Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 83 of 103
Found at i:30901607 original size:35 final size:35
Alignment explanation
Indices: 30901563--30901630 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
30901553 ACAAACAATA
*
30901563 AAATTTAAATTTAAATAA-TCAAAAACAAATATCTT
1 AAATATAAATTTAAATAACT-AAAAACAAATATCTT
30901598 AAATATAAATTTAAATAACTAAAAACAAATATC
1 AAATATAAATTTAAATAACTAAAAACAAATATC
30901631 CAAATAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (35 bp):
AAATATAAATTTAAATAACTAAAAACAAATATCTT
Found at i:30901646 original size:34 final size:35
Alignment explanation
Indices: 30901563--30901646 Score: 93
Period size: 35 Copynumber: 2.4 Consensus size: 35
30901553 ACAAACAATA
* * *
30901563 AAATTTAAATTTAAATAATCAAAAACAAATATCTT
1 AAATATAAACTTAAATAATCAAAAACAAATATCTC
*
30901598 AAATATAAATTTAAATAA-CTAAAAACAAATATC-C
1 AAATATAAACTTAAATAATC-AAAAACAAATATCTC
30901632 AAATA-ACAACTTAAA
1 AAATATA-AACTTAAA
30901647 CAACATTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.02
34 13 0.30
35 30 0.68
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (35 bp):
AAATATAAACTTAAATAATCAAAAACAAATATCTC
Found at i:30903328 original size:22 final size:22
Alignment explanation
Indices: 30903299--30903345 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
30903289 GTTTTTTAAA
*
30903299 ATGTAGTTTAA-AATTA-ATCTT
1 ATGTAGTTCAAGAA-TAGATCTT
30903320 ATGTCAGTTCAAGAATAGATCTT
1 ATGT-AGTTCAAGAATAGATCTT
30903343 ATG
1 ATG
30903346 GTTTGGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.18
22 8 0.36
23 10 0.45
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (22 bp):
ATGTAGTTCAAGAATAGATCTT
Found at i:30904055 original size:18 final size:18
Alignment explanation
Indices: 30904020--30904057 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
30904010 GATGCTTAAA
*
30904020 TAAAATTTTAAATTATTT
1 TAAAATTTTAAATAATTT
30904038 TAAAATATTTAAA-AATTT
1 TAAAAT-TTTAAATAATTT
30904056 TA
1 TA
30904058 TTTTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAAATTTTAAATAATTT
Found at i:30904082 original size:22 final size:24
Alignment explanation
Indices: 30904057--30904103 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
30904047 TAAAAATTTT
30904057 ATTTTTTAT-TATATTT-AATTAA
1 ATTTTTTATATATATTTAAATTAA
*
30904079 A-TTTTTATATATTTTTAAATTAA
1 ATTTTTTATATATATTTAAATTAA
30904102 AT
1 AT
30904104 AAATATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.33
22 7 0.33
23 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTTTTATATATATTTAAATTAA
Found at i:30904096 original size:18 final size:20
Alignment explanation
Indices: 30904059--30904099 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
30904049 AAAATTTTAT
30904059 TTTTTATTATATTTAATTAAA
1 TTTTTATTATATTT-ATTAAA
30904080 TTTTTA-TATATTT-TTAAA
1 TTTTTATTATATTTATTAAA
30904098 TT
1 TT
30904100 AAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTATTATATTTATTAAA
Found at i:30904099 original size:23 final size:21
Alignment explanation
Indices: 30904059--30904103 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
30904049 AAAATTTTAT
30904059 TTTTTATTATATTTAATTAAA
1 TTTTTATTATATTTAATTAAA
*
30904080 TTTTTATATATTTTTAAATTAAA
1 TTTTTAT-TATATTT-AATTAAA
30904103 T
1 T
30904104 AAATATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 6 0.29
23 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTATTATATTTAATTAAA
Found at i:30904117 original size:18 final size:18
Alignment explanation
Indices: 30904096--30904138 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30904086 TATATTTTTA
30904096 AATTAAATAAATATTAAT
1 AATTAAATAAATATTAAT
* * *
30904114 AATTAATTAATTATTATT
1 AATTAAATAAATATTAAT
30904132 AATTAAA
1 AATTAAA
30904139 ATATTATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAAATAAATATTAAT
Found at i:30904143 original size:15 final size:15
Alignment explanation
Indices: 30904104--30904151 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 15
30904094 TAAATTAAAT
*
30904104 AAATATTAATAATTA
1 AAATATTATTAATTA
30904119 ATTAATTATTATTAATTA
1 A--AA-TATTATTAATTA
30904137 AAATATTATTAATTA
1 AAATATTATTAATTA
30904152 TTTTATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 13 0.45
16 2 0.07
17 2 0.07
18 12 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATTATTAATTA
Found at i:30904171 original size:25 final size:25
Alignment explanation
Indices: 30904119--30904173 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
30904109 TTAATAATTA
*
30904119 ATTAATTATTATTAATTAAAATATT
1 ATTAATTATTATTAATTAAAATAAT
* *
30904144 ATTAATTATT-TTATATTTATATAAT
1 ATTAATTATTATTA-ATTAAAATAAT
30904169 ATTAA
1 ATTAA
30904174 CATGATATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTAATTATTATTAATTAAAATAAT
Found at i:30904257 original size:26 final size:28
Alignment explanation
Indices: 30904214--30904280 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 28
30904204 TATATAATCA
* *
30904214 TATTATCATATTAAATTAATCTATTA-AGT
1 TATTATCATATT-AATTAATATATCACA-T
30904243 TATTATCATA-T-ATTAATATATCACAT
1 TATTATCATATTAATTAATATATCACAT
30904269 TATTATCA-ATTA
1 TATTATCATATTA
30904281 TGATATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
