Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 308 of 433
Found at i:96098295 original size:15 final size:15
Alignment explanation
Indices: 96098275--96098306 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
96098265 CATTTCACTA
*
96098275 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
96098290 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
96098305 TT
1 TT
96098307 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:96100423 original size:11 final size:11
Alignment explanation
Indices: 96100393--96100426 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
96100383 AATATTGTAT
96100393 TTATTAATTT-
1 TTATTAATTTA
96100403 TTATTAATTTA
1 TTATTAATTTA
*
96100414 TTATTTATTTA
1 TTATTAATTTA
96100425 TT
1 TT
96100427 TCAAATTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTAATTTA
Found at i:96100961 original size:18 final size:21
Alignment explanation
Indices: 96100925--96100975 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
96100915 CAAAAATTAC
96100925 AAAATAATT-AAAATAATTT-T
1 AAAA-AATTCAAAATAATTTAT
*
96100945 -CAAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTTAT
96100964 AAAAAATTCAAA
1 AAAAAATTCAAA
96100976 TTTTATATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 8 0.31
19 8 0.31
20 10 0.38
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAATTCAAAATAATTTAT
Found at i:96109384 original size:22 final size:23
Alignment explanation
Indices: 96109342--96109393 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
96109332 TGAAATATAG
*
96109342 ATAATATATTTAAATTAAATT-TT
1 ATAA-ATAATTAAATTAAATTATT
96109365 ATAAATAATTAATATT-AATTATT
1 ATAAATAATTAA-ATTAAATTATT
96109388 -TAAATA
1 ATAAATA
96109394 TATTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAATAATTAAATTAAATTATT
Found at i:96110887 original size:30 final size:30
Alignment explanation
Indices: 96110853--96110912 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
96110843 ACTTAACAAG
96110853 CAAAT-ACTTCTAAAATAATAACAAAATTAA
1 CAAATGACTT-TAAAATAATAACAAAATTAA
* * *
96110883 CAAATGCCTTTAAAATAATAATAAATTTAA
1 CAAATGACTTTAAAATAATAACAAAATTAA
96110913 TAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.30
Consensus pattern (30 bp):
CAAATGACTTTAAAATAATAACAAAATTAA
Found at i:96112035 original size:45 final size:45
Alignment explanation
Indices: 96111985--96112072 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
96111975 TGGGCCTAAG
96111985 CTAGGCCGGGCTCGAAAAATGGACTTAAAATTTTACCCAATGCGC
1 CTAGGCCGGGCTCGAAAAATGGACTTAAAATTTTACCCAATGCGC
96112030 CTAGGCCGGGCTCGAAAAATGGACTTAAAATTTTACCCAATGC
1 CTAGGCCGGGCTCGAAAAATGGACTTAAAATTTTACCCAATGC
96112073 CAACCCGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (45 bp):
CTAGGCCGGGCTCGAAAAATGGACTTAAAATTTTACCCAATGCGC
Found at i:96112154 original size:13 final size:11
Alignment explanation
Indices: 96112118--96112148 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
96112108 CTGCCCGTAT
96112118 TAATTTTTATA
1 TAATTTTTATA
*
96112129 TTATTTTTATA
1 TAATTTTTATA
96112140 TAATTTTTA
1 TAATTTTTA
96112149 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:96112306 original size:30 final size:30
Alignment explanation
Indices: 96112270--96112332 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
96112260 ACTTAACAAG
96112270 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
96112300 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
96112330 CAA
1 CAA
96112333 TAAAATAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:96119369 original size:17 final size:17
Alignment explanation
Indices: 96119347--96119383 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
96119337 GGTCGAGAAA
96119347 ATTATTATT-TTTTATAT
1 ATTATT-TTATTTTATAT
96119364 ATTATTTTATTTTATAT
1 ATTATTTTATTTTATAT
96119381 ATT
1 ATT
96119384 GTAGCATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTATTTTATTTTATAT
Found at i:96121335 original size:30 final size:31
Alignment explanation
Indices: 96121311--96121369 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
96121301 GTAAATACTC
* *
96121311 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
*
96121341 AAAATTTGAAGGACTAATAGTGCAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
96121370 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:96121628 original size:29 final size:31
Alignment explanation
Indices: 96121580--96121643 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
96121570 TTTATAGTTA
*
96121580 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
96121611 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
96121640 TTTA
1 TTTA
96121644 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:96121632 original size:8 final size:8
Alignment explanation
Indices: 96121621--96121645 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
96121611 TTTAATAAGA
96121621 TATTTTAT
1 TATTTTAT
96121629 TATTTTAT
1 TATTTTAT
96121637 TATTTTAT
1 TATTTTAT
96121645 T
1 T
96121646 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:96129755 original size:39 final size:39
Alignment explanation
Indices: 96129708--96129833 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
96129698 AACTTAATGT
* * * *
96129708 CTAGCAGGCCTCGTACCAGTGATAAATTTAGGTTTATAA
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
96129747 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* * *
96129786 CTAGCAGGCCTCGTGCCGGTGTTAAGTTCGGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
96129825 CTAGCAGGC
1 CTAGCAGGC
96129834 AAATTGCCGA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:96133486 original size:20 final size:21
Alignment explanation
Indices: 96133448--96133486 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
96133438 TCAAGTTGGT
*
96133448 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCATGTTGCCCTTC
96133469 CACACGGGCATG-TGCCCT
1 CACACGGGCATGTTGCCCT
96133487 ATTTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACGGGCATGTTGCCCTTC
Found at i:96135370 original size:30 final size:31
Alignment explanation
Indices: 96135324--96135385 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
96135314 ATAAGGTATC
96135324 TAAGAAATATCTTTTGGTAGTTAAGGGTCAT
1 TAAGAAATATCTTTTGGTAGTTAAGGGTCAT
96135355 TAAGAAATATC-TTTGGTAGTTAAGGGTCAT
1 TAAGAAATATCTTTTGGTAGTTAAGGGTCAT
96135385 T
1 T
96135386 GCTTTCTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (31 bp):
TAAGAAATATCTTTTGGTAGTTAAGGGTCAT
Found at i:96135924 original size:20 final size:20
Alignment explanation
Indices: 96135886--96135924 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
96135876 TCAAGTTGGT
96135886 CACACGGGCATGTTGCCCTTC
1 CACACGGG-ATGTTGCCCTTC
96135907 CACACGGG-TGTGTGCCCT
1 CACACGGGATGT-TGCCCT
96135925 GTTTTAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 6 0.35
21 8 0.47
ACGTcount: A:0.13, C:0.36, G:0.28, T:0.23
Consensus pattern (20 bp):
CACACGGGATGTTGCCCTTC
Found at i:96140073 original size:20 final size:22
Alignment explanation
Indices: 96140034--96140078 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
96140024 ATCCAATTCA
96140034 ATTTTCCATATACCATGTAACAC
1 ATTTTCCATATA-CATGTAACAC
96140057 ATTTT-CATATA-ATGTAACAC
1 ATTTTCCATATACATGTAACAC
96140077 AT
1 AT
96140079 CCATAACGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.50
22 6 0.27
23 5 0.23
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (22 bp):
ATTTTCCATATACATGTAACAC
Found at i:96145538 original size:92 final size:90
Alignment explanation
Indices: 96145399--96145564 Score: 199
Period size: 92 Copynumber: 1.8 Consensus size: 90
96145389 CGATGTGGCT
** *
96145399 GATGCATGTCTTAGACATGTCTTACACTAGCACACATATTCGTGCCGACGCCATGTCCCAAACAT
1 GATGCATGTCTTAGACATGTCTTACACTAGCACACATACCCGGGCCGACG-CATGTCCCAAACAT
96145464 GGTCTTACACTGACATATCTTGTAGCC
65 -GTCTTACACTGACATATCTTGTAGCC
* ** * * * * *
96145491 GATGCATGTCTTAGACATGTCTTACACTGGCTTACGT-CCCGAGGCCGATGTATGTCCTAGACAT
1 GATGCATGTCTTAGACATGTCTTACACTAGCACACATACCCG-GGCCGACGCATGTCCCAAACAT
96145555 GTCTTACACT
65 GTCTTACACT
96145565 AGCACTCGTC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
90 10 0.16
91 13 0.21
92 39 0.63
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (90 bp):
GATGCATGTCTTAGACATGTCTTACACTAGCACACATACCCGGGCCGACGCATGTCCCAAACATG
TCTTACACTGACATATCTTGTAGCC
Found at i:96145558 original size:138 final size:138
Alignment explanation
Indices: 96145314--96145661 Score: 359
Period size: 138 Copynumber: 2.5 Consensus size: 138
96145304 GTCAATGCTG
* * **
96145314 TGTCCCAGACA-GGTCTTACACTGACACAT-ATCAAGCCGATGCCATGTCTCAGACATGGTCTTA
1 TGTCCCAGACATGGTCTTACACTGACATATCTTGTAGCCGATG-CATGTCTCAGACAT-GTCTTA
* * * * * * *
96145377 AACTAGCTTTCACGATGTGGCTGATGCATGTCTTAGACATGTCTTACACTAGCACACATATTC-G
64 CACTGGCTTTCACGATGAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCACACAT-CTCAA
96145441 TGCCGACGCCA
128 TGCCGACGCCA
* *
96145452 TGTCCCAAACATGGTCTTACACTGACATATCTTGTAGCCGATGCATGTCTTAGACATGTCTTACA
1 TGTCCCAGACATGGTCTTACACTGACATATCTTGTAGCCGATGCATGTCTCAGACATGTCTTACA
* * *
96145517 CTGGC-TT-ACG-TCCCGAGGCCGATGTATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAA
66 CTGGCTTTCACGAT---GAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCACACATCTCAA
