458
Alignment explanation
Indices: 822731--823647 Score: 1604
Period size: 461 Copynumber: 2.0 Consensus size: 458
822721 AAACGAAAAA
* *
822731 TATTTGTCTAAGTTTGGCATATCGGATTTGCATTTGACACACCAGACGAGAATGACTCGAAAATT
1 TATTTGTCTAAGTCTGGCATATCGGATTTGCATTTGACACACCAGACAAGAATGACTCGAAAATT
822796 ATGTATTTTGCTAAATTTTACATATTCACTGGTTGTCTAACTAAATACAAAGGTTTTTTATTATA
66 ATGTATTTTGCTAAATTTTACATATTCACTGGTTGTCTAACTAAATACAAAGGTTTTTTATTATA
822861 AAATTTTTTGAGTTATTCTTCTTGGATGTTTTCTATTATTAATAATTTCAACAATCCTTCTCAAT
131 AAATTTTTTGAGTTATTCTTCTTGGATGTTTTCTATTATTAATAATTTCAACAATCCTTCTCAAT
*
822926 AGTCTAGTAAAAGATTTGAAAATTATTATAATATGAGATATTACCTTATTTATTTTTGAACAAAC
196 AGTCTAGTAAAAGATTTGAAAATTATTATAATATGAGATATTACCTTATTTATTTTTGAAAAAAC
822991 AAAATTTAATTTTATAAGTGACATTTAAAGTTATGATGCAACACTAATAAAACTCAAAAGAATTC
261 AAAATTTAATTTTATAAGTGACATTTAAAGTTATGATGCAACACTAATAAAACTCAAAAGAATTC
823056 TACTGGTGTTTTTCTTTTCAGCTCTCCACTTCAATTATTTTATACTCGTCCTTCCAACTCCTTCC
326 TACTGGTGTTTTTCTTTTCAGCTCTCCACTTCAATTATTTTATACTCGTCCTTCCAACTCCTTCC
** *
823121 TTGTCTACCCTTTTTTATTTCAAGTCACTCCTAAAGCTCTACGCCTCTGCTCTTTGTTGACTTTA
391 CCGTCTACCCTTTTTCATTTCAAGTCACTCCTAAAGCTCTACGCCTCTGCTCTTTGTTGACTTTA
823186 GAC
456 GAC
* * * *
823189 TATTTTTCTAAGTCTGGCATGTTGGATTTGCATTTGACACACTAGACAAGAATGACTCGAAAATT
1 TATTTGTCTAAGTCTGGCATATCGGATTTGCATTTGACACACCAGACAAGAATGACTCGAAAATT
*
823254 ATGTATTTTGCTAAATTTTACATATTCACTGGTTGTCTGACTAAATACAAAGGTTTTTTATTATA
66 ATGTATTTTGCTAAATTTTACATATTCACTGGTTGTCTAACTAAATACAAAGGTTTTTTATTATA
*
823319 AAATTTTTTGAGTTGTTCTTCTTGTGAAGGATGTTTTCTATT-TTAATAATTTCAAC-ATCCTTC
131 AAATTTTTTGAGTTATTCTTC-T-T---GGATGTTTTCTATTATTAATAATTTCAACAATCCTTC
*
823382 TCAATAGTCTAGTAAGAGATTTGAAAATTATTATAATATGAGATATTACCTTATTTATTTTTGAA
191 TCAATAGTCTAGTAAAAGATTTGAAAATTATTATAATATGAGATATTACCTTATTTATTTTTGAA
823447 AAAACAAAATTTAATTTTATAAGTGACATTTAAAGTTATGATGCAACACTAATAAAACTCAAAAG
256 AAAACAAAATTTAATTTTATAAGTGACATTTAAAGTTATGATGCAACACTAATAAAACTCAAAAG
* * * *
823512 AATTCTGCTGGTGTTTTTCTTTTTAGCTCTTCACTTCAATTGTTTTATACTCGTCCTTCCAACTC
321 AATTCTACTGGTGTTTTTCTTTTCAGCTCTCCACTTCAATTATTTTATACTCGTCCTTCCAACTC
* *
823577 CTTCCCCGTCTTCCCTTTTTCATTTCAAGTCACTCCTAAAGCTCTGCGCCTCTGCTCTTTGTTGA
386 CTTCCCCGTCTACCCTTTTTCATTTCAAGTCACTCCTAAAGCTCTACGCCTCTGCTCTTTGTTGA
823642 CTTTAG
451 CTTTAG
823648 TTTACACCTT
Statistics
Matches: 435, Mismatches: 19, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
458 143 0.33
459 1 0.00
460 1 0.00
461 262 0.60
462 14 0.03
463 14 0.03
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (458 bp):