25 1 0.03
26 20 0.61
27 1 0.03
28 1 0.03
29 10 0.30
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTATCATATTAATTAATATATCACAT
Found at i:30904374 original size:30 final size:30
Alignment explanation
Indices: 30904321--30904391 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
30904311 TAAATATAGA
* *
30904321 ATAATAAA-TTATTTGATTCAAAATAAATAT
1 ATAA-AAATTTATTTAATTCAAAATAAAAAT
* *
30904351 ATAAAATTTTATTTAATTTAAAATAAAAAT
1 ATAAAAATTTATTTAATTCAAAATAAAAAT
30904381 ATAAAAATTTA
1 ATAAAAATTTA
30904392 ATTATATGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
ATAAAAATTTATTTAATTCAAAATAAAAAT
Found at i:30926158 original size:24 final size:24
Alignment explanation
Indices: 30926113--30926164 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
30926103 AAGTGAATTT
* * *
30926113 ATTTCATTTAATACATGTTTTTTC
1 ATTTCATTTAACACATGCTTTTTA
* *
30926137 ATTTCATTTTACATATGCTTTTTA
1 ATTTCATTTAACACATGCTTTTTA
30926161 ATTT
1 ATTT
30926165 ATTATTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.60
Consensus pattern (24 bp):
ATTTCATTTAACACATGCTTTTTA
Found at i:30929259 original size:35 final size:34
Alignment explanation
Indices: 30929211--30929278 Score: 109
Period size: 35 Copynumber: 2.0 Consensus size: 34
30929201 AAGTATGATT
30929211 AATTAAAGATAGTATTTTATTCTAATAAAAAATA
1 AATTAAAGATAGTATTTTATTCTAATAAAAAATA
* *
30929245 AATTAATGTATAGTATTTTATTTTAATAAAAAAT
1 AATTAAAG-ATAGTATTTTATTCTAATAAAAAAT
30929279 TCATAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 7 0.23
35 24 0.77
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (34 bp):
AATTAAAGATAGTATTTTATTCTAATAAAAAATA
Found at i:30933432 original size:24 final size:24
Alignment explanation
Indices: 30933401--30933448 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
30933391 TTTAGATAGA
30933401 TAGTATTTTAAAAACGATTTATAT
1 TAGTATTTTAAAAACGATTTATAT
30933425 TAGTATTTTAAAAACGATTTATAT
1 TAGTATTTTAAAAACGATTTATAT
30933449 GCATGTCGTT
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:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (24 bp):
TAGTATTTTAAAAACGATTTATAT
Found at i:30934464 original size:21 final size:21
Alignment explanation
Indices: 30934438--30934512 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
30934428 AACATGGTCC
30934438 GTAACAATTTTGAACTTGCAT
1 GTAACAATTTTGAACTTGCAT
* *
30934459 GTAACATTTTTGAACATGACAT
1 GTAACAATTTTGAACTTG-CAT
* *
30934481 GTAACATTTTTTGAACATTGCGT
1 GTAACA-ATTTTGAAC-TTGCAT
30934504 GTAATCAAT
1 GTAA-CAAT
30934513 GGCTGACAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 16 0.36
22 9 0.20
23 16 0.36
24 4 0.09
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (21 bp):
GTAACAATTTTGAACTTGCAT
Found at i:30934506 original size:23 final size:22
Alignment explanation
Indices: 30934403--30934507 Score: 92
Period size: 23 Copynumber: 4.8 Consensus size: 22
30934393 AGCATTTTTA
*
30934403 TTGAA-ATGGCATGTAACATGTT
1 TTGAACATTGCATGTAACAT-TT
* * * *
30934425 GTGAACATGGTC-CGTAACAATT
1 TTGAACATTG-CATGTAACATTT
30934447 TTGAAC-TTGCATGTAACATTT
1 TTGAACATTGCATGTAACATTT
30934468 TTGAACA-TGACATGTAACATTTT
1 TTGAACATTG-CATGTAACA-TTT
*
30934491 TTGAACATTGCGTGTAA
1 TTGAACATTGCATGTAA
30934508 TCAATGGCTG
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.01
21 18 0.26
22 20 0.29
23 26 0.38
24 3 0.04
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (22 bp):
TTGAACATTGCATGTAACATTT
Found at i:30934898 original size:32 final size:32
Alignment explanation
Indices: 30934862--30934933 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
30934852 TTCGGCTGTG
30934862 TATGTCACCATTAAGGAACGCCAAACAAATGT
1 TATGTCACCATTAAGGAACGCCAAACAAATGT
*
30934894 TATGTCACCATTAAGGAACTCCAAACAAATGT
1 TATGTCACCATTAAGGAACGCCAAACAAATGT
30934926 TATGTCAC
1 TATGTCAC
30934934 ATGAAGAAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (32 bp):
TATGTCACCATTAAGGAACGCCAAACAAATGT
Found at i:30935246 original size:21 final size:21
Alignment explanation
Indices: 30935222--30935266 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
30935212 CTTGAGGACA
* *
30935222 ACACTATGACGTTGGAGGGGG
1 ACACTACGACGTTGAAGGGGG
*
30935243 ACACTACGACGTTGAAGGGTG
1 ACACTACGACGTTGAAGGGGG
30935264 ACA
1 ACA
30935267 TTGCATCTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.36, T:0.18
Consensus pattern (21 bp):
ACACTACGACGTTGAAGGGGG
Found at i:30938381 original size:76 final size:75
Alignment explanation
Indices: 30938282--30938423 Score: 185
Period size: 76 Copynumber: 1.9 Consensus size: 75
30938272 CCACACGCTC
* * *
30938282 CAATTCTTAGATGTCGATGACATCTTGTGGTGACAAGCTAAGTGGTAGTAGTATTATGGGGTGAC
1 CAATTCTTAGATGTCGATAACATCTTGTGGTGACAAGCTAAGTAGTAGCAGTATTAT-GGGTGAC
30938347 ACAGTACGCCT
65 ACAGTACGCCT
* * * * * * *
30938358 CAATTGTTTGATGTCTATAACATCTTGTGGTGACATGTTGAGTAGTCGCAGTATTATGGGTGACA
1 CAATTCTTAGATGTCGATAACATCTTGTGGTGACAAGCTAAGTAGTAGCAGTATTATGGGTGACA
30938423 C
66 C
30938424 GCTGAGTGGT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
75 9 0.16
76 47 0.84
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (75 bp):
CAATTCTTAGATGTCGATAACATCTTGTGGTGACAAGCTAAGTAGTAGCAGTATTATGGGTGACA
CAGTACGCCT
Found at i:30938504 original size:106 final size:106
