Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005606.1 Hibiscus syriacus cultivar Beakdansim tig00013040_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3509357
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:27404 original size:12 final size:12
Alignment explanation
Indices: 27387--27422 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
27377 TAAATATTAA
27387 ATTTTCAAAAAT
1 ATTTTCAAAAAT
27399 ATTTTC-AAAA-
1 ATTTTCAAAAAT
27409 A-TTTCAAAAAT
1 ATTTTCAAAAAT
27420 ATT
1 ATT
27423 CACTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 4 0.19
10 5 0.24
11 5 0.24
12 7 0.33
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTTTCAAAAAT
Found at i:27656 original size:25 final size:25
Alignment explanation
Indices: 27609--27656 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27599 CTATAAAAAC
* *
27609 AGATGATCAAATCAGTTTCTCAATA
1 AGATAATCAAATCAGTTGCTCAATA
*
27634 AGATAATCAAATCAGTTGGTCAA
1 AGATAATCAAATCAGTTGCTCAA
27657 ATCAGCTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (25 bp):
AGATAATCAAATCAGTTGCTCAATA
Found at i:27684 original size:20 final size:20
Alignment explanation
Indices: 27659--27705 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
27649 TTGGTCAAAT
*
27659 CAGCTATTAGAATTAGCTAC
1 CAGCTATTAGAATTAGCAAC
*
27679 CAGCTATTGGAATTAGCAAC
1 CAGCTATTAGAATTAGCAAC
27699 CAGCTAT
1 CAGCTAT
27706 CAGCTATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (20 bp):
CAGCTATTAGAATTAGCAAC
Found at i:29534 original size:23 final size:24
Alignment explanation
Indices: 29491--29536 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
29481 ATTCATACCA
*
29491 AAAATCATTCATAAACCATTTCAG
1 AAAATCATTCATAAAACATTTCAG
*
29515 AAAATCATT-ATAAAATATTTCA
1 AAAATCATTCATAAAACATTTCA
29537 TAATATGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATCATTCATAAAACATTTCAG
Found at i:30221 original size:19 final size:19
Alignment explanation
Indices: 30197--30235 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30187 CCAAAACAAT
*
30197 TCAAATCAACCTTCCAACA
1 TCAAATCAACATTCCAACA
*
30216 TCAAATTAACATTCCAACA
1 TCAAATCAACATTCCAACA
30235 T
1 T
30236 TCAATTCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.26
Consensus pattern (19 bp):
TCAAATCAACATTCCAACA
Found at i:43011 original size:2 final size:2
Alignment explanation
Indices: 43004--43064 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
42994 TCAATCTACA
43004 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
43046 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
43065 ATTTTCGAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43210 original size:85 final size:84
Alignment explanation
Indices: 43121--43419 Score: 447
Period size: 85 Copynumber: 3.5 Consensus size: 84
43111 AATGATGTGT
* * * * *
43121 GCTTCAATGACACGCAATGTAAGTCATATATGCATGTCATAAATTTATGACACACAAATGTATGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
*
43186 CAAGC-AGATTTATGACGGGG
66 C-ATCTA-ATTTATGACGGGG
*
43206 GCTTCAATGACGCACAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
43271 CATCTTAATTTATGACGGGG
66 CATC-TAATTTATGACGGGG
*
43291 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGTACAAATGTGTGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
43356 CATCTTAATTTATGACGGGG
66 CATC-TAATTTATGACGGGG
* * * *
43376 GCTTTAATGACGCGCAATGTAAGTCATAAATACGCGTCATAAAT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAAT
43420 GCGCATTATA
Statistics
Matches: 199, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
84 2 0.01
85 196 0.98
86 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (84 bp):
GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
CATCTAATTTATGACGGGG
Found at i:48808 original size:45 final size:45
Alignment explanation
Indices: 48741--48910 Score: 252
Period size: 45 Copynumber: 3.8 Consensus size: 45
48731 TTATTTATTA
* * *
48741 ATTTCATTTAT-ACATCATTTCATGCCTCTTGTACACCATTATAC
1 ATTTCATTTATGACATCATTTCATGCCTTTTATACACTATTATAC
* *
48785 ATTTCATTTATGGCATCATTTCATGCCTTTTATACACTATTATAT
1 ATTTCATTTATGACATCATTTCATGCCTTTTATACACTATTATAC
** *
48830 ATTTCATTTATGGTATCATTTCATGCCTTTTATACAGTATTATAC
1 ATTTCATTTATGACATCATTTCATGCCTTTTATACACTATTATAC
*
48875 ATTTCATTTATGACATCCTTTCATGCCTTTTATACA
1 ATTTCATTTATGACATCATTTCATGCCTTTTATACA
48911 ACGTCATGCA
Statistics
Matches: 114, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 11 0.10
45 103 0.90
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.47
Consensus pattern (45 bp):
ATTTCATTTATGACATCATTTCATGCCTTTTATACACTATTATAC
Found at i:49051 original size:81 final size:81
Alignment explanation
Indices: 48936--49509 Score: 896
Period size: 81 Copynumber: 7.1 Consensus size: 81
48926 ATCCATCTAG
* * * * *
48936 TCTTTTACTCAAAGGAATTTAACCTTTAATCTAACTAGCATGATTGACACTTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
49001 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
49017 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGTATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
49082 ACAGTTAGGCCATTAA
66 ACAGCTAGGCCATTAA
*
49098 TCTTTTACTCAAAGGTATTTAACCTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
49163 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
49179 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
49244 ACAGTTAGACCATTAA
66 ACAGCTAGGCCATTAA
* * * * *
49260 TATTTTACTCAAAGGTATTTAACCTTTCATATAACTGGTATAATTGACACCTTTATTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
49325 ATAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
49341 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACATCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
49406 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
49422 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACATTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
49487 ACAGTTAGGCCATTAA
66 ACAGCTAGGCCATTAA
49503 TCTTTTA
1 TCTTTTA
49510 TATTAGAACA
Statistics
Matches: 450, Mismatches: 43, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 450 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:49832 original size:55 final size:55
Alignment explanation
Indices: 49725--50084 Score: 537
Period size: 55 Copynumber: 6.6 Consensus size: 55
49715 TATCAGTACG
* * * * *
49725 GAAATTTATACACTTAGTATGAATTTCCT-AGTTTTCACATAAAGTGACCATACA
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
*
49779 GAAATTCATCTACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAC-
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
* *
49833 GAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACAAATAAAGTGCCCATGCA
1 G-AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
* * * *
49889 AAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACATAAAAAGTGCCCATACG
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
* *
49944 GAAATTCATCAACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCTCATACA
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
* *
49999 AAAATTCATCCA-TTGAGTATGAATTTCTTAAGTTTACACATAATGTGCCCATACA
1 GAAATTCATCCACTT-AGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
50054 GAAATTCATCCACTTAGTATGAATTTCTTAA
1 GAAATTCATCCACTTAGTATGAATTTCTTAA
50085 CTTTTTGCAC
Statistics
Matches: 276, Mismatches: 25, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
54 28 0.10
55 246 0.89
56 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (55 bp):
GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
Found at i:50547 original size:20 final size:20
Alignment explanation
Indices: 50522--50572 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
50512 GCTAACAATG
50522 GTATCGATACCATCCTCATT
1 GTATCGATACCATCCTCATT
50542 GTATCGATACCATCCTCATT
1 GTATCGATACCATCCTCATT
*
50562 GTATTGATACC
1 GTATCGATACC
50573 CCCTCTTGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (20 bp):
GTATCGATACCATCCTCATT
Found at i:50613 original size:21 final size:21
Alignment explanation
Indices: 50587--50636 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
50577 CTTGGGATTA
*
50587 ATACTACTTGCATATGTATTG
1 ATACTACTTGCATATGTATCG
50608 ATACTACTTGCATATGTATCG
1 ATACTACTTGCATATGTATCG
*
50629 AAACTACT
1 ATACTACT
50637 CAATGAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (21 bp):
ATACTACTTGCATATGTATCG
Found at i:55466 original size:40 final size:40
Alignment explanation
Indices: 55409--55570 Score: 297
Period size: 40 Copynumber: 4.0 Consensus size: 40
55399 TGCAGGTTTA
* *
55409 TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGATGGGCACGACCTTATGTG
*
55449 TAATACACTTTGGTGTATATGATGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGATGGGCACGACCTTATGTG
55489 TAATACACTTCGGTGTATATGATGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGATGGGCACGACCTTATGTG
55529 TAATACACTTCGGTGTATATGATGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGATGGGCACGACCTTATGTG
55569 TA
1 TA
55571 GCACTACGGT
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGATGGGCACGACCTTATGTG
Found at i:55794 original size:45 final size:45
Alignment explanation
Indices: 55675--55780 Score: 176
Period size: 45 Copynumber: 2.4 Consensus size: 45
55665 GTAACCATGC
*
55675 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTATATTGGTA
* *
55720 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTATATTGGTA
*
55765 GAATAAGCTTACGAGC
1 AAATAAGCTTACGAGC
55781 ATATAAGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTATATTGGTA
Found at i:61030 original size:16 final size:16
Alignment explanation
Indices: 61011--61043 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
61001 ACTTCAATGT
61011 CACTTTACTTAACTGA
1 CACTTTACTTAACTGA
61027 CACTTTACTTAACTGA
1 CACTTTACTTAACTGA
61043 C
1 C
61044 GATAATCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (16 bp):