TATTTGTCTAAGTCTGGCATATCGGATTTGCATTTGACACACCAGACAAGAATGACTCGAAAATT
ATGTATTTTGCTAAATTTTACATATTCACTGGTTGTCTAACTAAATACAAAGGTTTTTTATTATA
AAATTTTTTGAGTTATTCTTCTTGGATGTTTTCTATTATTAATAATTTCAACAATCCTTCTCAAT
AGTCTAGTAAAAGATTTGAAAATTATTATAATATGAGATATTACCTTATTTATTTTTGAAAAAAC
AAAATTTAATTTTATAAGTGACATTTAAAGTTATGATGCAACACTAATAAAACTCAAAAGAATTC
TACTGGTGTTTTTCTTTTCAGCTCTCCACTTCAATTATTTTATACTCGTCCTTCCAACTCCTTCC
CCGTCTACCCTTTTTCATTTCAAGTCACTCCTAAAGCTCTACGCCTCTGCTCTTTGTTGACTTTA
GAC
Found at i:829029 original size:31 final size:31
Alignment explanation
Indices: 828948--829142 Score: 144
Period size: 32 Copynumber: 6.5 Consensus size: 31
828938 CGATATTAGG
* * * *
828948 TTTAGAAGGGTTGCCACTAACTCGTATGGGC
1 TTTAGAAAGGTTGCCACCAACTTGTGTGGGC
*
828979 TTTAGAAAAGGTTGCCACCAACTTGTGTGGCC
1 TTTAG-AAAGGTTGCCACCAACTTGTGTGGGC
* * *
829011 TTTAGAATGGTTGTCACCAACCTGTGTGGGC
1 TTTAGAAAGGTTGCCACCAACTTGTGTGGGC
* *
829042 TTTAGAAGAAGTTACCACCAAC-T-TGTGGGC
1 TTTAGAA-AGGTTGCCACCAACTTGTGTGGGC
*
829072 TTT-GAAAAGG-TGCCA-CTAC-T-TGTGGG-
1 TTTAG-AAAGGTTGCCACCAACTTGTGTGGGC
* *
829098 TTTTGAAAAGG-TGCCACTAAC-T-TGTGGGC
1 TTTAG-AAAGGTTGCCACCAACTTGTGTGGGC
*
829127 TTTA-AAAGGATGCCAC
1 TTTAGAAAGGTTGCCAC
829143 TAATTTATAG
Statistics
Matches: 138, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
26 3 0.02
27 27 0.20
28 19 0.14
29 6 0.04
30 12 0.09
31 35 0.25
32 36 0.26
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (31 bp):
TTTAGAAAGGTTGCCACCAACTTGTGTGGGC
Found at i:829047 original size:63 final size:63
Alignment explanation
Indices: 828948--829068 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
828938 CGATATTAGG
* *
828948 TTTAGAAGGGTTGCCACTAACTCGTATGGGCTTTAGAA-AAGGTTGCCACCAACTTGTGTGGCC
1 TTTAGAAGGGTTGCCACCAACTCGTATGGGCTTTAGAAGAA-GTTACCACCAACTTGTGTGGCC
* * *
829011 TTTAGAATGGTTGTCACCAAC-CTGTGTGGGCTTTAGAAGAAGTTACCACCAACTTGTG
1 TTTAGAAGGGTTGCCACCAACTC-GTATGGGCTTTAGAAGAAGTTACCACCAACTTGTG
829069 GGCTTTGAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 1 0.02
63 48 0.94
64 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (63 bp):
TTTAGAAGGGTTGCCACCAACTCGTATGGGCTTTAGAAGAAGTTACCACCAACTTGTGTGGCC
Found at i:829140 original size:28 final size:29
Alignment explanation
Indices: 828959--829511 Score: 485
Period size: 28 Copynumber: 19.2 Consensus size: 29
828949 TTAGAAGGGT
* *
828959 TGCCACTAACTCGTATGGGCTTTAGAAAAGGT
1 TGCCACTAACT--TGTGGGCTTT-GAAAAGGA
* * *
828991 TGCCACCAACTTGTGTGGCCTTT-AGAATGGT
1 TGCCACTAACTTGTG-GG-CTTTGA-AAAGGA
* * *
829022 TGTCACCAACCTGTGTGGGCTTTAGAAGAA-GT
1 TGCCACTAA-CT-TGTGGGCTTT-GAA-AAGGA