Alignment explanation
Indices: 30938310--30938523 Score: 249
Period size: 106 Copynumber: 2.0 Consensus size: 106
30938300 GACATCTTGT
*
30938310 GGTGACAAGCTAAGTGGTAGTAGTATTATGGGGTGACACAGTACGCCTCAATTGTTTGATGTCTA
1 GGTGACAAGCTAAGTGGTAGTAGTATTATGGGGTGACACAGTACGCCTCAATTGTTAGATGTCTA
** * *
30938375 TAACATCTTGTGGTGACATGTTGAGTAGTCGCAGTATTATG
66 TAACATCTTAAGGGGACACGTTGAGTAGTCGCAGTATTATG
* * *
30938416 GGTGACACGCTGAGTGGTAGTAGTATTA-GGGAGTGATAC-GCCTCAC-CC-CAATTGTTAGATG
1 GGTGACAAGCTAAGTGGTAGTAGTATTATGGG-GTGACACAG--T-ACGCCTCAATTGTTAGATG
* * *
30938477 T-TAATGACATCTTAAGGGGACACGTTGAGTGGTTGCAGTATTATG
62 TCT-ATAACATCTTAAGGGGACACGTTGAGTAGTCGCAGTATTATG
30938522 GG
1 GG
30938524 GTGGCATGCC
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
105 5 0.05
106 82 0.89
107 3 0.03
108 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (106 bp):
GGTGACAAGCTAAGTGGTAGTAGTATTATGGGGTGACACAGTACGCCTCAATTGTTAGATGTCTA
TAACATCTTAAGGGGACACGTTGAGTAGTCGCAGTATTATG
Found at i:30938666 original size:62 final size:62
Alignment explanation
Indices: 30938568--30938695 Score: 186
Period size: 62 Copynumber: 2.1 Consensus size: 62
30938558 GACATCTTGT
* * *
30938568 GGTGACACGTTGAGTGGTTGTAGTGTTATGGAGTGACACATTGAGTGCTTGCAGTATTATGA
1 GGTGACACATTGAGTGGTTGTAGTATTATGGAGTGACACATTAAGTGCTTGCAGTATTATGA
* * *
30938630 GGTGACACATTGAGTGGTTGTAGTATTATAGG-GTGACACGTTAAGTGTTTGCAGTATTATGG
1 GGTGACACATTGAGTGGTTGTAGTATTAT-GGAGTGACACATTAAGTGCTTGCAGTATTATGA
30938692 GGTG
1 GGTG
30938696 GCATGCCACG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 57 0.97
63 2 0.03
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (62 bp):
GGTGACACATTGAGTGGTTGTAGTATTATGGAGTGACACATTAAGTGCTTGCAGTATTATGA
Found at i:30938695 original size:31 final size:31
Alignment explanation
Indices: 30938568--30938695 Score: 157
Period size: 31 Copynumber: 4.1 Consensus size: 31
30938558 GACATCTTGT
* * *
30938568 GGTGACACGTTGAGTGGTTGTAGTGTTATGG
1 GGTGACACATTGAGTGGTTGCAGTATTATGG
* * *
30938599 AGTGACACATTGAGTGCTTGCAGTATTATGA
1 GGTGACACATTGAGTGGTTGCAGTATTATGG
* *
30938630 GGTGACACATTGAGTGGTTGTAGTATTATAG
1 GGTGACACATTGAGTGGTTGCAGTATTATGG
* * *
30938661 GGTGACACGTTAAGTGTTTGCAGTATTATGG
1 GGTGACACATTGAGTGGTTGCAGTATTATGG
30938692 GGTG
1 GGTG
30938696 GCATGCCACG
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (31 bp):
GGTGACACATTGAGTGGTTGCAGTATTATGG
Found at i:30938781 original size:31 final size:31
Alignment explanation
Indices: 30938739--30938807 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
30938729 CATCTTGTGG
* * * *
30938739 TGACACACTGAGTTGTCGCAGTATTATGGGA
1 TGACACGCTGAGTGGTAGCAGTATTATGAGA
30938770 TGACACGCTGAGTGGTAGCAGTATTATGAGA
1 TGACACGCTGAGTGGTAGCAGTATTATGAGA
30938801 TGACACG
1 TGACACG
30938808 TTGCACCCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (31 bp):
TGACACGCTGAGTGGTAGCAGTATTATGAGA
Found at i:30938793 original size:169 final size:168
Alignment explanation
Indices: 30938491--30938806 Score: 427
Period size: 169 Copynumber: 1.9 Consensus size: 168
30938481 TGACATCTTA
* * * * * *
30938491 AGGGGACACGTTGAGTGGTTGCAGTATTATGGGGTGGCATGCCATGGCCCAATCGTTAGACGTCA
1 AGGGGACACGTTAAGTGGTTGCAGTATTATGGGGTGGCATGCCACGACCCAATCATAAGACATCA
** * * * * *
30938556 ATGACATCTTGTGGTGACACGTTGAGTGGTTGTAGTGTTATGGAGTGACACATTGAGTGCTTGCA
66 ATGACATCTTGTGGTGACACACTGAGTGGTCGCAGTATTATGGAGTGACACACTGAGTGCTAGCA
*
30938621 GTATTATGAGGTGACACATTGAGTGGTTGTAGTATTAT
131 GTATTATGAGATGACACATTGAGTGGTTGTAGTATTAT
* * *
30938659 AGGGTGACACGTTAAGTGTTTGCAGTATTATGGGGTGGCATGCCACGACCCAATTATAAGATATC
1 AGGG-GACACGTTAAGTGGTTGCAGTATTATGGGGTGGCATGCCACGACCCAATCATAAGACATC
* * *
30938724 AATGACATCTTGTGGTGACACACTGAGTTGTCGCAGTATTATGG-GATGACACGCTGAGTGGTAG
65 AATGACATCTTGTGGTGACACACTGAGTGGTCGCAGTATTATGGAG-TGACACACTGAGTGCTAG
30938788 CAGTATTATGAGATGACAC
129 CAGTATTATGAGATGACAC
30938807 GTTGCACCCC
Statistics
Matches: 126, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
168 5 0.04
169 121 0.96
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.30
Consensus pattern (168 bp):
AGGGGACACGTTAAGTGGTTGCAGTATTATGGGGTGGCATGCCACGACCCAATCATAAGACATCA
ATGACATCTTGTGGTGACACACTGAGTGGTCGCAGTATTATGGAGTGACACACTGAGTGCTAGCA
GTATTATGAGATGACACATTGAGTGGTTGTAGTATTAT
Found at i:30943164 original size:31 final size:31
Alignment explanation
Indices: 30943097--30943166 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
30943087 AAGTAAAATA
* *
30943097 TTGTTACATGCTAAACATAGCAGGTCAAATG
1 TTGTTACATGCTAAACATAGCAAGTCAAAAG
* * * * *
30943128 CTGTTACATTCTAAGCATATCAAGTTAAAAG
1 TTGTTACATGCTAAACATAGCAAGTCAAAAG
30943159 TTGTTACA
1 TTGTTACA
30943167 CACCAACATT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (31 bp):
TTGTTACATGCTAAACATAGCAAGTCAAAAG
Found at i:30943329 original size:86 final size:87
Alignment explanation
Indices: 30943180--30943366 Score: 263
Period size: 86 Copynumber: 2.2 Consensus size: 87
30943170 CAACATTGAG
* * *
30943180 TAATGTGGTGACATGCCAACCATGCCATGTCGTGACACGTCAATCACTATAATTATTGTCTCGTT
1 TAATGTGGTGACATGCCAACCATGCCATATCGTAACACGTCAATCACTATAATTATTGACTCGTT
*
30943245 ACACGAATTG-CCTTAAAATACC
66 ACACGAACTGTCC-TAAAATACC
* *
30943267 TAATGTGGTGACATGTCAATCATGCC-TATCGTAACAC-TCCAATCACTATAATTATTGACTCGT