CACTTTACTTAACTGA
Found at i:63938 original size:19 final size:20
Alignment explanation
Indices: 63914--63985 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 20
63904 ATGCAAAAAT
63914 GGTATCGATACCATAATA-G
1 GGTATCGATACCATAATAGG
* * *
63933 GGTATCAATTCTATAATATGG
1 GGTATCGATACCATAATA-GG
* *
63954 TAGTATCGATACCATAGTAGG
1 -GGTATCGATACCATAATAGG
63975 GGTATCGATAC
1 GGTATCGATAC
63986 TGAGGAGCCA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 15 0.37
20 10 0.24
21 3 0.07
22 13 0.32
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (20 bp):
GGTATCGATACCATAATAGG
Found at i:64643 original size:140 final size:141
Alignment explanation
Indices: 64385--64656 Score: 440
Period size: 140 Copynumber: 1.9 Consensus size: 141
64375 AATCCATAAT
64385 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATGAAAATGCATGAAAGGATG
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATGAAAATGCATGAAAGGATG
* * * *
64450 CATTAAGACATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCTTTAAGGC-ATGAAAGG
66 CATTAAGACATGAAAGAATGCCATAAACTAAAATGCATGAAAGAATACATTAAGGCAATGAAAGG
64514 ATGTCATAAAC
131 ATGTCATAAAC
* * *
64525 TAAAATGCATGAAAGGATGTC-TTAAGGCATGAAAGGATGTCATAATTAAAATGCATGAAATGAT
1 TAAAATGCATGAAAGGATG-CATTAAGGCATGAAAGGATGCCATAATGAAAATGCATGAAAGGAT
* *
64589 GCATTAAGGCATGAAAGAATGCCATAAATTAAAATGCATGAAAGAATACATTAAGGCAATGAAAG
65 GCATTAAGACATGAAAGAATGCCATAAACTAAAATGCATGAAAGAATACATTAAGGCAATGAAAG
64654 GAT
130 GAT
64657 ACCATAATTT
Statistics
Matches: 121, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
140 110 0.91
141 11 0.09
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.22
Consensus pattern (141 bp):
TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATGAAAATGCATGAAAGGATG
CATTAAGACATGAAAGAATGCCATAAACTAAAATGCATGAAAGAATACATTAAGGCAATGAAAGG
ATGTCATAAAC
Found at i:64671 original size:47 final size:46
Alignment explanation
Indices: 64378--64671 Score: 419
Period size: 47 Copynumber: 6.3 Consensus size: 46
64368 TAAATCGAAT
64378 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
64424 CCATAATGAAAATGCATGAAAGGATGCATTAAGACATGAAAGGATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
64470 CCATAAACTAAAATGCATGAAAGGATGCTTTAAGGCATGAAAGGATG
1 CCAT-AATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
64517 TCATAAACTAAAATGCATGAAAGGATGTC-TTAAGGCATGAAAGGATG
1 CCAT-AATTAAAATGCATGAAAGGATG-CATTAAGGCATGAAAGGATG
* * *
64564 TCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAAGAATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
64610 CCATAAATTAAAATGCATGAAAGAATACATTAAGGCAATGAAAGGATA
1 CCAT-AATTAAAATGCATGAAAGGATGCATTAAGGC-ATGAAAGGATG
*
64658 CCATAATTTAAATG
1 CCATAATTAAAATG
64672 TATAAATGGA
Statistics
Matches: 226, Mismatches: 17, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
45 1 0.00
46 88 0.39
47 123 0.54
48 14 0.06
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
Found at i:64679 original size:93 final size:93
Alignment explanation
Indices: 64378--64671 Score: 421
Period size: 93 Copynumber: 3.2 Consensus size: 93
64368 TAAATCGAAT
*
64378 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT-AATGAAAATGCATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATTAAAATGCATG
* *
64442 AAAGGATGCATTAAGACATGAAAGGATG
66 AAAGGATACATTAAGGCATGAAAGGATG
* * * *
64470 CCATAAACTAAAATGCATGAAAGGATGCTTTAAGGCATGAAAGGATGTCATAAACTAAAATGCAT
1 CCAT-AATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATTAAAATGCAT
*
64535 GAAAGGATGTC-TTAAGGCATGAAAGGATG
65 GAAAGGAT-ACATTAAGGCATGAAAGGATG
* * *
64564 TCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAAGAATGCCATAAATTAAAATGCATG
1 CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATTAAAATGCATG
* *
64629 AAAGAATACATTAAGGCAATGAAAGGATA
66 AAAGGATACATTAAGGC-ATGAAAGGATG
*
64658 CCATAATTTAAATG
1 CCATAATTAAAATG
64672 TATAAATGGA
Statistics
Matches: 178, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
92 5 0.03
93 111 0.62
94 61 0.34
95 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (93 bp):
CCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATTAAAATGCATG
AAAGGATACATTAAGGCATGAAAGGATG
Found at i:67157 original size:29 final size:30
Alignment explanation
Indices: 67131--67187 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
67121 ATTTTTTTTG
*
67131 AAAGTTT-AGTGACCAAAGT-GTAATTTTAA
1 AAAGTTTAAG-GACCAAAATAGTAATTTTAA
67160 AAAGTTTAAGGACCAAAATAGTAATTTT
1 AAAGTTTAAGGACCAAAATAGTAATTTT
67188 CCCAAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (30 bp):
AAAGTTTAAGGACCAAAATAGTAATTTTAA
Found at i:76766 original size:22 final size:22
Alignment explanation
Indices: 76734--76779 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
76724 TCTAAATAAC
*
76734 ATTCATAATAAACATCATATAT
1 ATTCATAATAAAAATCATATAT
*
76756 ATTCATGATAAAAATCATATAT
1 ATTCATAATAAAAATCATATAT
76778 AT
1 AT
76780 AATAACCAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTCATAATAAAAATCATATAT
Found at i:79276 original size:30 final size:30
Alignment explanation
Indices: 79210--79276 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
79200 TCTTTTTAGG
*
79210 AAAATTACCACTTTGGTCCATAAAACTTTC
1 AAAATTTCCACTTTGGTCCATAAAACTTTC
** * *
79240 CTAATTTCCTACTTTGG-CTATCAAACTTTC
1 AAAATTTCC-ACTTTGGTCCATAAAACTTTC
79270 AAAATTT
1 AAAATTT
79277 ATATTTTGGT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (30 bp):
AAAATTTCCACTTTGGTCCATAAAACTTTC
Found at i:95577 original size:52 final size:53
Alignment explanation
Indices: 95514--95613 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 53
95504 CTAAGGTAAC
*
95514 GAAATGATAATTCACAAACTTATTATGAATACCATAGATG-ACACATAATGTG
1 GAAATGATAATTCACAAACTCATTATGAATACCATAGATGCACACATAATGTG
* *
95566 GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATA
1 GAAATGATAATTCACAAACTCATTATGAATACCATAGATGCACACATA
95614 GTGCTAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 37 0.84
53 7 0.16
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (53 bp):
GAAATGATAATTCACAAACTCATTATGAATACCATAGATGCACACATAATGTG
Found at i:96490 original size:20 final size:20
Alignment explanation
Indices: 96467--96516 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
96457 CTTCCTCTTG
96467 GTATCGATACCTCCAAATCA
1 GTATCGATACCTCCAAATCA
* *
96487 GTATCAATACCTCCAAATTA
1 GTATCGATACCTCCAAATCA
*
96507 GTATTGATAC
1 GTATCGATAC
96517 TACTTTAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (20 bp):
GTATCGATACCTCCAAATCA
Found at i:96719 original size:21 final size:21
Alignment explanation
Indices: 96693--96737 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
96683 ACCATACCAT
96693 CAAACTCATTAACACTTATCC
1 CAAACTCATTAACACTTATCC
96714 CAAACTCATTAACACTTATCC
1 CAAACTCATTAACACTTATCC
96735 CAA
1 CAA
96738 CTAACTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (21 bp):
CAAACTCATTAACACTTATCC
Found at i:106454 original size:21 final size:21
Alignment explanation
Indices: 106430--106473 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
106420 TTTTGGGAGA
106430 ATGGTTATTTAGGTCAGCAAC
1 ATGGTTATTTAGGTCAGCAAC
106451 ATGGTTATTTAGGTCAGCAAC
1 ATGGTTATTTAGGTCAGCAAC
106472 AT
1 AT
106474 TTTACTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (21 bp):
ATGGTTATTTAGGTCAGCAAC
Found at i:107860 original size:17 final size:16
Alignment explanation
Indices: 107838--107871 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
107828 TAAAAACAGT
107838 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
107855 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
107871 A
1 A
107872 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:119897 original size:2 final size:2
Alignment explanation
Indices: 119890--119915 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
119880 AATTACATGC
119890 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
119916 CAAACATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127034 original size:28 final size:28
Alignment explanation
Indices: 126953--127018 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
126943 TTCATTCTTT
126953 AAAATTTTTATTAAAACAAATGTCCATG
1 AAAATTTTTATTAAAACAAATGTCCATG
*
126981 AAAAATTTTATTAAAACAAATGTCCATG
1 AAAATTTTTATTAAAACAAATGTCCATG
127009 AAAATTTTTA
1 AAAATTTTTA
127019 ATATAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (28 bp):
AAAATTTTTATTAAAACAAATGTCCATG
Found at i:127597 original size:21 final size:22
Alignment explanation
Indices: 127571--127613 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
127561 TTGATCTCAA
127571 AAAATA-TTTTCTTCTTCTTAG
1 AAAATATTTTTCTTCTTCTTAG
*
127592 AAAATATTTTTTTTCTTCTTAG
1 AAAATATTTTTCTTCTTCTTAG
127614 TTTTTTAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (22 bp):
AAAATATTTTTCTTCTTCTTAG
Found at i:134949 original size:2 final size:2
Alignment explanation
Indices: 134938--134967 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
134928 TATGAATGAG
134938 TA TA -A 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
134968 TATGTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:136475 original size:2 final size:2
Alignment explanation
Indices: 136468--136499 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
136458 TATTCTTAAT
136468 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
136500 AGAAGCGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:136532 original size:21 final size:20
Alignment explanation
Indices: 136507--136545 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
136497 ATAAGAAGCG
*
136507 TGAATAATATAGTTTTATTAA
1 TGAAT-ATATACTTTTATTAA
*
136528 TGAATGTATACTTTTATT
1 TGAATATATACTTTTATT
136546 TATAGGATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (20 bp):