* *
96145579 TGCTGATGCCA
128 TGCCGACGCCA
* * * *
96145590 TGTCCCAGACATGGTCTTACACTGGC-TCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTT
1 TGTCCCAGACATGGTCTTACACTGACATATC-T--TGTAGCCGATGCATGTCTCAGACATGTCTT
*
96145654 ACATTGGC
63 ACACTGGC
96145662 ACACATATCA
Statistics
Matches: 176, Mismatches: 25, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
135 1 0.01
136 3 0.02
137 7 0.04
138 92 0.52
139 30 0.17
140 43 0.24
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (138 bp):
TGTCCCAGACATGGTCTTACACTGACATATCTTGTAGCCGATGCATGTCTCAGACATGTCTTACA
CTGGCTTTCACGATGAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCACACATCTCAATGC
CGACGCCA
Found at i:96148038 original size:27 final size:28
Alignment explanation
Indices: 96147981--96148050 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
96147971 AAACTTGTAC
*
96147981 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
96148009 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
96148036 AGCACTAGGTGTGCG
1 AGCACTAAGTGTGCG
96148051 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:96152866 original size:27 final size:28
Alignment explanation
Indices: 96152836--96152905 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
96152826 ATAATAAGTC
*
96152836 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
96152863 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
96152891 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
96152906 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:96160786 original size:27 final size:28
Alignment explanation
Indices: 96160756--96160825 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
96160746 ATAATAAGTC
*
96160756 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
96160783 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
96160811 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
96160826 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:96163018 original size:20 final size:20
Alignment explanation
Indices: 96162995--96163062 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
96162985 GTGCGATCGA
96162995 AGGCACCAAAGTGCAAGCAG
1 AGGCACCAAAGTGCAAGCAG
*
96163015 AGGCGCCAAAGTG-AAGACAG
1 AGGCACCAAAGTGCAAG-CAG
* **
96163035 AGGCACCAAACTGCAAATAG
1 AGGCACCAAAGTGCAAGCAG
96163055 AGGCACCA
1 AGGCACCA
96163063 CTGTACAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.07
20 36 0.88
21 2 0.05
ACGTcount: A:0.41, C:0.25, G:0.28, T:0.06
Consensus pattern (20 bp):
AGGCACCAAAGTGCAAGCAG
Found at i:96172602 original size:42 final size:42
Alignment explanation
Indices: 96172491--96172610 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 42
96172481 TACCATACCA
* *
96172491 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCGTATAG
* * * *
96172533 ATGCTAGTAGCCCAGTTATGGTCTTACACGAAGTCTCGTATAG
1 ATGCCA-TATCCCAGATATGGTCTTACACGAAATCTCGTATAG
* *
96172576 ATGCCAAATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCT
96172611 TAGTAACCCG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCGTATAG
Found at i:96174954 original size:15 final size:15
Alignment explanation
Indices: 96174934--96174965 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
96174924 ATCTAATAAG
96174934 TATACCTCTGTATCA
1 TATACCTCTGTATCA
96174949 TATACCTCTGTATCA
1 TATACCTCTGTATCA
96174964 TA
1 TA
96174966 CCTTCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.41
Consensus pattern (15 bp):
TATACCTCTGTATCA
Found at i:96178944 original size:43 final size:42
Alignment explanation
Indices: 96178882--96178993 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 42
96178872 TACCATACCA
* * *
96178882 ATGCCATATCCCATATATGGTCTTACATGAAATCTCGTATCG
1 ATGCCAAATCCCAGATATGGTCTTACATGAAATCTCGTATAG
*
96178924 ATGCCAATAGT-CCAGATATGGTCTTACATGAAGTCTCGTATAG
1 ATGCCAA-A-TCCCAGATATGGTCTTACATGAAATCTCGTATAG
96178967 ATGCCAAATCCCAGATATGGTCTTACA
1 ATGCCAAATCCCAGATATGGTCTTACA
96178994 CGTAATCTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
41 1 0.02
42 24 0.38
43 37 0.59
44 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCAAATCCCAGATATGGTCTTACATGAAATCTCGTATAG
Found at i:96181650 original size:49 final size:49
Alignment explanation
Indices: 96181583--96181827 Score: 319
Period size: 49 Copynumber: 4.9 Consensus size: 49
96181573 TAGCCAAAGC
* * * *
96181583 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
96181632 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
96181681 TGTCTGGCACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
96181731 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * * *
96181782 TTTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
96181828 TCACAATAGA
Statistics
Matches: 171, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
49 88 0.51
50 43 0.25
51 39 0.23
52 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:96181773 original size:99 final size:101
Alignment explanation
Indices: 96181594--96181828 Score: 341
Period size: 101 Copynumber: 2.4 Consensus size: 101
96181584 ATCTGGTACG
* ** *
96181594 CATAGTAGCCTGCACATAGTACTACACATGTGACC-AATTATCCGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTAGTAGCCTGCAC
*
96181658 TTAGTACTACACACGTGA-C-CAATTGTCTGGCACA
66 TTAGTACTACACACGTGATCACAATTGTCAGGCACA
* * *
96181692 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTAGTAGCCTGCAC
* * * *
96181757 TTAGTACTACACACGTGATCACAGTTTTCAGGTACG
66 TTAGTACTACACACGTGATCACAATTGTCAGGCACA
96181793 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT
96181829 CACAATAGAT
Statistics
Matches: 120, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
98 32 0.27
99 43 0.36
100 1 0.01
101 44 0.37
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGATCACAATTGTCAGGCACA
Found at i:96188607 original size:38 final size:35
Alignment explanation
Indices: 96188548--96188665 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
96188538 TCAATCATGC
*
96188548 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
96188587 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
96188618 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
96188649 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
96188666 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:96188609 original size:31 final size:31
Alignment explanation
Indices: 96188571--96188665 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
96188561 CCTTTTCATA
*
96188571 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
96188602 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
96188633 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
96188664 TT
1 TT
96188666 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:96188907 original size:23 final size:24
Alignment explanation
Indices: 96188857--96188973 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
96188847 GCTTTATCAT
*
96188857 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
96188882 ATAACT-GGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
96188905 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
96188928 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
96188951 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
96188974 TCACTTCCTC
Statistics
Matches: 83, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.19
23 26 0.31
24 35 0.42
25 6 0.07
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:96188935 original size:46 final size:47
Alignment explanation
Indices: 96188857--96188973 Score: 166
Period size: 46 Copynumber: 2.5 Consensus size: 47
96188847 GCTTTATCAT
*
96188857 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGCAAAAGCCCTTTCA
* **
96188905 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCAAAAGCCCTTTCA
96188951 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
96188974 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
46 43 0.67
47 9 0.14
48 12 0.19
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCAAAAGCCCTTTCA
Found at i:96189048 original size:20 final size:20
Alignment explanation
Indices: 96189023--96189083 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
96189013 TTATGATTAC
96189023 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
96189043 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
96189063 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
96189083 A
1 A
96189084 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:96189158 original size:25 final size:25
Alignment explanation
Indices: 96189126--96189173 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
96189116 ATACATAAAC
* * *
96189126 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
96189151 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
96189174 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:96195683 original size:31 final size:31
Alignment explanation
Indices: 96195645--96195708 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
96195635 CCTTTTCATA
96195645 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
96195676 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
96195707 TT
1 TT
96195709 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:96195950 original size:23 final size:24
