Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 256 of 328
Found at i:76202187 original size:46 final size:46
Alignment explanation
Indices: 76201994--76202187 Score: 134
Period size: 46 Copynumber: 4.2 Consensus size: 46
76201984 GTAACCCGCC
* * ***
76201994 CCTAAGTGAACTCGGACTCAACTCAATGAGCTCGG--GCGTTTGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TCAACAT
* *
76202039 CCATAAGTGAACTTGAACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * *** *
76202089 -CTCAA--GAACTCAGACTCAACTCAACGAGTTCGAACATTC-GCAT
1 CCT-AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
76202132 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT
76202180 CCT-AGTGA
1 CCTAAGTGA
76202188 CATGTCACTT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
43 3 0.03
44 3 0.03
45 3 0.03
46 63 0.56
47 26 0.23
48 9 0.08
49 3 0.03
50 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
Found at i:76202724 original size:19 final size:19
Alignment explanation
Indices: 76202700--76202739 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
76202690 CATGTTGATC
76202700 ACTTTTCCCTTCTATGGCA
1 ACTTTTCCCTTCTATGGCA
76202719 ACTTTTCCCTTCTATGGCA
1 ACTTTTCCCTTCTATGGCA
76202738 AC
1 AC
76202740 ATCAAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.33, G:0.10, T:0.40
Consensus pattern (19 bp):
ACTTTTCCCTTCTATGGCA
Found at i:76203853 original size:35 final size:35
Alignment explanation
Indices: 76203805--76203884 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 35
76203795 AACTGTTCAA
*
76203805 CACACCAGATGCTCATAAGATCCAGTACCATCCAG
1 CACACCAGATGCTCATAAGAGCCAGTACCATCCAG
* *
76203840 CACACCAGTTGCTCATAAGAGCCAGTACCATCGAG
1 CACACCAGATGCTCATAAGAGCCAGTACCATCCAG
*
76203875 CACACTAGAT
1 CACACCAGAT
76203885 AACACTGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.34, C:0.33, G:0.16, T:0.17
Consensus pattern (35 bp):
CACACCAGATGCTCATAAGAGCCAGTACCATCCAG
Found at i:76209601 original size:21 final size:23
Alignment explanation
Indices: 76209561--76209602 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
76209551 TAGAAAAATT
*
76209561 TTGGTTTCTTATTGAATAAACCC
1 TTGGTTTCTTACTGAATAAACCC
76209584 TTGGTTTC-TACT-AATAAAC
1 TTGGTTTCTTACTGAATAAAC
76209603 TCTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (23 bp):
TTGGTTTCTTACTGAATAAACCC
Found at i:76211613 original size:37 final size:37
Alignment explanation
Indices: 76211533--76211620 Score: 92
Period size: 37 Copynumber: 2.5 Consensus size: 37
76211523 GATACTGTAT
* **
76211533 TGAAATGGGCTAA-G--GCCCACACTGATACTGTTAC
1 TGAAATGGGCTAAGGCCGCCCACACTAATACTGCAAC
* * *
76211567 TGTATTGGGCTAAGGCCGCCCACACTAATATTGCAAC
1 TGAAATGGGCTAAGGCCGCCCACACTAATACTGCAAC
*
76211604 TGAAATGGGCTTAGGCC
1 TGAAATGGGCTAAGGCC
76211621 CAGACTGTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
34 11 0.26
35 1 0.02
37 30 0.71
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (37 bp):
TGAAATGGGCTAAGGCCGCCCACACTAATACTGCAAC
Found at i:76218289 original size:39 final size:39
Alignment explanation
Indices: 76218235--76218426 Score: 303
Period size: 39 Copynumber: 4.9 Consensus size: 39
76218225 GAATGTTCGA
76218235 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
76218274 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
76218313 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
76218352 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* * **
76218391 GTGATACCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
76218427 GGTTACCATA
Statistics
Matches: 143, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 127 0.89
40 16 0.11
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:76218442 original size:78 final size:78
Alignment explanation
Indices: 76218235--76218456 Score: 266
Period size: 78 Copynumber: 2.8 Consensus size: 78
76218225 GAATGTTCGA
* * *** *
76218235 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
1 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCATATACGGGCTAAGCCCGAAGGC
76218300 AATTGTGCAAATT
66 AATTGTGCAAATT
* ** *
76218313 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCATATACGGGCTAAGCCCGAAGGC
* *
76218378 AATTGTGCGAGTT
66 AATTGTGCAAATT
* ** * *
76218391 GTGATACCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTACCATA-ACGGGCTATGTCCCGAAG
1 GTGATACCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACCATATACGGGCTAAG-CCCGAAG
76218455 GC
64 GC
76218457 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
78 97 0.75
79 32 0.25
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCATATACGGGCTAAGCCCGAAGGC
AATTGTGCAAATT
Found at i:76218442 original size:117 final size:118
Alignment explanation
Indices: 76218236--76218456 Score: 302
Period size: 117 Copynumber: 1.9 Consensus size: 118
76218226 AATGTTCGAG
*
76218236 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATACCCGGGCTAAGCCCGAAGGCA
*** *
76218301 ATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
66 ATTGTGCAAATTACCATATACGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* *
76218353 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATACCCGGGCTAAG-CCCGAAGGC
** *** *
76218418 CTTTGTGCGGGTTACCATA-ACGGGCTATGTCCCGAAGGC
65 AATTGTGCAAATTACCATATACGGGCTAAGTCCCGAAGGC
76218457 GTTTGAACGA
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
117 60 0.67
118 29 0.33
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (118 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATACCCGGGCTAAGCCCGAAGGCA
ATTGTGCAAATTACCATATACGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:76222372 original size:33 final size:32
Alignment explanation
Indices: 76222329--76222449 Score: 120
Period size: 33 Copynumber: 3.7 Consensus size: 32
76222319 TTGCATTTCT
76222329 GATACTGTACTGAAATGGGCTAACACCATCACTA
1 GATACTGTACTGAAATGGGCTAAC-CCATCAC-A
*
76222363 -ATACTGTACTAAAATGGGCTAACCCATCACA
1 GATACTGTACTGAAATGGGCTAACCCATCACA
* * *
76222394 GATACTGTTACTGTATTGGGCTAAGGCCCA-CACT
1 GATACTG-TACTGAAATGGGCTAA--CCCATCACA
* *
76222428 GATATTGCAACTGAAATGGGCT
1 GATACTG-TACTGAAATGGGCT
76222450 GAGGCCCAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
31 1 0.01
32 13 0.18
33 35 0.48
34 20 0.27
35 4 0.05
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (32 bp):
GATACTGTACTGAAATGGGCTAACCCATCACA
Found at i:76230300 original size:44 final size:44
Alignment explanation
Indices: 76230198--76230304 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 44
76230188 TGTCATGGAG
* * ** * *
76230198 TCTTTAATCCATGGTCTTACTCATTATACTTGGTTACCATAGTA
1 TCTTTCATCCATGGTCTTACACATTATACCAGGTCACCATAGCA
** * * * *
76230242 TCACTCGTCTATGGTCTTACACCTTATACCAGGTCACCATGGCA
1 TCTTTCATCCATGGTCTTACACATTATACCAGGTCACCATAGCA
76230286 TCTTTCATCCATGGTCTTA
1 TCTTTCATCCATGGTCTTA
76230305 AGCCATATAC
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.38
Consensus pattern (44 bp):
TCTTTCATCCATGGTCTTACACATTATACCAGGTCACCATAGCA
Found at i:76230579 original size:14 final size:14
Alignment explanation
Indices: 76230560--76230588 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
76230550 CTATAAGGGG
76230560 TTTTTCCCTAGATA
1 TTTTTCCCTAGATA
76230574 TTTTTCCCTAGATA
1 TTTTTCCCTAGATA
76230588 T
1 T
76230589 CATGCAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTTTCCCTAGATA
Found at i:76239818 original size:53 final size:54
Alignment explanation
Indices: 76239750--76239957 Score: 195
Period size: 54 Copynumber: 3.9 Consensus size: 54
76239740 TTCCTTTTTA
* *
76239750 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
* * * * ** * *
76239803 AACTCACCATTGCCATGCCTTTG-CATGGTGTTAAATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCC-TTGACATGGTCTTACATGATATCCTTGCCTTATAG
** * * * * *
76239857 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
* * * *
76239912 AACTTACCAATGCCATGCCTTGGCATGGTTTTACTTGGTATCCTTG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTG
76239958 AACCCTAATG
Statistics
Matches: 120, Mismatches: 31, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
53 41 0.34
54 44 0.37
55 35 0.29
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
Found at i:76246013 original size:79 final size:79
Alignment explanation
Indices: 76245879--76246087 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 79
76245869 CCTTCTGAAT
* * * *
76245879 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 TTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACAC
76245943 AAATGCCTTCGGGA-C
65 AAATGCCTTC-GGATC
* *
76245958 TTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCACA
1 TTAA-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACA
76246021 CAAATGCCTTCGGATC
64 CAAATGCCTTCGGATC
* * * *
76246037 TTAGTCCGAATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
76246088 TATCATTCGA
Statistics
Matches: 110, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.03
79 51 0.46
80 45 0.41