TGAATATATACTTTTATTAA
Found at i:144334 original size:30 final size:29
Alignment explanation
Indices: 144300--144403 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 29
144290 TAACATCTTC
*
144300 ATGGGATTAAATCCCCTTTCTGACATTTGT
1 ATGGGA-TAAATCCCCTTTCTGACATATGT
* *
144330 ATGGGATAAA-CTCCCTGTTCTAACATATGC
1 ATGGGATAAATC-CCCT-TTCTGACATATGT
* * *
144360 ATGAGATAAATTCCTCATTT-TGACATCTGT
1 ATGGGATAAA-TCC-CCTTTCTGACATATGT
144390 ATGGGATTAAATCC
1 ATGGGA-TAAATCC
144404 TAGTTTTGTT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
28 1 0.02
29 8 0.14
30 40 0.68
31 7 0.12
32 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (29 bp):
ATGGGATAAATCCCCTTTCTGACATATGT
Found at i:144350 original size:60 final size:59
Alignment explanation
Indices: 144282--144396 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 59
144272 GGAACCTCGT
* * * * *
144282 TCCCGTTCTAACATCTTCATGGGATTAAA-TCC-CCTTTCTGACATTTGTATGGGATAAAC
1 TCCCGTTCTAACATATGCATGAGA-TAAATTCCTCATTT-TGACATCTGTATGGGATAAAC
144341 TCCCTGTTCTAACATATGCATGAGATAAATTCCTCATTTTGACATCTGTATGGGAT
1 TCCC-GTTCTAACATATGCATGAGATAAATTCCTCATTTTGACATCTGTATGGGAT
144397 TAAATCCTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
59 8 0.17
60 36 0.75
61 4 0.08
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (59 bp):
TCCCGTTCTAACATATGCATGAGATAAATTCCTCATTTTGACATCTGTATGGGATAAAC
Found at i:144475 original size:49 final size:49
Alignment explanation
Indices: 144407--144500 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 49
144397 TAAATCCTAG
* * * * *
144407 TTTTGTTTTTGTTGGGATCCTCTTCGGAGGGCTAAATCCCCATTCAGAT
1 TTTTGTTTCTGCTGAGATCCTCTACGAAGGGCTAAATCCCCATTCAGAT
* *
144456 TTTTGTTTCTGCTGAGATCCTCTACGAATGGCTAGATCCCCATTC
1 TTTTGTTTCTGCTGAGATCCTCTACGAAGGGCTAAATCCCCATTC
144501 TAATTTCTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (49 bp):
TTTTGTTTCTGCTGAGATCCTCTACGAAGGGCTAAATCCCCATTCAGAT
Found at i:148300 original size:18 final size:18
Alignment explanation
Indices: 148266--148300 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
148256 GATGCAAGTA
**
148266 GTATCGATATTGCTATGG
1 GTATCGATATTAATATGG
148284 GTATCGATATTAATATG
1 GTATCGATATTAATATG
148301 AAGATATCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (18 bp):
GTATCGATATTAATATGG
Found at i:148642 original size:13 final size:13
Alignment explanation
Indices: 148624--148655 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
148614 CATCCTTAAA
148624 GCATATTAGTGAG
1 GCATATTAGTGAG
148637 GCATATTAGTGAG
1 GCATATTAGTGAG
148650 GCATAT
1 GCATAT
148656 CAAGTGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (13 bp):
GCATATTAGTGAG
Found at i:148663 original size:14 final size:13
Alignment explanation
Indices: 148624--148668 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
148614 CATCCTTAAA
*
148624 GCATATTAGTGAG
1 GCATATAAGTGAG
*
148637 GCATATTAGTGAG
1 GCATATAAGTGAG
148650 GCATATCAAGTGAG
1 GCATAT-AAGTGAG
148664 TGCAT
1 -GCAT
148669 TTATTGTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 19 0.66
14 6 0.21
15 4 0.14
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (13 bp):
GCATATAAGTGAG
Found at i:149167 original size:111 final size:111
Alignment explanation
Indices: 148960--149159 Score: 330
Period size: 111 Copynumber: 1.8 Consensus size: 111
148950 GGTGTCACTA
* * *
148960 ATGAAAGTTATTGATCGATTTTGTTTAATGCATAACGGTGCATTTTTGGAATAAAAGGTGCCACC
1 ATGAAAGTTATTGATCAATTTTGTTTAATGCATAACGGTGCATTTATCGAATAAAAGGTGCCACC
*
149025 CATGGTATTCATAAAAGGTGAATTACCATTTCAACATACATCGTGT
66 CATGGTATTCATAAAAGGTGAATGACCATTTCAACATACATCGTGT
*
149071 ATGAAAGTTATTGATCAATTTTGTTTAATGCATAACGGTTCA-TTATCGACATAAAAGGTGCCAC
1 ATGAAAGTTATTGATCAATTTTGTTTAATGCATAACGGTGCATTTATCGA-ATAAAAGGTGCCAC
*
149135 TCATGGTATTCATAAAAGGTGAATG
65 CCATGGTATTCATAAAAGGTGAATG
149160 GTCATTTCGG
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
110 5 0.06
111 77 0.94
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (111 bp):
ATGAAAGTTATTGATCAATTTTGTTTAATGCATAACGGTGCATTTATCGAATAAAAGGTGCCACC
CATGGTATTCATAAAAGGTGAATGACCATTTCAACATACATCGTGT
Found at i:149844 original size:20 final size:21
Alignment explanation
Indices: 149819--149860 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
149809 TCGACCCGAC
149819 CCATTGAATTTGA-CCGTTGA
1 CCATTGAATTTGACCCGTTGA
*
149839 CCATTGACTTTGACCCGTTGA
1 CCATTGAATTTGACCCGTTGA
149860 C
1 C
149861 TTTTTTGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (21 bp):
CCATTGAATTTGACCCGTTGA
Found at i:150590 original size:30 final size:30
Alignment explanation
Indices: 150487--150596 Score: 89
Period size: 30 Copynumber: 3.7 Consensus size: 30
150477 GACCTCGTTT
150487 CCCATTCTAACATCTACATAGG-ATAAATTC
1 CCCATTCTAACATCTACAT-GGCATAAATTC
* * * * * * *
150517 TCCAATATGACATATGCATAAG-ATAAATTC
1 CCCATTCTAACATCTACAT-GGCATAAATTC
* *
150547 CCCATTCTGACATCTGCATGGCATAAATTC
1 CCCATTCTAACATCTACATGGCATAAATTC
**
150577 CCTGTTCTAACATCTACATG
1 CCCATTCTAACATCTACATG
150597 TGATTAAATC
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
29 1 0.02
30 62 0.98
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (30 bp):
CCCATTCTAACATCTACATGGCATAAATTC
Found at i:151210 original size:12 final size:11
Alignment explanation
Indices: 151188--151221 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
151178 CGTTAAGGTC
151188 TCGAGTCGAGT
1 TCGAGTCGAGT
151199 TCGAGTTCGAGT
1 TCGAG-TCGAGT
*
151211 TCGAATCGAGT
1 TCGAGTCGAGT
151222 CAACTAGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (11 bp):
TCGAGTCGAGT
Found at i:156601 original size:32 final size:33
Alignment explanation
Indices: 156565--156628 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
156555 TACCAGGAGA
*
156565 ATTCATACA-AAAAAATTGTCCTGATAGTTTGC
1 ATTCATACAGAAAAAATTGTACTGATAGTTTGC
**
156597 ATTCATACATGAAAAGCTTGTACTGATAGTTT
1 ATTCATACA-GAAAAAATTGTACTGATAGTTT
156629 ACCATTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 9 0.33
34 18 0.67
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (33 bp):
ATTCATACAGAAAAAATTGTACTGATAGTTTGC
Found at i:163389 original size:6 final size:6
Alignment explanation
Indices: 163378--163406 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
163368 ATGTTTTCTT
163378 CTTGGA CTTGGA CTTGGA CTTGGA CTTGG
1 CTTGGA CTTGGA CTTGGA CTTGGA CTTGG
163407 CGTAGGTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.17, G:0.34, T:0.34
Consensus pattern (6 bp):
CTTGGA
Found at i:165191 original size:17 final size:17
Alignment explanation
Indices: 165169--165221 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
165159 AATTAAGTGT
165169 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* * *
165186 TAGTTTGATGAGTGAAC
1 TAGTTTAATAAATGAAC
* *
165203 CAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
165220 TA
1 TA
165222 ACTTTATTCA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.36
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:171054 original size:85 final size:84
Alignment explanation
Indices: 170954--171240 Score: 317
Period size: 85 Copynumber: 3.4 Consensus size: 84
170944 AGATCGATAT
** * * ** *
170954 CTATAGCGGTGTTTTTGGA-ACAAGCGCCGCAAAAAGTTATGATATATAGTGGCGTTTCTAGAAA
1 CTATAGCGGCATTTTTGGATACAAACGCCGCAAAAAGTCA-GACCTATAATGGCGTTT-TAGAAA
* ** *
171018 AAACGCCGTTAAAGGTCAGAT
64 AAACACCGAAAAAGGTCAGAC
* * * *
171039 CTATAGCGGCATTTTTTGATACAAACGCCGCAAAAGAG-CAGACCTATACTGGCATTTTTAGAAC
1 CTATAGCGGCATTTTTGGATACAAACGCCGCAAAA-AGTCAGACCTATAATGGC-GTTTTAGAAA
*
171103 AAACACCGCAAAAGGTCAGAC
64 AAACACCGAAAAAGGTCAGAC
* * * *
171124 CTATAGCGGCATTTTTGGACACAAACGCTGCAAAAGGTCAGACCTATAATGGCGTTTTTGAACAC
1 CTATAGCGGCATTTTTGGATACAAACGCCGCAAAAAGTCAGACCTATAATGGCGTTTTAGAA-A-
*
171189 AAACACCGAAAAAAGTCAGAC
64 AAACACCGAAAAAGGTCAGAC
171210 CTATAGCGGCATTTTTGGATACAAACGCCGC
1 CTATAGCGGCATTTTTGGATACAAACGCCGC
171241 TAATTACCTT
Statistics
Matches: 170, Mismatches: 26, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
84 8 0.05
85 94 0.55
86 66 0.39
87 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (84 bp):
CTATAGCGGCATTTTTGGATACAAACGCCGCAAAAAGTCAGACCTATAATGGCGTTTTAGAAAAA
ACACCGAAAAAGGTCAGAC
Found at i:171112 original size:42 final size:43
Alignment explanation
Indices: 170919--171240 Score: 278
Period size: 43 Copynumber: 7.5 Consensus size: 43
170909 ATCTATTACA
* * * *
170919 GCATTTTTTGA-ACAAACGCCGCAAAAGATCGATATCTATAGCG
1 GCATTTTTGGACACAAACGCCGCAAAAGGTC-AGACCTATAGCG
** * * * ** *
170962 GTGTTTTTGGA-ACAAGCGCCGCAAAAAGTTATGATATATAGTG
1 GCATTTTTGGACACAAACGCCGCAAAAGGTCA-GACCTATAGCG
* * * * ** *
171005 GCGTTTCTAGA-AAAAACGCCGTTAAAGGTCAGATCTATAGCG
1 GCATTTTTGGACACAAACGCCGCAAAAGGTCAGACCTATAGCG
* *
171047 GCATTTTTTGATACAAACGCCGCAAAAGAG-CAGACCTATA-CTG
1 GCATTTTTGGACACAAACGCCGCAAAAG-GTCAGACCTATAGC-G
* *
171090 GCATTTTTAGA-ACAAACACCGCAAAAGGTCAGACCTATAGCG
1 GCATTTTTGGACACAAACGCCGCAAAAGGTCAGACCTATAGCG
* **
171132 GCATTTTTGGACACAAACGCTGCAAAAGGTCAGACCTATAATG
1 GCATTTTTGGACACAAACGCCGCAAAAGGTCAGACCTATAGCG
* * * * *
171175 GCGTTTTTGAACACAAACACCGAAAAAAGTCAGACCTATAGCG
1 GCATTTTTGGACACAAACGCCGCAAAAGGTCAGACCTATAGCG
*
171218 GCATTTTTGGATACAAACGCCGC
1 GCATTTTTGGACACAAACGCCGC
171241 TAATTACCTT
Statistics
Matches: 224, Mismatches: 48, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.00
42 55 0.25
43 167 0.75
44 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (43 bp):
GCATTTTTGGACACAAACGCCGCAAAAGGTCAGACCTATAGCG
Found at i:175159 original size:42 final size:42
Alignment explanation
Indices: 175111--175493 Score: 458
Period size: 42 Copynumber: 9.2 Consensus size: 42
175101 TATGACAATT
*
175111 GCGGCGTTTGGTATTAAAATGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
* * *
175153 GAGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