1 TAATGTGGTGACATGCCAACCATGCCATATCGTAACACGT-CAATCACTATAATTATTGACTCGT
* *
30943330 TACATGAACTGTCCTACAATACC
65 TACACGAACTGTCCTAAAATACC
30943353 TAATGTGGTGACAT
1 TAATGTGGTGACAT
30943367 TCTAAAAACA
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
85 1 0.01
86 63 0.70
87 26 0.29
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (87 bp):
TAATGTGGTGACATGCCAACCATGCCATATCGTAACACGTCAATCACTATAATTATTGACTCGTT
ACACGAACTGTCCTAAAATACC
Found at i:30943979 original size:23 final size:23
Alignment explanation
Indices: 30943911--30943992 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 23
30943901 TATGTTCACG
*
30943911 ATGCCGTGTCACACGATT-CCAAC
1 ATGCCGTGTCACAC-ATTCCCACC
* * * *
30943934 ATGCCCTGTCATATATTCTCACC
1 ATGCCGTGTCACACATTCCCACC
*
30943957 ATGCTGTGTCACACATTCCCACC
1 ATGCCGTGTCACACATTCCCACC
* *
30943980 ATGGCATGTCACA
1 ATGCCGTGTCACA
30943993 AACTCAAAAC
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
22 3 0.07
23 42 0.93
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (23 bp):
ATGCCGTGTCACACATTCCCACC
Found at i:30944067 original size:23 final size:23
Alignment explanation
Indices: 30944007--30944069 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
30943997 CAAAACCCTA
* *
30944007 CCGTGTCACATATTCTCACTGTG
1 CCGTGTCACACATTCTCACTCTG
* * *
30944030 TCGTCTCATACATTCTCACTCTG
1 CCGTGTCACACATTCTCACTCTG
*
30944053 CCGTGTCACAGATTCTC
1 CCGTGTCACACATTCTC
30944070 TCCACGGAGT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.17, C:0.33, G:0.14, T:0.35
Consensus pattern (23 bp):
CCGTGTCACACATTCTCACTCTG
Found at i:30944108 original size:24 final size:24
Alignment explanation
Indices: 30944078--30944133 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
30944068 TCTCCACGGA
30944078 GTGTCACAAACTCTGAACCCTGCC
1 GTGTCACAAACTCTGAACCCTGCC
* *
30944102 GTGTCACAAACTTTGAATCCTGCC
1 GTGTCACAAACTCTGAACCCTGCC
30944126 GTGTCACA
1 GTGTCACA
30944134 GTCGTGTCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (24 bp):
GTGTCACAAACTCTGAACCCTGCC
Found at i:30944293 original size:23 final size:23
Alignment explanation
Indices: 30944242--30944346 Score: 103
Period size: 23 Copynumber: 4.7 Consensus size: 23
30944232 ATCATAGCCG
* * *
30944242 TGTCACATATGCTCACCATGCCG
1 TGTCACATATTCTCACCATGGCA
*
30944265 TCTCACATATTCTCACCATGGCA
1 TGTCACATATTCTCACCATGGCA
*
30944288 TGTCACATATTCAT-ACCATGGCG
1 TGTCACATATTC-TCACCATGGCA
30944311 TGTCAC--ATTCTCA-CATTGG-A
1 TGTCACATATTCTCACCA-TGGCA
30944331 GTGTCACATATTCTCA
1 -TGTCACATATTCTCA
30944347 TCATTTTGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
20 3 0.04
21 14 0.20
23 51 0.74
24 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (23 bp):
TGTCACATATTCTCACCATGGCA
Found at i:30944428 original size:46 final size:45
Alignment explanation
Indices: 30944242--30944430 Score: 129
Period size: 46 Copynumber: 4.2 Consensus size: 45
30944232 ATCATAGCCG
* *
30944242 TGTCACATATGCTCACCATGCCGTCTCACATATTCTCAC-CATGGCA
1 TGTCACATATTCTCACCATGTCGTCTCACATATT-TC-CTCATGGCA
* * * *
30944288 TGTCACATATTCAT-ACCATGGCGTGTCACAT-TCT-CACATTGG-A
1 TGTCACATATTC-TCACCATGTCGTCTCACATATTTCCTCA-TGGCA
* * * * * * *
30944331 GTGTCACATATTCTCATCATTTTGTCTCGCATATTTGCTCCA-AGCTG
1 -TGTCACATATTCTCACCATGTCGTCTCACATATTTCCT-CATGGC-A
* *
30944378 TGTCACATATTCTCACCGTGTCGTGTCACATATTTCCTCTATGGCA
1 TGTCACATATTCTCACCATGTCGTCTCACATATTTCCTC-ATGGCA
30944424 TGTCACA
1 TGTCACA
30944431 AACTCCAAAT
Statistics
Matches: 108, Mismatches: 23, Indels: 24
0.70 0.15 0.15
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 27 0.25
45 5 0.05
46 66 0.61
47 5 0.05
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (45 bp):
TGTCACATATTCTCACCATGTCGTCTCACATATTTCCTCATGGCA
Found at i:30944511 original size:23 final size:23
Alignment explanation
Indices: 30944485--30944534 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
30944475 CATGACGTGC
**
30944485 CACACATTCCCACTATTTCATGT
1 CACACATTCCCACTATGCCATGT
*
30944508 CACACATTCCCATTATGCCATGT
1 CACACATTCCCACTATGCCATGT
30944531 CACA
1 CACA
30944535 AACTCTAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.36, G:0.06, T:0.30
Consensus pattern (23 bp):
CACACATTCCCACTATGCCATGT
Found at i:30946273 original size:23 final size:23
Alignment explanation
Indices: 30946228--30946274 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
30946218 TGGCATATCT
*
30946228 CGACACTGATGCATGGCGTGTCA
1 CGACACTGATGCATGGCGCGTCA
*
30946251 CGACACTGATGCATGGTGCGTCA
1 CGACACTGATGCATGGCGCGTCA
30946274 C
1 C
30946275 AACATTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.28, G:0.30, T:0.21
Consensus pattern (23 bp):
CGACACTGATGCATGGCGCGTCA
Found at i:30946305 original size:31 final size:31
Alignment explanation
Indices: 30946259--30946549 Score: 282
Period size: 31 Copynumber: 9.4 Consensus size: 31
30946249 CACGACACTG
* * * *
30946259 ATGCATGGTGCGTCACAACATTTGAC-TTGAT
1 ATGCATGGCGTGTTACAACATTTTACGTT-AT
* ** *
30946290 ATGCATGGCGTGTCACGGCATTTAACGTTAT
1 ATGCATGGCGTGTTACAACATTTTACGTTAT
* * **
30946321 ATGTA-GGCGTGTTACCACATTTTATATTAT
1 ATGCATGGCGTGTTACAACATTTTACGTTAT
* * * *
30946351 ATGCATGGCGTGTCACCACATTTTTCGTTAA