* *
829054 TACCACCAACTTGTGGGCTTTGAAAAGG-
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
*
829082 TGCCACT-ACTTGTGGGTTTTGAAAAGG-
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
829109 TGCCACTAACTTGTGGGCTTT-AAAAGGA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
* * *
829137 TGCCACTAATTTATAGGCTTT-AAAAGGA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
* *
829165 TGCCACTGACTTGCGGGCTTTGAAAAGG-
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
* ** *
829193 TGCCACTGACTTACGGGCTTTGAAAA-TA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
*
829221 TGCCACTAACTTATGGGCTTTGAAAA-G-
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
* * *
829248 TGCCACTAGCTTGTAGGCTTTGAAAAGGGT
1 TGCCACTAACTTGTGGGCTTTGAAAA-GGA
* * *
829278 TGTCACTAACTTCTGGGCTCTG-AAAGGA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
** * * *
829306 TGTTACTGACTTATGGGCTCTG-AAAGGA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
* *
829334 TGCCACTGACTTGTGGGCTCTG-AAAGGA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
*
829362 TGCCACTGACTTGTGGGCTTTGAAAAGCGA
1 TGCCACTAACTTGTGGGCTTTGAAAAG-GA
* * *
829392 TGCTATTTACTTGTGGGCTTTGAAAA-GA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
* *
829420 TGCCACTGACTTGT-GGCTCTG-AAAGGA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
* *
829447 TGCCACTGACTTGTGGGCTTTG-AAAGGG
1 TGCCACTAACTTGTGGGCTTTGAAAAGGA
829475 TGCCACTAACTTGTGGGCTTTGAAAAGGGA
1 TGCCACTAACTTGTGGGCTTTGAAAA-GGA
829505 TGCCACT
1 TGCCACT
829512 GACTCCGAGG
Statistics
Matches: 448, Mismatches: 51, Indels: 46
0.82 0.09 0.08
Matches are distributed among these distances:
26 3 0.01
27 77 0.17
28 227 0.51
29 21 0.05
30 65 0.15
31 21 0.05
32 28 0.06
33 6 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (29 bp):
TGCCACTAACTTGTGGGCTTTGAAAAGGA
Found at i:829341 original size:141 final size:137
Alignment explanation
Indices: 829062--829534 Score: 522
Period size: 141 Copynumber: 3.4 Consensus size: 137
829052 GTTACCACCA
* *
829062 ACTTGTGGGCTTTGAAAAGGTGCCACTACTTGTGGGTTTTGAAAAGGTGCCACTAACTTGTGGGC
1 ACTTGTGGGCTTTGAAAAGATGCCACTACTTGTGGGCTTTGAAAAGGTGCCACT-ACTTGTGGGC
* * * *
829127 TTT-AAAAGGATGCCACTAATTTATAGGCTTTAAAAGGATGCCACTGACTTGCGGGCTTTGAAAA
65 TTTGAAAAGGATGCCACTAACTTAT-GGCTCTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAA
829191 GGTGCCACTG
128 GGTGCCACTG
** * * *
829201 ACTTACGGGCTTTGAAAATATGCCACTAACTTATGGGCTTTGAAAA-GTGCCACTAGCTTGTAGG
1 ACTTGTGGGCTTTGAAAAGATGCCACT-ACTTGTGGGCTTTGAAAAGGTGCCACTA-CTTGTGGG
* * * ** * *