*
175195 GCGGCGTTTGTGTA--AAAACGCCACTAAAGTACGAATCTATA
1 GCGGCGTTTG-GTATTAAAACGCCACTAAAGTACGAGTCTATA
* * **
175236 GCGGCGTTTGGTATTAAAACGTCACAAAAGTACGTTTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
* *
175278 GCGGCGTTTAGTATTAAAACGCCAC-AAATGTACGTGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAA-GTACGAGTCTATA
*
175320 GCGGCGTTTGTGTA--AAAATGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTG-GTATTAAAACGCCACTAAAGTACGAGTCTATA
* *
175361 GCGGCATTTGGTATTAAAACGCCA-TAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACT-AAAGTACGAGTCTATA
* * * *
175403 GCGGCGTTT-GTATAAAAACGCCACTAAAATACTAGTTTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
* * * * * *
175444 GCGGCGTTT-GTATAAAAATGCCACTACATTACGATTCTTTA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
175485 GCGGCGTTT
1 GCGGCGTTT
175494 TTATACAAAC
Statistics
Matches: 297, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
40 6 0.02
41 136 0.46
42 149 0.50
43 6 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (42 bp):
GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
Found at i:175234 original size:83 final size:83
Alignment explanation
Indices: 175111--175493 Score: 424
Period size: 83 Copynumber: 4.6 Consensus size: 83
175101 TATGACAATT
* *
175111 GCGGCGTTTG-GTATTAAAATGCCACTAAAGTACGAGTCTATAGAGGCGTTTGGTATTAAAACGC
1 GCGGCGTTTGTGTA--AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGC
175175 CACAAAAGTACGTGTCTATA
64 CACAAAAGTACGTGTCTATA
* *
175195 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAATCTATAGCGGCGTTTGGTATTAAAACGTCA
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCA
*
175260 CAAAAGTACGTTTCTATA
66 CAAAAGTACGTGTCTATA
* * * *
175278 GCGGCGTTTAGTATTAAAACGCCAC-AAATGTACGTGTCTATAGCGGCGTTTGTGTA--AAAATG
1 GCGGCGTTT-GTGTAAAAACGCCACTAAA-GTACGAGTCTATAGCGGCGTTTG-GTATTAAAACG
* *
175340 CCACTAAAGTACGAGTCTATA
63 CCACAAAAGTACGTGTCTATA
* * *
175361 GCGGCATTTG-GTATTAAAACGCCA-TAAAAGTACGTGTCTATAGCGGCGTTT-GTATAAAAACG
1 GCGGCGTTTGTGTA--AAAACGCCACT-AAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACG
*
175423 CCACTAAAA-TAC-TAGTTTATA
63 CCAC-AAAAGTACGT-GTCTATA
* * * * * *
175444 GCGGCGTTTGTATAAAAATGCCACTACATTACGATTCTTTAGCGGCGTTT
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTT
175494 TTATACAAAC
Statistics
Matches: 256, Mismatches: 29, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
81 4 0.02
82 29 0.11
83 165 0.64
84 52 0.20
85 6 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (83 bp):
GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCA
CAAAAGTACGTGTCTATA
Found at i:175245 original size:125 final size:124
Alignment explanation
Indices: 175111--175493 Score: 547
Period size: 125 Copynumber: 3.1 Consensus size: 124
175101 TATGACAATT
* * *
175111 GCGGCGTTTGGTATTAAAATGCCACTAAAGTACGAGTCTATAGAGGCGTTTGGTATTAAAACGCC
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGTGTCTATAGCGGCGTTT-GTATTAAAACGCC
*
175176 ACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAATCTATA
65 ACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAATCTATA
* * *
175236 GCGGCGTTTGGTATTAAAACGTCACAAAAGTACGTTTCTATAGCGGCGTTTAGTATTAAAACGCC
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGTGTCTATAGCGGCGTTT-GTATTAAAACGCC
* *
175301 ACAAATGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATA
65 ACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAATCTATA
* *
175361 GCGGCATTTGGTATTAAAACGCCA-TAAAAGTACGTGTCTATAGCGGCGTTTGTATAAAAACGCC
1 GCGGCGTTTGGTATTAAAACGCCACT-AAAGTACGTGTCTATAGCGGCGTTTGTATTAAAACGCC
* * * * * *
175425 ACTAAAA-TAC-TAGTTTATAGCGGCGTTTGTATAAAAATGCCACTACATTACGATTCTTTA
65 AC-AAAAGTACGT-GTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAATCTATA
175485 GCGGCGTTT
1 GCGGCGTTT
175494 TTATACAAAC
Statistics
Matches: 232, Mismatches: 23, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
123 1 0.00
124 67 0.29
125 164 0.71
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (124 bp):
GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTATTAAAACGCCA
CAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAATCTATA
Found at i:178691 original size:16 final size:16
Alignment explanation
Indices: 178670--178700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
178660 GAGGTGTCAC
*
178670 ATTGACTTTTCAAAGA
1 ATTGACTTTTAAAAGA
178686 ATTGACTTTTAAAAG
1 ATTGACTTTTAAAAG
178701 TAGTTGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (16 bp):
ATTGACTTTTAAAAGA
Found at i:179328 original size:23 final size:23
Alignment explanation
Indices: 179302--179396 Score: 145
Period size: 23 Copynumber: 4.1 Consensus size: 23
179292 AAGTGCCACG
179302 TAGAAATGTCCCGAAGGACCGCA
1 TAGAAATGTCCCGAAGGACCGCA
* *
179325 TAGATATGTCCCGAAGGACCGCG
1 TAGAAATGTCCCGAAGGACCGCA
* *
179348 TAGAAATGTCTCGAAGGACCACA
1 TAGAAATGTCCCGAAGGACCGCA
*
179371 TAGAATTGTCCCGAAGGACCGCA
1 TAGAAATGTCCCGAAGGACCGCA
179394 TAG
1 TAG
179397 GACCCTCGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (23 bp):
TAGAAATGTCCCGAAGGACCGCA
Found at i:179339 original size:46 final size:46
Alignment explanation
Indices: 179289--179390 Score: 145
Period size: 46 Copynumber: 2.2 Consensus size: 46
179279 ATAATATGCA
*
179289 CCGAAGTG-CCACGTAGAAATGTCCCGAAGGACCGCATAG-ATATGTC
1 CCGAAG-GACCACGTAGAAATGTCCCGAAGGACCACATAGAAT-TGTC
* *
179335 CCGAAGGACCGCGTAGAAATGTCTCGAAGGACCACATAGAATTGTC
1 CCGAAGGACCACGTAGAAATGTCCCGAAGGACCACATAGAATTGTC
179381 CCGAAGGACC
1 CCGAAGGACC
179391 GCATAGGACC
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
45 1 0.02
46 48 0.94
47 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.16
Consensus pattern (46 bp):
CCGAAGGACCACGTAGAAATGTCCCGAAGGACCACATAGAATTGTC
Found at i:179508 original size:16 final size:14
Alignment explanation
Indices: 179484--179527 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
179474 TCACATAGCT
179484 TATATCACATATTC
1 TATATCACATATTC
*
179498 ATATAATCACATAGCTC
1 -TAT-ATCACATA-TTC
179515 TATATCACATATT
1 TATATCACATATT
179528 ATGAAATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.04
15 11 0.44
16 11 0.44
17 2 0.08
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (14 bp):
TATATCACATATTC
Found at i:179694 original size:2 final size:2
Alignment explanation
Indices: 179687--179743 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
179677 CCATAAAACA
179687 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
179729 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
179744 GTAGTATGCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:184155 original size:2 final size:2
Alignment explanation
Indices: 184148--184178 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
184138 TCACATGCTG
*
184148 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
184179 AAGAGACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 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):
AT
Found at i:184942 original size:23 final size:22
Alignment explanation
Indices: 184916--184963 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
184906 ATGTGTCAAT
*
184916 AATGCAAGTTAGATGAAAGATTA
1 AATGC-AGTTAGATGAAAAATTA
**
184939 AATGCCTTTAGATGAAAAATTA
1 AATGCAGTTAGATGAAAAATTA
184961 AAT
1 AAT
184964 CCCTAATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (22 bp):
AATGCAGTTAGATGAAAAATTA
Found at i:185009 original size:81 final size:81
Alignment explanation
Indices: 184869--185269 Score: 588
Period size: 81 Copynumber: 5.0 Consensus size: 81
184859 CTGTTTTAAA
* * *
184869 ATGAAAGATTAAATGCCTAACTGTGCATTTGGAAGAAATGTGTCAATAATGCAAGTTAGATGAAA
1 ATGAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGACAATAATGCAAGTTAGATGAAA
*
184934 GATTAAATGCCTTTAG
66 GGTTAAATGCCTTTAG
* * * * *
184950 ATGAAAAATTAAATCCCTAATTGTGCATTTGGCATAAAGGTGACAATAATGCAAATTAGATGAAA
1 ATGAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGACAATAATGCAAGTTAGATGAAA
185015 GGTTAAATGCCTTTAG
66 GGTTAAATGCCTTTAG
* * * *
185031 ATGAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGATGCCAATAATGCAAGTTAAATGAAG
1 ATGAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGACAATAATGCAAGTTAGATGAAA
*
185096 GGTTAAATGCCTTAAG
66 GGTTAAATGCCTTTAG
* * *
185112 ATGAAAGATTAAATGCCTAAATGTGCAATTGGCAGAAAGGT-ACCAATAATACAAGTTAGATGAA
1 ATGAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGA-CAATAATGCAAGTTAGATGAA
* *
185176 AGGTTAAATGTCTTTGG
65 AGGTTAAATGCCTTTAG
* * *
185193 ATGAAAAACTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
1 ATGAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGACAATAATGCAAGTTAGATGAAA
185258 GGTTAAATGCCT
66 GGTTAAATGCCT
185270 AACTGTGCAT
Statistics
Matches: 282, Mismatches: 36, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
81 282 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.27
Consensus pattern (81 bp):
ATGAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGACAATAATGCAAGTTAGATGAAA
GGTTAAATGCCTTTAG
Found at i:185031 original size:22 final size:22
Alignment explanation
Indices: 185005--185048 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
184995 ATAATGCAAA
*
185005 TTAGATGAAAGGTTAAATGCCT
1 TTAGATGAAAGATTAAATGCCT
185027 TTAGATGAAAGATTAAATGCCT
1 TTAGATGAAAGATTAAATGCCT
185049 AACTGTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (22 bp):
TTAGATGAAAGATTAAATGCCT
Found at i:185116 original size:22 final size:21
Alignment explanation
Indices: 185086--185134 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
185076 ATAATGCAAG
* *
185086 TTAAATGAAGGGTTAAATGCC
1 TTAAATGAAAGATTAAATGCC
185107 TTAAGATGAAAGATTAAATGCC
1 TTAA-ATGAAAGATTAAATGCC
185129 -TAAATG
1 TTAAATG
185135 TGCAATTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 7 0.28
22 15 0.60