81 11 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACA
AATGCCTTCGGATC
Found at i:76246016 original size:39 final size:41
Alignment explanation
Indices: 76245883--76246087 Score: 228
Period size: 40 Copynumber: 5.1 Consensus size: 41
76245873 CTGAATTTAA
* *
76245883 CCGG-ATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGAATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
76245923 CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
76245963 CCGG-ATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
76246002 CCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAGT
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
76246042 CC-GAATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGAATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
76246083 CCGGA
1 CCGGA
76246088 TATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 35 0.25
40 79 0.56
41 20 0.14
42 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:76249234 original size:19 final size:19
Alignment explanation
Indices: 76249206--76249264 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
76249196 GTTTATTTGT
*
76249206 AAAAACAAAAAAAATAATA
1 AAAAATAAAAAAAATAATA
* * *
76249225 AAAAATAAAAATAATATTT
1 AAAAATAAAAAAAATAATA
* *
76249244 AAAAGTAAAAATAAAAAATA
1 AAAAATAAAAA-AAATAATA
76249264 A
1 A
76249265 CTAACTAAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
19 25 0.83
20 5 0.17
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAAATAAAAAAAATAATA
Found at i:76256430 original size:31 final size:31
Alignment explanation
Indices: 76256370--76256430 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
76256360 TGTATGTTAT
* *
76256370 ATTATAAAACATTGAATGAATAAATAAATAC
1 ATTATAAAACATTAAATGAATAAACAAATAC
76256401 ATTATAAAACA-TAAAT-AATTAAAACAAATA
1 ATTATAAAACATTAAATGAA-T-AAACAAATA
76256431 AAACTTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 2 0.08
30 5 0.19
31 19 0.73
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (31 bp):
ATTATAAAACATTAAATGAATAAACAAATAC
Found at i:76256431 original size:17 final size:18
Alignment explanation
Indices: 76256391--76256432 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
76256381 TTGAATGAAT
76256391 AAATAAATACATTATAAA
1 AAATAAATACATTATAAA
*
76256409 ACATAAATA-ATTA-AAA
1 AAATAAATACATTATAAA
76256425 CAAATAAA
1 -AAATAAA
76256433 ACTTTGTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 10 0.48
18 8 0.38
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAATACATTATAAA
Found at i:76258757 original size:41 final size:42
Alignment explanation
Indices: 76258676--76258832 Score: 154
Period size: 41 Copynumber: 3.7 Consensus size: 42
76258666 AGGGTTACTA
*
76258676 AGACTACGTGTAAGACCATATCTAGGATATGCCATCAATATG
1 AGACTACGTGTAAGACCATATCTAGGATATGACATCAATATG
* * *
76258718 AGACTACGTGCAAGACCAT-TTTGGGATATGACATCAATATG
1 AGACTACGTGTAAGACCATATCTAGGATATGACATCAATATG
* * * * * * * * *
76258759 AGACTTCGTGTAAGACTACAGCTTGGCTATTGGCATCGATACG
1 AGACTACGTGTAAGACCATATCTAGGATA-TGACATCAATATG
* * *
76258802 AGATTACATGTAAGACCATATCTGGGATATG
1 AGACTACGTGTAAGACCATATCTAGGATATG
76258833 GCATTGGTAC
Statistics
Matches: 90, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
41 34 0.38
42 25 0.28
43 31 0.34
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTAGGATATGACATCAATATG
Found at i:76262769 original size:50 final size:50
Alignment explanation
Indices: 76262660--76262770 Score: 152
Period size: 50 Copynumber: 2.2 Consensus size: 50
76262650 TGATGCTGGG
* * *
76262660 GAGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GAGAGATGAGAGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCTC
* *
76262710 GAGATATGAGAGCTAGTGTAAAACCATGTCTAGGACATGGCATTGGCAC-C
1 GAGAGATGAGAGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGC-CTC
*
76262760 GATAGATGAGA
1 GAGAGATGAGA
76262771 AACAATGTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 53 0.98
51 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.21
Consensus pattern (50 bp):
GAGAGATGAGAGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCTC
Found at i:76265716 original size:40 final size:40
Alignment explanation
Indices: 76265640--76265901 Score: 384
Period size: 40 Copynumber: 6.6 Consensus size: 40
76265630 AACCCATGTA
* * * *
76265640 CCTTCGGGAATTAG-CCGGGTATAG-CAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* **
76265679 CCTTCGGGTCTTAGCCCACATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
76265719 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
76265759 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
76265799 CCTTCGGGACTTAGACCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
76265839 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
76265879 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
76265902 CATCCGAATA
Statistics
Matches: 207, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 12 0.06
40 194 0.94
41 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:76276435 original size:40 final size:39
Alignment explanation
Indices: 76276270--76276453 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
76276260 AAATTGAATG
* * *
76276270 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
76276310 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
76276350 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
76276390 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
76276429 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
76276454 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:76276478 original size:80 final size:81
Alignment explanation
Indices: 76276310--76276498 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
76276300 GCTGGAAATT
* * * *
76276310 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
76276375 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
76276391 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
76276454 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
76276470 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
76276499 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:76281406 original size:39 final size:39
Alignment explanation
Indices: 76281290--76281413 Score: 160
Period size: 39 Copynumber: 3.2 Consensus size: 39
76281280 GGACTTTAGC
* * * *
76281290 CCGGACATATTTCCAGCACGTAGCCTACGGACCTTAAAT
1 CCGGATATAATTCCAGCACATAGCCTACGGACCTTAAGT
* *
76281329 CCGGTTATAATTCTAGCACATAGCCTACGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTACGGACCTTAAGT
**
76281368 CCGGATATAATTCCAGCACATAGCCTGTGGA-CTATAAGT
1 CCGGATATAATTCCAGCACATAGCCTACGGACCT-TAAGT
76281407 CCGGATA
1 CCGGATA
76281414 AACATCACTG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 2 0.03
39 72 0.97
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTACGGACCTTAAGT
Found at i:76297553 original size:46 final size:46
Alignment explanation
Indices: 76297503--76297817 Score: 306
Period size: 46 Copynumber: 6.8 Consensus size: 46
76297493 TGGTTGAGCA
76297503 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
76297549 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
76297594 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
76297642 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
76297688 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
76297733 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
76297781 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76297818 GCGGGTTACA
Statistics
Matches: 218, Mismatches: 31, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
45 7 0.03
46 127 0.58
47 58 0.27
48 4 0.02
50 6 0.03
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:76297623 original size:47 final size:47
Alignment explanation
Indices: 76297549--76297763 Score: 185
Period size: 47 Copynumber: 4.6 Consensus size: 47
76297539 GATGCGAATG
*
76297549 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAGGCA
**** * * * *
76297596 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-ACCTATGGATGCGAACGC-
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTA-AC-TAGGCA
* * * * * *
76297643 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGAAATGTAACTAG-GCA
76297686 TGTCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAGGCA
1 --TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAGGCA
76297735 TCCGAACTCGTTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTC
76297764 ACCTATGGAT
Statistics
Matches: 131, Mismatches: 23, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.01
45 2 0.02
46 58 0.44
47 62 0.47
48 4 0.03
49 3 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAGGCA
Found at i:76297623 original size:93 final size:93
Alignment explanation
Indices: 76297500--76297670 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
76297490 GGATGGTTGA
* *
