Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 183 of 373
Found at i:61331176 original size:46 final size:46
Alignment explanation
Indices: 61331109--61331278 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
61331099 TGGTTGAGCA
*
61331109 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
61331155 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* * *
61331200 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
**
61331248 -CTCGAGGTCATTGAGTTGAGTCCGAGTTCAC
1 TC-CGAACTCATTGAGTTGAGTCCGAGTTCAC
61331279 TTAGGGGCGG
Statistics
Matches: 102, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 55 0.54
47 27 0.26
48 1 0.01
50 3 0.03
51 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:61331265 original size:93 final size:93
Alignment explanation
Indices: 61331106--61331276 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
61331096 AGATGGTTGA
* * * *
61331106 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATACGAACGTCCGAACTCATTGAGT
61331171 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* **
61331199 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CTCGAGGTCATTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATACGAACGTC-CGAACTCATTGAG
61331263 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
61331277 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATACGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61335176 original size:19 final size:19
Alignment explanation
Indices: 61335152--61335191 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61335142 TGTGTTATCA
*
61335152 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
**
61335171 TAAATTTGTAGACATAACT
1 TAAATTCATAGACATAACT
61335190 TA
1 TA
61335192 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:61336463 original size:64 final size:64
Alignment explanation
Indices: 61336384--61336512 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 64
61336374 GGGGCTAGGA
* * *
61336384 TTGACTTACTTTCAAGCTTGAAAAGTTTAAAAACCCTAGCTATAGAGAGCTTGAGAATTTTGGC
1 TTGACTTACTTTCAAGCTTGAAAAGTTGAAAAACCCTAGCAATAGAGAGCTTGAGAATTTCGGC
*
61336448 TTGACTTACTTTCAAGCTTGAAAAGTTGAAAAACCCTAGCAATGGAGAGCTTGAGAATTTCGGC
1 TTGACTTACTTTCAAGCTTGAAAAGTTGAAAAACCCTAGCAATAGAGAGCTTGAGAATTTCGGC
61336512 T
1 T
61336513 ATTGCATGGA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (64 bp):
TTGACTTACTTTCAAGCTTGAAAAGTTGAAAAACCCTAGCAATAGAGAGCTTGAGAATTTCGGC
Found at i:61350002 original size:40 final size:40
Alignment explanation
Indices: 61349920--61350220 Score: 416
Period size: 40 Copynumber: 7.6 Consensus size: 40
61349910 TTGAATGCTG
* * *
61349920 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
61349958 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61349998 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61350037 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61350077 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
61350117 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61350157 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
61350198 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61350221 CGAACGAGGA
Statistics
Matches: 240, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
38 18 0.08
39 39 0.16
40 181 0.75
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61351937 original size:407 final size:407
Alignment explanation
Indices: 61351182--61351997 Score: 1560
Period size: 407 Copynumber: 2.0 Consensus size: 407
61351172 AGAGATAATT
61351182 AGGAGTCATACCATATATGGATAGATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAACGACATC
1 AGGAGTCATACCATATATGGATAGATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAACGACATC
61351247 AGTATTGGAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCC
66 AGTATTGGAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCC
61351312 CTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACAAAAAATTCTAGAAAAA
131 CTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACAAAAAATTCTAGAAAAA
*
61351377 AATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTTGAGTTGTG
196 AATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTG
61351442 AAACTCAAGATATAATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTA
261 AAACTCAAGATATAATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTA
61351507 TAAGGGGTTTAAAGTCTGTTAACACCTCGTGTTCGACTCCGGTGTCGGTCTCGGGTTCGAGGTGT
326 TAAGGGGTTTAAAGTCTGTTAACACCTCGTGTTCGACTCCGGTGTCGGTCTCGGGTTCGAGGTGT
61351572 TACATTTGATTGGTATC
391 TACATTTGATTGGTATC
*
61351589 AGGAGTCATACCATATATGGATAGATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAACGGCATC
1 AGGAGTCATACCATATATGGATAGATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAACGACATC
61351654 AGTATTGGAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCC
66 AGTATTGGAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCC
*
61351719 CTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAA
131 CTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACAAAAAATTCTAGAAAAA
* * *
61351784 AATATGTAGATGGGTATATGGGTCTAGTTTCAGGGAAAAATCACGAAACTGATTTTCGAGTTGTG
196 AATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTG
*
61351849 AAACTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTA
261 AAACTCAAGATATAATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTA
*
61351914 TAAGGGGTTTAAAGTCTGTTAACACCTCGTGTTCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGT
326 TAAGGGGTTTAAAGTCTGTTAACACCTCGTGTTCGACTCCGGTGTCGGTCTCGGGTTCGAGGTGT
61351979 TACATTTGATTGGTATC
391 TACATTTGATTGGTATC
61351996 AG
1 AG
61351998 AGCTACGGTT
Statistics
Matches: 401, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
407 401 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (407 bp):
AGGAGTCATACCATATATGGATAGATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAACGACATC
AGTATTGGAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCC
CTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACAAAAAATTCTAGAAAAA
AATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTG
AAACTCAAGATATAATTTTTAAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTA
TAAGGGGTTTAAAGTCTGTTAACACCTCGTGTTCGACTCCGGTGTCGGTCTCGGGTTCGAGGTGT
TACATTTGATTGGTATC
Found at i:61358481 original size:40 final size:40
Alignment explanation
Indices: 61358392--61358693 Score: 409
Period size: 40 Copynumber: 7.6 Consensus size: 40
61358382 TTGAATGCTG
* * *
61358392 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
61358431 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61358471 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
61358510 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61358550 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
61358590 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61358630 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
61358671 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61358694 CGAACGAGGA
Statistics
Matches: 240, Mismatches: 16, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
39 53 0.22
40 177 0.74
41 10 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61358713 original size:120 final size:120
Alignment explanation
Indices: 61358392--61358728 Score: 359
Period size: 120 Copynumber: 2.8 Consensus size: 120
61358382 TTGAATGCTG
* * * *
61358392 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
* ** * * *
61358453 TTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
63 TTCGAACAAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
61358510 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTC
** *
61358575 GTGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GAACAAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61358630 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
* * * *
61358694 CGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
65 CGAACAAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
61358729 TACGTGATTT
Statistics
Matches: 190, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
118 22 0.12
119 61 0.32
120 105 0.55
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTC
GAACAAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61360343 original size:46 final size:47
Alignment explanation
Indices: 61360215--61360470 Score: 217
Period size: 46 Copynumber: 5.4 Consensus size: 47
61360205 AGGATGACAC
* *
61360215 CATGTCCCATACATTGTCTTACACTGGTTCTCACATCTC-TATGCCGATG
1 CATGTCCCAGACA-TGTCTTACACTGG--CTTACATCTCGTATGCCGATG
*
61360264 CCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGTATGCCGATG
* * * *
61360310 CATGTCGCAAACATGTCTTACACTGGCTTACATCTCG-AGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGTATGCCGATG
* * ** *
61360356 TATGTCCCAGACATGTCTTACACTAGCTCT-TGTCTC-AATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGTATGCCGATG
* * *
61360402 CCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GT-GGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGTATGCCGATG
61360450 CATGTCCCAGACATGTCTTAC
1 CATGTCCCAGACATGTCTTAC
61360471 TGTAATATCC
Statistics
Matches: 173, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
44 12 0.07
45 13 0.08
46 70 0.40
47 30 0.17
48 23 0.13
49 2 0.01
50 23 0.13
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGTATGCCGATG
Found at i:61360422 original size:94 final size:91
Alignment explanation
Indices: 61360214--61360470 Score: 254
Period size: 94 Copynumber: 2.7 Consensus size: 91
61360204 GAGGATGACA
* * * * *
61360214 CCATGTCCCATACATTGTCTTACACTGGTTCTCACATCTCTATGCCGATGCCATGTCCCAGACAT
1 CCATGTCCCAAACA-TGTCTTACACTGG--CTTACATCTCGAGGCCAATG-CATGTCCCAGACAT
*
61360279 GGTCTTACACTGACACATCTCGTAGCCGATG
62 -GTCTTACACTGACACATCTCATAGCCGATG