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (21 bp):
TTAAATGAAAGATTAAATGCC
Found at i:185265 original size:59 final size:59
Alignment explanation
Indices: 185202--185326 Score: 232
Period size: 59 Copynumber: 2.1 Consensus size: 59
185192 GATGAAAAAC
* *
185202 TAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
1 TAAATGCCTAACTGTGCATTTGACAGAAAGATGCCAATAATGCAAGTTAGATGAAAGGT
185261 TAAATGCCTAACTGTGCATTTGACAGAAAGATGCCAATAATGCAAGTTAGATGAAAGGT
1 TAAATGCCTAACTGTGCATTTGACAGAAAGATGCCAATAATGCAAGTTAGATGAAAGGT
185320 TAAATGC
1 TAAATGC
185327 ATTTAGATGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (59 bp):
TAAATGCCTAACTGTGCATTTGACAGAAAGATGCCAATAATGCAAGTTAGATGAAAGGT
Found at i:185265 original size:140 final size:141
Alignment explanation
Indices: 185110--185373 Score: 381
Period size: 140 Copynumber: 1.9 Consensus size: 141
185100 AAATGCCTTA
* *
185110 AGATGAAAGATTAAATGCCTAAATGTGCAATTGGCAGAAAGGTACCAATAATACAAGTTAGATGA
1 AGATGAAAGATTAAATGCCTAAATGTGCAATTGACAGAAAGATACCAATAATACAAGTTAGATGA
*
185175 AAGGTTAAATGTC-TTTGGATGAAAAACTAAATGCCTAACT-GTGCA-TTTGGCAGAAAGGTGCC
66 AAGGTTAAATG-CATTTAGATGAAAAACTAAATGCCTAA-TAGTGCATTTTGGCAGAAAGGTGCC
185237 AATAATGCAAGTT
129 AATAATGCAAGTT
* * * * *
185250 AGATGAAAGGTTAAATGCCTAACTGTGCATTTGACAGAAAGATGCCAATAATGCAAGTTAGATGA
1 AGATGAAAGATTAAATGCCTAAATGTGCAATTGACAGAAAGATACCAATAATACAAGTTAGATGA
* * * *
185315 AAGGTTAAATGCATTTAGATGAAATACTAAATTCTTAATAGTGCATTTTGGCATAAAGG
66 AAGGTTAAATGCATTTAGATGAAAAACTAAATGCCTAATAGTGCATTTTGGCAGAAAGG
185374 GTGTCATTTA
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
139 2 0.02
140 95 0.87
141 12 0.11
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (141 bp):
AGATGAAAGATTAAATGCCTAAATGTGCAATTGACAGAAAGATACCAATAATACAAGTTAGATGA
AAGGTTAAATGCATTTAGATGAAAAACTAAATGCCTAATAGTGCATTTTGGCAGAAAGGTGCCAA
TAATGCAAGTT
Found at i:187011 original size:29 final size:29
Alignment explanation
Indices: 186967--187023 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
186957 TTCCCATGGG
186967 CCATGGACTTTATGTTAATCAAGATTAAA
1 CCATGGACTTTATGTTAATCAAGATTAAA
* *
186996 CCATGGCCTTTGTGTTAATCAAGATTAA
1 CCATGGACTTTATGTTAATCAAGATTAA
187024 CGGTGGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (29 bp):
CCATGGACTTTATGTTAATCAAGATTAAA
Found at i:195306 original size:335 final size:332
Alignment explanation
Indices: 194682--195689 Score: 1474
Period size: 335 Copynumber: 3.0 Consensus size: 332
194672 AACTCGATAA
*
194682 ATTTTGATTTTTGCATGAAATTACACAATACATATAATATAGTATAGGAAAACTTTGAGGGTAAG
1 ATTTTGATTTTTGCATGAAATTACACAATACATATAATCTAGTATAGGAAAACTTTGAGGGTAAG
*** * *
194747 TATTTTTAAAATATGAATAATTTTATAAAAAAATTATAACCAGTATTTCTTTTACAAAATGATTA
66 TA-TTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAGTATTTATTTTACAAAATGATGA
* *
194812 TGATGATAATAATAAAAATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAAATTT
130 TGATGATAAT-ATATAAA---TAT--TTT--AAAATTATAAATTTCATATATTTTTGAAAAAATT
* * *
194877 ATTCACTTTTAAAATTAATTGTTT--AAAAATATAAAAATATTAAAATAAACTTTTAATTATAAT
187 ATTGACTTTTAAAATTAATTGTTTAAAAAAATAAAAAAATATTAAAATAAACTTTTAATTACAAT
*
194940 TGAGGGATCAAATGAATTATTATTCATTAATTATTATTTTTTAATAACAGTTAATAATGTTTATT
252 TGAGGGATCAAATGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTAATAATGTTTATT
195005 CATTTTTAATAAAATT
317 CATTTTTAATAAAATT
* *
195021 ATTTTGATTTTTTTCATGAAATTACACAATACATATAATCTAGTATAGGAAAACTTTGAGGGCAA
1 ATTTTGA-TTTTTGCATGAAATTACACAATACATATAATCTAGTATAGGAAAACTTTGAGGGTAA
* * *
195086 GTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAAACAATATTTTTTTTACAAAATGATGA
65 GTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAGTATTTATTTTACAAAATGATGA
* * *
195151 TGATGATGATGATGATAAATATTTTATAATT-TAAA-TTCATATATTTTTGAAAAAATTATTGAA
130 TGATGATAAT-AT-ATAAATATTTTAAAATTATAAATTTCATATATTTTTGAAAAAATTATTGAC
*
195214 TTTTAATATTAATTGTTTAAAAAAAATTAAAAAAATATTAAAATAAACTTTTAATTACAATTGAG
193 TTTTAAAATTAATTGTTT-AAAAAAA-TAAAAAAATATTAAAATAAACTTTTAATTACAATTGAG
* *
195279 GGATGAAATGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTAATAATGTTTATTTATT
256 GGATCAAATGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTAATAATGTTTATTCATT
*
195344 TTTAATATAATT
321 TTTAATAAAATT
* **
195356 ATTTTTATTTTTGCATGAAATTACACAATATGTATAATCTAGTATAGGAAAACTTTGAGGGTATA
1 ATTTTGATTTTTGCATGAAATTACACAATACATATAATCTAGTATAGGAAAACTTTGAGGGTA-A
195421 -TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAGTATTTATTTTACAAAATGATGA
65 GTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAGTATTTATTTTACAAAATGATGA
** *
195485 TGATGATAA-ATATTTTATAATTTAAAAATTTATAAATTTCATATATTTTT-AAAAAATTTATTG
130 TGATGATAATATA-TAAAT-ATTTTAAAA-TTATAAATTTCATATATTTTTGAAAAAA-TTATTG
* * *
195548 ACTTTTAAAATTAATTGTTTAAATATAT-AAAAAATATTAAAACAAACTTTTAATTACAATTGAG
191 ACTTTTAAAATTAATTGTTTAAAAAAATAAAAAAATATTAAAATAAACTTTTAATTACAATTGAG
* *
195612 GGATCAGATGAATTATTATTCATTAATTATTATTTTTTAACAACAGTAAATAATGTTTATTCATT
256 GGATCAAATGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTAATAATGTTTATTCATT
195677 TTTAATAAAATT
321 TTTAATAAAATT
195689 A
1 A
195690 GAATTTAATA
Statistics
Matches: 609, Mismatches: 47, Indels: 32
0.89 0.07 0.05
Matches are distributed among these distances:
331 43 0.07
332 9 0.01
333 120 0.20
334 129 0.21
335 134 0.22
336 37 0.06
337 3 0.00
339 73 0.12
340 61 0.10
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (332 bp):
ATTTTGATTTTTGCATGAAATTACACAATACATATAATCTAGTATAGGAAAACTTTGAGGGTAAG
TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAGTATTTATTTTACAAAATGATGAT
GATGATAATATATAAATATTTTAAAATTATAAATTTCATATATTTTTGAAAAAATTATTGACTTT
TAAAATTAATTGTTTAAAAAAATAAAAAAATATTAAAATAAACTTTTAATTACAATTGAGGGATC
AAATGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTAATAATGTTTATTCATTTTTAA
TAAAATT
Found at i:195833 original size:21 final size:21
Alignment explanation
Indices: 195777--195834 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
195767 TTTACATTCT
*
195777 TTTTGTATTGAATTTTATTCAC
1 TTTT-TATTGATTTTTATTCAC
* **
195799 TTTTAATTCTTTTTTATTGCA-
1 TTTTTATTGATTTTTATT-CAC
195820 TTTTTATTGATTTTT
1 TTTTTATTGATTTTT
195835 TAAAAAATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTTATTGATTTTTATTCAC
Found at i:196260 original size:72 final size:72
Alignment explanation
Indices: 196138--196281 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
196128 CGGTGCATGG
*
196138 ACCGCGCCTTCCTGCAAAGGGTGTTAGATCGATAAATATAATTGAAAAGGTGTCTGACAGGTAAA
1 ACCGCGCCTTCCTGCAAAGGGTGTTAGATCGATAAATAAAATTGAAAAGGTGTCTGACAGGTAAA
196203 TAAAGTT
66 TAAAGTT
*
196210 ACCGTGCCTTCCTGCAAAGGGTGTTAGATCGATAAATAAAATTGAAAAGGTGTCTGACAGGTAAA
1 ACCGCGCCTTCCTGCAAAGGGTGTTAGATCGATAAATAAAATTGAAAAGGTGTCTGACAGGTAAA
196275 TAAAGTT
66 TAAAGTT
196282 GATCAGGATG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (72 bp):
ACCGCGCCTTCCTGCAAAGGGTGTTAGATCGATAAATAAAATTGAAAAGGTGTCTGACAGGTAAA
TAAAGTT
Found at i:205190 original size:16 final size:16
Alignment explanation
Indices: 205169--205199 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
205159 ATAAATAAAA
205169 GAACATAAACGAACAC
1 GAACATAAACGAACAC
*
205185 GAACATAAACTAACA
1 GAACATAAACGAACA
205200 AATTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.23, G:0.10, T:0.10
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:205285 original size:16 final size:16
Alignment explanation
Indices: 205264--205322 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
205254 CATTTAATAA
205264 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
205280 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
* *
205296 ATAAATGAACACGAAA
1 ATAAACGAACACGAAC
205312 ATAAACGAACA
1 ATAAACGAACA
205323 TAAACGTTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.08
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:206504 original size:24 final size:24
Alignment explanation
Indices: 206445--206495 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
206435 GATTGGGTTA
206445 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAATGAACATAAACG
*
206469 AACATAATCGAATGAACATAACCG
1 AACATAATCGAATGAACATAAACG
206493 AAC
1 AAC
206496 GTTCACGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.55, C:0.18, G:0.12, T:0.16
Consensus pattern (24 bp):
AACATAATCGAATGAACATAAACG
Found at i:211750 original size:30 final size:30
Alignment explanation
Indices: 211716--211774 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
211706 TCCTTATTTT
* *
211716 ATTTCATATTTCGTTCTGTTTCTCTCTATC
1 ATTTCATATTTCGTTCGGTTTCACTCTATC
* * *
211746 ATTTCCTTTTTCTTTCGGTTTCACTCTAT
1 ATTTCATATTTCGTTCGGTTTCACTCTAT
211775 TCTTTCTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.07, T:0.58
Consensus pattern (30 bp):
ATTTCATATTTCGTTCGGTTTCACTCTATC
Found at i:212561 original size:133 final size:134
Alignment explanation
Indices: 212341--212582 Score: 342
Period size: 133 Copynumber: 1.8 Consensus size: 134
212331 AGGTAGGGCG
* * * *
212341 ATAACACGGTTCCTACGCGGTGAAGACGGCTGGTTATCTAGGGGTGACATGGCTCCTACGGGATG
1 ATAACACGGTTCCTACGCGATGAAGACGGCTGGTTATCTAGGGCTGACACGACTCCTACGGGATG
* * *
212406 AGGAGGTCTGGTTGGGGGATGACACGGTTCCTACGCGATGAGGACGGTATGCCATCTTTAAAAAG
66 AGGAGGCCTGGTCGGGGGATGACACGGTTCCTACGCAATGAGGACGGTATGCCATCTTTAAAAAG
212471 GGAA
131 GGAA
* * * * * * *
212475 ATAACATGGTTCCTACGTGATGAGGATGGTTGGTTATC-AGGGCTGACACGACTTCTACGTGATG
1 ATAACACGGTTCCTACGCGATGAAGACGGCTGGTTATCTAGGGCTGACACGACTCCTACGGGATG
*
212539 AGGAGGCCTGGTCGGGGGATGACACGGTTCCTGCGCAATGAGGA
66 AGGAGGCCTGGTCGGGGGATGACACGGTTCCTACGCAATGAGGA
212583 TAACAGGCTA
Statistics
Matches: 93, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
133 61 0.66
134 32 0.34
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (134 bp):
ATAACACGGTTCCTACGCGATGAAGACGGCTGGTTATCTAGGGCTGACACGACTCCTACGGGATG