76297500 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-TCCGAACTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCT-CGAACTCGTTGAG
76297564 TTGAGTCCGAGTTCGTGAAATGTAACTAG
65 TTGAGTCCGAGTTCGTGAAATGTAACTAG
* *
76297593 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACGCTCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCTCGAACTCGTTGAGT
76297658 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
76297671 ACTTATGGAT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:76297759 original size:139 final size:139
Alignment explanation
Indices: 76297504--76297817 Score: 601
Period size: 139 Copynumber: 2.3 Consensus size: 139
76297494 GGTTGAGCAT
*
76297504 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
76297569 TCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGA
66 TCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGA
76297634 TGCGAACGC
131 TGCGAACGC
*
76297643 TCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
*
76297708 TCTGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGA
66 TCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGA
76297773 TGCGAACGC
131 TGCGAACGC
76297782 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76297818 GCGGGTTACA
Statistics
Matches: 171, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 171 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (139 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
TCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGA
TGCGAACGC
Found at i:76303291 original size:92 final size:93
Alignment explanation
Indices: 76303122--76303291 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
76303112 GGATGGTTGA
* *
76303122 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
76303187 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
76303215 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
76303279 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
76303292 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 40 0.54
93 34 0.46
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:76311120 original size:72 final size:72
Alignment explanation
Indices: 76311034--76311178 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
76311024 ATACTGGCAG
76311034 TATGTATGACCAATTAACAAAAGATTTGCATGTAACATTATTAATTAACTATTTGGACGACTTAT
1 TATGTATGACCAATTAACAAAAGATTTGCATGTAACATTATTAATTAACTATTTGGACGACTTAT
76311099 AAATTAT
66 AAATTAT
76311106 TATGTATGACCAATTAACAAAAGATTTGCATGTAACATTATTAATTAACTATTTGGACGACTTAT
1 TATGTATGACCAATTAACAAAAGATTTGCATGTAACATTATTAATTAACTATTTGGACGACTTAT
*
76311171 AACTTAT
66 AAATTAT
76311178 T
1 T
76311179 CGGTTTAACA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (72 bp):
TATGTATGACCAATTAACAAAAGATTTGCATGTAACATTATTAATTAACTATTTGGACGACTTAT
AAATTAT
Found at i:76311222 original size:22 final size:22
Alignment explanation
Indices: 76311196--76311238 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
76311186 ACAAAAGATG
*
76311196 ATAATTTTGCTTACATCTAGTA
1 ATAATTTTGCTTAAATCTAGTA
76311218 ATAATTTTGCTTAAATCTAGT
1 ATAATTTTGCTTAAATCTAGT
76311239 TTCCCAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47
Consensus pattern (22 bp):
ATAATTTTGCTTAAATCTAGTA
Found at i:76311432 original size:5 final size:5
Alignment explanation
Indices: 76311422--76311479 Score: 116
Period size: 5 Copynumber: 11.6 Consensus size: 5
76311412 ATTGTTTATA
76311422 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
76311472 ATATT ATA
1 ATATT ATA
76311480 ATTTTGATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:76312560 original size:142 final size:142
Alignment explanation
Indices: 76312304--76312578 Score: 514
Period size: 142 Copynumber: 1.9 Consensus size: 142
76312294 AATGTAATCC
* *
76312304 ATGTTTTTGCTAGTTAATCATAAGACCCAAAGGCGACATGATTGATGGTGTGAGAATGATCGTAG
1 ATGTTTTTGCTAGTTAATCATAAGACCCAAAGGCAACATGATTGATGGTGTGAAAATGATCGTAG
*
76312369 CAATGGAAAAATGTTTTTCAAGGTTTTAATATAAGATGCATGCATCATACTGCATTCTTGATATG
66 CAATGGAAAAATGTTTTTCAAGGTTTTAATATAAGACGCATGCATCATACTGCATTCTTGATATG
76312434 TTGCTAGTTAAT
131 TTGCTAGTTAAT
*
76312446 ATGTTTTTTCTAGTTAATCATAAGACCCAAAGGCAACATGATTGATGGTGTGAAAATGATCGTAG
1 ATGTTTTTGCTAGTTAATCATAAGACCCAAAGGCAACATGATTGATGGTGTGAAAATGATCGTAG
76312511 CAATGGAAAAATGTTTTTCAAGGTTTTAATATAAGACGCATGCATCATACTGCATTCTTGATATG
66 CAATGGAAAAATGTTTTTCAAGGTTTTAATATAAGACGCATGCATCATACTGCATTCTTGATATG
76312576 TTG
131 TTG
76312579 TTAAAATGAA
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 129 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (142 bp):
ATGTTTTTGCTAGTTAATCATAAGACCCAAAGGCAACATGATTGATGGTGTGAAAATGATCGTAG
CAATGGAAAAATGTTTTTCAAGGTTTTAATATAAGACGCATGCATCATACTGCATTCTTGATATG
TTGCTAGTTAAT
Found at i:76313267 original size:18 final size:18
Alignment explanation
Indices: 76313244--76313278 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76313234 CCCTCGTCCT
* *
76313244 CTAAGGGGAAGCAGAAAG
1 CTAAGGGAAAGAAGAAAG
76313262 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
76313279 CTGATTACGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.09, G:0.34, T:0.06
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:76314052 original size:20 final size:21
Alignment explanation
Indices: 76314016--76314054 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
76314006 TGAACTTTAT
*
76314016 TTAATATTTTTATAAATTTGG
1 TTAATATTTTTACAAATTTGG
76314037 TTAATA-TTTTACAAATTT
1 TTAATATTTTTACAAATTT
76314055 ATAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (21 bp):
TTAATATTTTTACAAATTTGG
Found at i:76315327 original size:7 final size:7
Alignment explanation
Indices: 76315315--76315353 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
76315305 TCTGCTACCC
76315315 AAAAAAG
1 AAAAAAG
76315322 AAAAAAG
1 AAAAAAG
76315329 AAAAAAG
1 AAAAAAG
76315336 AAAAAA-
1 AAAAAAG
76315342 AAAACAAG
1 AAAA-AAG
76315350 AAAA
1 AAAA
76315354 GAAGGATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 4 0.13
7 22 0.73
8 4 0.13
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:76315578 original size:16 final size:16
Alignment explanation
Indices: 76315557--76315589 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
76315547 TGACCAGAGA
76315557 GCATCACTATGAGAAG
1 GCATCACTATGAGAAG
76315573 GCATCACTATGAGAAG
1 GCATCACTATGAGAAG
76315589 G
1 G
76315590 TTTGATCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (16 bp):
GCATCACTATGAGAAG
Found at i:76319236 original size:42 final size:42
Alignment explanation
Indices: 76319189--76319275 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
76319179 AAATAAGATA
76319189 GACTGACAGATGTTCTAATAAAAGGTAATGTAGTCAGAAAGT
1 GACTGACAGATGTTCTAATAAAAGGTAATGTAGTCAGAAAGT
76319231 GACTGACAGATGTTCTAATAAAAGGTAATGTAGTCAGAAAGT
1 GACTGACAGATGTTCTAATAAAAGGTAATGTAGTCAGAAAGT
76319273 GAC
1 GAC
76319276 CTCCCGATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.25
Consensus pattern (42 bp):
GACTGACAGATGTTCTAATAAAAGGTAATGTAGTCAGAAAGT
Found at i:76323073 original size:27 final size:27
Alignment explanation
Indices: 76323035--76323086 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
76323025 TCTTTTTTAG
76323035 ATAAATATAAATAAGAAAGAAAAAGGTA
1 ATAAATATAAAT-AGAAAGAAAAAGGTA
*
76323063 ATAAA-ATAAATAGAAAGCAAAAGG
1 ATAAATATAAATAGAAAGAAAAAGG
76323087 CATGTAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.52
27 6 0.26
28 5 0.22
ACGTcount: A:0.67, C:0.02, G:0.15, T:0.15
Consensus pattern (27 bp):
ATAAATATAAATAGAAAGAAAAAGGTA
Found at i:76324841 original size:14 final size:15
Alignment explanation
Indices: 76324817--76324850 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
76324807 GTAGAAGAGG
76324817 AGAAAACAAAGAAGA
1 AGAAAACAAAGAAGA
76324832 AGAAAA-AAAGAAGA
1 AGAAAACAAAGAAGA
76324846 AGAAA
1 AGAAA
76324851 GATTTGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAACAAAGAAGA
Found at i:76325124 original size:27 final size:27
Alignment explanation
Indices: 76325093--76325146 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
76325083 GAAATGTGTT
76325093 AGTTGATGATATGAAAGAAAGGATTAG
1 AGTTGATGATATGAAAGAAAGGATTAG
*
76325120 AGTTGATGTTATGAAAGAAAGGATTAG
1 AGTTGATGATATGAAAGAAAGGATTAG
76325147 TGCAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.28
Consensus pattern (27 bp):
AGTTGATGATATGAAAGAAAGGATTAG
Found at i:76327524 original size:46 final size:46
Alignment explanation
Indices: 76327474--76327643 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
76327464 TTGAGCATCT
76327474 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
76327520 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
76327567 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * * *
76327613 GAGCTCATTAATTTGAGTCTGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
76327644 GGGGCAGGTT
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 54 0.54