1 ATGCATGGCGTGTTACAACATTTTACGTTAT
* * *
30946382 ATGCATGACGTGTTACTACATTTTACATTAT
1 ATGCATGGCGTGTTACAACATTTTACGTTAT
* * *
30946413 ATGCATGGTGTGTTACCACATTTTACGCTAT
1 ATGCATGGCGTGTTACAACATTTTACGTTAT
* *
30946444 ATGCATGGCGTGTTACAACATGTTATGTTAT
1 ATGCATGGCGTGTTACAACATTTTACGTTAT
* * * *
30946475 ATTCATGGTGTGTAATC-ATATTTTACGTTAT
1 ATGCATGGCGTGTTA-CAACATTTTACGTTAT
*
30946506 ATGCATGGTGTGTTACAACATTTTACGTTAT
1 ATGCATGGCGTGTTACAACATTTTACGTTAT
30946537 ATGCATGGCGTGT
1 ATGCATGGCGTGT
30946550 AACAGCATGA
Statistics
Matches: 212, Mismatches: 44, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
30 24 0.11
31 185 0.87
32 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (31 bp):
ATGCATGGCGTGTTACAACATTTTACGTTAT
Found at i:30946419 original size:62 final size:62
Alignment explanation
Indices: 30946259--30946549 Score: 316
Period size: 62 Copynumber: 4.7 Consensus size: 62
30946249 CACGACACTG
* * * * ** *
30946259 ATGCATGGTGCGTCACAACATTTGAC-TTGATATGCATGGCGTGTCACGGCATTTAACGTTAT
1 ATGCATGGCGTGTTACAACATTTTACATT-ATATGCATGGCGTGTCACCACATTTTACGTTAT
* * * * *
30946321 ATGTA-GGCGTGTTACCACATTTTATATTATATGCATGGCGTGTCACCACATTTTTCGTTAA
1 ATGCATGGCGTGTTACAACATTTTACATTATATGCATGGCGTGTCACCACATTTTACGTTAT
* * * * *
30946382 ATGCATGACGTGTTACTACATTTTACATTATATGCATGGTGTGTTACCACATTTTACGCTAT
1 ATGCATGGCGTGTTACAACATTTTACATTATATGCATGGCGTGTCACCACATTTTACGTTAT
* ** * * * * *
30946444 ATGCATGGCGTGTTACAACATGTTATGTTATATTCATGGTGTGTAATCATATTTTACGTTAT
1 ATGCATGGCGTGTTACAACATTTTACATTATATGCATGGCGTGTCACCACATTTTACGTTAT
* *
30946506 ATGCATGGTGTGTTACAACATTTTACGTTATATGCATGGCGTGT
1 ATGCATGGCGTGTTACAACATTTTACATTATATGCATGGCGTGT
30946550 AACAGCATGA
Statistics
Matches: 191, Mismatches: 36, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
61 46 0.24
62 145 0.76
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (62 bp):
ATGCATGGCGTGTTACAACATTTTACATTATATGCATGGCGTGTCACCACATTTTACGTTAT
Found at i:30951924 original size:31 final size:31
Alignment explanation
Indices: 30951889--30952004 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
30951879 AAAAAGAAAT
*
30951889 AAATGTTGTAACACGCCATGCATATCAAGTA
1 AAATGTTGTAACACACCATGCATATCAAGTA
*
30951920 AAATGTTGTAACACGCCATGCATATCAAGTA
1 AAATGTTGTAACACACCATGCATATCAAGTA
* *
30951951 AAATATTGTAACACACCATGCATATCAAGTC
1 AAATGTTGTAACACACCATGCATATCAAGTA
* *
30951982 AAATGTCGTGACACACCATGCAT
1 AAATGTTGTAACACACCATGCAT
30952005 TAGTGTCGTG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.25
Consensus pattern (31 bp):
AAATGTTGTAACACACCATGCATATCAAGTA
Found at i:30952238 original size:111 final size:110
Alignment explanation
Indices: 30952051--30952302 Score: 254
Period size: 111 Copynumber: 2.3 Consensus size: 110
30952041 TCGTTACACC
* * ** * * * *
30952051 AACAGCCGTGACACGTTAAAAACCTAAAAAACTAGTTTACCCACAACATGCTAGGAACACCTGTG
1 AACAACCGTGACACGCTAAAAACAAAAAAAACTAGTTAACCAACAACAAGCTAGGAACACCTGTA
* * * ** *
30952116 CCACGCCAAAAACCCATAAATCCAATTAACCCATGACACGCTAGG
66 ACACGCCAAAAACCCAAAAAACCAATTAACCCACAACAAGCTAGG
* *
30952161 AACAACTGTGACACGCTAAAAACAAAAAAAAACTAGTTAACCAACACCAAGCTAGGAACAACC-G
1 AACAACCGTGACACGCTAAAAAC-AAAAAAAACTAGTTAACCAACAACAAGCTAGGAAC-ACCTG
** * * *
30952225 TAACACGTTAAAAATCCAAAAAACCAGTTAACCCACAACAAGTTAGG
64 TAACACGCCAAAAACCCAAAAAACCAATTAACCCACAACAAGCTAGG
* * *
30952272 AACAACCGTAACATGCTAAAAATCCAAAAAA
1 AACAACCGTGACACGCTAAAAA-CAAAAAAA
30952303 CCAATTAACC
Statistics
Matches: 114, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
110 20 0.18
111 90 0.79
112 4 0.04
ACGTcount: A:0.47, C:0.27, G:0.12, T:0.15
Consensus pattern (110 bp):
AACAACCGTGACACGCTAAAAACAAAAAAAACTAGTTAACCAACAACAAGCTAGGAACACCTGTA
ACACGCCAAAAACCCAAAAAACCAATTAACCCACAACAAGCTAGG
Found at i:30952272 original size:55 final size:54
Alignment explanation
Indices: 30952051--30952318 Score: 241
Period size: 55 Copynumber: 4.9 Consensus size: 54
30952041 TCGTTACACC
* * * * *
30952051 AACAGCCGTGACACGTTAAAAACCTAAAAAACTAGTTTACCCACAACATGCTAGG
1 AACAACCGTGACACGCTAAAAACC-AAAAAACCAGTTAACCCACAACAAGCTAGG
* * * * * ** *
30952106 AAC-ACCTGTGCCACGCCAAAAACCCATAAATCCAATTAACCCATGACACGCTAGG
1 AACAACC-GTGACACGCTAAAAA-CCAAAAAACCAGTTAACCCACAACAAGCTAGG
* * * * *
30952161 AACAACTGTGACACGCTAAAAACAAAAAAAAACTAGTTAACCAACACCAAGCTAGG
1 AACAACCGTGACACGCTAAAAAC--CAAAAAACCAGTTAACCCACAACAAGCTAGG
* * *
30952217 AACAACCGTAACACGTTAAAAATCCAAAAAACCAGTTAACCCACAACAAGTTAGG
1 AACAACCGTGACACGCTAAAAA-CCAAAAAACCAGTTAACCCACAACAAGCTAGG
* * * *
30952272 AACAACCGTAACATGCTAAAAATCCAAAAAACCAATTAACCTACAAC
1 AACAACCGTGACACGCTAAAAA-CCAAAAAACCAGTTAACCCACAAC
30952319 GCACCATATG
Statistics
Matches: 170, Mismatches: 37, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
54 3 0.02
55 122 0.72
56 44 0.26
57 1 0.01
ACGTcount: A:0.47, C:0.27, G:0.11, T:0.15
Consensus pattern (54 bp):
AACAACCGTGACACGCTAAAAACCAAAAAACCAGTTAACCCACAACAAGCTAGG
Found at i:30952573 original size:23 final size:23
Alignment explanation
Indices: 30952547--30952601 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
30952537 CTCACCGTGT
30952547 CGTGTCACAGATTCCCTCCATGG
1 CGTGTCACAGATTCCCTCCATGG
* *
30952570 CGTGTCATAGATTCCCTCTATGG
1 CGTGTCACAGATTCCCTCCATGG
*
30952593 CTTGTCACA
1 CGTGTCACA