AGGAGGCCTGGTCGGGGGATGACACGGTTCCTACGCAATGAGGACGGTATGCCATCTTTAAAAAG
GGAA
Found at i:212733 original size:32 final size:32
Alignment explanation
Indices: 212692--212752 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
212682 AAACGACTTA
212692 AAGATGGTTTTGTTTCAAGAGAAACATACCCT
1 AAGATGGTTTTGTTTCAAGAGAAACATACCCT
*
212724 AAGATGGTTTTGTTTCAAGTGAAACATAC
1 AAGATGGTTTTGTTTCAAGAGAAACATAC
212753 TCAAATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (32 bp):
AAGATGGTTTTGTTTCAAGAGAAACATACCCT
Found at i:212986 original size:33 final size:33
Alignment explanation
Indices: 212944--213011 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
212934 GTTAAATCCC
*
212944 CAAAAATGCCAGAACATTCAATGTTGATTGCTT
1 CAAAAATGCCACAACATTCAATGTTGATTGCTT
* * * **
212977 CAAAGATGCCCCAATATTTGATGTTGATTGCTT
1 CAAAAATGCCACAACATTCAATGTTGATTGCTT
213010 CA
1 CA
213012 GCACTGATTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (33 bp):
CAAAAATGCCACAACATTCAATGTTGATTGCTT
Found at i:215032 original size:66 final size:66
Alignment explanation
Indices: 214950--215084 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 66
214940 CCTCATAAGG
*
214950 AAGCATTTTATTGAAAATGTTTTAACATCAAGTGACTTACAAACATTCACACATAGATAGAAAAT
1 AAGCATTTTATTGAAAATGTTTTAACATCAAGTGACTTACAAACATTCACACATAGATAGAAAAA
215015 C
66 C
215016 AAGCATTTTATTGAAAATGTTTTAACATCAAGTGACTTACAAACATTCACACATAGATAGAAAAA
1 AAGCATTTTATTGAAAATGTTTTAACATCAAGTGACTTACAAACATTCACACATAGATAGAAAAA
215081 C
66 C
215082 AAG
1 AAG
215085 TTCAAACAAG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (66 bp):
AAGCATTTTATTGAAAATGTTTTAACATCAAGTGACTTACAAACATTCACACATAGATAGAAAAA
C
Found at i:219681 original size:30 final size:29
Alignment explanation
Indices: 219647--219703 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
219637 CTTATTTTTC
*
219647 TTTCATATTTCGTTAT-GTTTCTCTCTATCA
1 TTTCATATTTC-TT-TCGTTTCACTCTATCA
*
219677 TTTCATTTTTCTTTCGTTTCACTCTAT
1 TTTCATATTTCTTTCGTTTCACTCTAT
219704 TCTCTCTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 13 0.54
30 10 0.42
ACGTcount: A:0.14, C:0.21, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTCATATTTCTTTCGTTTCACTCTATCA
Found at i:220403 original size:9 final size:9
Alignment explanation
Indices: 220391--220421 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
220381 AATAATTATA
220391 AATAATAAC
1 AATAATAAC
220400 AATAATAAC
1 AATAATAAC
*
220409 AATAATAAT
1 AATAATAAC
220418 AATA
1 AATA
220422 TGAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (9 bp):
AATAATAAC
Found at i:221416 original size:31 final size:30
Alignment explanation
Indices: 221354--221419 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
221344 TATTTAACAT
* *
221354 CTAAACTATCATTTTAGTCCGCTTTATTAC
1 CTAAACTATCATTTTAGTCCACTTTAGTAC
* *
221384 CTAAACTATCATTTTTAGTCTATTTTAGTAC
1 CTAAACTATCA-TTTTAGTCCACTTTAGTAC
221415 CTAAA
1 CTAAA
221420 TTTTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (30 bp):
CTAAACTATCATTTTAGTCCACTTTAGTAC
Found at i:231058 original size:15 final size:15
Alignment explanation
Indices: 231038--231066 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
231028 TTATAAGATT
231038 AATTTCATTCCCTAA
1 AATTTCATTCCCTAA
231053 AATTTCATTCCCTA
1 AATTTCATTCCCTA
231067 CTAACATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTCATTCCCTAA
Found at i:232798 original size:29 final size:30
Alignment explanation
Indices: 232761--232830 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
232751 AAAATGTAAG
*
232761 TTTTG-AAAGTTTAGTAACCAAAGTATA-AA
1 TTTTGAAAAGTTTAGGAACCAAA-TATATAA
*
232790 -TTTGAAAAGTTTAGGGACCAAATATATAA
1 TTTTGAAAAGTTTAGGAACCAAATATATAA
*
232819 TTTTTAAAAGTT
1 TTTTGAAAAGTT
232831 ATATATTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 8 0.23
29 17 0.49
30 10 0.29
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (30 bp):
TTTTGAAAAGTTTAGGAACCAAATATATAA
Found at i:232890 original size:17 final size:18
Alignment explanation
Indices: 232865--232898 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
232855 AGTTTTTTAT
232865 GAAATTAAGATTTTTGAG
1 GAAATTAAGATTTTTGAG
232883 GAAA-TAAGATTTTTGA
1 GAAATTAAGATTTTTGA
232899 TTTTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (18 bp):
GAAATTAAGATTTTTGAG
Found at i:237118 original size:59 final size:60
Alignment explanation
Indices: 236985--237120 Score: 134
Period size: 59 Copynumber: 2.3 Consensus size: 60
236975 TATGCAACGT
* * * *
236985 AGTGCTAA-CCCGAATATGACACATGAGGTCGTGCCCACAATTAGCACTAGTTATGCTTT
1 AGTGCAAATCCCGAATATGACACATAAGGTCGTGCCCACAATTAGCACTAGTTATACTTA
* * ** * * * **
237044 AGTGCTAGT-TTGAATATGATACATAAGGTCGTTCCCACCATTTTCACTAGTTATACTTA
1 AGTGCAAATCCCGAATATGACACATAAGGTCGTGCCCACAATTAGCACTAGTTATACTTA
237103 AGTG-AAATCCCGAATATG
1 AGTGCAAATCCCGAATATG
237121 CAGCCTTCTT
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
58 2 0.03
59 58 0.97
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (60 bp):
AGTGCAAATCCCGAATATGACACATAAGGTCGTGCCCACAATTAGCACTAGTTATACTTA
Found at i:250837 original size:3 final size:3
Alignment explanation
Indices: 250829--250855 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
250819 CACTATTAGC
250829 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
250856 AACATCCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:254504 original size:59 final size:59
Alignment explanation
Indices: 254421--254532 Score: 143
Period size: 59 Copynumber: 1.9 Consensus size: 59
254411 GTGCTAACCT
* ** * *
254421 GAATATGACACATGAGGTTGTGCCCACCATCAGCACGAGTTATACTTTAGTGCTAGCTC
1 GAATATGACACATAAGGTCATGCCCACAATCAGCACGAGTTATACTTAAGTGCTAGCTC
* ** *
254480 GAATATGATACATAAGGTCATGCCCACAATTTGCACTAGTTATACTTAAGTGC
1 GAATATGACACATAAGGTCATGCCCACAATCAGCACGAGTTATACTTAAGTGC
254533 AATCCCAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 44 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (59 bp):
GAATATGACACATAAGGTCATGCCCACAATCAGCACGAGTTATACTTAAGTGCTAGCTC
Found at i:263043 original size:13 final size:13
Alignment explanation
Indices: 263025--263085 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
263015 TGCGTCATAA
*
263025 ATTTATGACGCGC
1 ATTTATGACACGC
263038 ATTTATGACACGC
1 ATTTATGACACGC
*
263051 ATTTATGACACGA
1 ATTTATGACACGC
* *
263064 ATTTATGACGCAC
1 ATTTATGACACGC
263077 ATTTATGAC
1 ATTTATGAC
263086 TTACATTGCG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (13 bp):
ATTTATGACACGC
Found at i:263165 original size:85 final size:85
Alignment explanation
Indices: 263063--263221 Score: 255
Period size: 85 Copynumber: 1.9 Consensus size: 85
263053 TTATGACACG
* * * *
263063 AATTTATGACGCACATTTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATATATGAAGATG
1 AATTTATGACACACATTTATGACTTACATTGCGCGTCATTGAAGCCCCCATCATAAATGAAAATG
263128 ACACACATTTGTGTGTCATA
66 ACACACATTTGTGTGTCATA
* * *
263148 AATTTATGACACGCATTTGTGACTTACATTGCGTGTCATTGAAGCCCCCATCATAAATGAAAATG
1 AATTTATGACACACATTTATGACTTACATTGCGCGTCATTGAAGCCCCCATCATAAATGAAAATG
263213 ACACACATT
66 ACACACATT
263222 CGTTTGTCGT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (85 bp):
AATTTATGACACACATTTATGACTTACATTGCGCGTCATTGAAGCCCCCATCATAAATGAAAATG
ACACACATTTGTGTGTCATA
Found at i:288913 original size:30 final size:31
Alignment explanation
Indices: 288877--288935 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
288867 TGAATAAACT
288877 GAAAGTTTAGTGG-CTAAAAT-ATAAATTTAG
1 GAAAGTTTAG-GGACTAAAATGATAAATTTAG
288907 GAAAGTTTAGGGACTAAAATGGATAAATT
1 GAAAGTTTAGGGACTAAAAT-GATAAATT
288936 GTAATATCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 2 0.08
30 17 0.65
32 7 0.27
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (31 bp):
GAAAGTTTAGGGACTAAAATGATAAATTTAG
Found at i:294892 original size:85 final size:85
Alignment explanation
Indices: 294746--294905 Score: 302
Period size: 85 Copynumber: 1.9 Consensus size: 85
294736 GATAAAAACC
*
294746 ACAAGTATCAAAGAAAAAAGGGTTGACGCCACAAGTAAAGATTTACTTGATAAGTCAATAAAAGT
1 ACAAGTATCAAAGAAAAAAGAGTTGACGCCACAAGTAAAGATTTACTTGATAAGTCAATAAAAGT
294811 CACCAAGGAAGATTTACTTG
66 CACCAAGGAAGATTTACTTG
*
294831 ACAAGTATCAAAGAAAAAAGAGTTGACGCCACAAGTAAAGATTTACTTGATAAGTCGATAAAAGT
1 ACAAGTATCAAAGAAAAAAGAGTTGACGCCACAAGTAAAGATTTACTTGATAAGTCAATAAAAGT
294896 CACCAAGGAA
66 CACCAAGGAA
294906 TTGAGAAAAG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (85 bp):
ACAAGTATCAAAGAAAAAAGAGTTGACGCCACAAGTAAAGATTTACTTGATAAGTCAATAAAAGT
CACCAAGGAAGATTTACTTG
Found at i:295455 original size:21 final size:21
Alignment explanation
Indices: 295419--295464 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 21
295409 TCTATCCAAG
*
295419 ACCTCTTTGGCTCC-TTAGC-
1 ACCTCTTTAGCTCCTTTAGCT
295438 ACCTCTCTTAGCTACCTTTAGCT
1 ACCTCT-TTAGCT-CCTTTAGCT
295461 ACCT
1 ACCT
295465 ACTTGGGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 6 0.27
20 5 0.23
21 2 0.09
22 5 0.23
23 4 0.18
ACGTcount: A:0.15, C:0.37, G:0.11, T:0.37
Consensus pattern (21 bp):
ACCTCTTTAGCTCCTTTAGCT
Found at i:296059 original size:2 final size:2
Alignment explanation
Indices: 296046--296115 Score: 131
Period size: 2 Copynumber: 34.5 Consensus size: 2
296036 AACATGTATG
296046 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
296089 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 T
296116 CAAAGTAAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 65 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:299500 original size:31 final size:31
Alignment explanation
Indices: 299465--299525 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
299455 TTTGACTTAT
* *
299465 GGAAGATGATTAGGTTTAGGTGTCTTGGTTA
1 GGAAGATGATAAGGGTTAGGTGTCTTGGTTA
299496 GGAAGATGATAAGGGTTAGGTGTCTTGGTT
1 GGAAGATGATAAGGGTTAGGTGTCTTGGTT