47 29 0.29
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:76327629 original size:93 final size:93
Alignment explanation
Indices: 76327468--76327638 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
76327458 GGATGGTTGA
* * * * *
76327468 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCATTAAGT
76327533 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
76327561 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAGCTCATTAATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCATTAAGT
*
76327626 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
76327639 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCATTAAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:76332647 original size:2 final size:2
Alignment explanation
Indices: 76332640--76332665 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
76332630 TTTTGGTATG
76332640 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
76332666 AGCCTTGCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:76333337 original size:13 final size:13
Alignment explanation
Indices: 76333319--76333343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76333309 GAATGACCAA
76333319 ATGTTTGGCTATG
1 ATGTTTGGCTATG
76333332 ATGTTTGGCTAT
1 ATGTTTGGCTAT
76333344 CTATGTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
ATGTTTGGCTATG
Found at i:76337547 original size:27 final size:27
Alignment explanation
Indices: 76337499--76337657 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
76337489 GTAAGGCTAC
* * *
76337499 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
76337526 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
76337552 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
76337579 TAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
76337606 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
76337633 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
76337658 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 10 0.09
27 99 0.88
28 4 0.04
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:76337658 original size:54 final size:54
Alignment explanation
Indices: 76337499--76337660 Score: 238
Period size: 54 Copynumber: 3.0 Consensus size: 54
76337489 GTAAGGCTAC
* * * * *
76337499 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
* *
76337552 CAGATATATGTGGTAGAGCCACCAGATTAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
76337606 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
76337660 C
1 C
76337661 GCTTCCTCCA
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 11 0.11
54 87 0.89
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:76337797 original size:26 final size:27
Alignment explanation
Indices: 76337759--76337835 Score: 95
Period size: 26 Copynumber: 2.9 Consensus size: 27
76337749 GTCAAAATTA
76337759 ACCCTAGGGGTATAACAGTAATTTTGC
1 ACCCTAGGGGTATAACAGTAATTTTGC
76337786 ACCC-AGGGGTATAACAGTAATTTT-C
1 ACCCTAGGGGTATAACAGTAATTTTGC
* * * *
76337811 ATACATAGGGGTATTATAGTAATTT
1 A-CCCTAGGGGTATAACAGTAATTT
76337836 AGCTGATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.05
26 21 0.48
27 21 0.48
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (27 bp):
ACCCTAGGGGTATAACAGTAATTTTGC
Found at i:76339302 original size:26 final size:26
Alignment explanation
Indices: 76339271--76339404 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
76339261 TGAAATGCCC
*
76339271 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
76339297 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
76339323 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
76339349 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76339375 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76339401 ATCA
1 ATCA
76339405 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:76339830 original size:21 final size:21
Alignment explanation
Indices: 76339804--76339845 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
76339794 TTTCCGCAAG
*
76339804 GTTGCGGAAGGGTGATTGCAC
1 GTTGCGGAAGGGTGACTGCAC
76339825 GTTGCGGAAGGGTGACTGCAC
1 GTTGCGGAAGGGTGACTGCAC
76339846 CAAACTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.17, G:0.43, T:0.21
Consensus pattern (21 bp):
GTTGCGGAAGGGTGACTGCAC
Found at i:76341277 original size:22 final size:22
Alignment explanation
Indices: 76341249--76341294 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
76341239 AACATCACGT
76341249 TTTTGCAACATTCTTGAAATGC
1 TTTTGCAACATTCTTGAAATGC
*
76341271 TTTTGCAACATTGTTGAAATGC
1 TTTTGCAACATTCTTGAAATGC
76341293 TT
1 TT
76341295 CCGCAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (22 bp):
TTTTGCAACATTCTTGAAATGC
Found at i:76341300 original size:22 final size:22
Alignment explanation
Indices: 76341253--76341302 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
76341243 TCACGTTTTT
**
76341253 GCAACATTCTTGAAATGCTTTT
1 GCAACATTCTTGAAATGCTTCC
*
76341275 GCAACATTGTTGAAATGCTTCC
1 GCAACATTCTTGAAATGCTTCC
76341297 GCAACA
1 GCAACA
76341303 AACATGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (22 bp):
GCAACATTCTTGAAATGCTTCC
Found at i:76342345 original size:24 final size:24
Alignment explanation
Indices: 76342318--76342363 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
76342308 TCAAGGAATG
*
76342318 GATTATGGAGAAAATCAAGGAGCA
1 GATTAGGGAGAAAATCAAGGAGCA
* * *
76342342 GATTGGGGAGGAAATCATGGAG
1 GATTAGGGAGAAAATCAAGGAG
76342364 GGATTTTAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.37, T:0.17
Consensus pattern (24 bp):
GATTAGGGAGAAAATCAAGGAGCA
Found at i:76348505 original size:49 final size:49
Alignment explanation
Indices: 76348378--76348704 Score: 518
Period size: 49 Copynumber: 6.8 Consensus size: 49
76348368 CCCTTCGGGA
* * * * * *
76348378 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
76348425 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
76348472 CTTATCACATATATATACACCTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
76348521 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
76348570 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
76348619 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
76348668 CTTATCACATATATACACACTTTCACATTCATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT
76348705 TTTCACATTC
Statistics
Matches: 261, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 45 0.17
49 215 0.82
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:76348708 original size:17 final size:17
Alignment explanation
Indices: 76348683--76348721 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
76348673 CACATATATA
*
76348683 CACACTTTCACATTCAT
1 CACATTTTCACATTCAT
76348700 CACATTTTCACATTCAT
1 CACATTTTCACATTCAT
76348717 CACAT
1 CACAT
76348722 CGGCCATTAG
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:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (17 bp):
CACATTTTCACATTCAT
Found at i:76348713 original size:66 final size:66
Alignment explanation
Indices: 76348639--76348770 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
76348629 ATATATACAC
76348639 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
76348704 T
66 T
76348705 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
76348770 T
66 T
76348771 CGGCCATTAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.33
Consensus pattern (66 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
T
Found at i:76348720 original size:164 final size:164
Alignment explanation
Indices: 76348541--76348846 Score: 612
Period size: 164 Copynumber: 1.9 Consensus size: 164
76348531 ATATATACAC
76348541 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
76348606 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
66 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
76348671 ATCACATATATACACACTTTCACATTCATCACAT
131 ATCACATATATACACACTTTCACATTCATCACAT
76348705 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
76348770 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
66 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
76348835 ATCACATATATA
131 ATCACATATATA
76348847 TATATCTCAT
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 142 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (164 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACATATATACACACTTTCACATTCATCACAT
Found at i:76348724 original size:115 final size:115
Alignment explanation
Indices: 76348585--76348819 Score: 443
Period size: 115 Copynumber: 2.0 Consensus size: 115
76348575 CACATATATA
* *
76348585 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
1 CACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
76348650 TCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
66 TCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
76348700 CACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