Alignment explanation
Indices: 96195900--96196016 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
96195890 GCTTTATCAT
*
96195900 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
96195925 ATAACT-GGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
96195948 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
96195971 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
96195994 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
96196017 TCACTTCCTC
Statistics
Matches: 83, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.19
23 26 0.31
24 35 0.42
25 6 0.07
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:96195978 original size:46 final size:47
Alignment explanation
Indices: 96195900--96196016 Score: 166
Period size: 46 Copynumber: 2.5 Consensus size: 47
96195890 GCTTTATCAT
*
96195900 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGCAAAAGCCCTTTCA
* **
96195948 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCAAAAGCCCTTTCA
96195994 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
96196017 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
46 43 0.67
47 9 0.14
48 12 0.19
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCAAAAGCCCTTTCA
Found at i:96196091 original size:20 final size:20
Alignment explanation
Indices: 96196066--96196126 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
96196056 TTATGATTAC
96196066 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
96196086 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
96196106 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
96196126 A
1 A
96196127 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:96196201 original size:25 final size:25
Alignment explanation
Indices: 96196169--96196216 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
96196159 ATACATAAAC
* * *
96196169 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
96196194 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
96196217 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:96198153 original size:46 final size:46
Alignment explanation
Indices: 96198103--96198275 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
96198093 TGGTTGAGCA
*
96198103 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* ** *
96198149 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
96198194 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
96198242 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
96198276 GGGCGGGTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 58 0.55
47 28 0.27
48 1 0.01
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:96198259 original size:93 final size:93
Alignment explanation
Indices: 96198100--96198270 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
96198090 GGATGGTTGA
* *
96198100 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
96198165 TGAGTCCGAGTTCGTAAAATGTAACTAG
66 TGAGTCCGAGTTCGTAAAATGTAACTAG
* *
96198193 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
96198258 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
96198271 ACTTAGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTAAAATGTAACTAG
Found at i:96205717 original size:46 final size:45
Alignment explanation
Indices: 96205667--96205838 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
96205657 TGGTTGAGCA
96205667 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
96205713 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
96205759 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
96205805 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
96205839 GGGCGGGTTA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:96205821 original size:92 final size:92
Alignment explanation
Indices: 96205664--96205833 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
96205654 GGATGGTTGA
* *
96205664 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
96205729 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
96205756 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
96205821 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
96205834 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:96208100 original size:88 final size:88
Alignment explanation
Indices: 96207951--96208133 Score: 339
Period size: 88 Copynumber: 2.1 Consensus size: 88
96207941 CATCCATACA
*
96207951 AATGTGTTTATGCTTGAATGTGGTTATGGTTGATTAAGGTTGATGAGTGGGATGGATGGCATGTA
1 AATGTGTTTATGCTTGAATGTGGTTATGGTTGATTAAGGTTGATGAGTGGGACGGATGGCATGTA
*
96208016 TGTTTGGAGTGTAGAATATGATT
66 AGTTTGGAGTGTAGAATATGATT
*
96208039 AATGTGTTTATGCTTGAATGTGGTTATGGTTGATTATGGTTGATGAGTGGGACGGATGGCATGTA
1 AATGTGTTTATGCTTGAATGTGGTTATGGTTGATTAAGGTTGATGAGTGGGACGGATGGCATGTA
96208104 AGTTTGGAGTGTAGAATATGATT
66 AGTTTGGAGTGTAGAATATGATT
96208127 AATGTGT
1 AATGTGT
96208134 ATACAATAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.24, C:0.03, G:0.34, T:0.39
Consensus pattern (88 bp):
AATGTGTTTATGCTTGAATGTGGTTATGGTTGATTAAGGTTGATGAGTGGGACGGATGGCATGTA
AGTTTGGAGTGTAGAATATGATT
Found at i:96208937 original size:31 final size:31
Alignment explanation
Indices: 96208899--96208962 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
96208889 CCTTTTCATA
96208899 TTTCATATTTCATAAAACTGGGCCGAAGCCT
1 TTTCATATTTCATAAAACTGGGCCGAAGCCT
**
96208930 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAAAACTGGGCCGAAGCCT
96208961 TT
1 TT
96208963 ACTATAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAAAACTGGGCCGAAGCCT
Found at i:96209207 original size:23 final size:23
Alignment explanation
Indices: 96209177--96209248 Score: 126
Period size: 23 Copynumber: 3.1 Consensus size: 23
96209167 CCTAGCCTCT
**
96209177 TTTAATAACTATGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
96209200 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
96209223 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
96209246 TTT
1 TTT
96209249 TACACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:96209324 original size:20 final size:20
Alignment explanation
Indices: 96209299--96209365 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
96209289 TTATGAATAC
96209299 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
96209319 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
96209339 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
96209359 ACCATGT
1 ATCATGT
96209366 TTACTAAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:96217003 original size:31 final size:31
Alignment explanation
Indices: 96216965--96217028 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
96216955 CCTTTTCATA
96216965 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
96216996 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
96217027 TT
1 TT
96217029 ACTGTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:96217273 original size:24 final size:24
Alignment explanation
Indices: 96217222--96217316 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
96217212 GCTTTATTAT
*
96217222 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
96217247 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
96217271 ATAAATGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
96217294 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
96217317 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.35
24 29 0.46
25 12 0.19
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:96217297 original size:23 final size:23
Alignment explanation
Indices: 96217243--96217315 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
96217233 CCTAGCCTCT
*
96217243 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
96217266 TTTTAATAAATGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
96217290 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
96217313 TTT
1 TTT
96217316 TGCACTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 25 0.54
24 21 0.46
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:96217391 original size:20 final size:20
Alignment explanation
Indices: 96217366--96217432 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
96217356 TTATGAATAC
*
96217366 ATCATGTGTATATCATACAT
1 ATCATGTGCATATCATACAT
*
96217386 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
96217406 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
96217426 ACCATGT
1 ATCATGT
96217433 TTACTAAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:96228601 original size:24 final size:24
Alignment explanation
Indices: 96228569--96228616 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
96228559 GAGCGAGCGC
96228569 ACGCTCGTGTAATGTCAATAGACA
1 ACGCTCGTGTAATGTCAATAGACA
96228593 ACGCTCGTGTAATGTCAATAGACA
1 ACGCTCGTGTAATGTCAATAGACA
96228617 TATTTTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (24 bp):
ACGCTCGTGTAATGTCAATAGACA
Found at i:96231936 original size:32 final size:32
Alignment explanation
Indices: 96231895--96231958 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
96231885 AAGGGCCTCA
*
96231895 GTCAGAACCTTCTTAAGCCTCTTCAAACTTTC
1 GTCAGAACCTTCTTAAGCCTCTTAAAACTTTC
96231927 GTCAGAACCTTCTTAAGCCTCTTAAAACTTTC
1 GTCAGAACCTTCTTAAGCCTCTTAAAACTTTC