299526 TAATGCTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.03, G:0.38, T:0.36
Consensus pattern (31 bp):
GGAAGATGATAAGGGTTAGGTGTCTTGGTTA
Found at i:300684 original size:24 final size:24
Alignment explanation
Indices: 300657--300703 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
300647 CATAACATGG
300657 TACATAGATGTTTTATACATCATA
1 TACATAGATGTTTTATACATCATA
300681 TACATAGATGTTTTATACATCAT
1 TACATAGATGTTTTATACATCAT
300704 CTAAAGACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (24 bp):
TACATAGATGTTTTATACATCATA
Found at i:305887 original size:58 final size:58
Alignment explanation
Indices: 305484--305879 Score: 533
Period size: 58 Copynumber: 6.8 Consensus size: 58
305474 CATATTTCCC
* * * * * ** *
305484 ATACGGAAATTCATTCACTTAGTATGAATCTCTTAATTTTTTTCACGTAAAGTACCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * * *
305542 ATAC-AGAAATTCATACACCTAGTATGAATTTCTTAATTTTTTGCACACAAAGAGCCCG
1 ATACGA-AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * * *
305600 ATACGAAAATTCATACACTTAGTATAAATTTCTTAACGTTTTGTACACAAAGTTCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * * *
305658 ATAAGAAAATTCATACATTTACTATGAATTTATTAACTTTTTGCACACAAAGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
*
305716 ATATGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * *
305774 ATACGGAAATTCATACACTTAATATGAATTTCTTAAATTTTTGCACACAAAGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * *
305832 ATACGAAAATTAAAACACTTAGTATGACTTTCTTAACTTTTTGCACAC
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
305880 TTAGTGCCAT
Statistics
Matches: 296, Mismatches: 40, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
58 295 1.00
59 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (58 bp):
ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:306332 original size:19 final size:20
Alignment explanation
Indices: 306308--306351 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
306298 TAATGGAATC
*
306308 GATACCTTCC-CTCGGTATT
1 GATACCTCCCTCTCGGTATT
306327 GATACCTCCCTCTCGGTATT
1 GATACCTCCCTCTCGGTATT
306347 GATAC
1 GATAC
306352 TGATTAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (20 bp):
GATACCTCCCTCTCGGTATT
Found at i:323282 original size:17 final size:17
Alignment explanation
Indices: 323262--323295 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
323252 AATTGACAAT
323262 CATTCTATACATTTTTA
1 CATTCTATACATTTTTA
*
323279 CATTCTTTACATTTTTA
1 CATTCTATACATTTTTA
323296 TTTATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.56
Consensus pattern (17 bp):
CATTCTATACATTTTTA
Found at i:329650 original size:29 final size:29
Alignment explanation
Indices: 329586--329650 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
329576 TCAAATATTT
* *
329586 AATA-CCATAAATCCATCAAAATAGCATA
1 AATATCCATAAAACCATCAAAATAGCACA
* *
329614 AATGTCCATAAAACCATCAAAATATC-CA
1 AATATCCATAAAACCATCAAAATAGCACA
329642 AATCATCCA
1 AAT-ATCCA
329651 AATTCATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.51, C:0.25, G:0.03, T:0.22
Consensus pattern (29 bp):
AATATCCATAAAACCATCAAAATAGCACA
Found at i:330834 original size:54 final size:53
Alignment explanation
Indices: 330752--331038 Score: 316
Period size: 54 Copynumber: 5.4 Consensus size: 53
330742 TTTATTAAGA
* * * * * *
330752 TGCACACGTAGTGCCTATACGGTCGTTCACCAACACATG-TCGAATTCTGTGGGT
1 TGCACACATAGTGCTTGTACGGTTGTTCATCAACTCATGAT-GAATT-TGTGGGT
330806 TGCACACATAGTGCTTGTACGGTTGTTCATCAACTCATGATGAATTATGTGGGT
1 TGCACACATAGTGCTTGTACGGTTGTTCATCAACTCATGATGAATT-TGTGGGT
*
330860 TGCACACATAGTG-TATGTACGGTTGTT-ATTCAACTCATGACGAATTTCGTGGGT
1 TGCACACATAGTGCT-TGTACGGTTGTTCA-TCAACTCATGATGAATTT-GTGGGT
* * **
330914 TGCAAACTTAGTGCTTGTACGGTTGTTCATCAACTCATGATGAATTCCATGGGT
1 TGCACACATAGTGCTTGTACGGTTGTTCATCAACTCATGATGAATT-TGTGGGT
* * *
330968 TG--CACTTAGTG-TCTGTACGGTTGTTTATAAACTCATGATGAATTTCGTGGGT
1 TGCACACATAGTGCT-TGTACGGTTGTTCATCAACTCATGATGAATTT-GTGGGT
*
331020 TGCACACATAGTGCCTGTA
1 TGCACACATAGTGCTTGTA
331039 GTACACATAA
Statistics
Matches: 201, Mismatches: 20, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
51 1 0.00
52 44 0.22
53 3 0.01
54 150 0.75
55 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (53 bp):
TGCACACATAGTGCTTGTACGGTTGTTCATCAACTCATGATGAATTTGTGGGT
Found at i:330904 original size:108 final size:106
Alignment explanation
Indices: 330782--331038 Score: 356
Period size: 108 Copynumber: 2.4 Consensus size: 106
330772 GGTCGTTCAC
* *
330782 CAACACATGTCGAA-TTCTGTGGGTTGCACACATAGTGCTTGTACGGTTGTTCATCAACTCATGA
1 CAACTCATGACGAATTTC-GTGGGTTGCACACATAGTGCTTGTACGGTTGTTCATCAACTCATGA
**
330846 TGAATTATGTGGGTTGCACACATAGTGTATGTACGGTTG-TTATT
65 TGAATTACATGGGTTG--CACATAGTGTATGTACGGTTGTTTA-T
* *
330890 CAACTCATGACGAATTTCGTGGGTTGCAAACTTAGTGCTTGTACGGTTGTTCATCAACTCATGAT
1 CAACTCATGACGAATTTCGTGGGTTGCACACATAGTGCTTGTACGGTTGTTCATCAACTCATGAT
* * *
330955 GAATTCCATGGGTTGCACTTAGTGTCTGTACGGTTGTTTAT
66 GAATTACATGGGTTGCACATAGTGTATGTACGGTTGTTTAT
* * *
330996 AAACTCATGATGAATTTCGTGGGTTGCACACATAGTGCCTGTA
1 CAACTCATGACGAATTTCGTGGGTTGCACACATAGTGCTTGTA
331039 GTACACATAA
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
106 58 0.44
107 3 0.02
108 69 0.52
109 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
CAACTCATGACGAATTTCGTGGGTTGCACACATAGTGCTTGTACGGTTGTTCATCAACTCATGAT
GAATTACATGGGTTGCACATAGTGTATGTACGGTTGTTTAT
Found at i:337583 original size:54 final size:54
Alignment explanation
Indices: 337534--337798 Score: 336
Period size: 54 Copynumber: 4.9 Consensus size: 54
337524 CTATATGGTC
* * * * * *
337534 GTTCATCAACACATGATGAATTTCATGAGTTGCACACATAATGCTTATATGGTT
1 GTTCATCAACTCATGATGAATTTCGTGGGTTGCACACATAGTGCTTGTACGGTT
*
337588 GTTCATCAACTCATGATGAATTTCGTGGGTTTCACACATAGTG-TCTGTACGGTT
1 GTTCATCAACTCATGATGAATTTCGTGGGTTGCACACATAGTGCT-TGTACGGTT
* * * * * *
337642 GTTCGTTAACTCACGATGAATTAT-GTGGGTTGTACACTTAGTGCTGGTACGGTT
1 GTTCATCAACTCATGATGAATT-TCGTGGGTTGCACACATAGTGCTTGTACGGTT
* *
337696 GTTCATCAACTCATGATGAATTCCATGGGTTGCACACATAGTGCTTGTACGGTT
1 GTTCATCAACTCATGATGAATTTCGTGGGTTGCACACATAGTGCTTGTACGGTT
* * *
337750 GTTCATCAACTCATGATGAATTTTGTGGGTTGCACACATTGTGCATGTA
1 GTTCATCAACTCATGATGAATTTCGTGGGTTGCACACATAGTGCTTGTA
337799 GTACACATAG
Statistics
Matches: 180, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 177 0.98
55 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (54 bp):
GTTCATCAACTCATGATGAATTTCGTGGGTTGCACACATAGTGCTTGTACGGTT
Found at i:345269 original size:31 final size:33
Alignment explanation
Indices: 345228--345288 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
345218 GGGTATCGGT
* *
345228 TACCCGAATTA-CGAGTACCCGCAAAATCTAGG
1 TACCCGAATTACCAAGTACCCACAAAATCTAGG
*
345260 TACCC-AATTACCAAGTACCCACAACATCT
1 TACCCGAATTACCAAGTACCCACAAAATCT
345289 GGGTCGGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 5 0.20
32 20 0.80
ACGTcount: A:0.36, C:0.33, G:0.11, T:0.20
Consensus pattern (33 bp):
TACCCGAATTACCAAGTACCCACAAAATCTAGG
Found at i:345414 original size:3 final size:3
Alignment explanation
Indices: 345402--345439 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
345392 TCGAAAATAC
*
345402 ATT A-T ATT ATT A-T ATT ATT ATT ATT ATT ATT ACT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
345440 ATAATTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:345433 original size:9 final size:8
Alignment explanation
Indices: 345402--345431 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
345392 TCGAAAATAC
345402 ATTATATT
1 ATTATATT
345410 ATTATATT
1 ATTATATT
345418 ATTATTATT
1 ATTA-TATT
345427 ATTAT
1 ATTAT
345432 TACTATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
ATTATATT
Found at i:346053 original size:32 final size:32
Alignment explanation
Indices: 346017--346077 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
346007 GAGAGTTTGA
* * * *
346017 AGAAAAGAGGAGAGAAAAGAAAGAGAAAACAT
1 AGAAAAAAGAAGAAAAAAGAAAAAGAAAACAT
*
346049 AGAAAAAAGAATAAAAAAGAAAAAGAAAA
1 AGAAAAAAGAAGAAAAAAGAAAAAGAAAA
346078 AACAAGACAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.03
Consensus pattern (32 bp):
AGAAAAAAGAAGAAAAAAGAAAAAGAAAACAT
Found at i:346059 original size:16 final size:15
Alignment explanation
Indices: 346031--346089 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
346021 AAGAGGAGAG
*
346031 AAAAGAAAGAGAAAA
1 AAAAGAAAAAGAAAA
* *
346046 CATAGAAAAAAGAATAA
1 AAAAG-AAAAAGAA-AA
346063 AAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAA
346078 AACAAGACAAAA
1 AA-AAGA-AAAA
346090 ACATAAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 7 0.20
16 19 0.54
17 9 0.26
ACGTcount: A:0.78, C:0.05, G:0.14, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAAGAAAA
Found at i:346814 original size:30 final size:30
Alignment explanation
Indices: 346780--346934 Score: 247
Period size: 30 Copynumber: 5.2 Consensus size: 30
346770 GTAATTATTG
* *
346780 TTTAGCCCTTCAAATTTCTATTTTTACTAT
1 TTTAGTCCTTTAAATTTCTATTTTTACTAT
* * *
346810 TTTAGTCATTTAAATTTCCATTTTTTCTAT
1 TTTAGTCCTTTAAATTTCTATTTTTACTAT
346840 TTTAGTCCTTTAAATTTCTATTTTTACTAT
1 TTTAGTCCTTTAAATTTCTATTTTTACTAT
346870 TTTAGTCCTTTAAATTTCTATTTTTACTAT
1 TTTAGTCCTTTAAATTTCTATTTTTACTAT
* *
346900 TTTAGTCCTTTAAATTTATGTTTTTACTAT
1 TTTAGTCCTTTAAATTTCTATTTTTACTAT
346930 TTTAG
1 TTTAG
346935 CCTCTCAAGT
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 115 1.00
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.59
Consensus pattern (30 bp):
TTTAGTCCTTTAAATTTCTATTTTTACTAT
Found at i:346961 original size:60 final size:59
Alignment explanation
Indices: 346780--346973 Score: 194
Period size: 60 Copynumber: 3.2 Consensus size: 59
346770 GTAATTATTG
* * * * * * * *
346780 TTTAGCCCTTCAAATTTCTATTTTTACTATTTTAGTCATTTAAATTTCCATTTTTTCTAT