1 CACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
*
76348765 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 TCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
76348815 CACAT
1 CACAT
76348820 CGGCCATTAG
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
115 117 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (115 bp):
CACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
Found at i:76348847 original size:49 final size:49
Alignment explanation
Indices: 76348705--76348848 Score: 279
Period size: 49 Copynumber: 2.9 Consensus size: 49
76348695 TTCATCACAT
*
76348705 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
76348754 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
76348803 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
76348849 TATCTCATAC
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 94 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:76367595 original size:16 final size:16
Alignment explanation
Indices: 76367574--76367606 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
76367564 TCGCGTTTTC
76367574 AAATCAATTTAATATA
1 AAATCAATTTAATATA
76367590 AAATCAATTTAATATA
1 AAATCAATTTAATATA
76367606 A
1 A
76367607 CATTGATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATCAATTTAATATA
Found at i:76368489 original size:16 final size:17
Alignment explanation
Indices: 76368470--76368506 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
76368460 AATAAAAGGT
76368470 TAAACATG-TAAAATAA
1 TAAACATGTTAAAATAA
*
76368486 TAAACATGTTAATATAA
1 TAAACATGTTAAAATAA
76368503 TAAA
1 TAAA
76368507 ACATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (17 bp):
TAAACATGTTAAAATAA
Found at i:76370851 original size:13 final size:13
Alignment explanation
Indices: 76370833--76370857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76370823 GAATGACCAA
76370833 ATGTTTGGCTATG
1 ATGTTTGGCTATG
76370846 ATGTTTGGCTAT
1 ATGTTTGGCTAT
76370858 CTATGTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
ATGTTTGGCTATG
Found at i:76380883 original size:27 final size:28
Alignment explanation
Indices: 76380831--76380900 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
76380821 GTGACGGAGT
* *
76380831 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
76380860 CACCAGAACAGATA-TATGTGGCAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
76380887 CACCAGAACAGATA
1 CACCAGAACAGATA
76380901 ATTTATGGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 25 0.64
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:76380918 original size:28 final size:27
Alignment explanation
Indices: 76380831--76380920 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
76380821 GTGACGGAGT
*
76380831 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
76380860 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
76380887 CACCAGAACAGATAATTTATGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
76380915 CACCAG
1 CACCAG
76380921 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 24 0.45
28 22 0.42
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:76381073 original size:28 final size:28
Alignment explanation
Indices: 76381026--76381118 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
76381016 AAATTAACCC
* * *
76381026 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
*
76381054 TAAGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
76381082 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
76381110 TAGGGGTAT
1 TAGGGGTAT
76381119 AATAGTACAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.37
Consensus pattern (28 bp):
TAGGGGTATTATGGTAATTTTGCATACA
Found at i:76388973 original size:40 final size:40
Alignment explanation
Indices: 76388892--76389109 Score: 323
Period size: 40 Copynumber: 5.5 Consensus size: 40
76388882 CAACCAAGTA
** * *
76388892 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGAAATAG-TAACTCGCACAAATG
* ** *
76388931 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
76388971 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
76389011 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
**
76389051 CCTTCGGGACTTAGCCCAAAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
76389091 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
76389110 TTATCATCCG
Statistics
Matches: 163, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 13 0.08
40 150 0.92
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
Found at i:76392328 original size:10 final size:10
Alignment explanation
Indices: 76392313--76392345 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
76392303 GTACCGACAG
76392313 ATAATTCAGA
1 ATAATTCAGA
76392323 ATAATTCAGA
1 ATAATTCAGA
*
76392333 AAAATTCAGA
1 ATAATTCAGA
76392343 ATA
1 ATA
76392346 CTTACAGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (10 bp):
ATAATTCAGA
Found at i:76393396 original size:28 final size:28
Alignment explanation
Indices: 76393309--76393398 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 28
76393299 GTGACGGAGT
*
76393309 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
*
76393338 CACCAGAACAGAT-ATATGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
*
76393365 CACCAGAACAGATAATTTATGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
76393393 CACCAG
1 CACCAG
76393399 GACGTGTAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
27 23 0.43
28 22 0.42
29 8 0.15
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:76401537 original size:79 final size:80
Alignment explanation
Indices: 76401433--76401596 Score: 215
Period size: 79 Copynumber: 2.1 Consensus size: 80
76401423 TTCTTGGAAT
* * * *
76401433 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTAT-AGCAATCGCAC
1 TTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGCAATAGCAC
*
76401496 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGAC
** * * * *
76401511 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
1 TTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGCAATAGCAC
76401576 AAATGCCTTCGGGAC
66 AAATGCCTTCGGGAC
76401591 TTAGCC
1 TTAGCC
76401597 TGGGTATCAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 4 0.05
79 42 0.58
80 27 0.37
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGCAATAGCAC
AAATGCCTTCGGGAC
Found at i:76401545 original size:40 final size:40
Alignment explanation
Indices: 76401433--76401596 Score: 208
Period size: 40 Copynumber: 4.2 Consensus size: 40
76401423 TTCTTGGAAT
* * *
76401433 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * * *
76401472 TTAACCCGGGTATAGCAA-TCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
*
76401511 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
76401551 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
76401591 TTAGCC
1 TTAGCC
76401597 TGGGTATCAT
Statistics
Matches: 109, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 36 0.33
40 72 0.66
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:76413411 original size:40 final size:40
Alignment explanation
Indices: 76413355--76413638 Score: 446
Period size: 40 Copynumber: 7.1 Consensus size: 40
76413345 CGGGATGGAA
* * * *
76413355 CCGGATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
76413395 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
76413435 CCGGATATAGTATCTCGCACAAATGCCTTCGAGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
76413475 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
76413515 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
76413555 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
76413595 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
76413635 CCGG
1 CCGG
76413639 TTATCCTCCA
Statistics
Matches: 229, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 2 0.01
40 227 0.99
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:76428300 original size:43 final size:43
Alignment explanation
Indices: 76428173--76428334 Score: 186
Period size: 43 Copynumber: 3.8 Consensus size: 43
76428163 CGATATGCGT
* * * **
76428173 TTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGATCTGGGA
1 TTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA
* *
76428216 TTTACATGTAAGACCATGTCTGGGACATTAGG-ATCG-TATTTGA
1 TTT-CATGTAAGACCACGTCTGGGACGTT-GGCATCGATATTTGA
**
76428259 TTTCATGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGA
1 TTTCATGTAAGACCACGTCTGGGAC-GTTGGCATCGATATTTGA
*
76428302 TTGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTTCATGTAAGACCACGTCTGGGACGTTGGCAT
76428335 TGTACGAGTT
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 27 0.27
43 45 0.45
44 25 0.25
45 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA
Found at i:76428968 original size:42 final size:43
Alignment explanation
Indices: 76428907--76429024 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