30952602 TACTCTAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.18, C:0.31, G:0.20, T:0.31
Consensus pattern (23 bp):
CGTGTCACAGATTCCCTCCATGG
Found at i:30952761 original size:81 final size:81
Alignment explanation
Indices: 30952655--30953111 Score: 280
Period size: 81 Copynumber: 5.7 Consensus size: 81
30952645 CTGCGTCGTT
* * * * * *
30952655 TCACACATTCTGACCCTGCCATGTCACACGTTCTGACCATGGCGTGTCTCACACTCTAAACATTG
1 TCACATATTCTCACCGTGCCGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACACTG
* *
30952720 CCGTGTCACACCTGTC
66 TCGTGTCACACCCGTC
* * * ***** * *
30952736 CCACATATTCTCACAGTGCCGTGTCATA-GATTCCCTTTATGACGTGTCACACACTCTAAACCCT
1 TCACATATTCTCACCGTGCCGTGTCACACG-TTCTGACCATGGCGTGTCACACACTCTAAACACT
* *
30952800 GTCGTGTCTCACCCGTG
65 GTCGTGTCACACCCGTC
* * * ** * * * * * * *
30952817 TCAAATATTATCACCGTGCCGTTTCACACACTATGACCCTGCCTTGTCACACTCGTGTCAAACAT
1 TCACATATTCTCACCGTGCCGTGTCACACGTTCTGACCATGGCGTGTCACACAC-TCT-AAACAC
* * ** *
30952882 TATCATTGTGTCA----TT
64 TGTC-GTGTCACACCCGTC
* * * * * * * * * * *
30952897 TTACACATTATGACCTTACCGTGTCACACGTTCTAACCATGGCATGTCCCACAATTTAAACACTG
1 TCACATATTCTCACCGTGCCGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACACTG
30952962 TCGTGTCACACCCGTC
66 TCGTGTCACACCCGTC
* * ** *
30952978 CCACATATTCTCACCGTGCCGTGTCATA-GATTCTTTCCATGGCGTGTCACACACTCTAAACCCT
1 TCACATATTCTCACCGTGCCGTGTCACACG-TTCTGACCATGGCGTGTCACACACTCTAAACACT
*
30953042 GTCATGTCACACCCGTC
65 GTCGTGTCACACCCGTC
* * * **
30953059 TCACATATTCTCACCATGACGTGTCACACATTCCCACCAT-GCTGTGTCACACA
1 TCACATATTCTCACCGTGCCGTGTCACACGTTCTGACCATGGC-GTGTCACACA
30953112 TTCCCACCAT
Statistics
Matches: 271, Mismatches: 93, Indels: 24
0.70 0.24 0.06
Matches are distributed among these distances:
77 5 0.02
78 8 0.03
79 2 0.01
80 42 0.15
81 199 0.73
82 2 0.01
83 7 0.03
84 6 0.02
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (81 bp):
TCACATATTCTCACCGTGCCGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACACTG
TCGTGTCACACCCGTC
Found at i:30952784 original size:104 final size:104
Alignment explanation
Indices: 30952476--30952787 Score: 261
Period size: 104 Copynumber: 3.0 Consensus size: 104
30952466 TGTCAAACAT
* * ** **
30952476 GTTCTGACCATGGCGTGTCCCACGCTCTAAATGTTATCGTGTCACACCTGTCCCACATATTCTCA
1 GTTCTGACCATGGCGTGTCACACACTCTAAACATTGCCGTGTCACACCTGTCCCACATATTCTCA
* * *
30952541 CCGTGTCGTGTCACAGATTCCCTCCATGGCGTGTCATA-
66 CAGTGTCGTGTCACAGATTCCCTCCATGACGTGTCACAC
*** * * * ** * * *
30952579 GATTCCCTCTATGGCTTGTCACATACTCTAAACCCTGCCATGTCACACACGTGT--CAAATATTA
1 G-TTCTGACCATGGCGTGTCACACACTCTAAACATTGCCGTGTCACAC-C-TGTCCCACATATTC
* * * * *** * * *
30952642 TCACTGCGTCGTTTCACACATTCTGACCCTGCCATGTCACAC
63 TCACAGTGTCGTGTCACAGATTCCCTCCATGACGTGTCACAC
*
30952684 GTTCTGACCATGGCGTGTCTCACACTCTAAACATTGCCGTGTCACACCTGTCCCACATATTCTCA
1 GTTCTGACCATGGCGTGTCACACACTCTAAACATTGCCGTGTCACACCTGTCCCACATATTCTCA
* * **
30952749 CAGTGCCGTGTCATAGATTCCCTTTATGACGTGTCACAC
66 CAGTGTCGTGTCACAGATTCCCTCCATGACGTGTCACAC
30952788 ACTCTAAACC
Statistics
Matches: 150, Mismatches: 53, Indels: 11
0.70 0.25 0.05
Matches are distributed among these distances:
102 3 0.02
103 2 0.01
104 140 0.93
105 2 0.01
106 3 0.02
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (104 bp):
GTTCTGACCATGGCGTGTCACACACTCTAAACATTGCCGTGTCACACCTGTCCCACATATTCTCA
CAGTGTCGTGTCACAGATTCCCTCCATGACGTGTCACAC
Found at i:30952903 original size:57 final size:57
Alignment explanation
Indices: 30952795--30952925 Score: 145
Period size: 57 Copynumber: 2.3 Consensus size: 57
30952785 CACACTCTAA
* * * *
30952795 ACCCTGTCGTGTCTCACCCGTGTCAAATATTATCACCGTGCCGTTTCACACACTATG
1 ACCCTGCCGTGTCACACCCGTGTCAAACATTATCACCGTGCCATTTCACACACTATG
* * ** * * *
30952852 ACCCTGCCTTGTCACACTCGTGTCAAACATTATCATTGTGTCATTTTACACATTATG
1 ACCCTGCCGTGTCACACCCGTGTCAAACATTATCACCGTGCCATTTCACACACTATG
* *
30952909 ACCTTACCGTGTCACAC
1 ACCCTGCCGTGTCACAC
30952926 GTTCTAACCA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (57 bp):
ACCCTGCCGTGTCACACCCGTGTCAAACATTATCACCGTGCCATTTCACACACTATG
Found at i:30952938 original size:242 final size:241
Alignment explanation
Indices: 30952610--30953088 Score: 663
Period size: 242 Copynumber: 2.0 Consensus size: 241
30952600 CATACTCTAA
* * * *
30952610 ACCCTGCCATGTCACACACGTGTCAAATATTATCACTGCGTCGTTTCACACATTCTGACCCTGCC
1 ACCCTGCCATGTCACACACGTGTCAAACATTATCACTGCGTCATTTCACACATTATGACCCTACC
* * * * * *
30952675 ATGTCACACGTTCTGACCATGGCGTGTCTCACACTCTAAACATTGCCGTGTCACACCTGTCCCAC
66 ATGTCACACGTTCTAACCATGGCATGTCCCACAATCTAAACACTGCCGTGTCACACCCGTCCCAC
*
30952740 ATATTCTCACAGTGCCGTGTCATAGATTCCCTTT-ATGACGTGTCACACACTCTAAACCCTGTCG
131 ATATTCTCACAGTGCCGTGTCATAGATT--CTTTCATGACGTGTCACACACTCTAAACCCTGTCA
* * * * *
30952804 TGTCTCACCCGTGTCAAATATTATCACCGTGCCGTTTCACACACTATG
194 TGTCACACCCGTCTCAAATATTATCACCATGACGTGTCACACACTATG
* * * * * *
30952852 ACCCTGCCTTGTCACACTCGTGTCAAACATTATCATTGTGTCATTTTACACATTATGACCTTACC
1 ACCCTGCCATGTCACACACGTGTCAAACATTATCACTGCGTCATTTCACACATTATGACCCTACC
* * *
30952917 GTGTCACACGTTCTAACCATGGCATGTCCCACAATTTAAACACTGTCGTGTCACACCCGTCCCAC
66 ATGTCACACGTTCTAACCATGGCATGTCCCACAATCTAAACACTGCCGTGTCACACCCGTCCCAC
* *
30952982 ATATTCTCACCGTGCCGTGTCATAGATTCTTTCCATGGCGTGTCACACACTCTAAACCCTGTCAT
