Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 88 of 770
Found at i:25781590 original size:79 final size:79
Alignment explanation
Indices: 25781375--25781592 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
25781365 TCGAATGATG
* * * * ** *
25781375 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
25781438 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
25781455 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
25781520 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
25781535 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
25781593 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:25786970 original size:42 final size:43
Alignment explanation
Indices: 25786873--25787018 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
25786863 AGACATCGTG
* * *
25786873 TAAGACCGTGTCTGGGACACAGGCCTC-A-ATTGAGATTTACATA
1 TAAGACCATGTCTGGGACAGAGGCATCGATATTGA-A-TTACATA
** * * *
25786916 TAAGACCATGTCTGGGACATTGGCATCG-TATCT-AATTTCGTG
1 TAAGACCATGTCTGGGACAGAGGCATCGATAT-TGAATTACATA
*
25786958 TAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACATA
1 TAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACATA
25787001 TAAGACCATGTCTGGGAC
1 TAAGACCATGTCTGGGAC
25787019 GTTAGCATTG
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 30 0.36
43 50 0.60
44 3 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACATA
Found at i:25790635 original size:43 final size:43
Alignment explanation
Indices: 25790552--25790637 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
25790542 GAGATATGTG
* * * *
25790552 GCATCTGAGCTCGTTGAGAGGTCCGAGTTCATTATAGATGCAA
1 GCATCCGAGCTCGTTGAGAGGTACGAGTTCATGACAGATGCAA
* * *
25790595 GCATCCGAGCTCGTTGAGAGGTATGAGTTCATGGCGGATGCAA
1 GCATCCGAGCTCGTTGAGAGGTACGAGTTCATGACAGATGCAA
25790638 TTCATGTAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAGGTACGAGTTCATGACAGATGCAA
Found at i:25793174 original size:49 final size:48
Alignment explanation
Indices: 25793101--25793271 Score: 202
Period size: 48 Copynumber: 3.5 Consensus size: 48
25793091 ATTAGATTCC
*
25793101 ATGTAAGACCATGTCTGGGACATGGCATCGA-TATCTGAGATGA-GTGCCT
1 ATGTAAGACCATGTCTGGGACATGGCATCGACGA--TGAGAT-ATGTGCCT
* *
25793150 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCT
1 ATGTAAGACCATGTCTGGGACATGGCATCGACGATGAGATATGTGCCT
* * ** * *
25793198 ATGTAAGACCATGTCTGAGACATGGCATTGGTGATGATATACGTGCCT
1 ATGTAAGACCATGTCTGGGACATGGCATCGACGATGAGATATGTGCCT
* *
25793246 ATGTAAGACTATGTCTAGGACATGGC
1 ATGTAAGACCATGTCTGGGACATGGC
25793272 TAAGACCATG
Statistics
Matches: 108, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
47 1 0.01
48 76 0.70
49 30 0.28
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
ATGTAAGACCATGTCTGGGACATGGCATCGACGATGAGATATGTGCCT
Found at i:25793282 original size:23 final size:23
Alignment explanation
Indices: 25793249--25793294 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
25793239 CGTGCCTATG
*
25793249 TAAGACTATGTCTAGGACATGGC
1 TAAGACCATGTCTAGGACATGGC
*
25793272 TAAGACCATGTCTGGGACATGGC
1 TAAGACCATGTCTAGGACATGGC
25793295 ATCGGCGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (23 bp):
TAAGACCATGTCTAGGACATGGC
Found at i:25793291 original size:71 final size:71
Alignment explanation
Indices: 25793201--25793342 Score: 205
Period size: 71 Copynumber: 2.0 Consensus size: 71
25793191 TGTGCCTATG
* * * *
25793201 TAAGACCATGTCTGAGACATGGCATTGGTGATGATATACGTGCCTA-TGTAAGACTATGTCTAGG
1 TAAGACCATGTCTGAGACATGGCATCGGCGATGATATACGTG-CTAGTATAAGACCATGTCTAGG
25793265 ACATGGC
65 ACATGGC
* **
25793272 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCTAGTATAAGACCATGTCTAGGA
1 TAAGACCATGTCTGAGACATGGCATCGGCGATGATATACGTGCTAGTATAAGACCATGTCTAGGA
25793337 CATGGC
66 CATGGC
25793343 ATCGACGATG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
70 3 0.05
71 60 0.95
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (71 bp):
TAAGACCATGTCTGAGACATGGCATCGGCGATGATATACGTGCTAGTATAAGACCATGTCTAGGA
CATGGC
Found at i:25793389 original size:119 final size:119
Alignment explanation
Indices: 25793153--25793378 Score: 307
Period size: 119 Copynumber: 1.9 Consensus size: 119
25793143 AGTGCCTGTG
*
25793153 TAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTATGTAAGACCATGTCTGAGA
1 TAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTATATAAGACCATGTCTGAGA
* ** * *
25793218 CATGGCATTGGTGATGATATACGTGCCTATGTAAGACTATGTCTAGGACATGGC
66 CATGGCATCGACGATGATATACGTGACTATGTAAGACCATGTCTAGGACATGGC
* *
25793272 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTG-CTAGTATAAGACCATGTCT-AG
1 TAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTA-TATAAGACCATGTCTGA-
*
25793335 GACATGGCATCGACGATGATAT-C-TGGATTCATGTAAGACCATGT
64 GACATGGCATCGACGATGATATACGT-GACT-ATGTAAGACCATGT
25793379 TGGAAACATG
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
117 1 0.01
118 7 0.07
119 86 0.91
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (119 bp):
TAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTATATAAGACCATGTCTGAGA
CATGGCATCGACGATGATATACGTGACTATGTAAGACCATGTCTAGGACATGGC
Found at i:25795573 original size:31 final size:31
Alignment explanation
Indices: 25795532--25795595 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
25795522 CCTTTTCATA
*
25795532 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
25795563 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
25795594 TT
1 TT
25795596 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:25795841 original size:24 final size:24
Alignment explanation
Indices: 25795808--25795954 Score: 235
Period size: 24 Copynumber: 6.2 Consensus size: 24
25795798 GGCCTTGCCT
*
25795808 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
25795832 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
25795856 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
25795879 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
25795903 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
25795927 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
25795950 CTTTT
1 CTTTT
25795955 TCACTTCCTC
Statistics
Matches: 114, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 43 0.38
24 71 0.62
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:25795889 original size:71 final size:71
Alignment explanation
Indices: 25795808--25795954 Score: 258
Period size: 71 Copynumber: 2.1 Consensus size: 71
25795798 GGCCTTGCCT
* *
25795808 CTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCG
1 CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
25795873 TAAGCC
66 TAAGCC
* *
25795879 CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
1 CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
25795944 TAAGCC
66 TAAGCC
25795950 CTTTT
1 CTTTT
25795955 TCACTTCCTC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (71 bp):
CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
TAAGCC
Found at i:25795954 original size:47 final size:48
Alignment explanation
Indices: 25795808--25795954 Score: 235
Period size: 47 Copynumber: 3.1 Consensus size: 48
25795798 GGCCTTGCCT
* *
25795808 CTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
* *
25795856 C-TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
*
25795903 CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
25795950 CTTTT
1 CTTTT
25795955 TCACTTCCTC
Statistics
Matches: 92, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
47 70 0.76
48 22 0.24
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
Found at i:25796029 original size:20 final size:20
Alignment explanation
Indices: 25796004--25796070 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
25795994 TTATGAATAC
25796004 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
25796024 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
25796044 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
25796064 ACCATGT
1 ATCATGT
25796071 TCATTAACGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:25796035 original size:11 final size:11
Alignment explanation
Indices: 25796004--25796059 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
25795994 TTATGAATAC
25796004 ATCATGTGCAT
1 ATCATGTGCAT
*
25796015 ATCA--TACAT
1 ATCATGTGCAT
25796024 ATCATGTGCAT
1 ATCATGTGCAT
*
25796035 ATCA--TACAT
1 ATCATGTGCAT
*
25796044 GTCATGTGCAT
1 ATCATGTGCAT
25796055 ATCAT
1 ATCAT
25796060 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:25801772 original size:43 final size:43
Alignment explanation
Indices: 25801719--25801841 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 43
25801709 CACATATCGT
* * *
25801719 TGCCGATGTCCCAGACATGGTCTTACATGAAATCA-TATAACGA
1 TGCCAATGTCCCAGACATGGTCTTACATGAAATCACAAT-ACAA
* *
25801762 TGTCAATGTCCCAGACATGGTCTTACA-CATAATCACAATACAA
1 TGCCAATGTCCCAGACATGGTCTTACATGA-AATCACAATACAA
* * *
25801805 TGCCAATGTCCCAGATACGGTCTTACATGTAATCACA
1 TGCCAATGTCCCAGACATGGTCTTACATGAAATCACA
25801842 TCTCAGTAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.01
43 64 0.96
44 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
TGCCAATGTCCCAGACATGGTCTTACATGAAATCACAATACAA
Found at i:25809711 original size:44 final size:44
Alignment explanation
Indices: 25809647--25809730 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
25809637 CATGTTTCGT
* * *
25809647 ATCCATTATGAACTCGGACCAACTCAACGAGTTCGGATGCTCGC
1 ATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCTCGC
*
25809691 ATCCATAATGAACTCAGACCAACTCAATGAGCTCGGATGC
1 ATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGC
25809731 CTCATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (44 bp):
ATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCTCGC
Found at i:25812748 original size:37 final size:37
Alignment explanation
Indices: 25812698--25812771 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
25812688 TCAAAAAAAC
*
25812698 ATAAATCAATTGTATGTGTATAAGGGTGAACATCCAT
1 ATAAATCAATTGTATGTATATAAGGGTGAACATCCAT
25812735 ATAAATCAATTGTATGTATATAAGGGTGAACATCCAT
1 ATAAATCAATTGTATGTATATAAGGGTGAACATCCAT
25812772 GCTACTTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (37 bp):
ATAAATCAATTGTATGTATATAAGGGTGAACATCCAT
Found at i:25814743 original size:27 final size:25
Alignment explanation
Indices: 25814692--25814753 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 25
25814682 ATGAAGTGTA
*
25814692 ATTCAATATTTATTAGACTTCATTT
1 ATTCAATATTTATTAGACTTAATTT