76428897 GATCTGAGGT
**
76428907 TTACATGTAAGACTATGTCTGGGACATTGGCATCG-TATTTGA
1 TTACATGTAAGACCCTGTCTGGGACATTGGCATCGATATTTGA
*** * *
76428949 TTTTGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGA
1 TTACATGTAAGACCCTGTCTGGGACATTGGCATCGATATTTGA
*
76428992 TTACATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 TTACATGTAAGACC-CTGTCTGGGACATTGGCAT
76429025 TGTACGAGTT
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 28 0.46
43 32 0.52
44 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TTACATGTAAGACCCTGTCTGGGACATTGGCATCGATATTTGA
Found at i:76433611 original size:42 final size:43
Alignment explanation
Indices: 76433551--76433638 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 43
76433541 TGTGAAAAAG
* * *
76433551 AAAGACGGCACGATGAGAATGTGTATTCATTATCTTCAGTT-A
1 AAAGACGGCACAAAGAGAATGTGTATTCATTATCGTCAGTTGA
76433593 AAAGACGGCACAAAGAGAATGTGTATTCATTATCGTCAGTTGA
1 AAAGACGGCACAAAGAGAATGTGTATTCATTATCGTCAGTTGA
76433636 AAA
1 AAA
76433639 AATTGACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 38 0.90
43 4 0.10
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (43 bp):
AAAGACGGCACAAAGAGAATGTGTATTCATTATCGTCAGTTGA
Found at i:76443096 original size:2 final size:2
Alignment explanation
Indices: 76443089--76443121 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
76443079 ACCATTGACG
76443089 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
76443122 CAAAGCCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:76446817 original size:43 final size:42
Alignment explanation
Indices: 76446721--76446838 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
76446711 GATCTGAGGT
** *
76446721 TTACATGTAAGACTATGTCTGGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCCTGTCTGGGACAGTGGCATCGTATTTGA
* * *
76446763 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGA
1 TTACATGTAAGACCCTGTCTGGGACAGTGGCATCG-TATTTGA
76446806 TTACATGTAAGACCAC-GTCTGGGAC-GTTGGCAT
1 TTACATGTAAGACC-CTGTCTGGGACAG-TGGCAT
76446839 TGTACAAGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 30 0.47
43 33 0.52
44 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCCTGTCTGGGACAGTGGCATCGTATTTGA
Found at i:76449259 original size:48 final size:47
Alignment explanation
Indices: 76449172--76449294 Score: 124
Period size: 48 Copynumber: 2.6 Consensus size: 47
76449162 TTCACACAAT
* * * * *
76449172 AAGTACCTATACCATAGCCCGAAGCCAAATCAAGGTAACTTATC-TCCA
1 AAGTA-CTATATCATGGCCCGAAGCCAAATCAAGATAACTCA-CACCCA
*
76449220 AAGTACTGATATCATGGCCCGAAGCCAAATC-AGTATAACTCACACCCG
1 AAGTACT-ATATCATGGCCCGAAGCCAAATCAAG-ATAACTCACACCCA
* *
76449268 AAGTGCTATATCATGGCCTGAAGCCAA
1 AAGTACTATATCATGGCCCGAAGCCAA
76449295 TTTAATGTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
47 24 0.38
48 40 0.62
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (47 bp):
AAGTACTATATCATGGCCCGAAGCCAAATCAAGATAACTCACACCCA
Found at i:76452917 original size:53 final size:53
Alignment explanation
Indices: 76452854--76452960 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
76452844 CTTAAGAGGT
* * *
76452854 GGAGCTAATTATATGCTAACCTTTATTGATGATTTTTCCAGAAAAATTTGGGC
1 GGAGCTAATTATATGCCAACATTTATTGATGATTTTTCCAGAAAAATTTAGGC
76452907 GGAGCTAATTATATGCCAACATTTATTGATGATTTTTCCAGAAAAATTTAGGC
1 GGAGCTAATTATATGCCAACATTTATTGATGATTTTTCCAGAAAAATTTAGGC
76452960 G
1 G
76452961 TTCTTCTTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (53 bp):
GGAGCTAATTATATGCCAACATTTATTGATGATTTTTCCAGAAAAATTTAGGC
Found at i:76455770 original size:5 final size:5
Alignment explanation
Indices: 76455760--76455787 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
76455750 CTGTGTGTTC
76455760 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
76455788 TCACAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:76460935 original size:23 final size:22
Alignment explanation
Indices: 76460893--76460974 Score: 75
Period size: 23 Copynumber: 3.7 Consensus size: 22
76460883 ATTTTTTATA
76460893 ATTTTTAAATATTTTATATTTT
1 ATTTTTAAATATTTTATATTTT
*
76460915 ATTTTCTAAATGA-TTTCTA--TT
1 ATTTT-TAAAT-ATTTTATATTTT
76460936 ATTTTT-AATATTTTAATATTTT
1 ATTTTTAAATATTTT-ATATTTT
76460958 CATTTTTATAAT-TTTTA
1 -ATTTTTA-AATATTTTA
76460975 AAAATTATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
18 1 0.02
19 6 0.12
20 3 0.06
21 7 0.14
22 7 0.14
23 17 0.35
24 5 0.10
25 3 0.06
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (22 bp):
ATTTTTAAATATTTTATATTTT
Found at i:76460975 original size:32 final size:31
Alignment explanation
Indices: 76460951--76461019 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 31
76460941 TAATATTTTA
76460951 ATATTTTC-ATTTTTATAATTTTTAAAAATT
1 ATATTTTCAATTTTTATAATTTTTAAAAATT
**
76460981 ATATTTTCAATTTTTTATAATTTTTCTAAATT
1 ATATTTTCAA-TTTTTATAATTTTTAAAAATT
*
76461013 CTATTTT
1 ATATTTT
76461020 TATAGTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 8 0.24
31 1 0.03
32 25 0.74
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (31 bp):
ATATTTTCAATTTTTATAATTTTTAAAAATT
Found at i:76461154 original size:16 final size:16
Alignment explanation
Indices: 76461133--76461163 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
76461123 TTTTAAATGC
76461133 TTTTTTTATTTTTTAT
1 TTTTTTTATTTTTTAT
76461149 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
76461164 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTTATTTTTTAT
Found at i:76461334 original size:30 final size:30
Alignment explanation
Indices: 76461278--76461336 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
76461268 AATTAATTGC
* *
76461278 TTAAATTTAATTGAGGACTCAATTGAGTAG
1 TTAAATTTAATTAAGAACTCAATTGAGTAG
*
76461308 TTAAATTTAATTAAGAATTCAATTGAGTA
1 TTAAATTTAATTAAGAACTCAATTGAGTA
76461337 TTATCCTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (30 bp):
TTAAATTTAATTAAGAACTCAATTGAGTAG
Found at i:76461971 original size:18 final size:17
Alignment explanation
Indices: 76461922--76461971 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
76461912 CAAACATAAT
* *
76461922 ATTATAAAAGGATATCTC
1 ATTAT-AAATGATATATC
76461940 ATTA-AAAT-ATATATC
1 ATTATAAATGATATATC
76461955 ATTATGAAATGATATAT
1 ATTAT-AAATGATATAT
76461972 TTAGATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 10 0.37
16 3 0.11
17 4 0.15
18 10 0.37
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (17 bp):
ATTATAAATGATATATC
Found at i:76462035 original size:56 final size:56
Alignment explanation
Indices: 76461975--76462091 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 56
76461965 GATATATTTA
*
76461975 GATGTTTATATAAACCGCTTTTTTATTAATATTTTCATTATTTTACTTGAAGTGTT
1 GATGTTTATATAAACCGCTTTTTTATTAATATTTTCATTATTTTACTTGAAGTGCT
* *
76462031 GATGTTTATATAAACCGTTTTTTTATTAATATTTTTATTATTTTACTTGAAGTGCT
1 GATGTTTATATAAACCGCTTTTTTATTAATATTTTCATTATTTTACTTGAAGTGCT
76462087 GATGT
1 GATGT
76462092 AATTTAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.26, C:0.08, G:0.12, T:0.54
Consensus pattern (56 bp):
GATGTTTATATAAACCGCTTTTTTATTAATATTTTCATTATTTTACTTGAAGTGCT
Found at i:76462123 original size:22 final size:23
Alignment explanation
Indices: 76462097--76462140 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
76462087 GATGTAATTT
76462097 AAAAATATTTTA-AAGTTTTAAG
1 AAAAATATTTTACAAGTTTTAAG
* *
76462119 AAAAATGTTTTACATGTTTTAA
1 AAAAATATTTTACAAGTTTTAA
76462141 ACCATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (23 bp):
AAAAATATTTTACAAGTTTTAAG
Found at i:76462581 original size:2 final size:2
Alignment explanation
Indices: 76462574--76462608 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
76462564 ATGCCAAAGT
76462574 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
76462609 GTAGGGTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:76465063 original size:18 final size:20
Alignment explanation
Indices: 76465040--76465087 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
76465030 TCTTGTTTAG
76465040 AAATA-TTTTTAT-TTAAAA
1 AAATACTTTTTATCTTAAAA
* *
76465058 AAATATTTTTTATCTTTAAA
1 AAATACTTTTTATCTTAAAA
76465078 AAATACTTTT
1 AAATACTTTT
76465088 GAGAAGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 5 0.19
19 7 0.27
20 14 0.54
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATACTTTTTATCTTAAAA
Found at i:76469692 original size:47 final size:48
Alignment explanation
Indices: 76469571--76469695 Score: 135
Period size: 51 Copynumber: 2.5 Consensus size: 48
76469561 ATTAAATACA
*
76469571 AGATCTTGAACAAATAATATAAACAAATATTTATATTTATGTAAAAACACC
1 AGATC-TGAA-AAATAAT-TAAATAAATATTTATATTTATGTAAAAACACC
* * * *
76469622 AGATCTAAACAAAACAAATTAAATAAATATTTATATTTAT-TTAAAACATC
1 AGATCT-GA-AAAA-TAATTAAATAAATATTTATATTTATGTAAAAACACC
*
76469672 ATATCTGAAAAATAATTAAATAAA
1 AGATCTGAAAAATAATTAAATAAA
76469696 CAAGATCTTG
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