* *
61360310 -CATGTCGCAAACATGTCTTACACTGGCTTACATCTCGAGGCCAATGTATGTCCCAGACATGTCT
1 CCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGAGGCCAATGCATGTCCCAGACATGTCT
* *
61360374 TACACT-AGCTCTTGTCTCA-ATGCCGATG
66 TACACTGA-CAC--ATCTCATA-GCCGATG
* * *
61360402 CCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCAATGCATGTCCCAGACATG
1 CCATGTCCCAAACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCAATGCATGTCCCAGACATG
61360465 TCTTAC
63 TCTTAC
61360471 TGTAATATCC
Statistics
Matches: 138, Mismatches: 15, Indels: 18
0.81 0.09 0.11
Matches are distributed among these distances:
89 1 0.01
90 12 0.09
91 14 0.10
92 27 0.20
93 12 0.09
94 59 0.43
95 13 0.09
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (91 bp):
CCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGAGGCCAATGCATGTCCCAGACATGTCT
TACACTGACACATCTCATAGCCGATG
Found at i:61364891 original size:15 final size:15
Alignment explanation
Indices: 61364871--61364939 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
61364861 GTATCTTGGG
61364871 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
61364886 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
61364901 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
61364916 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
61364931 TTTCTTTAT
1 TTTCTTTAT
61364940 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:61364940 original size:30 final size:30
Alignment explanation
Indices: 61364862--61364949 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
61364852 CATAGTATCG
* * * *
61364862 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
61364892 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
61364922 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
61364950 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:61366014 original size:46 final size:46
Alignment explanation
Indices: 61365957--61366132 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
61365947 TATTTGGGCA
61365957 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
61366003 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
61366050 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
61366096 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61366133 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.61
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:61366067 original size:93 final size:93
Alignment explanation
Indices: 61365953--61366124 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
61365943 GGGATATTTG
* * *
61365953 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAG
61366018 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
61366046 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAG
61366111 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
61366125 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:61369539 original size:20 final size:19
Alignment explanation
Indices: 61369493--61369539 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
61369483 GTAATTCATG
61369493 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
61369512 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
61369533 TTTAATT
1 TTTAATT
61369540 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:61382293 original size:43 final size:43
Alignment explanation
Indices: 61382226--61382380 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 43
61382216 GTGTTATTGT
* *
61382226 GTAAGACCACGTCTGGGACGTTGGCATCGATTTGTAATTTACG
1 GTAAGACCACGTCTGGGACATTGGCATCGATTTGTGATTTACG
* * *
61382269 GTATGACCATGTCTGGGACATTGGCATCG--TAGATGATTT-CG
1 GTAAGACCACGTCTGGGACATTGGCATCGATTTG-TGATTTACG
** * *
61382310 TGTAAGACCTTGTCTGGGACAGTGGCATCGATATT-TGA-TTACAT
1 -GTAAGACCACGTCTGGGACATTGGCATCGAT-TTGTGATTTAC-G
61382354 GTAAGACCACGTCTGGGACATTGGCAT
1 GTAAGACCACGTCTGGGACATTGGCAT
61382381 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
41 4 0.04
42 33 0.36
43 54 0.59
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
GTAAGACCACGTCTGGGACATTGGCATCGATTTGTGATTTACG
Found at i:61382362 original size:85 final size:85
Alignment explanation
Indices: 61382224--61382380 Score: 212
Period size: 85 Copynumber: 1.8 Consensus size: 85
61382214 ATGTGTTATT
* *
61382224 GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTAATTTACGGTATGACCATGTCTGGGACA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTAATTTACGGTAAGACCACGTCTGGGACA
61382289 TTGGCATCGTAGATGATTTC
66 TTGGCATCGTAGATGATTTC
** * *
61382309 GTGTAAGACCTTGTCTGGGACAG-TGGCATCGATATT-TGA-TTACATGTAAGACCACGTCTGGG
1 GTGTAAGACCACGTCTGGGAC-GTTGGCATCGAT-TTGTAATTTAC-GGTAAGACCACGTCTGGG
61382371 ACATTGGCAT
63 ACATTGGCAT
61382381 TGTACGAGCT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
84 4 0.06
85 56 0.89
86 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (85 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTAATTTACGGTAAGACCACGTCTGGGACA
TTGGCATCGTAGATGATTTC
Found at i:61390189 original size:39 final size:40
Alignment explanation
Indices: 61390072--61390252 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
61390062 GCTCCTCGTT
*
61390072 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
61390112 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
61390152 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
61390191 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
61390232 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
61390253 AGACATCATT
Statistics
Matches: 125, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
38 2 0.02
39 46 0.37
40 70 0.56
41 7 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61390216 original size:79 final size:81
Alignment explanation
Indices: 61390072--61390252 Score: 239
Period size: 79 Copynumber: 2.3 Consensus size: 81
61390062 GCTCCTCGTT
* *
61390072 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
61390137 AT-TTAGTAAC-TCGCA
66 ATATT-GTAACTTAGCA
* **
61390152 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
61390215 GATATTGTCACTTAGCA
65 GATATTGTAACTTAGCA
61390232 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
61390253 AGACATCATT
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
78 12 0.13
79 57 0.63
80 21 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATTGTAACTTAGCA
Found at i:61397848 original size:80 final size:79
Alignment explanation
Indices: 61397764--61397935 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
61397754 GGACTAAGAT
*
61397764 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
61397828 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
61397844 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
61397909 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
61397923 CCGAAGGCATTTG
1 CCGAAGGCATTTG
61397936 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:61397915 original size:39 final size:39
Alignment explanation
Indices: 61397711--61397933 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
61397701 TTGAATGCTG
* * * * *
61397711 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
61397751 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
61397790 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
61397831 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
61397871 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
61397910 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61397934 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:61397953 original size:79 final size:80
Alignment explanation
Indices: 61397791--61397968 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
61397781 AGATACAAAT
* * * *
61397791 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
61397856 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
61397871 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
61397935 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
61397950 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
61397969 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:61404175 original size:40 final size:40
Alignment explanation
Indices: 61404040--61404262 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
61404030 TTGAATGCTG
* * *
61404040 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
61404080 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
61404119 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
61404159 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
61404199 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
61404238 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61404263 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
38 20 0.13
39 49 0.31
40 77 0.49
41 10 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:61404176 original size:79 final size:78
Alignment explanation
Indices: 61404093--61404262 Score: 216
Period size: 79 Copynumber: 2.2 Consensus size: 78
61404083 GGACTAAGAT
* *
61404093 CCGAAGGCATTTGTGCGAGATA-CAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTA
*
61404157 AATCCGGGTTAAGTC
65 AA-CCGGGCTAAGTC
* * * * * * *
61404172 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
61404237 ACCGGGCTATGTC
66 ACCGGGCTAAGTC
61404250 CCGAAGGCATTTG
1 CCGAAGGCATTTG
61404263 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
78 22 0.28
79 36 0.46
80 20 0.26
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
ACCGGGCTAAGTC
Found at i:61415699 original size:48 final size:48
Alignment explanation
Indices: 61415641--61415777 Score: 247
Period size: 48 Copynumber: 2.9 Consensus size: 48
61415631 TTATCATATT
*
61415641 GATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCACATAAC
1 GATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCACATAAA
61415689 GATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCACATAAA
1 GATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCACATAAA
* *
61415737 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATC
1 GATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATC
61415778 TTATCAACCT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCACATAAA
Found at i:61419109 original size:42 final size:42
Alignment explanation
Indices: 61419062--61419146 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
61419052 TAATGATTGT
61419062 TTTAGAACTCCACTGGTTCTTTTTGGATCATGGGTTAAATAC
1 TTTAGAACTCCACTGGTTCTTTTTGGATCATGGGTTAAATAC
*
61419104 TTTAGAACTCCATTGGTTCTTTTTGGATCATGGGTTAAATAC
1 TTTAGAACTCCACTGGTTCTTTTTGGATCATGGGTTAAATAC
61419146 T
1 T
61419147 AATCTATCGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (42 bp):
TTTAGAACTCCACTGGTTCTTTTTGGATCATGGGTTAAATAC
Found at i:61420033 original size:22 final size:22
Alignment explanation
Indices: 61419998--61420040 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
61419988 CTGCGATATT
*
61419998 TACGGCCTTTAGCCGTTCTATC
1 TACGGCCTTGAGCCGTTCTATC
*
61420020 TACGGCGTTGAGCCGTTCTAT
1 TACGGCCTTGAGCCGTTCTAT
61420041 TGACTTAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.28, G:0.23, T:0.35
Consensus pattern (22 bp):
TACGGCCTTGAGCCGTTCTATC
Found at i:61420559 original size:25 final size:25
Alignment explanation
Indices: 61420531--61420580 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
61420521 TATTAGAAGT
*
61420531 AGGGTACAATTTTCTAAATAATAAC
1 AGGGCACAATTTTCTAAATAATAAC
*
61420556 AGGGCACGATTTTCTAAATAATAAC
1 AGGGCACAATTTTCTAAATAATAAC
61420581 GGCTTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (25 bp):
AGGGCACAATTTTCTAAATAATAAC
Found at i:61423910 original size:20 final size:20
Alignment explanation
Indices: 61423880--61423924 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
61423870 CTGTTTTGTT
61423880 ATGGG-CCAACTGTATTGAA
1 ATGGGCCCAACTGTATTGAA
* *
61423899 ATGGGCCCAACTGTGTTGAT
1 ATGGGCCCAACTGTATTGAA
61423919 ATGGGC
1 ATGGGC
61423925 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTGAA
Found at i:61424018 original size:60 final size:60
Alignment explanation
Indices: 61423915--61424053 Score: 160
Period size: 60 Copynumber: 2.3 Consensus size: 60
61423905 CCAACTGTGT
*
61423915 TGATATGGGCAAGGCCCAATATATCTTGACTCGTAATAAGGCTACGA-CCCAGATTAATAC
1 TGATATGGGCTAGGCCCAATATATCTTGACTCGTAATAAGGCTA-GAGCCCAGATTAATAC
** * *
61423975 TGATATGGGCTAGGCCCAATATCATC-TGA-TACTGTAA-GGGGCTATAGCCCAGATTAATAT
1 TGATATGGGCTAGGCCCAATAT-ATCTTGACT-C-GTAATAAGGCTAGAGCCCAGATTAATAC
61424035 TGATATGGGCTGAGGCCCA
1 TGATATGGGCT-AGGCCCA
61424054 GTTAACATTG
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
59 2 0.03
60 53 0.77
61 14 0.20
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (60 bp):
TGATATGGGCTAGGCCCAATATATCTTGACTCGTAATAAGGCTAGAGCCCAGATTAATAC
Found at i:61424945 original size:16 final size:17
Alignment explanation
Indices: 61424913--61424945 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
61424903 CATCAAGAAG
61424913 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
61424931 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
61424946 CTTCAATGTG
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:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:61438044 original size:20 final size:20
Alignment explanation
Indices: 61438016--61438054 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
61438006 GACCACACGG
61438016 CCAACCCACACGGGCGTGTC
1 CCAACCCACACGGGCGTGTC
* *
61438036 CCAAGCCACACGTGCGTGT
1 CCAACCCACACGGGCGTGT
61438055 GACCCCTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.41, G:0.26, T:0.13
Consensus pattern (20 bp):
CCAACCCACACGGGCGTGTC
Found at i:61439671 original size:28 final size:29
Alignment explanation
Indices: 61439639--61439699 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 29
61439629 CAAAAAGATA
61439639 TTGAGTTTTAGATCAGAGATAAAGTGTT-
1 TTGAGTTTTAGATCAGAGATAAAGTGTTC
*
61439667 TTGAGTTTTAGATTAGAGATAAAGTGTTC
1 TTGAGTTTTAGATCAGAGATAAAGTGTTC
61439696 TTGA
1 TTGA
61439700 AAGTATTGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 27 0.87
29 4 0.13
ACGTcount: A:0.31, C:0.03, G:0.25, T:0.41
Consensus pattern (29 bp):
TTGAGTTTTAGATCAGAGATAAAGTGTTC
Found at i:61440552 original size:37 final size:37
Alignment explanation
Indices: 61440506--61440587 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
61440496 ATAAATAAAA
*
61440506 CAAAGTTAAAATAAGCTTTAATCTCATCATCTTCAAT
1 CAAAATTAAAATAAGCTTTAATCTCATCATCTTCAAT
61440543 CAAAATTAAAATAAGCTTTAATCTCATCATCTTCAAT
1 CAAAATTAAAATAAGCTTTAATCTCATCATCTTCAAT
61440580 -AGAAATTA
1 CA-AAATTA
61440588 GAAGACAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 1 0.02
37 42 0.98
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (37 bp):
CAAAATTAAAATAAGCTTTAATCTCATCATCTTCAAT
Found at i:61444385 original size:43 final size:43
Alignment explanation
Indices: 61444336--61444417 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
61444326 ATCTAGAATA
** *
61444336 TGGCATCGATATGAGATTTCGTGTAAGACCATAGCTAGGCTAT
1 TGGCATCGATATGAGATCCCATGTAAGACCATAGCTAGGCTAT
* *
61444379 TGGCATCGATTTGAGATCCCATGTAAGACCATATCTAGG
1 TGGCATCGATATGAGATCCCATGTAAGACCATAGCTAGG
61444418 ATAAGGCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
TGGCATCGATATGAGATCCCATGTAAGACCATAGCTAGGCTAT
Found at i:61448317 original size:50 final size:50
Alignment explanation
Indices: 61448138--61448330 Score: 203
Period size: 50 Copynumber: 3.8 Consensus size: 50
61448128 ATTGTGAATA
* * * *
61448138 CACGTGTGTAGTACTAAGTGCAGGCTAGTACGTGT-TCCATACT-GTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTAT-CAGA-TGGTTAGGT
* * * * * *
61448188 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTA-TCAGATG-GTTAGGT
* *
61448239 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGT
* *
61448289 CATGTGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGAT
61448331 AGCTTCGGTT
Statistics
Matches: 118, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
49 1 0.01
50 76 0.64
51 40 0.34
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGT
Found at i:61448337 original size:101 final size:101
Alignment explanation
Indices: 61448138--61448324 Score: 279
Period size: 101 Copynumber: 1.9 Consensus size: 101
61448128 ATTGTGAATA
* * * *
61448138 CACGTGTGTAGTACTAAGTGCAGGCTAGTACGTGTTCCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGACTGTGAAGTCACATGTGTAGTACT
61448203 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
66 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
* **
61448239 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAT-CAGA-TGGTGAGGTCATGTGTGTAGTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGT-TCCAGACT-GTGAAGTCACATGTGTAGTA
61448302 CTAAGTGCAGGCTACTATGCGTA
64 CTAAGTGCAGGCTACTATGCGTA
61448325 TCAGATAGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
100 1 0.01
101 75 0.97
102 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGACTGTGAAGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
Found at i:61450197 original size:22 final size:22
Alignment explanation
Indices: 61450171--61450214 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61450161 GAAAATGATC
*
61450171 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
* *
61450193 AAAATTATTTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
61450215 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:61464509 original size:20 final size:20
Alignment explanation
Indices: 61464480--61464535 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
61464470 AGCTAAAAAC
61464480 CATATATATATAATCATTGA
1 CATATATATATAATCATTGA
*
61464500 CATATTTATATAATCATTGA
1 CATATATATATAATCATTGA
* *
61464520 CAT-TCTATTTAATCAT
1 CATATATATATAATCAT
61464536 AGTTCTCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 11 0.33
20 22 0.67
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (20 bp):
CATATATATATAATCATTGA
Found at i:61465597 original size:18 final size:18
Alignment explanation
Indices: 61465574--61465637 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
61465564 AGCAACAATC
61465574 TCAAAAACGTAGAAATTA
1 TCAAAAACGTAGAAATTA
* * *
61465592 TCAAAAA-TTGAGTCAACAATC
1 TCAAAAACGT-AG--AA-ATTA
61465613 TCAAAAACGTAGAAATTA
1 TCAAAAACGTAGAAATTA
61465631 TCAAAAA
1 TCAAAAA
61465638 TCGAGTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 1 0.03
18 18 0.51
19 2 0.06
20 2 0.06
21 11 0.31
22 1 0.03
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.22
Consensus pattern (18 bp):
TCAAAAACGTAGAAATTA
Found at i:61465620 original size:39 final size:39
Alignment explanation
Indices: 61465566--61465643 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
61465556 GTACTCGAAG
*
61465566 CAACAATCTCAAAAACGTAGAAATTATCAAAAATTGAGT
1 CAACAATCTCAAAAACGTAGAAATTATCAAAAATCGAGT
61465605 CAACAATCTCAAAAACGTAGAAATTATCAAAAATCGAGT
1 CAACAATCTCAAAAACGTAGAAATTATCAAAAATCGAGT
61465644 TAAACTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.51, C:0.17, G:0.10, T:0.22
Consensus pattern (39 bp):
CAACAATCTCAAAAACGTAGAAATTATCAAAAATCGAGT
Found at i:61471327 original size:40 final size:39
Alignment explanation
Indices: 61471229--61471451 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
61471219 TCCTCGTTCA
* * * *
61471229 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
61471268 AACGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
61471307 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
61471347 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