96231959 TTATTGCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (32 bp):
GTCAGAACCTTCTTAAGCCTCTTAAAACTTTC
Found at i:96239481 original size:30 final size:29
Alignment explanation
Indices: 96239423--96239482 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
96239413 TTCCCGAGCC
*
96239423 TAGGGGCAAAAGTGTAAATATGCAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAGTT
* * *
96239452 TAGGGGCAAAATTGTAATTTTTCCAAAGTT
1 TAGGGGCAAAAGTGTAA-ATATCCAAAGTT
96239482 T
1 T
96239483 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAAATATCCAAAGTT
Found at i:96240260 original size:68 final size:67
Alignment explanation
Indices: 96240188--96240337 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
96240178 CATCATGTGT
* * * *
96240188 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
96240250 ATGTAG
62 ATGTAG
** * *
96240256 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
96240321 AG
66 AG
96240323 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
96240338 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:96240293 original size:64 final size:64
Alignment explanation
Indices: 96240212--96240395 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
96240202 AGACATTATG
* *
96240212 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
96240276 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
96240341 AA
63 AA
* * * *
96240343 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
96240396 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:96245373 original size:27 final size:27
Alignment explanation
Indices: 96245340--96245598 Score: 324
Period size: 27 Copynumber: 9.6 Consensus size: 27
96245330 AAAGTACTCC
*
96245340 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
96245367 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** * *
96245394 CGATTTGTAAAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
96245421 CAATTTACATAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
96245447 CTGATTTACATAATTATCGTTTTACCCT
1 C-GATTTACAGAATTACCGTTTTACCCT
*
96245475 CGACTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
96245502 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
96245529 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
96245556 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
96245583 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
96245599 TAAAATACCC
Statistics
Matches: 205, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 201 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:96245607 original size:27 final size:27
Alignment explanation
Indices: 96245523--96245798 Score: 112
Period size: 27 Copynumber: 10.1 Consensus size: 27
96245513 ATTATCGTTT
* * ****
96245523 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
96245550 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
96245577 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * ** *
96245604 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
96245631 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* * *** **
96245658 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
96245685 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
96245712 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
96245739 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
96245768 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
96245795 TACC
1 TACC
96245799 TTTGGTTTGT
Statistics
Matches: 203, Mismatches: 35, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
26 2 0.01
27 175 0.86
28 7 0.03
29 19 0.09
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:96245624 original size:54 final size:54
Alignment explanation
Indices: 96245577--96245798 Score: 205
Period size: 54 Copynumber: 4.1 Consensus size: 54
96245567 ATTACTGTTT
* * *
96245577 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* * *
96245631 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* * * * ** * *
96245685 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* * * * ** *
96245739 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTAT-AAAATTACCA-AAATACCCTTGGTTTGTAAAATTACCGAAA
96245795 TACC
1 TACC
96245799 TTTGGTTTGT
Statistics
Matches: 140, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.01
54 95 0.68
55 7 0.05
56 36 0.26
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
Found at i:96245803 original size:27 final size:27
Alignment explanation
Indices: 96245590--96245807 Score: 163
Period size: 27 Copynumber: 8.0 Consensus size: 27
96245580 CCTCGATTTA
*
96245590 CAAAATTACTAAAATACCCTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
* * *
96245617 TAAAATTACCAAAATACCCCTAGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
*
96245644 TAAAATTACCAAAATACCCTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
** * ***
96245671 TGAAATTACCGAAATACCCTCAATTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
* * * *
96245698 TAAAATTACCAAAATACCCCTGATTTA
1 CAAAATTACCAAAATACCCTTGGTTTG
* *
96245725 CAAAGTTA-CAGAAATACCCTTGACTTT-
1 CAAAATTACCA-AAATACCCTTG-GTTTG
* * *
96245752 CTAAAAATTA-TAGAAATACCATTGGTTTA
1 C--AAAATTACCA-AAATACCCTTGGTTTG
** *
96245781 CAAAATTACTGAAATACCTTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
96245808 TTGATTTACC
Statistics
Matches: 157, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 129 0.82
28 7 0.04
29 19 0.12
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCTTGGTTTG
Found at i:96245908 original size:27 final size:27
Alignment explanation
Indices: 96245847--96245924 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
96245837 AAATGACTAA
* *
96245847 AATACCCCTAAAAGGTAAAAAGACCGT
1 AATACCCCTATAAGGTAAAATGACCGT
* *
96245874 AA-AGCCCCTATAGGGTAAAGTGACCGT
1 AATA-CCCCTATAAGGTAAAATGACCGT
* *
96245901 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTATAAGGTAAAATGAC
96245925 GAATATGCCC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (27 bp):
AATACCCCTATAAGGTAAAATGACCGT
Found at i:96247102 original size:25 final size:25
Alignment explanation
Indices: 96247073--96247120 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
96247063 TTATAATATG
* *
96247073 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
96247098 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
96247121 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:96247171 original size:9 final size:9
Alignment explanation
Indices: 96247159--96247215 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
96247149 TTTGATAAAC
96247159 ATGATATGT
1 ATGATATGT
*
96247168 ATGATATGCAC
1 ATGATATG--T
*
96247179 ATGACATGT
1 ATGATATGT
*
96247188 ATGATATGCAC
1 ATGATATG--T
96247199 ATGATATGT
1 ATGATATGT
96247208 ATGATATG
1 ATGATATG
96247216 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:96247182 original size:20 final size:20
Alignment explanation
Indices: 96247157--96247227 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
96247147 ATTTTGATAA
96247157 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
96247177 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
96247197 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
96247217 ACATGAGATGT
1 ACATGATATGT
96247228 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:96247204 original size:11 final size:11
Alignment explanation
Indices: 96247168--96247222 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
96247158 CATGATATGT
96247168 ATGATATGCAC
1 ATGATATGCAC
* *
96247179 ATGACATG--T
1 ATGATATGCAC
96247188 ATGATATGCAC
1 ATGATATGCAC
*
96247199 ATGATATG--T
1 ATGATATGCAC
96247208 ATGATATGCAC
1 ATGATATGCAC
96247219 ATGA
1 ATGA
96247223 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:96247304 original size:23 final size:23
Alignment explanation
Indices: 96247274--96247416 Score: 223
Period size: 23 Copynumber: 6.1 Consensus size: 23
96247264 AGGAAGTGCA
96247274 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
96247297 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
96247320 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
96247344 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
96247368 AAAAGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
96247391 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
96247414 AAA
1 AAA
96247417 AGAGGCAAGG
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
23 68 0.61
24 44 0.39
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:96247365 original size:47 final size:46
Alignment explanation
Indices: 96247274--96247416 Score: 223
Period size: 47 Copynumber: 3.1 Consensus size: 46
96247264 AGGAAGTGCA
96247274 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
* *
96247320 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT-T
* * *
96247368 AAAAGGCTTACGCCCCAGTTATTAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
96247414 AAA
1 AAA
96247417 AGAGGCAAGG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 25 0.28
47 43 0.49
48 20 0.23
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:96247621 original size:42 final size:42
Alignment explanation
Indices: 96247558--96247649 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