**
25814717 ATTCAAATATTTATTTAGTTTTAATTT
1 ATTC-AATATTTA-TTAGACTTAATTT
*
25814744 AAT-AATATTT
1 ATTCAATATTT
25814754 TTATGTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 11 0.35
26 8 0.26
27 12 0.39
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (25 bp):
ATTCAATATTTATTAGACTTAATTT
Found at i:25818462 original size:11 final size:11
Alignment explanation
Indices: 25818446--25818470 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25818436 ACAATTATCA
25818446 AATTCAATTAT
1 AATTCAATTAT
25818457 AATTCAATTAT
1 AATTCAATTAT
25818468 AAT
1 AAT
25818471 CACTCATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTCAATTAT
Found at i:25821484 original size:28 final size:28
Alignment explanation
Indices: 25821423--25821520 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
25821413 TCACAAATTG
** * *
25821423 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
25821452 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
25821480 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
25821508 GCACTAAGTGTGC
1 GCACTAAGTGTGC
25821521 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:25825469 original size:41 final size:41
Alignment explanation
Indices: 25825412--25825498 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
25825402 TATCCAGAAG
25825412 ATATGTAATTTTCCTTTACAGGAAAAGATGCCAATTATCTT
1 ATATGTAATTTTCCTTTACAGGAAAAGATGCCAATTATCTT
*
25825453 ATATGTAATTTTCCTTTACAGGAAAAGATGTCAATTATCTT
1 ATATGTAATTTTCCTTTACAGGAAAAGATGCCAATTATCTT
25825494 ATATG
1 ATATG
25825499 AAGATAATGC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (41 bp):
ATATGTAATTTTCCTTTACAGGAAAAGATGCCAATTATCTT
Found at i:25829301 original size:30 final size:30
Alignment explanation
Indices: 25829257--25829345 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
25829247 CAAAGATAAC
25829257 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
25829286 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
25829316 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
25829346 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:25829305 original size:15 final size:15
Alignment explanation
Indices: 25829257--25829336 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
25829247 CAAAGATAAC
*
25829257 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
25829271 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
25829286 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
25829301 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
25829316 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
25829331 AAGAAA
1 AAGAAA
25829337 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:25829345 original size:15 final size:15
Alignment explanation
Indices: 25829268--25829345 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
25829258 AGAAAACCGA
25829268 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
25829283 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
25829297 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
25829312 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
25829328 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
25829343 ATA
1 ATA
25829346 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:25832404 original size:93 final size:93
Alignment explanation
Indices: 25832292--25832462 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
25832282 GCCCATAAGT
* *
25832292 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25832357 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
25832385 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25832450 CGAGTTCGGATGC
66 CGAGTTCGGATGC
25832463 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25832478 original size:46 final size:46
Alignment explanation
Indices: 25832284--25832464 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
25832274 TGTAACCCGC
* * *
25832284 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
25832330 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
25832380 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
25832423 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
25832465 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:25838299 original size:39 final size:39
Alignment explanation
Indices: 25838186--25838370 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 39
25838176 GCTACTCGTT
* * * *
25838186 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
25838226 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
* *
25838266 CCAATGCCTTTGGG-CTTAGCCCGGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGATTAGTAACTCGCA
* * *
25838305 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGTTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTA-G-TAAC-TCGCA
25838346 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25838371 CATCATTCGA
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
38 4 0.03
39 33 0.27
40 74 0.60
41 12 0.10
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:25843399 original size:10 final size:9
Alignment explanation
Indices: 25843376--25843401 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25843366 TTTGGTGTTG
25843376 GTTTTTGAT
1 GTTTTTGAT
25843385 GTTTTTGAT
1 GTTTTTGAT
25843394 GTTTTTGA
1 GTTTTTGA
25843402 GATCTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:25854517 original size:13 final size:13
Alignment explanation
Indices: 25854499--25854524 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25854489 GACTATTTTT
25854499 GTGATAATGGATG
1 GTGATAATGGATG
25854512 GTGATAATGGATG
1 GTGATAATGGATG
25854525 CCAGAATTTC
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:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (13 bp):
GTGATAATGGATG
Found at i:25855367 original size:27 final size:27
Alignment explanation
Indices: 25855347--25855612 Score: 326
Period size: 27 Copynumber: 9.9 Consensus size: 27
25855337 AGGGTATTTT
*
25855347 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25855374 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
25855401 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25855428 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25855455 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25855482 -GATAATTATGTAAATC-AGGGGTAAAA-
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* *
25855508 AGGTAATTATGTAAAT-TAGGGGTAAAAC
1 A-GTAATTCTGTAAATCGA-GGGTAAAAC
* * *
25855536 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
25855563 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
25855590 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
25855613 TTTCAATAAT
Statistics
Matches: 211, Mismatches: 19, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.01
27 205 0.97
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:25855622 original size:27 final size:27
Alignment explanation
Indices: 25855592--25855658 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
25855582 GGTAAAACGG
*
25855592 TAATTCTATAAATCGAGGGTATTTCAA
1 TAATTCTACAAATCGAGGGTATTTCAA
* ** *
25855619 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTCTACAAATCGAGGGTATTTCAA
25855646 TAATT-TCACAAAT
1 TAATTCT-ACAAAT
25855659 TAGGGGTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (27 bp):
TAATTCTACAAATCGAGGGTATTTCAA
Found at i:25855665 original size:27 final size:27
Alignment explanation
Indices: 25855635--25855813 Score: 254
Period size: 27 Copynumber: 6.7 Consensus size: 27
25855625 TACAGGTCGA
** * *
25855635 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
25855662 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
25855689 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
25855716 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
25855743 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
25855770 GGGTATTTTAGTAATTTTACAAAGC-A-
1 GGGTATTTTGGTAATTTTACAAA-CTAG
25855796 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
25855814 GTAAACCAAA
Statistics
Matches: 139, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
26 17 0.12
27 121 0.87
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:25855675 original size:81 final size:80
Alignment explanation
Indices: 25855590--25855792 Score: 237
Period size: 81 Copynumber: 2.5 Consensus size: 80
25855580 AGGGTAAAAC
* * * **
25855590 GGTAATTCTATAAATCGAGGGTATTTCAATAATTTTACAGGTCGA-GGGTATTTCAGTAATTTCA
1 GGTAATTTTATAAA-CAAGGGTATTTTAATAATTTTACA-AACGAGGGGTATTTCAGTAATTTCA
*
25855654 CAAATTAGGGGTATTTT
64 CAAACTAGGGGTATTTT
* * * * ** *
25855671 GGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTAC
1 GGTAATTTTATAAAC-AAGGGTATTTTAATAATTTTACAAACGAGGGGTATTTCAGTAATTTCAC
25855736 AAACTAGGGGTATTTT
65 AAACTAGGGGTATTTT
*
25855752 GGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAA
1 GGTAATTTTATAAA-CAAGGGTATTTTAATAATTTTACAAA
25855793 GCAGGGTATT
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
80 3 0.03
81 98 0.96
82 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (80 bp):
GGTAATTTTATAAACAAGGGTATTTTAATAATTTTACAAACGAGGGGTATTTCAGTAATTTCACA
AACTAGGGGTATTTT
Found at i:25855827 original size:26 final size:26
Alignment explanation
Indices: 25855663--25855830 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
25855653 ACAAATTAGG
* *
25855663 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
25855690 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
25855717 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
25855744 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
25855770 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
25855797 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
25855823 AGTATTTT
1 GGTATTTT
25855831 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:25858654 original size:31 final size:31
Alignment explanation
Indices: 25858616--25858679 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
25858606 CCTTTTCATA
25858616 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
25858647 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
25858678 TT
1 TT
25858680 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:25858922 original size:24 final size:24
Alignment explanation
Indices: 25858871--25859013 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
25858861 GCTTTATCAT
*