47 11 0.17
48 4 0.06
49 1 0.02
50 14 0.22
51 29 0.46
52 4 0.06
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.32
Consensus pattern (48 bp):
AGATCTGAAAAATAATTAAATAAATATTTATATTTATGTAAAAACACC
Found at i:76472735 original size:43 final size:43
Alignment explanation
Indices: 76472669--76472842 Score: 226
Period size: 43 Copynumber: 4.1 Consensus size: 43
76472659 AAGTCTGAAC
* * **
76472669 TCAT-TCACCAGCATT-TCGCCTGCTAGGCTTGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
* * * *
76472710 TCATTTCACCGACATTATAGCCTGCTAGGCTCGAAGACCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
* *
76472753 TTATCTCACCGGCATTATAGCCTGCTAGGCCCAAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
*
76472796 TTATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATA
76472840 TCA
1 TCA
76472843 CATTTTGATA
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
41 4 0.03
42 9 0.08
43 99 0.85
44 5 0.04
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
Found at i:76474737 original size:14 final size:15
Alignment explanation
Indices: 76474708--76474737 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
76474698 CAAAATTTAG
76474708 ACATGATACTTTCAC
1 ACATGATACTTTCAC
76474723 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
76474737 A
1 A
76474738 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:76484779 original size:12 final size:12
Alignment explanation
Indices: 76484762--76484789 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
76484752 TATAGATTGG
76484762 CACGGCCTAGCA
1 CACGGCCTAGCA
76484774 CACGGCCTAGCA
1 CACGGCCTAGCA
76484786 CACG
1 CACG
76484790 AGCATATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.43, G:0.25, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:76485826 original size:13 final size:14
Alignment explanation
Indices: 76485808--76485841 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
76485798 AGTCAATAAT
76485808 AATTTTTA-TATTG
1 AATTTTTATTATTG
76485821 AATTTTTATTTATTG
1 AATTTTTA-TTATTG
76485836 AATTTT
1 AATTTT
76485842 AATCAGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
15 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
AATTTTTATTATTG
Found at i:76490948 original size:42 final size:42
Alignment explanation
Indices: 76490849--76490944 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
76490839 ACGGGCAAAG
*
76490849 ACACGGACGTGTGTCTCAGCCGTGTGTGCTACACGGCCTAGA
1 ACACGGACGTGTGTCTCAGCCGTGTCTGCTACACGGCCTAGA
*
76490891 ACACGGACGTGTGTCTCAGCTGTGTCTGCTACACGGCCTAGA
1 ACACGGACGTGTGTCTCAGCCGTGTCTGCTACACGGCCTAGA
76490933 ACAC-GA-GTGTGT
1 ACACGGACGTGTGT
76490945 GTCTTGGCCG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 6 0.12
41 2 0.04
42 44 0.85
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (42 bp):
ACACGGACGTGTGTCTCAGCCGTGTCTGCTACACGGCCTAGA
Found at i:76492544 original size:40 final size:40
Alignment explanation
Indices: 76492428--76492649 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
76492418 ACCCAAGTAT
* *
76492428 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
76492467 CTTCGGGTCTTAGCCCGGA-ATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
76492506 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
76492546 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * * *
76492589 CTTCGGGACTTAGCCTGGATATAGTAACTTGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
76492629 CTT-GGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
76492650 CATCCGAATA
Statistics
Matches: 162, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
39 63 0.39
40 64 0.40
43 35 0.22
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:76492610 original size:83 final size:79
Alignment explanation
Indices: 76492428--76492645 Score: 273
Period size: 83 Copynumber: 2.7 Consensus size: 79
76492418 ACCCAAGTAT
* * *
76492428 CTTCGGGATTTAGCCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCC-GGAATAGT
1 CTTCGGGACTTAGCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGGAATAGT
*
76492491 CACTAGCATAAATGC
65 CACTAGCACAAATGC
*
76492506 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGAATAGT
76492570 CAACTACTCGCACAAATGC
65 C-ACTA---GCACAAATGC
* * *
76492589 CTTCGGGACTTAGCCTGGATATAGTAACTTGTACAAATGCCTT-GGGACTTAGCCCGG
1 CTTCGGGACTTAGCC-GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
76492646 ATATCATCCG
Statistics
Matches: 124, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
78 12 0.10
79 39 0.31
80 11 0.09
82 16 0.13
83 46 0.37
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGAATAGTC
ACTAGCACAAATGC
Found at i:76492641 original size:122 final size:118
Alignment explanation
Indices: 76492428--76492649 Score: 320
Period size: 122 Copynumber: 1.8 Consensus size: 118
76492418 ACCCAAGTAT
* * *
76492428 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAATAGTCA
1 CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTAA
*
76492493 CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66 CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
76492546 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAG-CCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-AT
* *
76492611 AGTAACTTGTACAAATGCCTT-GGGACTTAGCCCGGATAT
61 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
76492650 CATCCGAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
118 12 0.13
119 10 0.11
120 1 0.01
122 49 0.54
123 19 0.21
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (118 bp):
CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTAA
CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:76498650 original size:40 final size:40
Alignment explanation
Indices: 76498605--76498771 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
76498595 CGGAATATAA
76498605 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
76498645 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
76498685 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
76498725 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
76498764 CCGGATAT
1 CCGGATAT
76498772 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:76506213 original size:40 final size:40
Alignment explanation
Indices: 76506107--76506290 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
76506097 TGCTGGAAAT
* * * * * **
76506107 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
76506147 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
76506187 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
76506225 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
76506266 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
76506291 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:76514160 original size:40 final size:40
Alignment explanation
Indices: 76514105--76514272 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
76514095 TGAATGATAC
* * *
76514105 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
76514145 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
76514185 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
76514225 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
76514265 CC-GGCTAA
1 CCGGGCTAA
76514273 ATTCCGAAGA
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.04
40 107 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:76524100 original size:41 final size:41
Alignment explanation
Indices: 76524029--76524135 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 41
76524019 CACACACCGA
* * * * * * *
76524029 CACAAGGCTTGGTAGACTCAAAGTCTGATTTTATACACCGG
1 CACAAAGCTTGCTAGGCTCAAAGCCCGATTTAATACACCAG
*
76524070 CA-ATAAGCTTGCTAGGCAT-AAAGCCCGATTTAATTCACCAG
1 CACA-AAGCTTGCTAGGC-TCAAAGCCCGATTTAATACACCAG
*
76524111 CACAAGGCTTGCTAGGCTCAAAGCC
1 CACAAAGCTTGCTAGGCTCAAAGCC
76524136 TGAATATCAC
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
40 2 0.04
41 49 0.92
42 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (41 bp):
CACAAAGCTTGCTAGGCTCAAAGCCCGATTTAATACACCAG
Found at i:76535346 original size:7 final size:7
Alignment explanation
Indices: 76535334--76535358 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
76535324 AGTAAAAAGA
76535334 TATTTAT
1 TATTTAT
76535341 TATTTAT
1 TATTTAT
76535348 TATTTAT
1 TATTTAT
76535355 TATT
1 TATT
76535359 AAGTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTAT
Found at i:76535538 original size:2 final size:2
Alignment explanation
Indices: 76535527--76535593 Score: 82
Period size: 2 Copynumber: 34.0 Consensus size: 2
76535517 GTATAATTAT
* * *
76535527 TA TA -A TA TA TA TA TA CA TA TA TA CA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
76535568 CA TA TA TA TA TA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
76535594 AAGATATAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:76535601 original size:16 final size:16
Alignment explanation