96247548 TAGTCTCCCC
* **
96247558 AAATGGGTTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTAT-ATGTGATATTG
* *
96247600 AAATGGGCTTGCATTCTTTCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
96247642 AAATGGGC
1 AAATGGGC
96247650 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
Found at i:96247708 original size:31 final size:31
Alignment explanation
Indices: 96247673--96247736 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
96247663 CGTTTACAGT
*
96247673 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
96247704 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
96247735 AA
1 AA
96247737 TATGAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:96250434 original size:41 final size:41
Alignment explanation
Indices: 96250389--96250506 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
96250379 TGAAAGATAA
96250389 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
96250430 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
96250460 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
96250501 ATGTAG
1 ATGTAG
96250507 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:96250445 original size:71 final size:71
Alignment explanation
Indices: 96250357--96250520 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
96250347 GAGATGTATC
96250357 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
96250422 AGGACA
66 AGGACA
96250428 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
96250493 AGGACA
66 AGGACA
96250499 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
96250521 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:96258011 original size:41 final size:41
Alignment explanation
Indices: 96257966--96258083 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
96257956 TGAAAGATAA
96257966 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
96258007 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
96258037 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
96258078 ATGTAG
1 ATGTAG
96258084 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:96258022 original size:71 final size:71
Alignment explanation
Indices: 96257934--96258097 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
96257924 GAGATGTATC
96257934 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
96257999 AGGACA
66 AGGACA
96258005 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
96258070 AGGACA
66 AGGACA
96258076 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
96258098 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:96264006 original size:14 final size:14
Alignment explanation
Indices: 96263987--96264015 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
96263977 TTGTGCATCG
96263987 ACTATCGTCAACTC
1 ACTATCGTCAACTC
96264001 ACTATCGTCAACTC
1 ACTATCGTCAACTC
96264015 A
1 A
96264016 ATAAAGTGAC
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:0.31, C:0.34, G:0.07, T:0.28
Consensus pattern (14 bp):
ACTATCGTCAACTC
Found at i:96272955 original size:31 final size:31
Alignment explanation
Indices: 96272917--96272980 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
96272907 CCTTTTCATA
96272917 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
96272948 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
96272979 TT
1 TT
96272981 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:96273223 original size:24 final size:24
Alignment explanation
Indices: 96273186--96273289 Score: 149
Period size: 24 Copynumber: 4.3 Consensus size: 24
96273176 CTGGACGCCT
*
96273186 AGCCTCTTTTAATAACTGGGGCCA-A
1 AGCC-CTTTCAATAACTGGGG-CATA
96273211 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTCAATAACTGGGGCATA
*
96273235 AGCCCTTT-TATAACTGGGGCATA
1 AGCCCTTTCAATAACTGGGGCATA
*
96273258 AGCCCTTTCGATAACTGGGGCATA
1 AGCCCTTTCAATAACTGGGGCATA
96273282 AGCCCTTT
1 AGCCCTTT
96273290 TTCACTTCCT
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
23 24 0.32
24 46 0.62
25 4 0.05
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (24 bp):
AGCCCTTTCAATAACTGGGGCATA
Found at i:96273251 original size:47 final size:48
Alignment explanation
Indices: 96273186--96273290 Score: 169
Period size: 47 Copynumber: 2.2 Consensus size: 48
96273176 CTGGACGCCT
96273186 AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCAATAACTGGGGCATA
*
96273235 AGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
96273282 AGCCCTTTT
1 AGCCCTTTT
96273291 TCACTTCCTC
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
46 2 0.04
47 43 0.80
48 5 0.09
49 4 0.07
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
Found at i:96273366 original size:20 final size:20
Alignment explanation
Indices: 96273341--96273400 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
96273331 TATGATTACC
96273341 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
96273361 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
96273381 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
96273401 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:96273475 original size:25 final size:25
Alignment explanation
Indices: 96273443--96273490 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
96273433 ATACATAAAC
* * *
96273443 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
96273468 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
96273491 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:96279322 original size:47 final size:47
Alignment explanation
Indices: 96279270--96279369 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 47
96279260 TTAGGATTTT
* * * *
96279270 ATGTGATGAATGTGAACGTGTATTTATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAAGCCGAATGGCCA
* * * *
96279317 ATGTGATGATTGTGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAAGCCGAATGGCCA
96279364 ATGTGA
1 ATGTGA
96279370 AATATATATA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAAGCCGAATGGCCA
Found at i:96279756 original size:37 final size:37
Alignment explanation
Indices: 96279574--96279755 Score: 303
Period size: 37 Copynumber: 4.9 Consensus size: 37
96279564 GGAAATATAT
* *
96279574 TCCGGGTAAGGCCCAATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
96279611 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
96279648 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
96279685 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
96279722 TCCGGGTAAGACCCGATAACCT-CGTGTGGAGATT
1 TCCGGGTAAGACCCGATGA-CTACGTGTGGAGATT
96279756 TCGTCTGAGC
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
37 136 0.99
38 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:96280844 original size:42 final size:42
Alignment explanation
Indices: 96280759--96280850 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
96280749 GCACAGCTCA
* * *
96280759 TGTGAGTAGCATTGTGTAGCTTACATTCAGACCCATAGCTTG
1 TGTGAGCAGCATCGTGTAGCTTACATTCAGAACCATAGCTTG
* *
96280801 TGTGAGCAGCATCGTGTAGCTTATATTC-GAACC-TGCAGGTTG
1 TGTGAGCAGCATCGTGTAGCTTACATTCAGAACCAT--AGCTTG
96280843 TGTGAGCA
1 TGTGAGCA
96280851 AACCCATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
40 1 0.02
41 4 0.09
42 38 0.88
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTGAGCAGCATCGTGTAGCTTACATTCAGAACCATAGCTTG
Found at i:96288241 original size:37 final size:37
Alignment explanation
Indices: 96288141--96288243 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
96288131 CGAATAGTCC
* *
96288141 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
96288178 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
96288215 CCACACGTAGTCATCAGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
96288244 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:96288470 original size:48 final size:48
Alignment explanation
Indices: 96288416--96288772 Score: 624
Period size: 48 Copynumber: 7.4 Consensus size: 48
96288406 GCCGAATCAC
*
96288416 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* **
96288464 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTTGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
96288512 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
96288560 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
96288608 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTGACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
96288656 TAGCCATTCGGCTTTACCACATATACATATCTCATAGATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
96288704 TAGCCATTCGGCTTTACCACATATACATATCTCATAGATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
96288752 TAGCCATTCGGCTTTACCACA
1 TAGCCATTCGGCTTTACCACA
96288773 CACATATATT
Statistics
Matches: 299, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 299 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:96291445 original size:28 final size:29
Alignment explanation
Indices: 96291413--96291511 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
96291403 ATAATAAGCC
*
96291413 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
96291441 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
96291469 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
96291498 CGCACACTTAGTGC
1 CGCACACTTAGTGC