25858871 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
25858896 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
25858920 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
25858943 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
25858967 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
25858991 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
25859014 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:25858950 original size:47 final size:48
Alignment explanation
Indices: 25858871--25859012 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
25858861 GCTTTATCAT
* *
25858871 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
25858920 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
25858967 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
25859013 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:25858971 original size:71 final size:72
Alignment explanation
Indices: 25858870--25859013 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
25858860 TGCTTTATCA
*
25858870 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
25858935 GCCCTTT
66 GCCCTTT
* * **
25858942 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
25859005 AGCCCTTT
65 AGCCCTTT
25859013 T
1 T
25859014 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:25859089 original size:20 final size:20
Alignment explanation
Indices: 25859064--25859123 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
25859054 TATGATTACC
25859064 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
25859084 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
25859104 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
25859124 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:25859198 original size:25 final size:25
Alignment explanation
Indices: 25859166--25859213 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25859156 ATACATAAAC
* * *
25859166 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
25859191 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
25859214 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:25860467 original size:27 final size:27
Alignment explanation
Indices: 25860447--25860710 Score: 331
Period size: 27 Copynumber: 9.9 Consensus size: 27
25860437 AGGGTATTTT
*
25860447 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25860474 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
25860501 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25860528 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25860555 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25860582 -GATAATTATGTAAATC-AGGGGTAAAA-
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
25860608 GGTAATTATGTAAAT-TAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
25860634 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
25860661 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
25860688 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
25860711 TTTCAATAAT
Statistics
Matches: 211, Mismatches: 18, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.04
26 30 0.14
27 172 0.82
28 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:25860667 original size:133 final size:135
Alignment explanation
Indices: 25860449--25860710 Score: 415
Period size: 133 Copynumber: 2.0 Consensus size: 135
25860439 GGTATTTTAG
* *
25860449 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
1 TAATTATGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
* *
25860514 ATCGAGGGTAAAATGGTAATTCTGTAAA-TCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
66 ATCGAGGGTAAAATAGTAATTCTGTAAACT-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
25860578 AAACGA
130 AAACGA
* * *
25860584 TAATTATGTAAATC-AGGGGTAAAA-GGTAATTATGTAAAT-TAGGGTAAAACGGTAATTCTATA
1 TAATTATGTAAATCGA-GGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATA
25860646 AATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
65 AATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
25860711 TTTCAATAAT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
133 82 0.69
134 15 0.13
135 21 0.18
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (135 bp):
TAATTATGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAA
AACGA
Found at i:25860720 original size:27 final size:27
Alignment explanation
Indices: 25860690--25860756 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
25860680 GGTAAAACGG
*
25860690 TAATTCTATAAATCGAGGGTATTTCAA
1 TAATTCTACAAATCGAGGGTATTTCAA
* ** *
25860717 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTCTACAAATCGAGGGTATTTCAA
25860744 TAATT-TCACAAAT
1 TAATTCT-ACAAAT
25860757 TAGGGGTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (27 bp):
TAATTCTACAAATCGAGGGTATTTCAA
Found at i:25860763 original size:27 final size:27
Alignment explanation
Indices: 25860733--25860910 Score: 243
Period size: 27 Copynumber: 6.7 Consensus size: 27
25860723 TACAGGTCGA
** * *
25860733 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
25860760 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
25860787 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
25860814 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
25860841 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
25860868 GGGTATTTTAGTAATTTTACAAGC-A-
1 GGGTATTTTGGTAATTTTACAAACTAG
*
25860893 GGGTATTTTGGCAATTTT
1 GGGTATTTTGGTAATTTT
25860911 GTAAACCAAA
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
25 16 0.12
26 1 0.01
27 120 0.88
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:25860773 original size:81 final size:77
Alignment explanation
Indices: 25860688--25860900 Score: 228
Period size: 81 Copynumber: 2.6 Consensus size: 77
25860678 AGGGTAAAAC
* * *
25860688 GGTAATTCTATAAATCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCAC
1 GGTAATTTTATAAA-CAAGGGTATTTTAATAATTTTACA-G-C-AGGGTATTTCAGTAATTTCAC
*
25860753 AAATTAGGGGTATTTT
62 AAACTAGGGGTATTTT
* * * * ** *
25860769 GGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTAC
1 GGTAATTTTATAAAC-AAGGGTATTTTAATAATTTTAC-AGC-A-GGGTATTTCAGTAATTTCAC
25860834 AAACTAGGGGTATTTT
62 AAACTAGGGGTATTTT
*
25860850 GGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAGCAGGGTATTT
1 GGTAATTTTATAAA-CAAGGGTATTTTAATAATTTTAC-AGCAGGGTATTT
25860901 TGGCAATTTT
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
79 8 0.07
80 4 0.04
81 97 0.87
82 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (77 bp):
GGTAATTTTATAAACAAGGGTATTTTAATAATTTTACAGCAGGGTATTTCAGTAATTTCACAAAC
TAGGGGTATTTT
Found at i:25862140 original size:28 final size:28
Alignment explanation
Indices: 25862068--25862174 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 28
25862058 CTGCTAGAAC
* * * * *
25862068 AGATA-TTGTGACAGAGTCACCAGATAC
1 AGATATTTGTGGCAAAGCCACCAGAAAT
25862095 AGATA-TTGTGGCAAAGCCACCAGAAAT
1 AGATATTTGTGGCAAAGCCACCAGAAAT
* * *
25862122 AGATATTTGTTGCAAAGCCACTAG-ATT
1 AGATATTTGTGGCAAAGCCACCAGAAAT
* *
25862149 AGATATTTGTGGCAGAGCCACTAGAA
1 AGATATTTGTGGCAAAGCCACCAGAA
25862175 CGCTTTATCA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 51 0.75
28 17 0.25
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (28 bp):
AGATATTTGTGGCAAAGCCACCAGAAAT
Found at i:25862151 original size:27 final size:27
Alignment explanation
Indices: 25862095--25862174 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
25862085 CACCAGATAC
*
25862095 AGATA-TTGTGGCAAAGCCACCAGAAAT
1 AGATATTTGTGGCAAAGCCACTAG-AAT
* *
25862122 AGATATTTGTTGCAAAGCCACTAGATT
1 AGATATTTGTGGCAAAGCCACTAGAAT
*
25862149 AGATATTTGTGGCAGAGCCACTAGAA
1 AGATATTTGTGGCAAAGCCACTAGAA
25862175 CGCTTTATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (27 bp):
AGATATTTGTGGCAAAGCCACTAGAAT
Found at i:25865946 original size:27 final size:27
Alignment explanation
Indices: 25865889--25865947 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
25865879 GCCAGAAAAG
* * * * *
25865889 ATATTGTGACAGAGTCACCAGATACAG
1 ATATTATGACAGAGCCACCAAAAACAA
*
25865916 ATATTATGGCAGAGCCACCAAAAACAA
1 ATATTATGACAGAGCCACCAAAAACAA
25865943 ATATT
1 ATATT
25865948 TGTGTTAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (27 bp):
ATATTATGACAGAGCCACCAAAAACAA
Found at i:25869411 original size:15 final size:15
Alignment explanation
Indices: 25869391--25869430 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
25869381 TATGATATTA
25869391 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
25869405 TTATCTTGGATTTCTC
1 -TATCTTGGATTTCTC
25869421 TATCTTGGAT
1 TATCTTGGAT
25869431 ATCTTGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.53
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:25871267 original size:50 final size:50
Alignment explanation
Indices: 25871186--25871529 Score: 246
Period size: 50 Copynumber: 6.9 Consensus size: 50
25871176 TTCATTGTGA
* *
25871186 GTCACTTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATCGACAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGACAG
* * * * ** * **
25871236 GTCGCATGTGTAGTAGTAAGTGCAGGCTACTATGCGTACCCTTAACTTC-G
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATCGACAG
* * * * ** *
25871286 ATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGA-CGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATC-GACAG
** * * *
25871336 GTCATGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGACAG
* * ** * **
25871386 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTTA-
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGAC---AG
* * * * ** *
25871437 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGACAG
* * * *
25871487 GTCACATATGTAGTACTAAGTGAAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
25871530 GAGCTTCGGT
Statistics
Matches: 226, Mismatches: 59, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
48 1 0.00
49 7 0.03
50 177 0.78
51 39 0.17
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGACAG
Found at i:25871468 original size:101 final size:101
Alignment explanation
Indices: 25871335--25871526 Score: 285
Period size: 101 Copynumber: 1.9 Consensus size: 101
25871325 CAGACGGTTA
* * * * *
25871335 AGTCATGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATATGTAGT
*
25871400 ACTAAGTGCAGGCTACTATGCATACCCGTTAACTTT
66 ACTAAGTGAAGGCTACTATGCATACCCGTTAACTTT
* * * *
25871436 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACATATGTAGT
1 AGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATATGTAGT
*
25871501 ACTAAGTGAAGGCTACTATGCGTACC
66 ACTAAGTGAAGGCTACTATGCATACC
25871527 AGAGAGCTTC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 80 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (101 bp):
AGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATATGTAGT
ACTAAGTGAAGGCTACTATGCATACCCGTTAACTTT
Found at i:25871506 original size:151 final size:150
Alignment explanation
Indices: 25871185--25871529 Score: 530
Period size: 151 Copynumber: 2.3 Consensus size: 150
25871175 ATTCATTGTG
*
25871185 AGTCACTTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATCGACAGGTCGCATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATCGACAGGTCGCATGTGTAGT
* * *
25871250 AGTAAGTGCAGGCTACTATGCGTACCCTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCTA
66 ACTAAGTGCAGGCTACTATGCATACCCTTAACTTAGATCACGTGTGTAGTACTAAGTGTAGGCTA
25871315 CTACGTGTATCAGACGGTTA
131 CTACGTGTATCAGACGGTTA
** * * * *
25871335 AGTCATGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATCGACAGGTCGCATGTGTAGT
25871400 ACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTAG-TCACGTGTGTAGTACTAAGTGTAGGC
66 ACTAAGTGCAGGCTACTATGCATACCC-TTAAC-TTAGATCACGTGTGTAGTACTAAGTGTAGGC
*
25871464 TACTACGTGTATCAGATGGTTA
129 TACTACGTGTATCAGACGGTTA
* * * *
25871486 AGTCACATATGTAGTACTAAGTGAAGGCTACTATGCGTACCAGA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGA
25871530 GAGCTTCGGT
Statistics
Matches: 176, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
150 84 0.48
151 89 0.51
152 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (150 bp):
AGTCACATGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATCGACAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCATACCCTTAACTTAGATCACGTGTGTAGTACTAAGTGTAGGCTA
CTACGTGTATCAGACGGTTA
Found at i:25871751 original size:16 final size:16
Alignment explanation
Indices: 25871730--25871761 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25871720 AGAATGGAGT
25871730 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
25871746 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
25871762 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:25881815 original size:30 final size:30
Alignment explanation
Indices: 25881781--25881841 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25881771 TCCTTAACTC
25881781 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
25881811 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
25881841 A
1 A
25881842 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:25887624 original size:21 final size:22
Alignment explanation
Indices: 25887582--25887627 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
25887572 ATTATGCATC
* *
25887582 CCACCCAAATCCAACTAGCACA
1 CCACCCAAATCCAACCAACACA
*
25887604 CCACCCATA-CCAACCAACACA
1 CCACCCAAATCCAACCAACACA
25887625 CCA
1 CCA
25887628 TGTGGGGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.41, C:0.50, G:0.02, T:0.07
Consensus pattern (22 bp):
CCACCCAAATCCAACCAACACA
Found at i:25888132 original size:27 final size:27
Alignment explanation
Indices: 25888102--25888196 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
25888092 GTAATTATGT
25888102 AAATCAGGGGTATTTCTATAATTTTCC
1 AAATCAGGGGTATTTCTATAATTTTCC
* *
25888129 AAATTAGAGGTATTTC-AGTAATTTTCC
1 AAATCAGGGGTATTTCTA-TAATTTTCC
* * *
25888156 AAATTAGGGGTATTT-TGGTAATTTTAC
1 AAATCAGGGGTATTTCT-ATAATTTTCC
*
25888183 AAACCA-GGGTATTT
1 AAATCAGGGGTATTT
25888197 TGGTAATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
26 9 0.16
27 49 0.84
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTCTATAATTTTCC
Found at i:25888214 original size:26 final size:27
Alignment explanation
Indices: 25888163--25888222 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
25888153 TCCAAATTAG
25888163 GGGTATTTTGGTAATTTTACAAACC-A
1 GGGTATTTTGGTAATTTTACAAACCAA
** *
25888189 GGGTATTTTGGTAATTTTGTACACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
25888216 GGGTATT
1 GGGTATT
25888223 CAGTAATTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:25888256 original size:27 final size:26
Alignment explanation
Indices: 25888213--25888294 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
25888203 TTTTGTACAC
25888213 CAAGGGTATTCAGTAATTCTACCCTA
1 CAAGGGTATTCAGTAATTCTACCCTA
* *
25888239 CAAGGGCATTTCAGTAATTTTACCCTA
1 CAAGGGTA-TTCAGTAATTCTACCCTA
* * *
25888266 CAGGGGTAATTCAGTAATACTAGCCTA
1 CAAGGGT-ATTCAGTAATTCTACCCTA
25888293 CA
1 CA
25888295 GATGTGAGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 7 0.15
27 39 0.83
28 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (26 bp):
CAAGGGTATTCAGTAATTCTACCCTA
Found at i:25890123 original size:28 final size:28
Alignment explanation
Indices: 25890033--25890139 Score: 112
Period size: 27 Copynumber: 3.9 Consensus size: 28
25890023 CTGCCAGAAT
* * * *
25890033 AGATA-TTGTGACAGAGTCACCAGATAC
1 AGATATTTGTGGCATAGCCACCAGAAAC
* *
25890060 TGATA-TTGTGGCAGAGCCACCAG-AAC
1 AGATATTTGTGGCATAGCCACCAGAAAC
** *
25890086 AGATATTTGTGGTGTAGCCACTAGAAAC
1 AGATATTTGTGGCATAGCCACCAGAAAC
25890114 AGATATTTGTGGCATAGCCACCAGAA
1 AGATATTTGTGGCATAGCCACCAGAA
25890140 CGCTTCCTCC
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 6 0.09
27 34 0.52
28 26 0.39
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (28 bp):
AGATATTTGTGGCATAGCCACCAGAAAC
Found at i:25890305 original size:27 final size:26
Alignment explanation
Indices: 25890243--25890305 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
25890233 AAAATTAACC
* *
25890243 CTAGGGGTATAGCGGTCATTTTGCAT
1 CTAGGGGTATAACGGTAATTTTGCAT
*
25890269 CTAGGGGTATAATGGTAATTTT-CAT
1 CTAGGGGTATAACGGTAATTTTGCAT
25890294 ACTTAGGGGTAT
1 -C-TAGGGGTAT
25890306 TTTAGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.09
26 20 0.62
27 9 0.28
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.37
Consensus pattern (26 bp):
CTAGGGGTATAACGGTAATTTTGCAT
Found at i:25893570 original size:28 final size:28
Alignment explanation
Indices: 25893513--25893612 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
25893503 ATAGTGAATC
*** *
25893513 CGCACACTTAGTGCTATATTTTTC-AGCT
1 CGCACACTTAGTGCTATA-CAATCAAACT
*
25893541 CGCACACTTAGTGCTATAGAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
* * *
25893569 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATACAA--TCAAACT
25893599 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25893613 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
27 2 0.03
28 40 0.66
30 19 0.31
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:25898642 original size:24 final size:24
Alignment explanation
Indices: 25898615--25898677 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 24
25898605 CCCCTACCTT
25898615 GTCCACGTCCTCTCGGTGGTTGTG
1 GTCCACGTCCTCTCGGTGGTTGTG
**
25898639 GTCCA---CCTCTCACTGGTTGTG
1 GTCCACGTCCTCTCGGTGGTTGTG
25898660 GTCCACGTCCTCTCGGTG
1 GTCCACGTCCTCTCGGTG
25898678 TTACATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 19 0.59
24 13 0.41
ACGTcount: A:0.06, C:0.33, G:0.29, T:0.32
Consensus pattern (24 bp):
GTCCACGTCCTCTCGGTGGTTGTG
Found at i:25901147 original size:40 final size:39
Alignment explanation
Indices: 25901082--25901285 Score: 221
Period size: 40 Copynumber: 5.1 Consensus size: 39
25901072 CGGAATACAA
* *
25901082 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGC
* * *
25901122 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAAC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
25901162 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
25901202 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25901242 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
25901282 CCGG
1 CCGG
25901286 GTATCATTCA
Statistics
Matches: 141, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25901473 original size:123 final size:123
Alignment explanation
Indices: 25901254--25901838 Score: 1080
Period size: 123 Copynumber: 4.8 Consensus size: 123
25901244 GGATATAATT
* * * * * * *
25901254 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
25901319 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
*
25901377 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACGTATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
25901442 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
25901500 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
25901565 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
25901623 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
25901688 ATAATCATTACACATCCATATTTCATTTTCATTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
*
25901746 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTATCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
25901811 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
25901839 CACATAATTC
Statistics
Matches: 451, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 451 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
Found at i:25901563 original size:64 final size:64
Alignment explanation
Indices: 25901495--25901810 Score: 144
Period size: 64 Copynumber: 5.1 Consensus size: 64
25901485 GAACACAAAC
25901495 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * **
25901559 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCGA-ACACA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTC-ATACACA
* *
25901615 AAC
62 CAT
25901618 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * * *** ** ** * ** *
25901682 ATATCAATA--ATCATTACACATC----CATATTTC-ATTTTCATTACTAAGGCTCGA-ACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTTAGCCCGGGTACCATT-CAAATACTC-ATACACAC
*
25901739 AC
63 AT
*
25901741 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTATCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
25901805 ATATCA
1 ATATCA
25901811 ATAATCATTA
Statistics
Matches: 163, Mismatches: 65, Indels: 48
0.59 0.24 0.17
Matches are distributed among these distances:
58 6 0.04
59 47 0.29
60 12 0.07
61 13 0.08
62 13 0.08
63 12 0.07
64 53 0.33
65 7 0.04
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:25904013 original size:30 final size:30
Alignment explanation
Indices: 25903979--25904039 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25903969 TCCTTAACTC
25903979 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
25904009 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