61471387 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
61471428 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61471452 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 104 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:61471411 original size:80 final size:79
Alignment explanation
Indices: 61471227--61471451 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
61471217 GCTCCTCGTT
* * * * *
61471227 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAACGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
61471291 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
61471306 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
61471371 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
61471386 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
61471450 GA
63 GA
61471452 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:61471460 original size:41 final size:41
Alignment explanation
Indices: 61471383--61471460 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61471373 TTTGTATCTC
* * *
61471383 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61471424 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61471461 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61479266 original size:40 final size:39
Alignment explanation
Indices: 61479168--61479390 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
61479158 TCCTCGTTCA
* * * *
61479168 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
61479207 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
61479246 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
61479286 AAAGGCCTTCAGGG-CTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTC-GGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
61479326 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
61479367 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61479391 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 38 0.24
40 102 0.65
41 15 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:61479399 original size:41 final size:41
Alignment explanation
Indices: 61479322--61479399 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61479312 TTTGTATCTC
* * *
61479322 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61479363 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61479400 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61486587 original size:19 final size:18
Alignment explanation
Indices: 61486563--61486602 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
61486553 AGGGAATTTG
*
61486563 AAATGGAAAAGAAGAGATA
1 AAATGG-AAAGAAGAGAGA
*
61486582 AAATGGAGAGAAGAGAGA
1 AAATGGAAAGAAGAGAGA
61486600 AAA
1 AAA
61486603 GATGTGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.30, T:0.07
Consensus pattern (18 bp):
AAATGGAAAGAAGAGAGA
Found at i:61489564 original size:30 final size:30
Alignment explanation
Indices: 61489517--61489575 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
61489507 TCAACTATAA
*
61489517 TGTAACACCCTATACCCGTGTCCAACACCT
1 TGTAACACCCTATACCCGTATCCAACACCT
* *
61489547 TGTAACCCCCT-TAACCCGTATCCATCACC
1 TGTAACACCCTAT-ACCCGTATCCAACACC
61489576 GGAAAGGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.25, C:0.42, G:0.08, T:0.24
Consensus pattern (30 bp):
TGTAACACCCTATACCCGTATCCAACACCT
Found at i:61492038 original size:43 final size:41
Alignment explanation
Indices: 61491983--61492139 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 41
61491973 ATATCGTACA
61491983 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AATCACAT-TCG
* * * * *
61492026 ATGCC-ACTGTCCCAGGCAGGGTCTTATACGGATCACAATTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAATCAC-ATT-CG
* *
61492069 ATACCAATGTCCCAGACATGGTCTTAC-TCGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACAT-G-AATCACAT-TCG
* **
61492112 ATGCCAACGTCCTAGATGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
61492140 CGAGAACACA
Statistics
Matches: 89, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
42 8 0.09
43 74 0.83
44 7 0.08
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAATCACATTCG
Found at i:61493246 original size:14 final size:15
Alignment explanation
Indices: 61493229--61493257 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61493219 GCACGAAAAT
61493229 TTCACACAT-ATAAA
1 TTCACACATAATAAA
61493243 TTCACACATAATAAA
1 TTCACACATAATAAA
61493258 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:61500462 original size:43 final size:43
Alignment explanation
Indices: 61500356--61500502 Score: 197
Period size: 43 Copynumber: 3.4 Consensus size: 43
61500346 CACATATCAG
* *
61500356 AATCACATATTGATGCCAACGTATTAAACGTGGTCTTACTCGT
1 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCGT
* * * *
61500399 AA-CACATATCAATGCAAACGTACTAAACGTAGTCTTACTCAT
1 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCGT
* * * *
61500441 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCGT
61500484 AATCACATATCGATGCCAA
1 AATCACATATCGATGCCAA
61500503 TTTCCCAGAC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 36 0.40
43 53 0.60
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCGT
Found at i:61500509 original size:43 final size:43
Alignment explanation
Indices: 61500356--61500536 Score: 193
Period size: 43 Copynumber: 4.2 Consensus size: 43
61500346 CACATATCAG
* *** * *
61500356 AATCACATATTGATGCCAACGTATTAAACGTGGTCTTACTCGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* * * * * * * *
61500399 AA-CACATATCAATGCAAACGTACTAAACGTAGTCTTACTCAT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
61500441 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
** *
61500484 AATCACATATCGATGCCAATTTCCCAGACGTGGTCTTACATGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
*
61500527 AATCATATAT
1 AATCACATAT
61500537 TGAAAATCCT
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
42 36 0.30
43 83 0.70
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
Found at i:61510840 original size:93 final size:93
Alignment explanation
Indices: 61510728--61510899 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
61510718 CGCCCATAAG
*
61510728 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
61510792 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
61510821 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
61510886 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
61510900 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:61510894 original size:46 final size:46
Alignment explanation
Indices: 61510721--61510896 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
61510711 TGTAACCCGC
* *
61510721 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
61510767 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
61510817 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
61510860 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
61510897 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:61518455 original size:39 final size:39
Alignment explanation
Indices: 61518411--61518721 Score: 514
Period size: 39 Copynumber: 8.0 Consensus size: 39
61518401 ATTATATTAT
* *
61518411 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
61518450 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
61518489 CAGCACGAAGCCTGCGGGACTTTGGCCTGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
61518528 CAGCACGAAGCCTGCGGGACTTTAGTCCGAATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
61518567 CAGCACGAAGCCTGCGGGACTTTGGCCCAGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
61518606 CAACACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
61518645 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
61518684 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
61518722 TCAGTGTCTT
Statistics
Matches: 254, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 254 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:61521881 original size:17 final size:20
Alignment explanation
Indices: 61521846--61521881 Score: 51
Period size: 17 Copynumber: 1.9 Consensus size: 20
61521836 GGAAAGTGAA
61521846 ATAATAAAAGATGATAAATG
1 ATAATAAAAGATGATAAATG
61521866 ATAA-AAAA-ATGA-AAAT
1 ATAATAAAAGATGATAAAT
61521882 ATCATCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 4 0.25
20 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (20 bp):
ATAATAAAAGATGATAAATG
Found at i:61524051 original size:39 final size:39
Alignment explanation
Indices: 61523847--61524069 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 39
61523837 TTGAATGCTG
* * * * * *
61523847 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* ** *
61523887 CCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * * *
61523926 TTTCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
61523967 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * *
61524007 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTCCTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
61524046 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61524070 TGAACGAGGA
Statistics
Matches: 151, Mismatches: 25, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
39 39 0.26
40 101 0.67
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:61531007 original size:39 final size:39
Alignment explanation
Indices: 61530803--61531025 Score: 198
Period size: 40 Copynumber: 5.6 Consensus size: 39
61530793 TTGAATGCTG
* * * * * *
61530803 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* ** *
61530843 CCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
61530882 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