1 TTTAGTCCTTTAAATTTATATTTTTACTATTTTAGTCCTTCAAATTTCTA-TGTTTATAT
* * *
346840 TTTAGTCCTTTAAATTTCTATTTTTACTATTTTAGTCCTTTAAATTTCTATTTTTACTAT
1 TTTAGTCCTTTAAATTTATATTTTTACTATTTTAGTCCTTCAAATTTCTATGTTTA-TAT
* *
346900 TTTAGTCCTTTAAATTTATGTTTTTACTATTTTAG-CCTCTCAAGTTTCTGATAGTTT-TAT
1 TTTAGTCCTTTAAATTTATATTTTTACTATTTTAGTCCT-TCAAATTTCT-AT-GTTTATAT
* *
346960 TTTGGTCCCTTAAA
1 TTTAGTCCTTTAAA
346974 ATCATCAAAT
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
59 8 0.07
60 105 0.89
61 2 0.02
62 3 0.03
ACGTcount: A:0.23, C:0.15, G:0.06, T:0.56
Consensus pattern (59 bp):
TTTAGTCCTTTAAATTTATATTTTTACTATTTTAGTCCTTCAAATTTCTATGTTTATAT
Found at i:346961 original size:90 final size:88
Alignment explanation
Indices: 346780--346973 Score: 232
Period size: 90 Copynumber: 2.2 Consensus size: 88
346770 GTAATTATTG
* *
346780 TTTAGCCCTTCAAATTTCTATTTTTACTATTTTAGTCATTTAAATTTCCATTTTTTCTATTTTAG
1 TTTAGTCCTTTAAATTTCTATTTTTACTATTTTAGTCATTTAAATTT-CATTTTTTCTATTTTAG
* *
346845 TCCTTTAAATTTCTATTTTTACTAT
65 TCCTTCAAATTTCTATGTTTA-TAT
*
346870 TTTAGTCCTTTAAATTTCTATTTTTACTATTTTAGTCCTTTAAATTT-ATGTTTTTACTATTTTA
1 TTTAGTCCTTTAAATTTCTATTTTTACTATTTTAGTCATTTAAATTTCAT-TTTTT-CTATTTTA
*
346934 G-CCTCTCAAGTTTCTGATAGTTT-TAT
64 GTCCT-TCAAATTTCT-AT-GTTTATAT
* *
346960 TTTGGTCCCTTAAA
1 TTTAGTCCTTTAAA
346974 ATCATCAAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
88 2 0.02
89 8 0.09
90 76 0.84
91 2 0.02
92 3 0.03
ACGTcount: A:0.23, C:0.15, G:0.06, T:0.56
Consensus pattern (88 bp):
TTTAGTCCTTTAAATTTCTATTTTTACTATTTTAGTCATTTAAATTTCATTTTTTCTATTTTAGT
CCTTCAAATTTCTATGTTTATAT
Found at i:352080 original size:64 final size:65
Alignment explanation
Indices: 351925--352112 Score: 197
Period size: 64 Copynumber: 2.9 Consensus size: 65
351915 AAACTATATA
* * ** * * *
351925 ATGCATCGATGCAC-CCTTGAATAAATTGAA-TTTCGAATGCATTTTGTGTACCGATGCACAAGG
1 ATGCATCGATGCACTCC-TAAATAATTTGAAGCATCGAATGCATTTTATGTATCGATGCACAAGC
351988 C
65 C
351989 ATGCATCGATGCACTCCTAAATAATTTGAA-CATCGAATGCATTTTATGTATCGATGCAC-AGAC
1 ATGCATCGATGCACTCCTAAATAATTTGAAGCATCGAATGCATTTTATGTATCGATGCACAAG-C
352052 C
65 C
** * * * *
352053 ATGCATCGATGCACTCC-AGGCTTATTTGAAGCATCAAATGTATTTTATGCATCGATGCAC
1 ATGCATCGATGCACTCCTA-AATAATTTGAAGCATCGAATGCATTTTATGTATCGATGCAC
352113 CCCTAGTGTA
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
63 3 0.03
64 76 0.71
65 28 0.26
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (65 bp):
ATGCATCGATGCACTCCTAAATAATTTGAAGCATCGAATGCATTTTATGTATCGATGCACAAGCC
Found at i:357806 original size:21 final size:21
Alignment explanation
Indices: 357780--357885 Score: 127
Period size: 21 Copynumber: 5.3 Consensus size: 21
357770 ATGCGATAGT
357780 AATGCGAACTTCGACTATCGC
1 AATGCGAACTTCGACTATCGC
357801 AATGCGAACTTCGACTATCGC
1 AATGCGAACTTCGACTATCGC
*
357822 AATGCGATA-GTCGACTATCGC
1 AATGCGA-ACTTCGACTATCGC
*
357843 AATGCGAACTTGGACTA---C
1 AATGCGAACTTCGACTATCGC
357861 ---GCGAACTTCGACTATCGC
1 AATGCGAACTTCGACTATCGC
*
357879 ATTGCGA
1 AATGCGA
357886 TTTACATATT
Statistics
Matches: 73, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
15 13 0.18
18 2 0.03
20 1 0.01
21 56 0.77
22 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (21 bp):
AATGCGAACTTCGACTATCGC
Found at i:357900 original size:20 final size:20
Alignment explanation
Indices: 357875--357947 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
357865 ACTTCGACTA
357875 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
357895 TCGCATTGCGATAGT-CGACTA-
1 TCGCATTGCGAT-TTAC-A-TAT
* *
357916 TCACATTGTGATTTACATAT
1 TCGCATTGCGATTTACATAT
357936 TCGCATTGCGAT
1 TCGCATTGCGAT
357948 AGTCCAACTT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
19 2 0.05
20 25 0.60
21 13 0.31
22 2 0.05
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:357929 original size:41 final size:41
Alignment explanation
Indices: 357868--357968 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 41
357858 TACGCGAACT
*
357868 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCACATTGCGATTTACATATTCGCATTGCGATAG
*
357909 TCGACTATCACATTGTGATTTACATATTCGCATTGCGATAG
1 TCGACTATCACATTGCGATTTACATATTCGCATTGCGATAG
* *
357950 TCCAACT-TCGCATTGCGAT
1 T-CGACTATCACATTGCGAT
357969 AGTCAAAGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 50 0.93
42 4 0.07
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (41 bp):
TCGACTATCACATTGCGATTTACATATTCGCATTGCGATAG
Found at i:357960 original size:21 final size:20
Alignment explanation
Indices: 357934--358083 Score: 121
Period size: 21 Copynumber: 7.3 Consensus size: 20
357924 TGATTTACAT
357934 ATTCGCATTGCGATAGTCCAA
1 ATTCGC-TTGCGATAGTCCAA
*
357955 CTTCGCATTGCGATAGT-CAA
1 ATTCGC-TTGCGATAGTCCAA
*
357975 AGTTCGCTTTGCGATTTATTCCAA
1 A-TTCGC-TTGCGA--TAGTCCAA
357999 ATTCG-TTGCGATAGTCCAA
1 ATTCGCTTGCGATAGTCCAA
* *
358018 AATCGC--GCGATAGTCGAA
1 ATTCGCTTGCGATAGTCCAA
* *
358036 GTTCGCGTTGCGATTTATTCCAA
1 ATTCGC-TTGCGA--TAGTCCAA
358059 ATTCG-TTGCGATAGTCCAA
1 ATTCGCTTGCGATAGTCCAA
*
358078 AATCGC
1 ATTCGC
358084 AACGACTGGT
Statistics
Matches: 104, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
18 15 0.14
19 22 0.21
20 3 0.03
21 43 0.41
23 17 0.16
24 4 0.04
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (20 bp):
ATTCGCTTGCGATAGTCCAA
Found at i:358038 original size:60 final size:61
Alignment explanation
Indices: 357941--358083 Score: 225
Period size: 60 Copynumber: 2.3 Consensus size: 61
357931 CATATTCGCA
** *
357941 TTGCGATAGTCCAACTTCGCATTGCGATAGTCAAAGTTCGCTTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAAATCGC--TGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
358004 TTGCGATAGTCCAAAATCGC-GCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAAATCGCTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCG
358064 TTGCGATAGTCCAAAATCGC
1 TTGCGATAGTCCAAAATCGC
358084 AACGACTGGT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
60 58 0.76
63 18 0.24
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (61 bp):
TTGCGATAGTCCAAAATCGCTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:358198 original size:10 final size:11
Alignment explanation
Indices: 358167--358200 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
358157 GACACATATT
358167 ACCACGACCACG
1 ACCACGACC-CG
358179 ACCACGACCCG
1 ACCACGACCCG
358190 ACC-CGACCCG
1 ACCACGACCCG
358200 A
1 A
358201 GACGAGACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.29, C:0.53, G:0.18, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Found at i:358722 original size:6 final size:6
Alignment explanation
Indices: 358706--358737 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
358696 TCTAGTCTCG
358706 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
358738 AATACGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:358879 original size:21 final size:21
Alignment explanation
Indices: 358827--358928 Score: 86
Period size: 21 Copynumber: 4.9 Consensus size: 21
358817 CGTTGCGATT
*
358827 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAATGCGAAC
*
358846 TTGGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAATGCGAAC
358869 TTGGACTATCGCAATGCGAA-
1 TTGGACTATCGCAATGCGAAC
* * *
358889 TATGTA-AATCGCAACGCGAAC
1 T-TGGACTATCGCAATGCGAAC
* *
358910 TTCGACTATCGCATTGCGA
1 TTGGACTATCGCAATGCGA
358929 TTTACATATT
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
19 6 0.09
20 15 0.23
21 34 0.52
23 10 0.15
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (21 bp):
TTGGACTATCGCAATGCGAAC
Found at i:358908 original size:41 final size:43
Alignment explanation
Indices: 358827--358928 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 43
358817 CGTTGCGATT
* *
358827 TTGGACTATCGCAA--CGAATTTGGAATAAATCGCAATGCGAAC
1 TTGGACTATCGCAATGCGAATATGG-ATAAATCGCAACGCGAAC
358869 TTGGACTATCGCAATGCGAATAT-G-TAAATCGCAACGCGAAC
1 TTGGACTATCGCAATGCGAATATGGATAAATCGCAACGCGAAC
* *
358910 TTCGACTATCGCATTGCGA
1 TTGGACTATCGCAATGCGA
358929 TTTACATATT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
41 33 0.61
42 14 0.26
43 1 0.02
44 6 0.11
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (43 bp):
TTGGACTATCGCAATGCGAATATGGATAAATCGCAACGCGAAC
Found at i:358988 original size:21 final size:21
Alignment explanation
Indices: 358937--358990 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
358927 GATTTACATA
358937 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
358958 TTCGAATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
358979 TTCGCGTTGCGA
1 TTCGCATTGCGA
358991 ATCTGGAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:359426 original size:21 final size:21
Alignment explanation
Indices: 359379--359442 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
359369 CACTAGACAT
*
359379 TGCATCGATGCATCCTTTGAATA
1 TGCATCGATGCA-CC-TTGAAGA
* *
359402 TGCATCGATACACCTTGAAGG
1 TGCATCGATGCACCTTGAAGA
*
359423 TGCACCGATGCACTCTTGAA
1 TGCATCGATGCAC-CTTGAA
359443 TGTACATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 16 0.46
22 8 0.23
23 11 0.31
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (21 bp):
TGCATCGATGCACCTTGAAGA
Found at i:363449 original size:21 final size:21
Alignment explanation
Indices: 363380--363449 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
363370 TAAGCATGTA
363380 AATAAGCTTACGAGCTTATGG
1 AATAAGCTTACGAGCTTATGG
* *
363401 AATAA--TGACAAG-TATATAGG
1 AATAAGCTTACGAGCT-TAT-GG
363421 TAAAATAAGCTTACGAGCTTATGG
1 ---AATAAGCTTACGAGCTTATGG
363445 AATAA
1 AATAA
363450 TGACAAGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
18 1 0.03
19 8 0.22
20 2 0.05
21 10 0.27
23 5 0.14
24 2 0.05
25 8 0.22
26 1 0.03
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (21 bp):
AATAAGCTTACGAGCTTATGG
Done.