Indices: 76535468--76535593 Score: 87
Period size: 16 Copynumber: 8.6 Consensus size: 16
76535458 ATGCAAGAAA
* *
76535468 ATATATGTATACATTT
1 ATATATATATACATAT
*
76535484 GTA-ATATAT-CAT-T
1 ATATATATATACATAT
*
76535497 A-AT-TATATA-ATAG
1 ATATATATATACATAT
*
76535510 ATATTTAGTATA-AT-T
1 ATATATA-TATACATAT
*
76535525 AT-TATA-ATATATAT
1 ATATATATATACATAT
*
76535539 ATACATATATACATAT
1 ATATATATATACATAT
*
76535555 ATATATATATAC--AC
1 ATATATATATACATAT
76535569 ATATATATATACATAT
1 ATATATATATACATAT
76535585 ATATATATA
1 ATATATATA
76535594 AAGATATAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
12 11 0.13
13 4 0.05
14 24 0.28
15 12 0.14
16 36 0.41
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (16 bp):
ATATATATATACATAT
Found at i:76536609 original size:23 final size:22
Alignment explanation
Indices: 76536582--76536651 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 22
76536572 CAAGCACTTT
76536582 ATGTGTCGTATATTAGGCACCTC
1 ATGTGTCGT-TATTAGGCACCTC
*
76536605 GTGTGTCG-TATTAGGCACCTC
1 ATGTGTCGTTATTAGGCACCTC
* * *
76536626 ATTTGTCGTT-TCAGGCA-CTT
1 ATGTGTCGTTATTAGGCACCTC
76536646 ATGTGT
1 ATGTGT
76536652 TATATACTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 7 0.17
21 25 0.62
22 1 0.03
23 7 0.17
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (22 bp):
ATGTGTCGTTATTAGGCACCTC
Found at i:76537033 original size:3 final size:3
Alignment explanation
Indices: 76537025--76537051 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
76537015 ATTATATTTC
76537025 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
76537052 TGAATTATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:76542771 original size:39 final size:39
Alignment explanation
Indices: 76542711--76542789 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
76542701 TCAAACAACC
** * *
76542711 ATGATCATTCAATGGAGAGGTAGGTCGAGCTTAGACTAT
1 ATGATCATTCAACAGAAAGGTAAGTCGAGCTTAGACTAT
76542750 ATGATCATTCAACAGAAAGGTAAGTCGAGCTTAGACTAT
1 ATGATCATTCAACAGAAAGGTAAGTCGAGCTTAGACTAT
76542789 A
1 A
76542790 AACAAGCGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (39 bp):
ATGATCATTCAACAGAAAGGTAAGTCGAGCTTAGACTAT
Found at i:76549279 original size:17 final size:18
Alignment explanation
Indices: 76549257--76549290 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76549247 CACATTGAAG
*
76549257 TGTTTT-ATCGAAAACCT
1 TGTTTTCATAGAAAACCT
76549274 TGTTTTCATAGAAAACC
1 TGTTTTCATAGAAAACC
76549291 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (18 bp):
TGTTTTCATAGAAAACCT
Found at i:76550584 original size:28 final size:28
Alignment explanation
Indices: 76550542--76550612 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
76550532 TGGCCCTTTT
*
76550542 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
76550570 GGGCCCAATCACATTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
76550598 AGGCCCAATCACATT
1 AGGCCCAATCACATT
76550613 TATAGTCATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:76553824 original size:19 final size:19
Alignment explanation
Indices: 76553791--76553827 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
76553781 CAATAACTAA
*
76553791 CATAACCATCGTAGGCCAT
1 CATAACCATCATAGGCCAT
*
76553810 CATAACCATTATAGGCCA
1 CATAACCATCATAGGCCA
76553828 ACATTCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (19 bp):
CATAACCATCATAGGCCAT
Found at i:76557104 original size:39 final size:39
Alignment explanation
Indices: 76557061--76557135 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
76557051 ATCAAACTCA
* * *
76557061 AATAACTATTTAATTATTAGTCTAAATTTTGTACCATCC
1 AATAACAATTTAATCACTAGTCTAAATTTTGTACCATCC
*
76557100 AATAACAATTTTATCACTAGTCTAAATTTTGTACCA
1 AATAACAATTTAATCACTAGTCTAAATTTTGTACCA
76557136 CCCATTAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.41
Consensus pattern (39 bp):
AATAACAATTTAATCACTAGTCTAAATTTTGTACCATCC
Found at i:76557464 original size:18 final size:18
Alignment explanation
Indices: 76557443--76557480 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
76557433 TAAAAATAAA
76557443 ATAATAATT-AAAAAATTC
1 ATAA-AATTCAAAAAATTC
*
76557461 ATAAAATTCATAAAATTC
1 ATAAAATTCAAAAAATTC
76557479 AT
1 AT
76557481 TTGATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAATTCAAAAAATTC
Found at i:76557468 original size:9 final size:9
Alignment explanation
Indices: 76557454--76557480 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
76557444 TAATAATTAA
76557454 AAAATTCAT
1 AAAATTCAT
76557463 AAAATTCAT
1 AAAATTCAT
76557472 AAAATTCAT
1 AAAATTCAT
76557481 TTGATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATTCAT
Found at i:76565407 original size:32 final size:32
Alignment explanation
Indices: 76565361--76565434 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
76565351 GTCCATGTGC
76565361 CCCACACAGCTTACCCAAACAGGCCACAAAAT
1 CCCACACAGCTTACCCAAACAGGCCACAAAAT
* * * *
76565393 CCCATACAGCTTACCCACACGGGCTACAAAAT
1 CCCACACAGCTTACCCAAACAGGCCACAAAAT
*
76565425 CACACACAGC
1 CCCACACAGC
76565435 CCTGTACCCC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.41, G:0.11, T:0.11
Consensus pattern (32 bp):
CCCACACAGCTTACCCAAACAGGCCACAAAAT
Found at i:76565457 original size:81 final size:81
Alignment explanation
Indices: 76565313--76565463 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
76565303 CTCGTCTGGT
* * ** * *
76565313 CCATACGGCCTACCCACACGGGCTACAATATTTCACACGTCCATGTGCCCCACACAGCTTACCCA
1 CCATACAGCCTACCCACACGGGCTACAAAATCACACACGTCCATGTACCCCACACAGCCTACCCA
76565378 AACAGGCCACAAAATC
66 AACAGGCCACAAAATC
* *
76565394 CCATACAGCTTACCCACACGGGCTACAAAATCACACACAG-CCCTGTACCCCACA-AGGCCTACC
1 CCATACAGCCTACCCACACGGGCTACAAAATCACACAC-GTCCATGTACCCCACACA-GCCTACC
*
76565457 CACACAG
64 CAAACAG
76565464 CCATGTGGCA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
80 1 0.02
81 57 0.97
82 1 0.02
ACGTcount: A:0.32, C:0.41, G:0.13, T:0.14
Consensus pattern (81 bp):
CCATACAGCCTACCCACACGGGCTACAAAATCACACACGTCCATGTACCCCACACAGCCTACCCA
AACAGGCCACAAAATC
Found at i:76566068 original size:20 final size:21
Alignment explanation
Indices: 76566040--76566102 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
76566030 CAAAAATCTC
*
76566040 AAGAGAACAAA-AAAGAACAA
1 AAGAAAACAAAGAAAGAACAA
* *
76566060 AAGAAAACAAAGAAATAAGAA
1 AAGAAAACAAAGAAAGAACAA
*
76566081 AAGAAGAA-TAAG-AAGAACAA
1 AAGAA-AACAAAGAAAGAACAA
76566101 AA
1 AA
76566103 CCAAAATTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 18 0.51
21 15 0.43
22 2 0.06
ACGTcount: A:0.75, C:0.06, G:0.16, T:0.03
Consensus pattern (21 bp):
AAGAAAACAAAGAAAGAACAA
Found at i:76566987 original size:23 final size:23
Alignment explanation
Indices: 76566961--76567006 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
76566951 TTGCCCAAGA
*
76566961 ATGAACCTGTAACACCCCATACC
1 ATGAACATGTAACACCCCATACC
76566984 ATGAACATGTAACACCCCATACC
1 ATGAACATGTAACACCCCATACC
76567007 CAACTCGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.37, G:0.09, T:0.17
Consensus pattern (23 bp):
ATGAACATGTAACACCCCATACC
Found at i:76569800 original size:43 final size:43
Alignment explanation
Indices: 76569750--76569844 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
76569740 TTCGAAAAAA
* * * * *
76569750 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGCAAAC
1 GCCGCTAAAGACCATAACCTTTAGCGACACTTTTCTCACAAAC
* *
76569793 GCTGCTAAAGATCATAACCTTTAGCGACACTTTTCTCACAAAC
1 GCCGCTAAAGACCATAACCTTTAGCGACACTTTTCTCACAAAC
76569836 GCCGCTAAA
1 GCCGCTAAA
76569845 AATAATGATC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGACCATAACCTTTAGCGACACTTTTCTCACAAAC
Found at i:76571247 original size:15 final size:16
Alignment explanation
Indices: 76571221--76571251 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
76571211 TGTTTCTTGC
76571221 TTTTAGATCATATATA
1 TTTTAGATCATATATA
76571237 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
76571252 AGATAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:76574202 original size:7 final size:7
Alignment explanation
Indices: 76574189--76574230 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
76574179 TTAGATATTA
76574189 AATTTTT
1 AATTTTT
76574196 AAGTTTTT
1 AA-TTTTT
76574204 -ATTTTT
1 AATTTTT
*
76574210 TATTTTT
1 AATTTTT
*
76574217 AAATTTT
1 AATTTTT
76574224 AATTTTT
1 AATTTTT
76574231 TTGAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
6 5 0.17
7 20 0.67
8 5 0.17
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (7 bp):
AATTTTT
Found at i:76574214 original size:21 final size:21
Alignment explanation
Indices: 76574190--76574231 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
76574180 TAGATATTAA
* *
76574190 ATTTTTAAGTTTTTATTTTTT
1 ATTTTTAAATTTTAATTTTTT
76574211 ATTTTTAAATTTTAATTTTTT
1 ATTTTTAAATTTTAATTTTTT
76574232 TGAAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
ATTTTTAAATTTTAATTTTTT
Done.