61530923 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * *
61530963 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTCCTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
61531002 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61531026 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 39 0.25
40 103 0.67
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:61533630 original size:21 final size:22
Alignment explanation
Indices: 61533586--61533632 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
61533576 TAATTGATTT
*
61533586 AATAAGCAAAATCTTGACATAA
1 AATAAGCAAAATCTTGACACAA
* *
61533608 AATAATCAAAA-CTTGAGACAA
1 AATAAGCAAAATCTTGACACAA
61533629 AATA
1 AATA
61533633 TTACGAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.57, C:0.13, G:0.09, T:0.21
Consensus pattern (22 bp):
AATAAGCAAAATCTTGACACAA
Found at i:61539765 original size:17 final size:16
Alignment explanation
Indices: 61539731--61539788 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
61539721 GTTTCAATAG
*
61539731 ATTTAATATTAGATTTA
1 ATTTAATATT-TATTTA
61539748 ATTTAATATTTATCTTA
1 ATTTAATATTTAT-TTA
*
61539765 A--TAGTATTT-TATTA
1 ATTTAATATTTAT-TTA
61539779 ATTTAATATT
1 ATTTAATATT
61539789 AAAGTAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 8 0.24
17 14 0.41
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTTAATATTTATTTA
Found at i:61542720 original size:17 final size:17
Alignment explanation
Indices: 61542700--61542738 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
61542690 TCATCCCTTT
*
61542700 TCATAAATCATATGAAA
1 TCATAAATCATATAAAA
61542717 TCATAAATCATATAAAA
1 TCATAAATCATATAAAA
61542734 TCATA
1 TCATA
61542739 CTTTTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (17 bp):
TCATAAATCATATAAAA
Found at i:61542827 original size:140 final size:140
Alignment explanation
Indices: 61542575--61542840 Score: 514
Period size: 140 Copynumber: 1.9 Consensus size: 140
61542565 TAAATCTTAT
*
61542575 AATCATAAATCATATGAAATCATACTTTTCATAACATGGATATACATACTTTATTTATCAATACT
1 AATCATAAATCATATAAAATCATACTTTTCATAACATGGATATACATACTTTATTTATCAATACT
*
61542640 TCATACCTTTCCACAGTTTCATAGTGAAATCCATCAGAACCCTTACCGGTTCATCCCTTTTCATA
66 TCATACCTTTCCACAATTTCATAGTGAAATCCATCAGAACCCTTACCGGTTCATCCCTTTTCATA
61542705 AATCATATGA
131 AATCATATGA
61542715 AATCATAAATCATATAAAATCATACTTTTCATAACATGGATATACATACTTTATTTATCAATACT
1 AATCATAAATCATATAAAATCATACTTTTCATAACATGGATATACATACTTTATTTATCAATACT
61542780 TCATACCTTTCCACAATTTCATAGTGAAATCCATCAGAACCCTTACCGGTTCATCCCTTTT
66 TCATACCTTTCCACAATTTCATAGTGAAATCCATCAGAACCCTTACCGGTTCATCCCTTTT
61542841 TATACCCATT
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (140 bp):
AATCATAAATCATATAAAATCATACTTTTCATAACATGGATATACATACTTTATTTATCAATACT
TCATACCTTTCCACAATTTCATAGTGAAATCCATCAGAACCCTTACCGGTTCATCCCTTTTCATA
AATCATATGA
Found at i:61542933 original size:6 final size:6
Alignment explanation
Indices: 61542922--61542948 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
61542912 GTCAAAATCA
61542922 TTCCTT TTCCTT TTCCTT TTCCTT TTC
1 TTCCTT TTCCTT TTCCTT TTCCTT TTC
61542949 ATAGATGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TTCCTT
Found at i:61545139 original size:17 final size:17
Alignment explanation
Indices: 61545117--61545152 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
61545107 AAGACATATC
*
61545117 TGATAAAGCCCGATAAA
1 TGATAAAGCCCGAAAAA
61545134 TGATAAAGCCCGAAAAA
1 TGATAAAGCCCGAAAAA
61545151 TG
1 TG
61545153 TTAAGTCTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (17 bp):
TGATAAAGCCCGAAAAA
Found at i:61545415 original size:65 final size:65
Alignment explanation
Indices: 61545341--61545488 Score: 217
Period size: 65 Copynumber: 2.3 Consensus size: 65
61545331 GTGACTACCG
*
61545341 CAGCTCTTTGTGAGCATCATGTTTAT-TGATCTGTTGTGATCCTGCATATGTTGCGGACACAAAC
1 CAGCTCTTTGTGAGCATCATG-TTATGTGATCGGTTGTGATCCTGCATATGTTGCGGACACAAAC
61545405 A
65 A
* * * * *
61545406 CAGCTCTTTGTGAGCGTCTTGTTATGTGATCGGTTGTGATCCTGCATATGTTGTGGACATAAACG
1 CAGCTCTTTGTGAGCATCATGTTATGTGATCGGTTGTGATCCTGCATATGTTGCGGACACAAACA
*
61545471 CAGCTCTTTATGAGCATC
1 CAGCTCTTTGTGAGCATC
61545489 CTGATAAGGC
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 4 0.05
65 70 0.95
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (65 bp):
CAGCTCTTTGTGAGCATCATGTTATGTGATCGGTTGTGATCCTGCATATGTTGCGGACACAAACA
Found at i:61545590 original size:23 final size:24
Alignment explanation
Indices: 61545545--61545590 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
61545535 CCTGTTACCG
*
61545545 GGCTCTTTGTGAGTATTCCTAATA
1 GGCTCTTCGTGAGTATTCCTAATA
*
61545569 GGCTCTTCGTGAG-CTTCCTAAT
1 GGCTCTTCGTGAGTATTCCTAAT
61545591 TAAAAGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (24 bp):
GGCTCTTCGTGAGTATTCCTAATA
Found at i:61545857 original size:40 final size:40
Alignment explanation
Indices: 61545813--61545891 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
61545803 TTCAAATAAG
61545813 TTCAATAGGCAAAATTTTGACATGAGAAAATATGAACAAT
1 TTCAATAGGCAAAATTTTGACATGAGAAAATATGAACAAT
*
61545853 TTCAATAGGCAAAATTTTGACGTGAGAAAATATGAACAA
1 TTCAATAGGCAAAATTTTGACATGAGAAAATATGAACAA
61545892 GAGATGAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.47, C:0.10, G:0.16, T:0.27
Consensus pattern (40 bp):
TTCAATAGGCAAAATTTTGACATGAGAAAATATGAACAAT
Found at i:61547228 original size:12 final size:13
Alignment explanation
Indices: 61547213--61547244 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
61547203 ATAACACATT
61547213 TCAAAAC-ATGCA
1 TCAAAACTATGCA
61547225 TCAAAACTATGCA
1 TCAAAACTATGCA
61547238 -CAAAACT
1 TCAAAACT
61547245 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:61550093 original size:44 final size:43
Alignment explanation
Indices: 61549955--61550103 Score: 137
Period size: 42 Copynumber: 3.5 Consensus size: 43
61549945 CAATGCCGAC
* * ** *
61549955 GTCCCAGACGTGGTCTTACATGT-AATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATT-AAAATCGATGCCTGT
** *
61549998 GTCCCAGACATGGTCTTATGCG-AAA--ACAGATACGATGCC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATTA-AAAT-CGATGCCTG-T
61550040 GTCCCAGACATGGTCTTACACGTAAATTTAAAATCGATGCCTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTAAAATCGATGCCTGT
*
61550084 GTCCCAGACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
61550104 TGATAATTCA
Statistics
Matches: 86, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 28 0.33
43 23 0.27
44 27 0.31
45 4 0.05
46 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTAAAATCGATGCCTGT
Found at i:61556597 original size:12 final size:13
Alignment explanation
Indices: 61556582--61556613 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
61556572 ATAACACATT
61556582 TCAAAAC-ATGCA
1 TCAAAACTATGCA
61556594 TCAAAACTATGCA
1 TCAAAACTATGCA
61556607 -CAAAACT
1 TCAAAACT
61556614 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:61559742 original size:31 final size:28
Alignment explanation
Indices: 61559707--61559784 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 28
61559697 GTTGAATCTC
61559707 AATTAAAATTTTATGTATACATTTGAACCA
1 AATTAAAATTTTATGTATA-A-TTGAACCA
* *
61559737 GAATTAAAGTTTAATATGTATAATTGCACCA
1 -AATTAAAATTT--TATGTATAATTGAACCA
*
61559768 AATT-AAAGTTTATGTAT
1 AATTAAAATTTTATGTAT
61559785 CAAATTGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 7 0.17
29 4 0.10
30 4 0.10
31 17 0.41
32 1 0.02
33 8 0.20
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (28 bp):
AATTAAAATTTTATGTATAATTGAACCA
Found at i:61559774 original size:30 final size:33
Alignment explanation
Indices: 61559718--61559779 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 33
61559708 ATTAAAATTT
61559718 TATGTATACATTTGAACCAGAATTAAAGTTTAA
1 TATGTATACATTTGAACCAGAATTAAAGTTTAA
*
61559751 TATGTATA-A-TTGCACCA-AATTAAAGTTTA
1 TATGTATACATTTGAACCAGAATTAAAGTTTA
61559780 TGTATCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 12 0.43
31 7 0.25
32 1 0.04
33 8 0.29
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (33 bp):
TATGTATACATTTGAACCAGAATTAAAGTTTAA
Found at i:61560759 original size:19 final size:20
Alignment explanation
Indices: 61560710--61560761 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
61560700 TTTTTGTTTC
*
61560710 TTTTTTAATTTTTAATCATA
1 TTTTTTAATTTATAATCATA
*
61560730 TTTTATAATTTATAATC-TA
1 TTTTTTAATTTATAATCATA
*
61560749 TTTTTTTATTTAT
1 TTTTTTAATTTAT
61560762 GCACTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTTAATTTATAATCATA
Found at i:61562247 original size:29 final size:29
Alignment explanation
Indices: 61562205--61562274 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
61562195 TAGTTTTCAT
* **
61562205 ATTTTAATAATTATTTATTCGGCTTATAA
1 ATTTTAATATTTATTTATTCGGAATATAA
*
61562234 ATTTTAATATTTATTTATTTGGAATATAA
1 ATTTTAATATTTATTTATTCGGAATATAA
*
61562263 ATCTTAA-ATTTA
1 ATTTTAATATTTA
61562275 GTATTATTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (29 bp):
ATTTTAATATTTATTTATTCGGAATATAA
Found at i:61563436 original size:29 final size:29
Alignment explanation
Indices: 61563375--61563438 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
61563365 TGAAGGTGGA
*
61563375 TTTTTAAAAATAAGTTTCAAAAACCCATG
1 TTTTTAAAAATAAGTTTCAAAAACCCAAG
* **
61563404 -TTTTAAAAATAGGTTTTGAAAACCCAAG
1 TTTTTAAAAATAAGTTTCAAAAACCCAAG
61563432 TTTTTAA
1 TTTTTAA
61563439 GTTTGATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (29 bp):
TTTTTAAAAATAAGTTTCAAAAACCCAAG
Found at i:61564347 original size:20 final size:20
Alignment explanation
Indices: 61564300--61564341 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
61564290 TGTAAAAATT
* *
61564300 TTATAAATTTGTAAATAAAA
1 TTATAAAATAGTAAATAAAA
61564320 TTATAAAATAGTAAATAAAA