131 ATATTCTCACAGTGCCGTGTCATAGATTCTTT-CATGACGTGTCACACACTCTAAACCCTGTCAT
* *
30953047 GTCACACCCGTCTCACATATTCTCACCATGACGTGTCACACA
195 GTCACACCCGTCTCAAATATTATCACCATGACGTGTCACACA
30953089 TTCCCACCAT
Statistics
Matches: 206, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
240 4 0.02
242 202 0.98
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (241 bp):
ACCCTGCCATGTCACACACGTGTCAAACATTATCACTGCGTCATTTCACACATTATGACCCTACC
ATGTCACACGTTCTAACCATGGCATGTCCCACAATCTAAACACTGCCGTGTCACACCCGTCCCAC
ATATTCTCACAGTGCCGTGTCATAGATTCTTTCATGACGTGTCACACACTCTAAACCCTGTCATG
TCACACCCGTCTCAAATATTATCACCATGACGTGTCACACACTATG
Found at i:30953131 original size:23 final size:23
Alignment explanation
Indices: 30953054--30953132 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
30953044 CATGTCACAC
* * *
30953054 CCGTCTCACATATTCTCACCATG
1 CCGTGTCACACATTCCCACCATG
*
30953077 ACGTGTCACACATTCCCACCATG
1 CCGTGTCACACATTCCCACCATG
* *
30953100 CTGTGTCACACATTCCCACCATT
1 CCGTGTCACACATTCCCACCATG
*
30953123 CCGTTTCACA
1 CCGTGTCACA
30953133 AACTCTAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.23, C:0.39, G:0.10, T:0.28
Consensus pattern (23 bp):
CCGTGTCACACATTCCCACCATG
Found at i:30953945 original size:12 final size:12
Alignment explanation
Indices: 30953928--30953953 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30953918 TCTTAAAAAC
30953928 AAAACTAATTTA
1 AAAACTAATTTA
30953940 AAAACTAATTTA
1 AAAACTAATTTA
30953952 AA
1 AA
30953954 GTCATGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAACTAATTTA
Found at i:30955003 original size:26 final size:24
Alignment explanation
Indices: 30954973--30955021 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
30954963 TACTGGGTTC
30954973 AATTAAATCTATGTATTTT-TATTTTA
1 AATTAAAT-TA-GT-TTTTATATTTTA
30954999 AATTAAATTAGTTTTTATATTTT
1 AATTAAATTAGTTTTTATATTTT
30955022 TATTTTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.18
24 8 0.36
25 2 0.09
26 8 0.36
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (24 bp):
AATTAAATTAGTTTTTATATTTTA
Found at i:30955020 original size:30 final size:30
Alignment explanation
Indices: 30954986--30955046 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
30954976 TAAATCTATG
* * *
30954986 TATTTTTATTTTAAATTAAATTAGTTTTTA
1 TATTTTTATTTTAAATCAAATAAATTTTTA
*
30955016 TATTTTTATTTTGAATCAAATAAATTTTTA
1 TATTTTTATTTTAAATCAAATAAATTTTTA
30955046 T
1 T
30955047 GATTAATAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (30 bp):
TATTTTTATTTTAAATCAAATAAATTTTTA
Found at i:30955105 original size:20 final size:20
Alignment explanation
Indices: 30955080--30955122 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
30955070 ATATCACATT
30955080 TTATTATATTTTATGTGATG
1 TTATTATATTTTATGTGATG
30955100 TTATTATATTTTATGTGATG
1 TTATTATATTTTATGTGATG
30955120 TTA
1 TTA
30955123 ACGTAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (20 bp):
TTATTATATTTTATGTGATG
Found at i:30955509 original size:31 final size:31
Alignment explanation
Indices: 30955468--30955540 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
30955458 GATTTGATAG
* *
30955468 TGTTACCTGTTAGGTGAGAGGTCAATTTTTT
1 TGTTAACTGTTAGGTGAGAGGTCAATTATTT
* *
30955499 TGTTAACTGTTCGGTGAGCGGTCAATTATTT
1 TGTTAACTGTTAGGTGAGAGGTCAATTATTT
30955530 TGTTAACTGTT
1 TGTTAACTGTT
30955541 GAATGATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.11, G:0.25, T:0.45
Consensus pattern (31 bp):
TGTTAACTGTTAGGTGAGAGGTCAATTATTT
Found at i:30958619 original size:24 final size:20
Alignment explanation
Indices: 30958575--30958613 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
30958565 TGGCATTAAG
30958575 TACTAACTGTTGAAAGTTGA
1 TACTAACTGTTGAAAGTTGA
30958595 TACTAACTGTTGAAAGTTG
1 TACTAACTGTTGAAAGTTG
30958614 CATGATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
TACTAACTGTTGAAAGTTGA
Found at i:30963545 original size:39 final size:39
Alignment explanation
Indices: 30963485--30963562 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
30963475 AAGAGCAATC
* *
30963485 TCATGTCTATGATAAAGACAAACAATATTATTTGATGAA
1 TCATGTCAATGAGAAAGACAAACAATATTATTTGATGAA
*
30963524 TCATGTCAATGAGAATA-ACAAAGAATATTATTTGATGAA
1 TCATGTCAATGAGAA-AGACAAACAATATTATTTGATGAA
30963563 GTTTATATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 34 0.97
40 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (39 bp):
TCATGTCAATGAGAAAGACAAACAATATTATTTGATGAA
Found at i:30977304 original size:2 final size:2
Alignment explanation
Indices: 30977297--30977335 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
30977287 AATAACAGAA
30977297 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30977336 AAAGAGCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30977492 original size:18 final size:18
Alignment explanation
Indices: 30977463--30977497 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30977453 AAAAAACAAA
30977463 GAAAAGGAAGAAATAAAGG
1 GAAAAGGAAGAAA-AAAGG
30977482 GAAAA-GAAGAAAAAAG
1 GAAAAGGAAGAAAAAAG
30977498 AAAAACTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (18 bp):
GAAAAGGAAGAAAAAAGG
Found at i:30977901 original size:27 final size:27
Alignment explanation