96291512 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:96299449 original size:28 final size:29
Alignment explanation
Indices: 96299417--96299515 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
96299407 ATAATAAGCC
*
96299417 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
96299445 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
96299473 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
96299502 CGCACACTTAGTGC
1 CGCACACTTAGTGC
96299516 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:96302516 original size:84 final size:84
Alignment explanation
Indices: 96302376--96302534 Score: 212
Period size: 84 Copynumber: 1.9 Consensus size: 84
96302366 TGTAACAACT
* * * * *
96302376 CATTTTTTAGTGGTGTTAGAAATAATGGTTTCGGTGCCACCAAATCCAACGGGTAAGTTCATAAA
1 CATTTTTTAGTAGTGTCAGAAACAATGGTTTCGGTGCCAACAAATCCAACGAGTAAGTTCATAAA
96302441 TATTATATTTGTAACGGCC
66 TATTATATTTGTAACGGCC
* * ** *
96302460 CATTTTTTAGTAGTGTCAGAAACAGTGGTTTCGAG-GTCAACAAATCTGACGAGTAAGTTCGTAA
1 CATTTTTTAGTAGTGTCAGAAACAATGGTTTCG-GTGCCAACAAATCCAACGAGTAAGTTCATAA
96302524 ATATTATATTT
65 ATATTATATTT
96302535 AATATTTACG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
84 63 0.98
85 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (84 bp):
CATTTTTTAGTAGTGTCAGAAACAATGGTTTCGGTGCCAACAAATCCAACGAGTAAGTTCATAAA
TATTATATTTGTAACGGCC
Found at i:96303921 original size:25 final size:25
Alignment explanation
Indices: 96303887--96303974 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 25
96303877 AACACACCAC
* * *
96303887 AGCTCTTATGAGCTTACCGATTCTT
1 AGCTCGTATGAGCTTACCAATTCAT
* *
96303912 AGCTCGTATGAGCTTACTAATTCAC
1 AGCTCGTATGAGCTTACCAATTCAT
* * *
96303937 AACTCGTAAGAGCATACCAATTCAT
1 AGCTCGTATGAGCTTACCAATTCAT
96303962 AGCTCGTATGAGC
1 AGCTCGTATGAGC
96303975 ATACATGTAC
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCAATTCAT
Found at i:96304233 original size:18 final size:19
Alignment explanation
Indices: 96304196--96304233 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
96304186 AATTTGATTA
*
96304196 ATTATTGAGTTCATCCATG
1 ATTATTGAGTTCATACATG
*
96304215 ATTATTGA-TTCATATATG
1 ATTATTGAGTTCATACATG
96304233 A
1 A
96304234 ATTTACATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (19 bp):
ATTATTGAGTTCATACATG
Found at i:96314483 original size:23 final size:22
Alignment explanation
Indices: 96314443--96314489 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
96314433 TGCTTATATT
*
96314443 TAAACCAAAACATACCAAATCA
1 TAAACCAAAACATACCAAAACA
*
96314465 TAAACCAAAGTCATACCAAAACA
1 TAAACCAAA-ACATACCAAAACA
96314488 TA
1 TA
96314490 TAATTCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.57, C:0.26, G:0.02, T:0.15
Consensus pattern (22 bp):
TAAACCAAAACATACCAAAACA
Found at i:96322726 original size:49 final size:48
Alignment explanation
Indices: 96322579--96322737 Score: 167
Period size: 49 Copynumber: 3.3 Consensus size: 48
96322569 TTCTTCCCTA
* *** *
96322579 TTTCTCAATCGGTTTCCCTTTGAATTATTGCTTATAGTTCTTTTTCCTC
1 TTTCTCAATCAGTTTCCC-TTGACCGATTGCTTCTAGTTCTTTTTCCTC
* * * **
96322628 TTACCCAATCGGTTTTCTTTTGACCGATTGCTTCTAGTTCTTTTTCCTC
1 TTTCTCAATCAG-TTTCCCTTGACCGATTGCTTCTAGTTCTTTTTCCTC
* * *
96322677 TTTCTCAATCAGTTTCCCTTGACCGGTTGCTTCTTGTTTTTTTTCC-C
1 TTTCTCAATCAGTTTCCCTTGACCGATTGCTTCTAGTTCTTTTTCCTC
*
96322724 TCTCTCAATCAGTT
1 TTTCTCAATCAGTT
96322738 CATTCCAGTC
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 14 0.15
48 29 0.32
49 45 0.49
50 4 0.04
ACGTcount: A:0.13, C:0.26, G:0.11, T:0.50
Consensus pattern (48 bp):
TTTCTCAATCAGTTTCCCTTGACCGATTGCTTCTAGTTCTTTTTCCTC
Found at i:96326043 original size:29 final size:29
Alignment explanation
Indices: 96325988--96326057 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 29
96325978 GCGTAGATCA
96325988 CGAAATTACCCCT-AAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAAGAGCAAAATTAC
96326016 CGAAATTACCCCTAAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAAGAGCAAAATTAC
*
96326045 CGATA-TACCCCTA
1 CGAAATTACCCCTA
96326058 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 21 0.52
29 19 0.47
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (29 bp):
CGAAATTACCCCTAAAAGAGCAAAATTAC
Found at i:96337969 original size:49 final size:49
Alignment explanation
Indices: 96337914--96338026 Score: 163
Period size: 49 Copynumber: 2.3 Consensus size: 49
96337904 CCCTATTTCT
* *
96337914 CAATCGGTTTCCCTTTGAATTATTGCTTATAGTTCTTTTTCCTCTTACC
1 CAATCGGTTTCCCTTTGAATGATTGCTTATAGTTCTTTTTCCACTTACC
* * * * *
96337963 CAATCGGTTTTCTTTTGAATGATTGCTTCTAGTTCTTTTTCCACTTTCT
1 CAATCGGTTTCCCTTTGAATGATTGCTTATAGTTCTTTTTCCACTTACC
96338012 CAATCGGTTTCCCTT
1 CAATCGGTTTCCCTT
96338027 GACCGGTTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.15, C:0.24, G:0.12, T:0.50
Consensus pattern (49 bp):
CAATCGGTTTCCCTTTGAATGATTGCTTATAGTTCTTTTTCCACTTACC
Found at i:96350205 original size:15 final size:16
Alignment explanation
Indices: 96350185--96350232 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
96350175 CATTATGATA
96350185 TTGTATCTTGGATTT-
1 TTGTATCTTGGATTTC
*
96350200 TTGTATCTCAGG-TTTC
1 TTGTATCT-TGGATTTC
96350216 TT-TATCTTGGATTTC
1 TTGTATCTTGGATTTC
96350231 TT
1 TT
96350233 TGTCCCAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.58
Consensus pattern (16 bp):
TTGTATCTTGGATTTC
Found at i:96350224 original size:30 final size:29
Alignment explanation
Indices: 96350188--96350259 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
96350178 TATGATATTG
* **
96350188 TATCTTGGATTTTTGTATCTCAGGTTTCTT
1 TATCTTGGATTTTT-TATCCCAGAATTCTT
*
96350218 TATCTTGGATTTCTTTGTCCCAGAATTCTT
1 TATCTTGGATTT-TTTATCCCAGAATTCTT
96350248 TATCTTGG-TTTT
1 TATCTTGGATTTT
96350260 CATGTCATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 3 0.08
30 31 0.84
31 2 0.05
ACGTcount: A:0.14, C:0.15, G:0.15, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTTTTATCCCAGAATTCTT
Found at i:96354764 original size:58 final size:57
Alignment explanation
Indices: 96354678--96354788 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
96354668 TGAATGTGAC
* * *
96354678 TGGGCCTAACGGGCTATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
96354736 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGATATAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGT
96354789 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 23 0.50
58 23 0.50
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:96354775 original size:28 final size:29
Alignment explanation
Indices: 96354665--96354779 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
96354655 ATGAGCATGA
* * *
96354665 ATATGAATGTGA-CTGGGCCTAACGGGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
96354693 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
96354722 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
96354751 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
96354779 A
1 A
96354780 GATATAGGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 28 0.37
29 47 0.62
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:96358788 original size:25 final size:25
Alignment explanation
Indices: 96358760--96358808 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
96358750 AGGGTTACTG
96358760 ATATTTAGCTCGCATGAGCTTACCA
1 ATATTTAGCTCGCATGAGCTTACCA
*
96358785 ATATTTAGCTCGTATGAGCTTACC
1 ATATTTAGCTCGCATGAGCTTACC
96358809 GTTTATAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (25 bp):
ATATTTAGCTCGCATGAGCTTACCA
Found at i:96364580 original size:151 final size:150
Alignment explanation
Indices: 96364245--96364731 Score: 522
Period size: 151 Copynumber: 3.2 Consensus size: 150
96364235 GTGAGTCACA
* * *
96364245 TGTGTCGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAGGTCGCAAGTGTAGTACTAAGT
* * * * *
96364310 GCAGGCTACTAGGCGTACCCGTTAACTTTGATCACGTGTATAGTACTAAGTGTAGGCTACTACGT
66 GCAGGCTACTATGCATACCTGTTAAC-TTGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGT
* * * * *
96364375 GTATCAGATGGTTCA-ATCACG
130 GTACCAGATTGAT-AGGTCGCG
* *
96364396 TATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCAAGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAGGTCGCAAGTGTAGTACTAAGT
*
96364461 GCAGGCTACTATGCATACCTGTTAACTTCGATCACGTGTGTAGTACTAAATGCAGGCTACTACGT
66 GCAGGCTACTATGCATACCTGTTAACTT-GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGT
96364526 GTACCAGATTGATAGGTCGCG
130 GTACCAGATTGATAGGTCGCG
* * ** * *
96364547 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGA-T-A-ACTTCGATCACGTGTATAGTATT
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAGGTCG--CAAGTG--TAGTACT
** * **
96364609 AAGTGCAGATTACTACGTGTATCAGATGGTTAA---G-TCACGTGTGTAGTACTAAGTGCAGGCT
62 AAGTGCAGGCTACTA--TGCAT-ACCT-GTTAACTTGATCACGTGTGTAGTACTAAGTGCAGGCT
* * * *
96364670 ATTAGGTGTACCAGATTGATAGGCCGCA
123 ACTACGTGTACCAGATTGATAGGTCGCG
* *
96364698 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
96364732 CGTTAAATTC
Statistics
Matches: 293, Mismatches: 33, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
148 4 0.01
149 1 0.00
150 9 0.03
151 248 0.85
152 20 0.07
154 4 0.01
155 2 0.01
156 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (150 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAGGTCGCAAGTGTAGTACTAAGT