1 TTATAAAATAGTAAATAAAA
61564340 TT
1 TT
61564342 CAAAAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTATAAAATAGTAAATAAAA
Found at i:61565018 original size:18 final size:18
Alignment explanation
Indices: 61564975--61565019 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
61564965 AAATGATTAT
* *
61564975 TAATTATTAATTTTTTTG
1 TAATTTTTAATTTTATTG
61564993 TAATTTTTAATTTTATT-
1 TAATTTTTAATTTTATTG
61565010 TAATATTTTA
1 TAAT-TTTTA
61565020 TAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TAATTTTTAATTTTATTG
Found at i:61567562 original size:98 final size:98
Alignment explanation
Indices: 61567202--61567665 Score: 349
Period size: 93 Copynumber: 4.9 Consensus size: 98
61567192 TGGGTTATGT
* * * * * ** *
61567202 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGA-GATGAGGGCTAGTGTAAGA
1 GAGAGCCAGTGTAAGACCATGACTGGGACATGGCATCGGCCTCGATGAAGATAGCCAGTGTAAGA
* * ** *
61567266 -CGTGTCTGGGACAT-GCATTAGCC-ACAT-TA
66 CCATGTCTGGGACATGGCATCAGCCGTGATGAA
* * * * **** * *
61567295 TATAGCCAGTGTAAGACCATGTCTGAGACATGGCATCTATGTAGA-GATGAGT-GCCAGTGTAAG
1 GAGAGCCAGTGTAAGACCATGACTGGGACATGGCATCGGCCTCGATGAAGA-TAGCCAGTGTAAG
* *
61567358 A-CATGTCTGGGACAT-GCATCAGCC-TCAATGAT
65 ACCATGTCTGGGACATGGCATCAGCCGT-GATGAA
* ** * * ** *
61567390 G-GTAGCCAGTGTAAGA-CGTGTTTGGGACAT-GCATCGG-CTAAGCT-TCG-T-GCTAGTGTAA
1 GAG-AGCCAGTGTAAGACCATGACTGGGACATGGCATCGGCCT-CGATGAAGATAGCCAGTGTAA
*
61567448 GA-CATGTCTGGGACAT-GCATCAGCAG-GTAT-ACA
64 GACCATGTCTGGGACATGGCATCAGCCGTG-ATGA-A
* * *
61567481 CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATGAAGATAGCCAGTGTAAG
1 -GAGAGCCAGTGTAAGACCATGACTGGGACATGGCATCGGCCTCGATGAAGATAGCCAGTGTAAG
* *
61567546 ACCATGTCTGGGACATGGCATTAGCCTTGATGAA
65 ACCATGTCTGGGACATGGCATCAGCCGTGATGAA
* *
61567580 GATAGCCAGTGTAAGACCATGACTGGGACATGGCATCGGCCTCGATGAAGATAGCCAGTGAAAGA
1 GAGAGCCAGTGTAAGACCATGACTGGGACATGGCATCGGCCTCGATGAAGATAGCCAGTGTAAGA
61567645 CCATGTCTGGGACATGGCATC
66 CCATGTCTGGGACATGGCATC
61567666 GGCAACTTAA
Statistics
Matches: 300, Mismatches: 50, Indels: 37
0.78 0.13 0.10
Matches are distributed among these distances:
90 1 0.00
91 36 0.12
92 14 0.05
93 94 0.31
94 21 0.07
95 16 0.05
96 1 0.00
97 11 0.04
98 94 0.31
99 10 0.03
100 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (98 bp):
GAGAGCCAGTGTAAGACCATGACTGGGACATGGCATCGGCCTCGATGAAGATAGCCAGTGTAAGA
CCATGTCTGGGACATGGCATCAGCCGTGATGAA
Found at i:61567666 original size:49 final size:49
Alignment explanation
Indices: 61567205--61567668 Score: 372
Period size: 49 Copynumber: 9.8 Consensus size: 49
61567195 GTTATGTGAG
* * * * *
61567205 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGA-GATGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
* * * ** * * *
61567253 GGCTAGTGTAAGA-CGTGTCTGGGACAT-GCATTAGCCAC-AT-TATAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
* **** * *
61567298 AGCCAGTGTAAGACCATGTCTGAGACATGGCATCTATGTAGA-GATGAGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGA-T
* * * *
61567347 -GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCAATGATGGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
* * * * **
61567393 AGCCAGTGTAAGA-CGTGTTTGGGACAT-GCATCGG-CTAAGCT-TCG-T
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGAAGAT
* * ** *
61567438 -GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CAGGTAT-ACACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-ATGA-A-GAT
* *
61567485 AGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATGAAGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
** *
61567534 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTAGCCTTGATGAAGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
*
61567583 AGCCAGTGTAAGACCATGACTGGGACATGGCATCGGCCTCGATGAAGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
*
61567632 AGCCAGTGAAAGACCATGTCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
61567669 AACTTAACCC
Statistics
Matches: 331, Mismatches: 67, Indels: 35
0.76 0.15 0.08
Matches are distributed among these distances:
43 1 0.00
44 31 0.09
45 14 0.04
46 30 0.09
47 64 0.19
48 37 0.11
49 143 0.43
50 8 0.02
51 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
Found at i:61567778 original size:11 final size:11
Alignment explanation
Indices: 61567762--61567786 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61567752 AAGGAAAGTA
61567762 TGATAATGTTT
1 TGATAATGTTT
61567773 TGATAATGTTT
1 TGATAATGTTT
61567784 TGA
1 TGA
61567787 GTGTTACAGG
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:0.28, C:0.00, G:0.20, T:0.52
Consensus pattern (11 bp):
TGATAATGTTT
Found at i:61573426 original size:12 final size:12
Alignment explanation
Indices: 61573410--61573481 Score: 74
Period size: 12 Copynumber: 5.8 Consensus size: 12
61573400 TTTTTGCTCG
61573410 ATTTTTTTTTCA
1 ATTTTTTTTTCA
* *
61573422 CTTTTTTTTTGA
1 ATTTTTTTTTCA
61573434 ATTTTTTTTCAATCA
1 ATTTTTTTT---TCA
61573449 ATTTTTTTTTCGA
1 ATTTTTTTTTC-A
*
61573462 ATTTTTTTTT-G
1 ATTTTTTTTTCA
61573473 ATTTTTTTT
1 ATTTTTTTT
61573482 GTTACTCCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
11 9 0.18
12 20 0.39
13 11 0.22
15 11 0.22
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:61575459 original size:16 final size:16
Alignment explanation
Indices: 61575438--61575468 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61575428 AAAAATATTT
*
61575438 TAAAATATTTTAAAAC
1 TAAAATACTTTAAAAC
61575454 TAAAATACTTTAAAA
1 TAAAATACTTTAAAA
61575469 TTAACTTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATACTTTAAAAC
Found at i:61577101 original size:3 final size:3
Alignment explanation
Indices: 61577093--61577117 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
61577083 TGTTTATGAA
61577093 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
61577118 GTAGTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:61578513 original size:11 final size:10
Alignment explanation
Indices: 61578481--61578535 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
61578471 CATGAGATTT
61578481 TGATAT-ACA
1 TGATATGACA
*
61578490 TGATTTGACA
1 TGATATGACA
61578500 TGATATGCACA
1 TGATATG-ACA
*
61578511 TGATATG-TA
1 TGATATGACA
61578520 TGATATGCACA
1 TGATATG-ACA
61578531 TGATA
1 TGATA
61578536 AATTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 16 0.42
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:61578629 original size:24 final size:25
Alignment explanation
Indices: 61578583--61578640 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
61578573 GAGGAAGTGC
*
61578583 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTACCCCAGTTTATCA
*
61578608 AAAAGGGCTTTACCCCAG-TTATTA
1 AAAAGGGCTTTACCCCAGTTTATCA
*
61578632 AAAAAGGCT
1 AAAAGGGCT
61578641 AGGCCTCCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTACCCCAGTTTATCA
Found at i:61578884 original size:31 final size:31
Alignment explanation
Indices: 61578849--61578963 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
61578839 CGTTTGCAGT
61578849 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
61578880 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
61578911 AAAGGCTTCGGCCCAGTGACATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
61578942 AAAGGTTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
61578964 CTGAGATTGA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 4 0.05
31 76 0.95
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:61586427 original size:27 final size:27
Alignment explanation
Indices: 61586397--61586574 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
61586387 ATATTGAGTC
* *
61586397 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
61586424 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
61586451 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
61586479 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
61586506 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
61586533 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
61586560 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
61586575 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61587073 original size:12 final size:12
Alignment explanation
Indices: 61587056--61587082 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61587046 ATGGCATACT
61587056 TATGTATATATA
1 TATGTATATATA
61587068 TATGTATATATA
1 TATGTATATATA
61587080 TAT
1 TAT
61587083 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:61594545 original size:27 final size:27
Alignment explanation
Indices: 61594515--61594692 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
61594505 ATATTGAGTC
* *
61594515 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
61594542 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
61594569 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
61594597 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
61594624 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
61594651 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
61594678 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61594693 GTACATTTAA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61595164 original size:12 final size:12
Alignment explanation
Indices: 61595147--61595173 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61595137 ATGGCATACT
61595147 TATGTATATATA
1 TATGTATATATA
61595159 TATGTATATATA
1 TATGTATATATA
61595171 TAT
1 TAT
61595174 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:61600823 original size:38 final size:38
Alignment explanation
Indices: 61600773--61600849 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
61600763 GATGATTAAC
61600773 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