25904039 A
1 A
25904040 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:25906181 original size:28 final size:26
Alignment explanation
Indices: 25906125--25906185 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
25906115 ATTATGGCAG
*
25906125 AGCCACCAAAAAGATATTTGTGACGT
1 AGCCACCAAAAAGATATTTGTGACAT
25906151 AGCCACCAAAAATAGATATTTGT-AGCAT
1 AGCCACC-AAAA-AGATATTTGTGA-CAT
25906179 AGCCACC
1 AGCCACC
25906186 CGAGCGCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 7 0.23
27 5 0.16
28 19 0.61
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.21
Consensus pattern (26 bp):
AGCCACCAAAAAGATATTTGTGACAT
Found at i:25909743 original size:26 final size:26
Alignment explanation
Indices: 25909714--25909770 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 26
25909704 ACGGAACATA
* *
25909714 AGGGCATAATCGTCATTTTATGATAC
1 AGGGCATAATCGTCACTTTACGATAC
* * *
25909740 AGGGGTATTATGGTCACTTTACGATAC
1 A-GGGCATAATCGTCACTTTACGATAC
25909767 AGGG
1 AGGG
25909771 GCATTACGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (26 bp):
AGGGCATAATCGTCACTTTACGATAC
Found at i:25909755 original size:27 final size:27
Alignment explanation
Indices: 25909725--25909788 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
25909715 GGGCATAATC
* * *
25909725 GTCATTTTATGATACAGGGGTATTATG
1 GTCATTTTACGATACAGGGGCATTACG
*
25909752 GTCACTTTACGATACAGGGGCATTACG
1 GTCATTTTACGATACAGGGGCATTACG
*
25909779 GTCTTTTTAC
1 GTCATTTTAC
25909789 CTATTAGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (27 bp):
GTCATTTTACGATACAGGGGCATTACG
Found at i:25909880 original size:27 final size:27
Alignment explanation
Indices: 25909839--25910048 Score: 169
Period size: 27 Copynumber: 7.7 Consensus size: 27
25909829 TTAGTAAATC
* *
25909839 TACAAACCAAGGGTATTTCAATAATTT
1 TACAAATCAAGGGTATTTCTATAATTT
* *
25909866 TACAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCTATAA-TTT
* *
25909894 TAGAAAGTCAAGGGTATTTCTATAATTA
1 TACAAA-TCAAGGGTATTTCTATAATTT
** *
25909922 TGTAAATCAGGGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTCTATAATTT
* *
25909949 TCCAAATTAAGGGTATTTC-AGTAATTT
1 TACAAATCAAGGGTATTTCTA-TAATTT
*
25909976 T-CTAAATC-AGGGATATTT-TGGTAATTT
1 TAC-AAATCAAGGG-TATTTCT-ATAATTT
**
25910003 TACAAATTGAGGGTATTTC-AGTAATTT
1 TACAAATCAAGGGTATTTCTA-TAATTT
* **
25910030 TACAAGTCGGGGGTATTTC
1 TACAAATCAAGGGTATTTC
25910049 GGTAATTTAA
Statistics
Matches: 151, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
26 6 0.04
27 110 0.73
28 19 0.13
29 16 0.11
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCTATAATTT
Found at i:25909982 original size:54 final size:54
Alignment explanation
Indices: 25909847--25910101 Score: 210
Period size: 54 Copynumber: 4.7 Consensus size: 54
25909837 TCTACAAACC
* * ** * *
25909847 AAGGGTATTTCAATAATTTTACAAACCAATGGTATTTCTATAATTTTTAGAAAGTC
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCTATAA-TTTTACAAA-TT
* ** *
25909903 AAGGGTATTTCTA-TAATTATGTAAATCAGGGGTATTTCTATAATTTTCCAAATT
1 AAGGGTATTTC-AGTAATTTTACAAATCAGGGGTATTTCTATAATTTTACAAATT
* *
25909957 AAGGGTATTTCAGTAATTTT-CTAAATCAGGGATATTT-TGGTAATTTTACAAATT
1 AAGGGTATTTCAGTAATTTTAC-AAATCAGGGGTATTTCT-ATAATTTTACAAATT
* * * ** * * **
25910011 GAGGGTATTTCAGTAATTTTACAAGTCGGGGGTATTTCGGTAATTTAATAGGTT
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCTATAATTTTACAAATT
* * * * *
25910065 CAGGTTATTTCAATAATTTCACAAACCAGGGGTATTT
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTT
25910102 TGGTAATTTT
Statistics
Matches: 163, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
53 2 0.01
54 117 0.72
55 8 0.05
56 35 0.21
57 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCTATAATTTTACAAATT
Found at i:25910100 original size:27 final size:27
Alignment explanation
Indices: 25909839--25910124 Score: 155
Period size: 27 Copynumber: 10.5 Consensus size: 27
25909829 TTAGTAAATC
* *
25909839 TACAAACCAAGGGTATTTCAATAATTT
1 TACAAATCAGGGGTATTTCAATAATTT
* ** *
25909866 TACAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAGGGGTATTTCAATAA-TTT
* * * *
25909894 TAGAAAGTCAAGGGTATTTCTATAATTA
1 TACAAA-TCAGGGGTATTTCAATAATTT
** *
25909922 TGTAAATCAGGGGTATTTCTATAATTT
1 TACAAATCAGGGGTATTTCAATAATTT
* * * *
25909949 TCCAAATTAAGGGTATTTCAGTAATTT
1 TACAAATCAGGGGTATTTCAATAATTT
* ***
25909976 T-CTAAATCAGGGATATTTTGGTAATTT
1 TAC-AAATCAGGGGTATTTCAATAATTT
* *
25910003 TACAAAT-TGAGGGTATTTCAGTAATTT
1 TACAAATCAG-GGGTATTTCAATAATTT
* * **
25910030 TACAAGTCGGGGGTATTTCGGTAATTT
1 TACAAATCAGGGGTATTTCAATAATTT
* * ** *
25910057 AATAGGTTCA-GGTTATTTCAATAATTT
1 TACA-AATCAGGGGTATTTCAATAATTT
* * ***
25910084 CACAAACCAGGGGTATTTTGGTAATTT
1 TACAAATCAGGGGTATTTCAATAATTT
* *
25910111 TGCAAACCAGGGGT
1 TACAAATCAGGGGT
25910125 TTTTTTGGTA
Statistics
Matches: 204, Mismatches: 47, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
26 4 0.02
27 166 0.81
28 18 0.09
29 16 0.08
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
TACAAATCAGGGGTATTTCAATAATTT
Found at i:25910129 original size:27 final size:28
Alignment explanation
Indices: 25910086--25910147 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
25910076 AATAATTTCA
25910086 CAAACCAGGGG-TATTTTGGTAATTTTG
1 CAAACCAGGGGTTATTTTGGTAATTTTG
*
25910113 CAAACCAGGGGTTTTTTTGGTAATTTTG
1 CAAACCAGGGGTTATTTTGGTAATTTTG
*
25910141 TAAACCA
1 CAAACCA
25910148 AAGGTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 11 0.34
28 21 0.66
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (28 bp):
CAAACCAGGGGTTATTTTGGTAATTTTG
Found at i:25910139 original size:28 final size:27
Alignment explanation
Indices: 25910086--25910156 Score: 97
Period size: 28 Copynumber: 2.6 Consensus size: 27
25910076 AATAATTTCA
25910086 CAAACCAGGGGTATTTTGGTAATTTTG
1 CAAACCAGGGGTATTTTGGTAATTTTG
*
25910113 CAAACCAGGGGTTTTTTTGGTAATTTTG
1 CAAACCAGGGG-TATTTTGGTAATTTTG
* **
25910141 TAAACCAAAGGTATTT
1 CAAACCAGGGGTATTT
25910157 AGTAATTCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (27 bp):
CAAACCAGGGGTATTTTGGTAATTTTG
Found at i:25910228 original size:27 final size:27
Alignment explanation
Indices: 25910157--25910228 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
25910147 AAAGGTATTT
* *
25910157 AGTAATTCTACCCTACAAGGGCATTTC
1 AGTAATTCTACCCTACAGGGGCAATTC
25910184 AGTAATTCTACCCTACAGGGGCAATTC
1 AGTAATTCTACCCTACAGGGGCAATTC
* *
25910211 AGTAATACTAGCCTACAG
1 AGTAATTCTACCCTACAG
25910229 ATATGAGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (27 bp):
AGTAATTCTACCCTACAGGGGCAATTC
Found at i:25911612 original size:12 final size:12
Alignment explanation
Indices: 25911571--25911612 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
25911561 TAAATGACGA
25911571 GAAATGGAA-GT
1 GAAATGGAATGT
25911582 GAAATGTGAAATGT
1 GAAATG-G-AATGT
*
25911596 GAAATGGAATAT
1 GAAATGGAATGT
25911608 GAAAT
1 GAAAT
25911613 TATGGAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.22
12 10 0.37
13 3 0.11
14 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.24
Consensus pattern (12 bp):
GAAATGGAATGT
Found at i:25914503 original size:26 final size:27
Alignment explanation
Indices: 25914474--25914530 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
25914464 CGTAGTTGCT
* * *
25914474 AGTAATAGTAAGTGTGGCA-AGCCACC
1 AGTAATAATAAATGTGACATAGCCACC
*
25914500 AGTAATAATAAATGTGACATAGTCACC
1 AGTAATAATAAATGTGACATAGCCACC
25914527 AGTA
1 AGTA
25914531 CAGTACTTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (27 bp):
AGTAATAATAAATGTGACATAGCCACC
Found at i:25917742 original size:29 final size:29
Alignment explanation
Indices: 25917710--25917773 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
25917700 CTTCGAGCTC
* *
25917710 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
** *
25917739 GCACACTTAGTGCCATATATTTCCAGCGT
1 GCACACCCAGTGCCATATATTTCCAGCAT
25917768 GCACAC
1 GCACAC
25917774 TTACTGCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:25917774 original size:29 final size:29
Alignment explanation
Indices: 25917718--25917782 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
25917708 TCGCACACCC
* *
25917718 AGTGCCGTATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
25917747 AGTGCCATATATTTCCAGCGTGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
25917776 ACTGCCA
1 AGTGCCA
25917783 ATCTCGTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:25918988 original size:25 final size:24
Alignment explanation
Indices: 25918960--25919018 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
25918950 TTTTTTTCCT
*
25918960 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTCTTTTTCTTCAT-TTCTC
* *
25918985 TTTCTTTCTTTTTTTTCATTTCTT
1 TTTCTTTCTTTTTCTTCATTTCTC
25919009 TATTCTTTCT
1 T-TTCTTTCT
25919019 ACATAATCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTCTTTCTTTTTCTTCATTTCTC
Found at i:25923963 original size:31 final size:32
Alignment explanation
Indices: 25923928--25923991 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
25923918 ATTTGTGAAA
* *
25923928 TAGGGACTAAATTGCTAA-AGGTGTAAAAGTT
1 TAGGGACTAAAGTGCAAATAGGTGTAAAAGTT
* *
25923959 TAGGGGCTAAAGTGCAAATAGGTGTAAATGTT
1 TAGGGACTAAAGTGCAAATAGGTGTAAAAGTT
25923991 T
1 T
25923992 GTTTTGGGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (32 bp):
TAGGGACTAAAGTGCAAATAGGTGTAAAAGTT
Found at i:25925769 original size:39 final size:39
Alignment explanation
Indices: 25925656--25925850 Score: 264
Period size: 39 Copynumber: 4.9 Consensus size: 39
25925646 CTCATTCAAA
* * *** * *
25925656 TGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAA
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAAT
*
25925696 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAAT
* *
25925736 TGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
*
25925775 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
*
25925814 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
25925851 TTCATTCACA
Statistics
Matches: 141, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.70
40 42 0.30
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
Found at i:25930373 original size:48 final size:47
Alignment explanation
Indices: 25930238--25930374 Score: 122
Period size: 47 Copynumber: 2.9 Consensus size: 47
25930228 AGACCATGCC
* * * **
25930238 CAAGACATGGCATTGGTA-AG-GCAAGG-GTCCCATGTAAGACCATGT
1 CAAGACATGGCATTGGCATAGATCAAGGACT-CCATGTAAGACCACAT
* *