GCAGGCTACTATGCATACCTGTTAACTTGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG
TACCAGATTGATAGGTCGCG
Found at i:96364623 original size:51 final size:51
Alignment explanation
Indices: 96364240--96364835 Score: 363
Period size: 50 Copynumber: 11.8 Consensus size: 51
96364230 TCATTGTGAG
* * * * * * *
96364240 TCACATGTGTCGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA-TAACTTCGA
* * * * * *
96364290 TCGCATGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCCGTTAACTTTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * * * * ** *
96364341 TCACGTGTATAGTACTAAGTGTAGGCTACTACGTGTATCAGAT-GGTTCAA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * * * * *
96364391 TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA-TAACTTCGA
* ** * * *
96364441 TCGCAAGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGTTAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * * * * *
96364492 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGA--TAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA-TAACTTCGA
* *
96364542 TCGCGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * ** * * * ** *
96364593 TCACGTGTATAGTATTAAGTGCAGATTACTACGTGTATCAGAT-GGTT-AA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * * * * *
96364642 GTCACGTGTGTAGTACTAAGTGCAGGCTATTAGGTGTACCAGATTGA--TAGG
1 -TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA-TAACTTCGA
* * * * * * *
96364693 CCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGTTAAATTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * * *** * * *
96364744 TCACATGTGTACTACTAAGTCCAGGCTACTACATGTACCAGATTGA--TAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA-TAACTTCGA
* * *
96364794 TCACATGTGTAGTACTAACTGTAGGCTACTATGCGTACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
96364836 GAGCTTCGGT
Statistics
Matches: 414, Mismatches: 116, Indels: 32
0.74 0.21 0.06
Matches are distributed among these distances:
49 9 0.02
50 258 0.62
51 143 0.35
52 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (51 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:96364705 original size:252 final size:252
Alignment explanation
Indices: 96364240--96364832 Score: 936
Period size: 252 Copynumber: 2.4 Consensus size: 252
96364230 TCATTGTGAG
*
96364240 TCACATGTGTCGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
* * * * *
96364305 TAAGTGCAGGCTACTAGGCGTACCCGTTAACTTTGATCACGTGTATAGTACTAAGTGTAGGCTAC
66 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTATAGTACTAAGTGCAGACTAC
96364370 TACGTGTATCAGATGGTTCAATCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT
131 TACGTGTATCAGATGGTTCAATCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT
* * * *
96364435 GATAGGTCGCAAGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGTTAACTTCGA
196 GATAGGCCGCAAGTGTAGTACTAAGTGCAAGCTACTATGCATACCCGTTAAATTCGA
* * *
96364492 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGATAGGTCGCGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
* *
96364557 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTATAGTATTAAGTGCAGATTAC
66 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTATAGTACTAAGTGCAGACTAC
* * *
96364622 TACGTGTATCAGATGGTT-AAGTCACGTGTGTAGTACTAAGTGCAGGCTATTAGGTGTACCAGAT
131 TACGTGTATCAGATGGTTCAA-TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
* *
96364686 TGATAGGCCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGTTAAATTCGA
195 TGATAGGCCGCAAGTGTAGTACTAAGTGCAAGCTACTATGCATACCCGTTAAATTCGA
* * * *
96364744 TCACATGTGTACTACTAAGTCCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
* *
96364809 TAACTGTAGGCTACTATGCGTACC
66 TAAGTGCAGGCTACTATGCGTACC
96364833 AGAGAGCTTC
Statistics
Matches: 311, Mismatches: 29, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
251 2 0.01
252 309 0.99
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (252 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTATAGTACTAAGTGCAGACTAC
TACGTGTATCAGATGGTTCAATCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT
GATAGGCCGCAAGTGTAGTACTAAGTGCAAGCTACTATGCATACCCGTTAAATTCGA
Found at i:96364753 original size:101 final size:100
Alignment explanation
Indices: 96364240--96364834 Score: 491
Period size: 101 Copynumber: 5.9 Consensus size: 100
96364230 TCATTGTGAG
* *
96364240 TCACATGTGTCGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
* * * *
96364305 TAAGTGCAGGCTACTAGGCGTACCCGTTAACTTTGA
66 TAAGTGCAGGCTACTACGCGTACCAGTTGA-TTAGA
* * * * * * * * *
96364341 TCACGTGTATAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTCA-ATCACGTATGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGAT-AGGTCACATGTGTAGTA
* *
96364405 CTAAGTGCAGGCTACTACGTGTACCAGATTGA-TAGG
65 CTAAGTGCAGGCTACTACGCGTACCAG-TTGATTAGA
* * * ** * * * * *
96364441 TCGCAAGTGTAGTACTAAGTGCAGGCTACTATGCATACCTG-TTAACTTCGATCACGTGTGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCACATGTGTAGT
* * *
96364505 ACTAAATGCAGGCTACTACGTGTACCAGATTGA-TAGG
64 ACTAAGTGCAGGCTACTACGCGTACCAG-TTGATTAGA
* * * * * * * * * *
96364542 TCGCGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGA-TAACTTCGATCACGTGTATAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCACATGTGTAGT
* ** * * * *
96364606 ATTAAGTGCAGATTACTACGTGTATCAGATGGTTA-A
64 ACTAAGTGCAGGCTACTACGCGTACCAGTTGATTAGA
* * * * *
96364642 GTCACGTGTGTAGTACTAAGTGCAGGCTATTAGGTGTACCAGATTGATAGGCCGCATGTGTAGTA
1 -TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTA
* * * * *
96364707 CTAAGTGCAAGCTACTATGCGTACCCGTTAAATTCGA
65 CTAAGTGCAGGCTACTACGCGTACCAGTT-GATTAGA
* * *
96364744 TCACATGTGTACTACTAAGTCCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
* * *
96364809 TAACTGTAGGCTACTATGCGTACCAG
66 TAAGTGCAGGCTACTACGCGTACCAG
96364835 AGAGCTTCGG
Statistics
Matches: 401, Mismatches: 82, Indels: 22
0.79 0.16 0.04
Matches are distributed among these distances:
99 1 0.00
100 67 0.17
101 326 0.81
102 7 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCAGTTGATTAGA
Found at i:96364774 original size:151 final size:151
Alignment explanation
Indices: 96364492--96364835 Score: 463
Period size: 151 Copynumber: 2.3 Consensus size: 151
96364482 TTAACTTCGA
* *
96364492 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGATAGGTCGCGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGATAGGCCGCATGTGTAGTAC
* * * * * * *
96364557 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTATAGTATTAAGTGCAGATTAC
66 TAAGTGCAAGCTACTATGCGTACCCGATAAATTCGATCACATGTATACTACTAAGTCCAGACTAC
* * *
96364622 TACGTGTATCAGATGGTTAAG
131 TACATGTACCAGATGGATAAG
* * *
96364643 TCACGTGTGTAGTACTAAGTGCAGGCTATTAGGTGTACCAGATTGATAGGCCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGATAGGCCGCATGTGTAGTAC
* * *
96364708 TAAGTGCAAGCTACTATGCGTACCCGTTAAATTCGATCACATGTGTACTACTAAGTCCAGGCTAC
66 TAAGTGCAAGCTACTATGCGTACCCGATAAATTCGATCACATGTATACTACTAAGTCCAGACTAC
* *
96364773 TACATGTACCAGATTGATAGG
131 TACATGTACCAGATGGATAAG
* * * * *
96364794 TCACATGTGTAGTACTAACTGTAGGCTACTATGCGTACCAGA
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGA
96364836 GAGCTTCGGT
Statistics
Matches: 167, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
151 167 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (151 bp):
TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGATAGGCCGCATGTGTAGTAC
TAAGTGCAAGCTACTATGCGTACCCGATAAATTCGATCACATGTATACTACTAAGTCCAGACTAC
TACATGTACCAGATGGATAAG
Found at i:96365056 original size:16 final size:16
Alignment explanation
Indices: 96365035--96365066 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
96365025 AGAATGGAGT
96365035 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
96365051 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
96365067 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:96366292 original size:13 final size:13
Alignment explanation
Indices: 96366274--96366298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96366264 AAATTGATGT
96366274 TATAATGTGTATC
1 TATAATGTGTATC
96366287 TATAATGTGTAT
1 TATAATGTGTAT
96366299 AAGTATGGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
TATAATGTGTATC
Found at i:96368020 original size:15 final size:15
Alignment explanation
Indices: 96368000--96368038 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
96367990 TTTGATATTG
96368000 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
96368014 TTATCTTGGATTTCTC
1 -TATCTTGGATTTCTC
96368030 TATCTTGGA
1 TATCTTGGA
96368039 GATCCTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 22 0.96
16 1 0.04
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:96371081 original size:50 final size:50
Alignment explanation
Indices: 96370962--96371307 Score: 311
Period size: 50 Copynumber: 6.9 Consensus size: 50
96370952 ATTCGTTGTG
* * * * **
96370962 AGTCACGTGTGTAGTACTAAGTGCAGGCTGCTATGCGTACCCA-TTAACTT-
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGAT-GGTTA
* * * * * *
96371012 CGATCACGTGTGTAATACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
1 AG-TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTA
* * * *
96371063 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTA
* * * * **
96371113 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTT-