1 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
61600811 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
1 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
61600849 A
1 A
61600850 ACCTAAGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (38 bp):
ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
Found at i:61605961 original size:40 final size:40
Alignment explanation
Indices: 61605884--61606027 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
61605874 TACTCGAATG
* *
61605884 ATATCC-GGCTAAGTCCCGAAAGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
61605924 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
61605964 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
61606004 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
61606028 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 67 0.74
41 21 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:61621312 original size:46 final size:47
Alignment explanation
Indices: 61621167--61621312 Score: 140
Period size: 46 Copynumber: 3.1 Consensus size: 47
61621157 AACCCGCCCA
*
61621167 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATCC
* * * * * * *
61621215 TCA-CGAACTCGGACTCAACTCAACAAGTTCAGA--CATTTGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC
* *
61621259 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC
61621307 T-AGTGA
1 TAAGTGA
61621313 CATGTCACTT
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
43 4 0.05
44 1 0.01
45 4 0.05
46 32 0.41
47 29 0.37
48 8 0.10
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC
Found at i:61623719 original size:30 final size:30
Alignment explanation
Indices: 61623685--61623764 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
61623675 CAAGGAAACC
*
61623685 GAATAAAGAAATCCAAGATAGAGAAATCCA
1 GAATAAAGAAATCCAAGATAAAGAAATCCA
* * *
61623715 GAATAAAGAATTCC-AGAATAAAGAGATCTA
1 GAATAAAGAAATCCAAG-ATAAAGAAATCCA
* *
61623745 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
61623765 TGATACTATG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 2 0.05
30 37 0.90
31 2 0.05
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.15
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAATCCA
Found at i:61623724 original size:15 final size:15
Alignment explanation
Indices: 61623685--61623755 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
61623675 CAAGGAAACC
61623685 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
61623700 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
*
61623715 GAATAAAGAATTCCA
1 GAATAAAGAAATCCA
* *
61623730 GAATAAAGAGATCTA
1 GAATAAAGAAATCCA
*
61623745 GGATAAAGAAA
1 GAATAAAGAAA
61623756 CCCAAGATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 1 0.02
15 44 0.96
16 1 0.02
ACGTcount: A:0.56, C:0.10, G:0.18, T:0.15
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:61623764 original size:15 final size:15
Alignment explanation
Indices: 61623687--61623764 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
61623677 AGGAAACCGA
61623687 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
61623702 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
61623716 AATAAAGAATTCC-AG
1 -ATAAAGAAATCCAAG
* * *
61623731 AATAAAGAGATCTAGG
1 -ATAAAGAAATCCAAG
*
61623747 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
61623762 ATA
1 ATA
61623765 TGATACTATG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
14 2 0.04
15 47 0.94
16 1 0.02
ACGTcount: A:0.55, C:0.13, G:0.17, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:61626756 original size:46 final size:46
Alignment explanation
Indices: 61626681--61626856 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
61626671 TGTAACCCGC
* * * *
61626681 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * *
61626727 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCAT
* * * *
61626777 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
61626820 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61626857 TGCCCAAACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 58 0.55
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:61626847 original size:93 final size:93
Alignment explanation
Indices: 61626688--61626860 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
61626678 CGCCCATAAG
* * * *
61626688 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
61626753 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
* *
61626781 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
61626846 ACGAGTTCGGATGCC
66 ACGAGTTCAGATGCC
61626861 CAAACATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:61633844 original size:22 final size:20
Alignment explanation
Indices: 61633814--61633854 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
61633804 CATGTGTGAA
61633814 AATTCCATGTTTGAATTTAGTC
1 AATTCCATG--TGAATTTAGTC
*
61633836 AATTGCATGTGAATTTAGT
1 AATTCCATGTGAATTTAGT
61633855 TAATAGGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (20 bp):
AATTCCATGTGAATTTAGTC
Found at i:61634051 original size:4 final size:4
Alignment explanation
Indices: 61634037--61634077 Score: 73
Period size: 4 Copynumber: 10.0 Consensus size: 4
61634027 TTTATATTAT
61634037 ATAA CATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
61634078 GGGAAAAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 32 0.89
5 4 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:61635381 original size:40 final size:40
Alignment explanation
Indices: 61635326--61635721 Score: 639
Period size: 40 Copynumber: 9.9 Consensus size: 40
61635316 CTCGCCGATG
*
61635326 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
61635366 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
61635406 ATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
61635446 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
61635486 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
61635526 ATCAGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
61635566 ATCCGGGCTAAGTCCAGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
** *
61635606 ATCCGGGCTAAGTCTTGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
61635646 ATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
61635686 ATCCGGGCTAGGTCCCAAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
61635722 ATGTGTATTC
Statistics
Matches: 331, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 331 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:61635935 original size:25 final size:25
Alignment explanation
Indices: 61635885--61635935 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
61635875 TGTGTAACAA
* *
61635885 CAAATGAATAGAGGCACTATGTGTG
1 CAAATGAATAGAGGCACTAAGAGTG
*
61635910 CAAATGATTAGAGGCACTAAGAGTG
1 CAAATGAATAGAGGCACTAAGAGTG
61635935 C
1 C
61635936 GAGTTCTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAAGAGTG
Found at i:61637184 original size:4 final size:4
Alignment explanation
Indices: 61637170--61637206 Score: 65
Period size: 4 Copynumber: 9.0 Consensus size: 4
61637160 TTTATATTAT
61637170 ATAA CATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
61637207 GGGAAAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:61640230 original size:118 final size:118
Alignment explanation
Indices: 61640022--61640257 Score: 454
Period size: 118 Copynumber: 2.0 Consensus size: 118
61640012 GAAAAGGGGA
*
61640022 GACAGAGAAAAGGGGTAAGGAATTACCCCAAGGAAGCCGATTGATCCATTTCAGCAGCAGGATTC
1 GACAGAGAAAAGGGGTAAGGAATTACCCCAAGGAAGCCGATTGATCCATTTCAGAAGCAGGATTC
*
61640087 ATCATCAAGACTGAAGATCTCTCCTCAATTCCCTTTCAGGATTTTTTGATTTT
66 ATCATCAAGACTGAAGATCTCTCCTCAATTCCCTTTCAGGAGTTTTTGATTTT
61640140 GACAGAGAAAAGGGGTAAGGAATTACCCCAAGGAAGCCGATTGATCCATTTCAGAAGCAGGATTC
1 GACAGAGAAAAGGGGTAAGGAATTACCCCAAGGAAGCCGATTGATCCATTTCAGAAGCAGGATTC
61640205 ATCATCAAGACTGAAGATCTCTCCTCAATTCCCTTTCAGGAGTTTTTGATTTT
66 ATCATCAAGACTGAAGATCTCTCCTCAATTCCCTTTCAGGAGTTTTTGATTTT
61640258 CTTTATGTTT
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (118 bp):
GACAGAGAAAAGGGGTAAGGAATTACCCCAAGGAAGCCGATTGATCCATTTCAGAAGCAGGATTC
ATCATCAAGACTGAAGATCTCTCCTCAATTCCCTTTCAGGAGTTTTTGATTTT
Found at i:61648259 original size:19 final size:19
Alignment explanation
Indices: 61648223--61648280 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
61648213 TAGAAAAATC
*
61648223 AAAAGAAAAAGAGCAAGAAAA
1 AAAAGAAAAA-A-AAAGAAAA
*
61648244 AAAAGAAAAAAAAAGAAAC
1 AAAAGAAAAAAAAAGAAAA
** *
61648263 ACGAGAAAAAGAAAGAAA
1 AAAAGAAAAAAAAAGAAA
61648281 CAAGTGAGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 21 0.66
20 1 0.03
21 10 0.31
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAAAAGAAAA
Found at i:61661303 original size:36 final size:37
Alignment explanation
Indices: 61661159--61661302 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
61661149 GGAAATATAT
61661159 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
61661196 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
61661233 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT-TG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
61661269 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
61661303 TCGTCTAAGC
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 33 0.32
37 71 0.68
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:61662769 original size:40 final size:40
Alignment explanation
Indices: 61662566--61662757 Score: 276
Period size: 40 Copynumber: 4.8 Consensus size: 40
61662556 TCAGAATGAG
*
61662566 AGTGATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
61662606 AGTGATATATCCAGGCTAAGTCTCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