25930283 CAAGACATGGCATTGGCATTGATTAAGGACTCCATGTAAGACCACAT
1 CAAGACATGGCATTGGCATAGATCAAGGACTCCATGTAAGACCACAT
**
25930330 CAAGATGTGGCATTGGCACTAAGA-CAAGGA-TACCATGTAAGACCA
1 CAAGACATGGCATTGGCA-T-AGATCAAGGACT-CCATGTAAGACCA
25930375 TGTTTGGAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
45 17 0.23
46 1 0.01
47 35 0.47
48 20 0.27
49 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (47 bp):
CAAGACATGGCATTGGCATAGATCAAGGACTCCATGTAAGACCACAT
Found at i:25930409 original size:47 final size:47
Alignment explanation
Indices: 25930349--25930467 Score: 175
Period size: 47 Copynumber: 2.5 Consensus size: 47
25930339 GCATTGGCAC
* *
25930349 TAAGACAAGGATACCATGTAAGACCATGTTTGGAATATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
* *
25930396 TAAGAGAAGGATACCATGCAAGACCATGTTTGGAACATGGAATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
* * *
25930443 AAAGATAAGGATATCATGTAAGACC
1 TAAGACAAGGATACCATGTAAGACC
25930468 TTTCCAAGGC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
Found at i:25930621 original size:108 final size:108
Alignment explanation
Indices: 25930460--25930751 Score: 363
Period size: 108 Copynumber: 2.7 Consensus size: 108
25930450 AGGATATCAT
* * * * * * * *
25930460 GTAAGACCTTTCCAAGGCATGTCATT-GATAAGTTCTATAAGGTAAGGAAATCATATAAGACCAT
1 GTAAGACCATACCAAGGCATGACATTCG-TGACTTC-ATAAGGCAAGGATATCATGTAAGACCAT
*
25930524 GTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAAGG-CCCAT
64 GTCAAGACATGGCATTGATGAGTTACTATAAGGC-AAAGGTCCCAC
* * *
25930569 GTATGACGATGCCAAGGCATGACATTCGTGACTTCATAAGGCAAGGATATCATGTAAGACCATGT
1 GTAAGACCATACCAAGGCATGACATTCGTGACTTCATAAGGCAAGGATATCATGTAAGACCATGT
*
25930634 TAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCAC
66 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCAC
* * * * * * *
25930677 GTAAGACCATACGAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACAATGT
1 GTAAGACCATACCAAGGCATGACATTCGTGACTTCATAAGGCAAGGATATCATGTAAGACCATGT
25930742 CAAGACATGG
66 CAAGACATGG
25930752 AAATGGAAAG
Statistics
Matches: 158, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
107 5 0.03
108 126 0.80
109 26 0.16
110 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (108 bp):
GTAAGACCATACCAAGGCATGACATTCGTGACTTCATAAGGCAAGGATATCATGTAAGACCATGT
CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCAC
Found at i:25930665 original size:55 final size:54
Alignment explanation
Indices: 25930449--25930751 Score: 253
Period size: 55 Copynumber: 5.6 Consensus size: 54
25930439 TTGGAAAGAT
* * * * * *
25930449 AAGGATATCATGTAAGACC-TTTCCAAGGCATGTCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGT-CAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
25930503 AAGGAAATCATATAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * * * * *
25930558 AAAAGG--CCCATGTATGACGATGCCAAGGCATGACATTCG-TGACTTC-ATAAGGC
1 --AAGGATACCATGTAAGACCATGTCAAGACATGGCATT-GATGAGTTCTATAAGGC
* *
25930611 AAGGATATCATGTAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * * *
25930666 AAAGG-TCCCACGTAAGACCAT-ACGAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGATGAGTTCTATAAGGC
* *
25930719 AAGGATACCACGTAAGACAATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG
25930752 AAATGGAAAG
Statistics
Matches: 199, Mismatches: 36, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
51 4 0.02
52 5 0.03
53 64 0.32
54 40 0.20
55 77 0.39
56 5 0.03
57 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:25930751 original size:53 final size:55
Alignment explanation
Indices: 25930515--25930751 Score: 222
Period size: 53 Copynumber: 4.4 Consensus size: 55
25930505 GGAAATCATA
* *
25930515 TAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAAGG-CCCATG
1 TAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC-AAAGGTACCACG
* * * * * * * *
25930570 TATGACGATGCCAAGGCATGACATTCG-TGACTT-C-ATAAGGC-AAGGATATCATG
1 TAAGACCATGTCAAGACATGGCATT-GATGAGTTACTATAAGGCAAAGG-TACCACG
* *
25930623 TAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCACG
1 TAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTACCACG
* * *
25930678 TAAGACCAT-ACGAAGGCATGGCATTGGTGAGTT-C-ATAAGGC-AAGGATACCACG
1 TAAGACCATGTC-AAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TACCACG
*
25930731 TAAGACAATGTCAAGACATGG
1 TAAGACCATGTCAAGACATGG
25930752 AAATGGAAAG
Statistics
Matches: 146, Mismatches: 26, Indels: 22
0.75 0.13 0.11
Matches are distributed among these distances:
51 4 0.03
52 5 0.03
53 64 0.44
54 4 0.03
55 64 0.44
56 5 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (55 bp):
TAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTACCACG
Found at i:25933491 original size:16 final size:17
Alignment explanation
Indices: 25933459--25933491 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25933449 TTGACAGTAA
25933459 GATCTGTATGATGTTAAT
1 GATCTGTAT-ATGTTAAT
25933477 GATCTGTAT-TGTTAA
1 GATCTGTATATGTTAA
25933492 CTATTGCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.45
Consensus pattern (17 bp):
GATCTGTATATGTTAAT
Found at i:25937152 original size:37 final size:37
Alignment explanation
Indices: 25937102--25937173 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
25937092 ATATAAGACC
25937102 ATGTTTGGAACATGGCATTTGGTAAAACAAGGATACA
1 ATGTTTGGAACATGGCATTTGGTAAAACAAGGATACA
* *
25937139 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATA
1 ATGTTTGGAACATGGCATTTGGTAAAACAAGGATA
25937174 TCATGTAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.29
Consensus pattern (37 bp):
ATGTTTGGAACATGGCATTTGGTAAAACAAGGATACA
Found at i:25937225 original size:54 final size:52
Alignment explanation
Indices: 25937161--25937356 Score: 173
Period size: 54 Copynumber: 3.7 Consensus size: 52
25937151 TGGCATTTGG
* * *
25937161 TAAGATAAGGATATCATGTAAGACCATGCCAATGAATGTTATTGATAAGTTCTA
1 TAAGGTAAGGATATCATGTAAGACCATGCCAA-GAATG-CATTGATGAGTTCTA
* * *
25937215 TAAGGTAAGGAAATCATGTAAAACCATGACAAGACATAGCATTGATGAGTTACTA
1 TAAGGTAAGGATATCATGTAAGACCATGCCAAGA-AT-GCATTGATGAGTT-CTA
* * *
25937270 TAAGGCAAAGG-TCTCATGTAAGACCATGCCAAGGCATGGCATTGGA-GAGTTC-A
1 TAAGG-TAAGGATATCATGTAAGACCATGCCAA-GAAT-GCATT-GATGAGTTCTA
* * * *
25937323 TAAGGCAAGGATACCACGTAAGACCATGTCAAGA
1 TAAGGTAAGGATATCATGTAAGACCATGCCAAGA
25937357 CATAACAATG
Statistics
Matches: 116, Mismatches: 19, Indels: 16
0.77 0.13 0.11
Matches are distributed among these distances:
52 5 0.04
53 25 0.22
54 41 0.35
55 38 0.33
56 7 0.06
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (52 bp):
TAAGGTAAGGATATCATGTAAGACCATGCCAAGAATGCATTGATGAGTTCTA
Found at i:25937289 original size:55 final size:54
Alignment explanation
Indices: 25937167--25937360 Score: 154
Period size: 55 Copynumber: 3.6 Consensus size: 54
25937157 TTGGTAAGAT
* * * *
25937167 AAGGATA-TCATGTAAGACCATGCCAATGA-AT-GTTATT-GATAAGTTCTATAAGGT
1 AAGGATACTCATGTAAGACCATGACAA-GACATAG-CATTGGA-GAGTTC-ATAAGGC
* *
25937221 AAGGA-AATCATGTAAAACCATGACAAGACATAGCATT-GATGAGTTACTATAAGGC
1 AAGGATACTCATGTAAGACCATGACAAGACATAGCATTGGA-GAGTT-C-ATAAGGC
* * *
25937276 AAAGG-T-CTCATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCATAAGGC
1 -AAGGATACTCATGTAAGACCATGACAAGACATAGCATTGGAGAGTTCATAAGGC
* *
25937329 AAGGATAC-CACGTAAGACCATGTCAAGACATA
1 AAGGATACTCATGTAAGACCATGACAAGACATA
25937361 ACAATGGTAA
Statistics
Matches: 117, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
52 4 0.03
53 31 0.26
54 36 0.31
55 40 0.34
56 6 0.05
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (54 bp):
AAGGATACTCATGTAAGACCATGACAAGACATAGCATTGGAGAGTTCATAAGGC
Found at i:25937375 original size:53 final size:54
Alignment explanation
Indices: 25937167--25937374 Score: 167
Period size: 53 Copynumber: 3.9 Consensus size: 54
25937157 TTGGTAAGAT
* * * * *
25937167 AAGGATATCATGTAAGACCATGCCAATGA-AT-GTTATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGACAA-GACATAG-CATTGGTAAGTTCTATAAGGC
* * * * *
25937221 AAGGAAATCATGTAAAACCATGACAAGACATAGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGACAAGACATAGCATTGGTAAGTT-CTATAAGGC
* * *
25937276 AAAGG-T-CTCATGTAAGACCATGCCAAGGCATGGCATTGG-AGAGTTC-ATAAGGC
1 -AAGGATAC-CATGTAAGACCATGACAAGACATAGCATTGGTA-AGTTCTATAAGGC
* * * *
25937329 AAGGATACCACGTAAGACCATGTCAAGACATAACAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGACAAGACATAGCATTGGTAAGTTC
25937375 AAAAAGGAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
52 4 0.03
53 40 0.32
54 38 0.30
55 39 0.31
56 4 0.03
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGACAAGACATAGCATTGGTAAGTTCTATAAGGC
Found at i:25942557 original size:42 final size:43
Alignment explanation
Indices: 25942486--25942567 Score: 114
Period size: 42 Copynumber: 1.9 Consensus size: 43
25942476 GAGATTTACA
25942486 TGTAAGACCATGTCTGGGACATAGACATCG-TATATGATTTTG
1 TGTAAGACCATGTCTGGGACATAGACATCGTTATATGATTTTG
* * *
25942528 TGTAAGACCATGTTTGGGACAGT-GGCATCGTTATTTGATT
1 TGTAAGACCATGTCTGGGACA-TAGACATCGTTATATGATT
25942568 ACATGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 26 0.74
43 9 0.26
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATAGACATCGTTATATGATTTTG
Found at i:25952410 original size:36 final size:37
Alignment explanation
Indices: 25952344--25952457 Score: 194
Period size: 37 Copynumber: 3.1 Consensus size: 37
25952334 ACCTTTAGCT
*
25952344 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
*
25952381 CGGACATACTCTCCACAC-TAGTCATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
*
25952417 CGGACATAATCTCCACACGTAGTCATCGGGTCTCACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
25952454 CGGA
1 CGGA
25952458 ATATATTTCC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 35 0.49
37 37 0.51
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (37 bp):
CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:25952672 original size:47 final size:47
Alignment explanation
Indices: 25952612--25953322 Score: 1001
Period size: 47 Copynumber: 15.1 Consensus size: 47
25952602 CCTACATATT
* * ** **
25952612 TCACACTT-GCCATTCGGCTTTACCACATATATGCATTTTCGTATTCA
1 TCACA-TTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* * *
25952659 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATCCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
25952706 TCACATTGGCCATTTGGCCTTATCACATATATGCATGCTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
25952753 TCACATTGGCCATTCGGCCTCATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* * * *
25952800 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* * *
25952847 CCACATTGGCCATTCGACCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* * *
25952894 TCACATTGGCCATTCGGCCTTATCACATATATACATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
25952941 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
25952988 TCACATTGGCCATTTGGCCTTATCACATATATGCATGCTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
25953035 TCACATTGGCCATTCGGCCTCATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* * * *
25953082 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* * *
25953129 CCACATTGGCCATTCGACCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* * *
25953176 TCACATTGGCCATTCGGCCTTATCACATATATACATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
25953223 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* ***
25953270 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
25953317 TCACAT
1 TCACAT
25953323 AAAATCCTAA
Statistics
Matches: 587, Mismatches: 76, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
46 2 0.00
47 585 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
Found at i:25953322 original size:94 final size:94
Alignment explanation
Indices: 25952612--25953301 Score: 1103
Period size: 94 Copynumber: 7.3 Consensus size: 94
25952602 CCTACATATT
* * * *
25952612 TCACACTT-GCCATTCGGCTTTACCACATATATGCATTTTCGTATTCACCACATTGGCCATTCGG
1 TCACA-TTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGG
*
25952676 CCTTATCACACATATGCATGCTCACATCCA
65 CCTTATCACACATATGCATGCTCACATTCA
* * * * *
25952706 TCACATTGGCCATTTGGCCTTATCACATATATGCATGCTCACATTTATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
* * *
25952771 CTCATCACATATATGCATGTTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
* * *
25952800 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCCCCACATTGGCCATTCGAC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
25952865 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
*
25952894 TCACATTGGCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
25952959 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
* * * * *
25952988 TCACATTGGCCATTTGGCCTTATCACATATATGCATGCTCACATTTATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
* * *
25953053 CTCATCACATATATGCATGTTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
* * *
25953082 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCCCCACATTGGCCATTCGAC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
25953147 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
*
25953176 TCACATTGGCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
25953241 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
25953270 TCACATTGGCCATTCGGCCTTATCACATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
25953302 ACACATTCAC
Statistics
Matches: 543, Mismatches: 52, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
93 2 0.00
94 541 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (94 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCA
Found at i:25956447 original size:40 final size:40
Alignment explanation
Indices: 25956403--25956754 Score: 452
Period size: 40 Copynumber: 8.8 Consensus size: 40
25956393 CCAGCATGAT
* * * *
25956403 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * *
25956443 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
25956483 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25956523 TGCTCTTCGAGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
25956563 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25956603 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
25956643 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25956683 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * * *
25956723 TGCTCTTCAAGATTTAGCCCGGACATTTCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
25956755 CTCAATTCTC
Statistics
Matches: 267, Mismatches: 45, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 267 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:25956539 original size:80 final size:80
Alignment explanation
Indices: 25956403--25956730 Score: 539
Period size: 80 Copynumber: 4.1 Consensus size: 80
25956393 CCAGCATGAT
* * * * * * * * *
25956403 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
*
25956468 TATCACTAGCACAAA
66 TATCACTAGCACGAA
*
25956483 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAGATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
25956548 TATCACTAGCACGAA
66 TATCACTAGCACGAA
* *
25956563 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTTGGGATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
25956628 TATCACTAGCACGAA
66 TATCACTAGCACGAA
25956643 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
25956708 TATCACTAGCACGAA
66 TATCACTAGCACGAA
25956723 TGCTCTTC
1 TGCTCTTC
25956731 AAGATTTAGC
Statistics
Matches: 232, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 232 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
TATCACTAGCACGAA
Found at i:25958063 original size:37 final size:36
Alignment explanation
Indices: 25958021--25958131 Score: 170
Period size: 37 Copynumber: 3.1 Consensus size: 36
25958011 CTCGGACAAA
*
25958021 ATCTCCACACATAGTCATCGGGTCTTACCCGGACAT
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
25958057 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACATT
1 A-TCTCCACACGTAGTCATCGGGTCTTACCCGGACA-T
* *
25958095 ATCTCCACACGTAGTCATCAGGTCTCACCCGGA-AT
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
25958130 AT
1 AT
25958132 ATTTCCAAGT
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
35 3 0.04
36 2 0.03
37 63 0.90
38 2 0.03
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.25
Consensus pattern (36 bp):
ATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:25958344 original size:47 final size:47
Alignment explanation
Indices: 25958290--25958803 Score: 715
Period size: 47 Copynumber: 11.0 Consensus size: 47
25958280 TTTCACACTA
* * ** * *
25958290 GCCATTCGGCTTTACCACATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
25958337 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
25958384 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
25958431 GTCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
25958478 GCCATTCGGCCTTATCACATATATGCATGTTCATATTC-CCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
25958524 GCCATTCGACCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * * *
25958571 GCCATTCGGCTTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
25958618 GCCATTCGACCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
25958665 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
25958712 GCCATTCGACCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* ***
25958759 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACAT
25958804 AAAATCCTAA
Statistics
Matches: 410, Mismatches: 56, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
46 40 0.10
47 370 0.90
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:25958403 original size:94 final size:94
Alignment explanation
Indices: 25958290--25958782 Score: 826
Period size: 94 Copynumber: 5.3 Consensus size: 94
25958280 TTTCACACTA
* * * *
25958290 GCCATTCGGCTTTACCACATATATGCATTTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGACCTTATCAC
25958355 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
* * * * * * *
25958384 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTGGTCATTCGGCCTCATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGACCTTATCAC
* * *
25958449 ATATATGCATGTTCACATTCATCACATAG
66 ACATATGCATGCTCACATTCATCACATTG
25958478 GCCATTCGGCCTTATCACATATATGCATGTTCATATTC-CCACATTGGCCATTCGACCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGACCTTATCAC
25958542 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
* *
25958571 GCCATTCGGCTTTATCACATATATACATGTTCATATTCACCACATTGGCCATTCGACCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGACCTTATCAC
25958636 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
*
25958665 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGGCCATTCGACCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGACCTTATCAC
25958730 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
25958759 GCCATTCGGCCTTATCACATATAT
1 GCCATTCGGCCTTATCACATATAT
25958783 ACACATTCAC
Statistics
Matches: 373, Mismatches: 25, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
93 84 0.23
94 289 0.77
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (94 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGACCTTATCAC
ACATATGCATGCTCACATTCATCACATTG
Found at i:25973926 original size:27 final size:27
Alignment explanation
Indices: 25973878--25974035 Score: 145
Period size: 27 Copynumber: 5.9 Consensus size: 27
25973868 AATACTTTAG
* ***
25973878 TTTACCAAATTACCAAAATACCCTCGA
1 TTTACAAAATTACCATTTTACCCTCGA
*** *
25973905 TTTACAAAATTAATGTTTTACCCGCGA
1 TTTACAAAATTACCATTTTACCCTCGA
* *
25973932 TTTATAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCATTTTACCCTCGA
* *
25973959 TTTACAAAATTACTATTTTAACCTCGA
1 TTTACAAAATTACCATTTTACCCTCGA
* * * * **
25973986 TTTATAGAATTACCGTTTTACCTTTAA
1 TTTACAAAATTACCATTTTACCCTCGA
*
25974013 TTTATAAAATTACCATTTTACCC
1 TTTACAAAATTACCATTTTACCC
25974036 CTAAGGTGTT
Statistics
Matches: 102, Mismatches: 29, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (27 bp):
TTTACAAAATTACCATTTTACCCTCGA
Found at i:25973954 original size:54 final size:54
Alignment explanation
Indices: 25973896--25974007 Score: 179
Period size: 54 Copynumber: 2.1 Consensus size: 54
25973886 ATTACCAAAA
* *
25973896 TACCCTCGATTTACAAAATTAATGTTTTACCCGCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTAATATTTTAACCGCGATTTATAGAATTACCATTT
* * *
25973950 TACCCTCGATTTACAAAATTACTATTTTAACCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTAATATTTTAACCGCGATTTATAGAATTACCATTT
25974004 TACC
1 TACC
25974008 TTTAATTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTAATATTTTAACCGCGATTTATAGAATTACCATTT
Found at i:25974016 original size:54 final size:54
Alignment explanation
Indices: 25973896--25974032 Score: 175
Period size: 54 Copynumber: 2.5 Consensus size: 54
25973886 ATTACCAAAA
* * * *
25973896 TACCCTCGATTTACAAAATTAATGTTTTACCCGCGATTTATAGAATTACCATTT
1 TACCCTCAATTTACAAAATTACTATTTTAACCGCGATTTATAGAATTACCATTT
* * *
25973950 TACCCTCGATTTACAAAATTACTATTTTAACCTCGATTTATAGAATTACCGTTT