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GGTTA
* * *
96371163 CGATCACATGTATAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTA
1 AG-TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTA
* * * *
96371214 AGTCACATGTGTAGTACTAAGTGCAGGATATTATGTGTACCAGATTGATA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTA
* ** * **
96371264 GGTTGCATGTGTAGTACTAAGTGCAAGCTACTATGCATACCAGA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
96371308 GAGCTTCGGT
Statistics
Matches: 242, Mismatches: 48, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
50 168 0.69
51 74 0.31
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTA
Found at i:96371179 original size:101 final size:101
Alignment explanation
Indices: 96371065--96371254 Score: 290
Period size: 101 Copynumber: 1.9 Consensus size: 101
96371055 GATGGTTAAG
* * * *
96371065 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
1 TCACATGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
*
96371130 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
66 TAAGTGCAGGATACTATGCGTACCCGTTAACTTCGA
* * *
96371166 TCACATGTATAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAAGTCACATGTGTAGTAC
1 TCACATGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
* *
96371231 TAAGTGCAGGATATTATGTGTACC
66 TAAGTGCAGGATACTATGCGTACC
96371255 AGATTGATAG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACATGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAGGATACTATGCGTACCCGTTAACTTCGA
Found at i:96371237 original size:151 final size:151
Alignment explanation
Indices: 96370963--96371304 Score: 540
Period size: 151 Copynumber: 2.3 Consensus size: 151
96370953 TTCGTTGTGA
* * * *
96370963 GTCACGTGTGTAGTACTAAGTGCAGGCTGCTATGCGTACCCATTAACTTCGATCACGTGTGTAAT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACATGTATAAT
* * *
96371028 ACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTGCAGGCTA
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACATGTGTAGTACTAAGTGCAGGATA
96371093 CTACGTGTACCAGATTGATAG
131 CTACGTGTACCAGATTGATAG
* *
96371114 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTATAGT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACATGTATAAT
*
96371179 ACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAAGTCACATGTGTAGTACTAAGTGCAGGATA
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACATGTGTAGTACTAAGTGCAGGATA
* *
96371244 TTATGTGTACCAGATTGATAG
131 CTACGTGTACCAGATTGATAG
** * *
96371265 GTTGCATGTGTAGTACTAAGTGCAAGCTACTATGCATACC
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
96371305 AGAGAGCTTC
Statistics
Matches: 175, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 175 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (151 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACATGTATAAT
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACATGTGTAGTACTAAGTGCAGGATA
CTACGTGTACCAGATTGATAG
Found at i:96371528 original size:16 final size:16
Alignment explanation
Indices: 96371507--96371538 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
96371497 AGAATGGAGT
96371507 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
96371523 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
96371539 TTAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:96373599 original size:42 final size:42
Alignment explanation
Indices: 96373529--96373623 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
96373519 TATCCCGGAT
* * * *
96373529 ATGGTCTTACATGAAATATCATATCGATGCCATTTCCC-TGAC
1 ATGGTCTTATACGAAATATCATACCGATGCCATATCCCAT-AC
*
96373571 ATGGTCTTATACGAAATCA-CATACCGATGCCATATCCCATAT
1 ATGGTCTTATACGAAAT-ATCATACCGATGCCATATCCCATAC
96373613 ATGGTCTTATA
1 ATGGTCTTATA
96373624 TGGAATCTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 44 0.96
43 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (42 bp):
ATGGTCTTATACGAAATATCATACCGATGCCATATCCCATAC
Found at i:96374764 original size:11 final size:11
Alignment explanation
Indices: 96374731--96374764 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
96374721 AATTGTACCA
96374731 TAAAAATATAA-
1 TAAAAATA-AAT
96374742 TAAAAATAAAT
1 TAAAAATAAAT
96374753 TAAAAATAAAT
1 TAAAAATAAAT
96374764 T
1 T
96374765 TTCTTATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 2 0.09
11 20 0.91
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAAATAAAT
Found at i:96381046 original size:44 final size:44
Alignment explanation
Indices: 96380993--96381084 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
96380983 CCGAAGTAAT
* * *
96380993 AGTAGCAGTACGACACACATGGTGCCTCATTGACTCGAA-GTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTC-AAGGTCGA
**
96381037 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
96381081 AGTA
1 AGTA
96381085 CCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.22
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:96382324 original size:29 final size:31
Alignment explanation
Indices: 96382292--96382350 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
96382282 TTTATTGTTT
96382292 TATTATTAAAATATAATAA-TAA-TATATAA
1 TATTATTAAAATATAATAAGTAAGTATATAA
***
96382321 TATTATTCTTATATAATAAGTAAGTATATA
1 TATTATTAAAATATAATAAGTAAGTATATA
96382351 TGTAAATTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 3 0.12
31 6 0.24
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (31 bp):
TATTATTAAAATATAATAAGTAAGTATATAA
Found at i:96382472 original size:14 final size:15
Alignment explanation
Indices: 96382445--96382488 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
96382435 ACTTTATTTA
96382445 ATTAATATAAAATAAT
1 ATTAATAT-AAATAAT
96382461 ATTAATAT-AATAAT
1 ATTAATATAAATAAT
96382475 ATTTAAT-TAAATAA
1 A-TTAATATAAATAA
96382489 CAAGTAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.31
15 10 0.38
16 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAATATAAATAAT
Found at i:96390014 original size:16 final size:16
Alignment explanation
Indices: 96389976--96390014 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
96389966 TGAATTATTA
* *
96389976 ATTACAATTTTATTCT
1 ATTACAGTTTTATTCC
96389992 ATTACAGTTTTATTCC
1 ATTACAGTTTTATTCC
96390008 ATTACAG
1 ATTACAG
96390015 CAAATCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (16 bp):
ATTACAGTTTTATTCC
Found at i:96390763 original size:41 final size:40
Alignment explanation
Indices: 96390654--96390862 Score: 181
Period size: 41 Copynumber: 5.1 Consensus size: 40
96390644 ACAAAAATTT
* * *
96390654 TAAAATACAGAGCAATAGCGGCGTCTTAAGG-AAAACGCCAC
1 TAAAA-ACAGAGCAACAGCGGCG-CTTTAGGTAAAACGCCGC
*
96390695 TAAAAACAGAGCAACAGCGGCGTTTTA-GTAAAAAACGCCGC
1 TAAAAACAGAGCAACAGCGGCGCTTTAGGT--AAAACGCCGC
* * *
96390736 TAAAAATAGAG-AATTAGTGGCGCTTTAGGTAAAACGCCGC
1 TAAAAACAGAGCAA-CAGCGGCGCTTTAGGTAAAACGCCGC
* ** * *
96390776 TAAAAACCAGATCATTAGCGGTGCTTTGGGTAAAACGCCGC
1 TAAAAA-CAGAGCAACAGCGGCGCTTTAGGTAAAACGCCGC
* ** * *
96390817 TAAAAACCAGATCATTAGCGGCGCTTTTGGTAAAACGCCTC
1 TAAAAA-CAGAGCAACAGCGGCGCTTTAGGTAAAACGCCGC
96390858 TAAAA
1 TAAAA
96390863 GTCATAAACC
Statistics
Matches: 144, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 3 0.02
40 34 0.24
41 103 0.72
42 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGCAACAGCGGCGCTTTAGGTAAAACGCCGC
Found at i:96390779 original size:81 final size:82
Alignment explanation
Indices: 96390661--96390862 Score: 207
Period size: 82 Copynumber: 2.5 Consensus size: 82
96390651 TTTTAAAATA
* *
96390661 CAGAGCAA-TAGCGGCGTCTTAAGG-AAAACGCCACTAAAAA-CAGAGCAACAGCGGCG-TTTTA
1 CAGAG-AATTAGCGGCG-CTTTAGGTAAAACGCCACTAAAAACCAGAGCAACAGCGGCGCTTTGA
96390722 GTAAAAAACGCCGCTAAAAA-
64 GT--AAAACGCCGCTAAAAAC
* * * * ** * *
96390742 TAGAGAATTAGTGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATCATTAGCGGTGCTTTGGGT
1 CAGAGAATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCAACAGCGGCGCTTTGAGT
96390807 AAAACGCCGCTAAAAAC
66 AAAACGCCGCTAAAAAC
** * *
96390824 CAGATCATTAGCGGCGCTTTTGGTAAAACGCCTCTAAAA
1 CAGAGAATTAGCGGCGCTTTAGGTAAAACGCCACTAAAA
96390863 GTCATAAACC
Statistics
Matches: 100, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
80 8 0.08
81 42 0.42
82 45 0.45
83 5 0.05
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (82 bp):
CAGAGAATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCAACAGCGGCGCTTTGAGT
AAAACGCCGCTAAAAAC
Found at i:96391110 original size:36 final size:39
Alignment explanation
Indices: 96391040--96391115 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 39
96391030 ATAGTTTAAG
* * *
96391040 ATATATGGTTTAGGGTTTAAGCAGGTTTATGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
96391079 ATATATGGTTTAAGATTT-A-C-GGTTTAGGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
96391115 A
1 A
96391116 GTATTTGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.47
37 1 0.03
38 1 0.03
39 16 0.47
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (39 bp):
ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
Found at i:96391392 original size:2 final size:2
Alignment explanation
Indices: 96391385--96391412 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
96391375 GAATATAAAC
96391385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96391413 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.