61662646 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
61662686 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
61662726 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
61662758 ATCATGCTGG
Statistics
Matches: 134, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:61663041 original size:58 final size:57
Alignment explanation
Indices: 61662976--61663086 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
61662966 CGAATGATTA
* * *
61662976 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGGGAAATCGATAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGATAATT
* * *
61663034 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCGAT
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGAT
61663087 CAGTGGGCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 27 0.57
58 20 0.43
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGATAATT
Found at i:61664676 original size:85 final size:85
Alignment explanation
Indices: 61664533--61664711 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
61664523 GGCCGGCCAT
61664533 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
61664598 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
61664618 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
61664683 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
61664703 GGGCATGGG
1 GAGCATGGG
61664712 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:61666948 original size:47 final size:47
Alignment explanation
Indices: 61666897--61667430 Score: 726
Period size: 47 Copynumber: 11.1 Consensus size: 47
61666887 TTAGGATTTT
*
61666897 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
61666944 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
61666995 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
61667042 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
61667089 ATGTGATGAATGTGAACCCGTATATATACGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
61667140 ATGTGATGAATGTGAACATGTGTCTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
61667187 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
61667240 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
61667287 ATGTGATGAATGTGAACATGCGCATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
61667334 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
61667381 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
61667428 ATG
1 ATG
61667431 CGAAACGTGT
Statistics
Matches: 439, Mismatches: 34, Indels: 28
0.88 0.07 0.06
Matches are distributed among these distances:
47 306 0.70
48 1 0.00
49 4 0.01
51 85 0.19
52 1 0.00
53 42 0.10
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:61667046 original size:145 final size:144
Alignment explanation
Indices: 61666897--61667430 Score: 783
Period size: 145 Copynumber: 3.7 Consensus size: 144
61666887 TTAGGATTTT
* *
61666897 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
61666962 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 CG-ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
*
61667027 AAGGCCAAATGGCCA
130 AAGGCCGAATGGCCA
*
61667042 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* * *
61667107 CGTATATATACGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTCTGTGTGAT
66 CG-ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
61667172 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
** *
61667187 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
*** *
61667252 TGAA--C-ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGCATGT
60 TGAACCCGATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
61667314 GTGATAAGGCCGAATGGCCA
125 GTGATAAGGCCGAATGGCCA
* * *
61667334 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
61667399 TGA-ATATATGTG-G-TAAGGCCGAATGGCTAATG
66 CGATATATATGTGTGATAAGGCCGAATGGCCAATG
61667431 CGAAACGTGT
Statistics
Matches: 354, Mismatches: 26, Indels: 22
0.88 0.06 0.05
Matches are distributed among these distances:
141 59 0.17
142 1 0.00
143 6 0.02
144 1 0.00
145 156 0.44
146 2 0.01
147 86 0.24
149 1 0.00
151 42 0.12
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (144 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
AGGCCGAATGGCCA
Found at i:61667193 original size:22 final size:22
Alignment explanation
Indices: 61667119--61667193 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
61667109 TATATATACG
61667119 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * * **
61667141 TGTGATGAATG-TGAACATGTGTCTG
1 TGTGAT-AAGGCCG-A-ATG-GCCAA
61667166 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
61667188 TGTGAT
1 TGTGAT
61667194 GAATGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.39
23 7 0.18
24 7 0.18
25 9 0.24
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:61667293 original size:22 final size:22
Alignment explanation
Indices: 61667266--61667340 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
61667256 CATGCGTATG
61667266 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
61667288 TGTGATGAATG-TGAACAT-GCGCATG
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
61667313 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
61667335 TGTGAT
1 TGTGAT
61667341 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 13 0.32
23 10 0.25
24 10 0.25
25 7 0.17
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:61667493 original size:46 final size:46
Alignment explanation
Indices: 61667404--61667494 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
61667394 GAACATGAAT
* * * *
61667404 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
61667450 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
61667495 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:61667784 original size:37 final size:37
Alignment explanation
Indices: 61667639--61667783 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
61667629 GGAAATATAT
61667639 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
61667676 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
61667713 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
61667750 TCCGGGTAAGACCTGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
61667784 TCGTCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:61669656 original size:27 final size:27
Alignment explanation
Indices: 61669612--61669701 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
61669602 GTTACAATTA
* *
61669612 TTTTTCCCTTATGTGGTAAAATGACTG
1 TTTTGCCCTTATATGGTAAAATGACTG
* * *
61669639 TTGTGCCCTTATACGGTAAAATGACTA
1 TTTTGCCCTTATATGGTAAAATGACTG
* *
61669666 TTTTGCCCTTGTATGGTAATATGACTG
1 TTTTGCCCTTATATGGTAAAATGACTG
61669693 TTTTGCCCT
1 TTTTGCCCT
61669702 ATGTGATGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (27 bp):
TTTTGCCCTTATATGGTAAAATGACTG
Found at i:61670044 original size:18 final size:18
Alignment explanation
Indices: 61670021--61670083 Score: 81
Period size: 18 Copynumber: 3.5 Consensus size: 18
61670011 GACTTGTATT
*
61670021 CTGTTACTGCATTGATTA
1 CTGTTACTGCACTGATTA
61670039 CTGTTACTGCACTGATTA
1 CTGTTACTGCACTGATTA
* * *
61670057 CTGCTGCTGCACTGTTTA
1 CTGTTACTGCACTGATTA
*
61670075 TTGTTACTG
1 CTGTTACTG
61670084 TATTGGGCCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (18 bp):
CTGTTACTGCACTGATTA
Found at i:61674393 original size:40 final size:40
Alignment explanation
Indices: 61674362--61674492 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
61674352 GGACTAAGAT
61674362 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
61674402 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
61674442 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
61674482 CCGAAGGCATT
1 CCGAAGGCATT
61674493 GTATGAGTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 81 0.99
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:61674513 original size:39 final size:38
Alignment explanation
Indices: 61674310--61674529 Score: 167
Period size: 40 Copynumber: 5.6 Consensus size: 38
61674300 TGAATGCTGT
* * * *
61674310 CCGGGCTAAGTCCCGAAGGC-TCTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCAT-TGTGC-GAGTTACTA-AA
** * *
61674350 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
61674390 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
*
61674430 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA
**
61674469 TCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* *
61674509 CCGGGCTATGTCCCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
61674530 CTTGAACGAG
Statistics
Matches: 151, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
39 33 0.22
40 110 0.73
41 7 0.05
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:61677975 original size:46 final size:46
Alignment explanation
Indices: 61677917--61678134 Score: 175
Period size: 46 Copynumber: 4.6 Consensus size: 46
61677907 GGGTTATTGT
*
61677917 GAGCTAGTGTAAGACCTGTCTGGGACATGCATCGGCCATATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA
* *
61677963 GAGCCAGTGTAAGAACATGTCTGGGACATGGCATCGG-CAT-TGA-GA
1 GAGCTAGTGTAAG-ACATGTCTGGGACAT-GCATCGGCCATATTATGA
* **
61678008 CGAGGGCTAGTGTAAGACATGTTTGGGACATGCATCGGCC-TCGAGACAT-A
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--A-TTATGA
*
61678058 -AG-TCAGTGTAAGACATGTCTGGGA-ATGCTATCGGCACAGA-TATGCTA
1 GAGCT-AGTGTAAGACATGTCTGGGACATGC-ATCGGC-CATATTATG--A
*
61678105 GAGCTTGTGTAAGACCATGTCTGGGACATG
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG
61678135 GCATTGACAC
Statistics
Matches: 139, Mismatches: 11, Indels: 40
0.73 0.06 0.21
Matches are distributed among these distances:
44 2 0.01
45 7 0.05
46 51 0.37
47 34 0.24
48 28 0.20
49 12 0.09
50 5 0.04
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA
Done.