1 TACCCTCAATTTACAAAATTACTATTTTAACCGCGATTTATAGAATTACCATTT
* * * *
25974004 TACCTTTAATTTATAAAATTACCATTTTA
1 TACCCTCAATTTACAAAATTACTATTTTA
25974033 CCCCTAAGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.42
Consensus pattern (54 bp):
TACCCTCAATTTACAAAATTACTATTTTAACCGCGATTTATAGAATTACCATTT
Found at i:25974375 original size:31 final size:32
Alignment explanation
Indices: 25974337--25974398 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
25974327 CTCGCTACAA
* *
25974337 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
25974368 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
25974399 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:25978037 original size:20 final size:19
Alignment explanation
Indices: 25977992--25978040 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
25977982 TCAAAGCATT
25977992 TCATATAATAATCATAATC
1 TCATATAATAATCATAATC
*
25978011 TCAATATCATAACTCAT-ATGC
1 TC-ATATAATAA-TCATAAT-C
25978032 TCATATAAT
1 TCATATAAT
25978041 TATAACCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 16 0.64
21 7 0.28
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (19 bp):
TCATATAATAATCATAATC
Found at i:25984137 original size:24 final size:24
Alignment explanation
Indices: 25984110--25984155 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25984100 GAATTTAACA
25984110 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
25984134 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
25984156 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:25992559 original size:27 final size:27
Alignment explanation
Indices: 25992529--25992693 Score: 222
Period size: 27 Copynumber: 6.1 Consensus size: 27
25992519 ACCCTACAAA
*
25992529 GGTATTTCAGTAATTTTACAAATTGGG
1 GGTATTTCAGTAATTTTACAAACTGGG
**
25992556 GGTATTTTGGTAATTTTACAAACTGGG
1 GGTATTTCAGTAATTTTACAAACTGGG
**
25992583 GGTATTTTGGTAATTTTACAAACTGGG
1 GGTATTTCAGTAATTTTACAAACTGGG
** * *
25992610 GGTATTTTGGTAATTTTACAAGCTAGG
1 GGTATTTCAGTAATTTTACAAACTGGG
*
25992637 GGTATTTCAGTAATTTTACAAGCTGGG
1 GGTATTTCAGTAATTTTACAAACTGGG
* *
25992664 GGTATTTCAGTAATATTACAAGCTGGG
1 GGTATTTCAGTAATTTTACAAACTGGG
25992691 GGT
1 GGT
25992694 CTTAACGACC
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.27, C:0.08, G:0.26, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAACTGGG
Found at i:25992587 original size:54 final size:54
Alignment explanation
Indices: 25992529--25992693 Score: 249
Period size: 54 Copynumber: 3.1 Consensus size: 54
25992519 ACCCTACAAA
* *
25992529 GGTATTTCAGTAATTTTACAAATTGGGGGTATTTTGGTAATTTTACAAACTGGG
1 GGTATTTCAGTAATTTTACAAACTGGGGGTATTTTGGTAATTTTACAAGCTGGG
** *
25992583 GGTATTTTGGTAATTTTACAAACTGGGGGTATTTTGGTAATTTTACAAGCTAGG
1 GGTATTTCAGTAATTTTACAAACTGGGGGTATTTTGGTAATTTTACAAGCTGGG
* ** *
25992637 GGTATTTCAGTAATTTTACAAGCTGGGGGTATTTCAGTAATATTACAAGCTGGG
1 GGTATTTCAGTAATTTTACAAACTGGGGGTATTTTGGTAATTTTACAAGCTGGG
25992691 GGT
1 GGT
25992694 CTTAACGACC
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.27, C:0.08, G:0.26, T:0.39
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTACAAACTGGGGGTATTTTGGTAATTTTACAAGCTGGG
Found at i:26004142 original size:28 final size:28
Alignment explanation
Indices: 26004073--26004173 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
26004063 GACAAGATTG
* * * *
26004073 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
26004103 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
26004131 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
26004160 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
26004174 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:26004167 original size:29 final size:28
Alignment explanation
Indices: 26004102--26004173 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
26004092 AAAATTGTAC
*
26004102 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
26004130 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
26004159 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
26004174 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:26007384 original size:30 final size:30
Alignment explanation
Indices: 26007329--26007459 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
26007319 ATAGTGAATC
*
26007329 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
26007358 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
26007388 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
26007416 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
26007446 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26007460 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:26007439 original size:58 final size:58
Alignment explanation
Indices: 26007328--26007459 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
26007318 TATAGTGAAT
* * * * *
26007328 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
26007387 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
26007445 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
26007460 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:26015333 original size:30 final size:30
Alignment explanation
Indices: 26015278--26015408 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
26015268 ATAGTGAATC
*
26015278 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
26015307 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
26015337 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
26015365 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
26015395 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26015409 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:26015388 original size:58 final size:58
Alignment explanation
Indices: 26015277--26015408 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
26015267 TATAGTGAAT
* * * * *
26015277 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
26015336 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
26015394 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
26015409 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:26020326 original size:29 final size:29
Alignment explanation
Indices: 26020293--26020454 Score: 159
Period size: 29 Copynumber: 5.6 Consensus size: 29
26020283 GTGACGAGAT
*
26020293 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
*
26020322 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
26020351 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* ** **
26020380 CGGCACTGGGTGTGCGAGCTCGG-AGGATA
1 TGGCACTAAGTGTGCGAGCT-GGAAATATA
** * *
26020409 TGGCACTGTGTGTGCGGGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
26020436 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
26020455 AATCGAGTAG
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 2 0.02
28 1 0.01
29 106 0.95
30 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:26028365 original size:80 final size:80
Alignment explanation
Indices: 26028252--26028444 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
26028242 GGATATAACG
* * * * * * * *
26028252 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGGACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
26028317 -AGCCCGGATTTAGTA
66 GA-CCCGGATTTAGTA
* * *
26028332 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
*
26028397 GACCCGGATTTAGTC
66 GACCCGGATTTAGTA
* * * *
26028412 ACTTAGCACAAAAGCCTTTGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
26028445 ACACCATTCG
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 68 0.72
81 26 0.28
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAGTA
Found at i:26028444 original size:41 final size:40
Alignment explanation
Indices: 26028266--26028445 Score: 177
Period size: 40 Copynumber: 4.5 Consensus size: 40
26028256 GCTCGATTGT
* * * *
26028266 CTTCGGGACA-TAGCCCGG-TTATAGTGATTCGGACAATTGC
1 CTTCGGGA-ATTAGCCCGGATT-TAGTAACTCGCACAAATGC
*
26028306 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
26028346 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
26028386 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
* *
26028427 CTTTGGGACTTAGCCCGGA
1 CTTCGGGAATTAGCCCGGA
26028446 CACCATTCGT
Statistics
Matches: 116, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 87 0.75
41 27 0.23
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (40 bp):
CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:26031205 original size:39 final size:39
Alignment explanation
Indices: 26031151--26031305 Score: 265
Period size: 39 Copynumber: 4.0 Consensus size: 39
26031141 CAAGACACTG
26031151 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
* *
26031190 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
*
26031229 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTA
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
* *
26031268 GAAATGTATCTGGGCTAAAGTCCCGCAGGCTTTGTGCT
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCT
26031306 GGTAATATAA
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
Found at i:26035336 original size:43 final size:43
Alignment explanation
Indices: 26035289--26035426 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
26035279 TCCCAGATGT
* * * *
26035289 GGTCTTACATGTAATCAAATATCGATGCCACTATCCTAGATAG
1 GGTCTTACATGTAATCAAATATCGATGCCAATATCCCAAACAG
* * * * *
26035332 GGTCTTACATGAAATCATATA-GGATGCCAATGTCCCAAACAT
1 GGTCTTACATGTAATCAAATATCGATGCCAATATCCCAAACAG
* **
26035374 GGTCTTACATGTAAATCACAA-ATCGATACCAACGTCCCAAAC-G
1 GGTCTTACATGT-AATCA-AATATCGATGCCAATATCCCAAACAG
26035417 TGGTCTTACA
1 -GGTCTTACA
26035427 CGATAACACA
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 25 0.33
43 25 0.33
44 26 0.34
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATATCGATGCCAATATCCCAAACAG
Found at i:26035378 original size:42 final size:44
Alignment explanation
Indices: 26035332--26035426 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
26035322 TCCTAGATAG
* * * * *
26035332 GGTCTTACATG-AAATCATATA-GGATGCCAATGTCCCAAACAT
1 GGTCTTACATGTAAATCACAAATCGATACCAACGTCCCAAACAT
*
26035374 GGTCTTACATGTAAATCACAAATCGATACCAACGTCCCAAACGT
1 GGTCTTACATGTAAATCACAAATCGATACCAACGTCCCAAACAT
26035418 GGTCTTACA
1 GGTCTTACA
26035427 CGATAACACA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 11 0.24
43 8 0.18
44 26 0.58
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (44 bp):
GGTCTTACATGTAAATCACAAATCGATACCAACGTCCCAAACAT
Done.