829265 CTTTGAAAAGGGTTGTCACTAACTTCTGGGCTCTGAAAGGATGTTACTGACTTATGGGCTCTGAA
64 CTTTGAAAA-GGATGCCACTAACTTAT-GGCTCTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
829330 AGGATGCCACTG
127 AGG-TGCCACTG
* * * *
829342 ACTTGTGGGCTCTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGCGATGCTATTTACTTGTG
1 ACTTGTGGGCTTTGAAAAGATGCCACT-ACTTGTGGGCTTTGAAAAG-G-TGCCA-CTACTTGTG
* *
829407 GGCTTTGAAAA-GATGCCACTGACTTGTGGCTCTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
62 GGCTTTGAAAAGGATGCCACTAACTTATGGCTCTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
*
829471 AGGGTGCCACTA
127 A-GGTGCCACTG
* *
829483 ACTTGTGGGCTTTGAAAAGGGATGCCACTGACTCCG-AGGCTTTGAAAAGGTG
1 ACTTGTGGGCTTTGAAAA--GATGCCACT-ACT-TGTGGGCTTTGAAAAGGTG
829535 TTGTATTGAC
Statistics
Matches: 279, Mismatches: 42, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
138 1 0.00
139 42 0.15
140 25 0.09
141 147 0.53
142 15 0.05
143 26 0.09
144 21 0.08
145 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (137 bp):
ACTTGTGGGCTTTGAAAAGATGCCACTACTTGTGGGCTTTGAAAAGGTGCCACTACTTGTGGGCT
TTGAAAAGGATGCCACTAACTTATGGCTCTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGT
GCCACTG
Found at i:829530 original size:113 final size:114
Alignment explanation
Indices: 829068--829531 Score: 519
Period size: 113 Copynumber: 4.1 Consensus size: 114
829058 ACCAACTTGT
* * * *
829068 GGGCTTTGAAAAGGTGCCACT-ACTTGTGGGTTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTA
1 GGGCTTTGAAAAGATGCCACTGACTTGTGGGCTCTG-AAAGGATGCCACTAACTTGTGGGCTTTG
* * *
829131 AAAGGATGCCACTAATTTATAGGCTTT-AAAA-GGATGCCACTGACTTGC
65 AAAGGATGCCACTAACTTGTAGGCTTTGAAAAGGGATGCCACTGACTTCC
* ** * ** *
829179 GGGCTTTGAAAAGGTGCCACTGACTTACGGGCTTTGAAAATATGCCACTAACTTATGGGCTTTGA
1 GGGCTTTGAAAAGATGCCACTGACTTGTGGGCTCTGAAAGGATGCCACTAACTTGTGGGCTTTGA
* * * * * *
829244 AAAG-TGCCACTAGCTTGTAGGCTTTGAAAAGGGTTGTCACTAACTTCT
66 AAGGATGCCACTAACTTGTAGGCTTTGAAAAGGGATGCCACTGACTTCC
* * ** * * *
829292 GGGCTCTGAAAGGATGTTACTGACTTATGGGCTCTGAAAGGATGCCACTGACTTGTGGGCTCTGA
1 GGGCTTTGAAAAGATGCCACTGACTTGTGGGCTCTGAAAGGATGCCACTAACTTGTGGGCTTTGA
* * * * * * **
829357 AAGGATGCCACTGACTTGTGGGCTTTGAAAAGCGATGCTATTTACTTGT
66 AAGGATGCCACTAACTTGTAGGCTTTGAAAAGGGATGCCACTGACTTCC
*
829406 GGGCTTTGAAAAGATGCCACTGACTTGT-GGCTCTGAAAGGATGCCACTGACTTGTGGGCTTTGA
1 GGGCTTTGAAAAGATGCCACTGACTTGTGGGCTCTGAAAGGATGCCACTAACTTGTGGGCTTTGA
* *
829470 AAGGGTGCCACTAACTTGTGGGCTTTGAAAAGGGATGCCACTGAC-TCC
66 AAGGATGCCACTAACTTGTAGGCTTTGAAAAGGGATGCCACTGACTTCC
829518 GAGGCTTTGAAAAG
1 G-GGCTTTGAAAAG
829532 GTGTTGTATT
Statistics
Matches: 294, Mismatches: 53, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
111 42 0.14
112 41 0.14
113 154 0.52
114 57 0.19
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (114 bp):
GGGCTTTGAAAAGATGCCACTGACTTGTGGGCTCTGAAAGGATGCCACTAACTTGTGGGCTTTGA
AAGGATGCCACTAACTTGTAGGCTTTGAAAAGGGATGCCACTGACTTCC
Found at i:829938 original size:28 final size:28
Alignment explanation
Indices: 829896--829949 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
829886 TTTTTTTTCA
*
829896 TTAGGGATTGTAGGCTGT-TCAAACTTCT
1 TTAGGGATTGCAGGCTGTAT-AAACTTCT
*
829924 TTAGGGGTTGCAGGCTGTATAAACTT
1 TTAGGGATTGCAGGCTGTATAAACTT
829950 TTCTGGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (28 bp):
TTAGGGATTGCAGGCTGTATAAACTTCT
Found at i:830839 original size:15 final size:15
Alignment explanation
Indices: 830819--830864 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
830809 TTTTTTATTA
830819 TTTTTTTGGTTTTTG
1 TTTTTTTGGTTTTTG
* *
830834 TTTTTTTTGTTTTTT
1 TTTTTTTGGTTTTTG
*
830849 TTTGTTTTGCTTTTTG
1 TTT-TTTTGGTTTTTG
830865 AGAAGGACGC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (15 bp):
TTTTTTTGGTTTTTG
Found at i:830840 original size:16 final size:16
Alignment explanation
Indices: 830819--830864 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
830809 TTTTTTATTA
830819 TTTTTTTGGTTTTTGT
1 TTTTTTTGGTTTTTGT
830835 TTTTTTT-GTTTTT-T
1 TTTTTTTGGTTTTTGT
*
830849 TTTGTTTTGCTTTTTG
1 TTT-TTTTGGTTTTTG
830865 AGAAGGACGC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (16 bp):
TTTTTTTGGTTTTTGT
Found at i:837992 original size:13 final size:13
Alignment explanation
Indices: 837974--838001 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
837964 CATTACTCAA
837974 TGTATCGATACAT
1 TGTATCGATACAT
837987 TGTATCGATACAT
1 TGTATCGATACAT
838000 TG
1 TG
838002 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:837997 original size:33 final size:33
Alignment explanation
Indices: 837954--838019 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
837944 ACCAAGGAAA
*
837954 TGTATTGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
837987 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
838020 CTGGAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:852125 original size:12 final size:11
Alignment explanation
Indices: 852108--852141 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
852098 TCCTCCGCAA
852108 AAAAAAAAAGAC
1 AAAAAAAAA-AC
852120 AAAAAAAAAAC
1 AAAAAAAAAAC
852131 AAAAAGAAAAA
1 AAAAA-AAAAA
852142 AAACAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Done.