Indices: 30977834--30977902 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
30977824 CAATTTATTC
*
30977834 ATTTAATTATTATTTTATTATTAGAATA
1 ATTTAATTA-TATTTTATAATTAGAATA
* * *
30977862 ATTCATTTTTATTTTATAATT-GTAATA
1 ATTTAATTATATTTTATAATTAG-AATA
*
30977889 TTTTAATTATATTT
1 ATTTAATTATATTT
30977903 AAAAATTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 1 0.03
27 25 0.78
28 6 0.19
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (27 bp):
ATTTAATTATATTTTATAATTAGAATA
Found at i:30989524 original size:21 final size:21
Alignment explanation
Indices: 30989500--30989566 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
30989490 CCAGCAAGTC
30989500 AATGCAACATGACAAGAACCA
1 AATGCAACATGACAAGAACCA
* * * *
30989521 AATG---CATTAAAAAAACTTA
1 AATGCAACATGACAAGAAC-CA
*
30989540 AATGCGACATGACAAGAACCA
1 AATGCAACATGACAAGAACCA
30989561 AATGCA
1 AATGCA
30989567 TTAAAAAAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
18 9 0.27
19 5 0.15
21 10 0.30
22 9 0.27
ACGTcount: A:0.52, C:0.19, G:0.13, T:0.15
Consensus pattern (21 bp):
AATGCAACATGACAAGAACCA
Found at i:30989550 original size:40 final size:40
Alignment explanation
Indices: 30989500--30989579 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
30989490 CCAGCAAGTC
30989500 AATGCAACATGACAAGAACCAAATGCATTAAAAAAACTTA
1 AATGCAACATGACAAGAACCAAATGCATTAAAAAAACTTA
*
30989540 AATGCGACATGACAAGAACCAAATGCATTAAAAAAACTTA
1 AATGCAACATGACAAGAACCAAATGCATTAAAAAAACTTA
30989580 CTCTTATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.17
Consensus pattern (40 bp):
AATGCAACATGACAAGAACCAAATGCATTAAAAAAACTTA
Found at i:30990912 original size:66 final size:67
Alignment explanation
Indices: 30990829--30990976 Score: 271
Period size: 66 Copynumber: 2.2 Consensus size: 67
30990819 TAATTTTAAT
* *
30990829 AATTTTGAATGTTTGGTTATATTTAAGTATTTGGTTAATTGGTTTCTCTTCTTTCAATTAT-AAA
1 AATTTTGAGTGTTTGGTTATATTTAAGTATTTGATTAATTGGTTTCTCTTCTTTCAATTATAAAA
30990893 AA
66 AA
30990895 AATTTTGAGTGTTTGGTTATATTTAAGTATTTGATTAATTGGTTTCTCTTCTTTCAATTATAAAA
1 AATTTTGAGTGTTTGGTTATATTTAAGTATTTGATTAATTGGTTTCTCTTCTTTCAATTATAAAA
30990960 AA
66 AA
30990962 AATTTTGAGTGTTTG
1 AATTTTGAGTGTTTG
30990977 ATTGAGTGAA
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
66 59 0.75
67 20 0.25
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (67 bp):
AATTTTGAGTGTTTGGTTATATTTAAGTATTTGATTAATTGGTTTCTCTTCTTTCAATTATAAAA
AA
Found at i:30994609 original size:34 final size:35
Alignment explanation
Indices: 30994536--30994609 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
30994526 AAATTTAAAT
* ** *
30994536 TTAAATAATCAAAAACAAATATCTTAAATATTAAT
1 TTAAATAATCAAAAACAAATATCTCAAATAACAAC
30994571 TTAAATAA-CTAAAAACAAATAT-TCAAATAACAAC
1 TTAAATAATC-AAAAACAAATATCTCAAATAACAAC
30994605 TTAAA
1 TTAAA
30994610 CAGCATTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 14 0.41
35 20 0.59
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (35 bp):
TTAAATAATCAAAAACAAATATCTCAAATAACAAC
Found at i:30996662 original size:12 final size:12
Alignment explanation
Indices: 30996645--30996679 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
30996635 ACTTAGTCTG
30996645 AATTTAAAATAA
1 AATTTAAAATAA
30996657 AATTT-AAATAA
1 AATTTAAAATAA
30996668 AATATTAAAATA
1 AAT-TTAAAATA
30996680 TACATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.43
12 7 0.33
13 5 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATTTAAAATAA
Found at i:30997002 original size:25 final size:25
Alignment explanation
Indices: 30996974--30997021 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
30996964 TAGATCTTTA
30996974 TAATTAATAAT-TAATTAATTATTAT
1 TAATTAA-AATATAATTAATTATTAT
*
30996999 TAATTAAAATATTATTAATTATT
1 TAATTAAAATATAATTAATTATT
30997022 TTTTTTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TAATTAAAATATAATTAATTATTAT
Found at i:30997011 original size:15 final size:15
Alignment explanation
Indices: 30996983--30997019 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
30996973 ATAATTAATA
*
30996983 ATTAATT-AATTATT
1 ATTAATTAAAATATT
30996997 ATTAATTAAAATATT
1 ATTAATTAAAATATT
30997012 ATTAATTA
1 ATTAATTA
30997020 TTTTTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTAATTAAAATATT
Found at i:31015326 original size:18 final size:19
Alignment explanation
Indices: 31015294--31015329 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
31015284 AATTTGACCT
*
31015294 AAAAAGAGAAGAGAGAAAG
1 AAAAAGAGAAAAGAGAAAG
31015313 AAAAAGA-AAAAGAGAAA
1 AAAAAGAGAAAAGAGAAA
31015330 ATAAGCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (19 bp):
AAAAAGAGAAAAGAGAAAG
Found at i:31015897 original size:13 final size:13
Alignment explanation
Indices: 31015879--31015909 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31015869 ATAATGATAA
31015879 TATATATATATAT
1 TATATATATATAT
31015892 TATATATATATAT
1 TATATATATATAT
*
31015905 CATAT
1 TATAT
31015910 TACTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATATATAT
Found at i:31023152 original size:30 final size:30
Alignment explanation
Indices: 31023117--31023182 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
31023107 TCAAGTAAGT
*
31023117 CCTTATATTTTTATTTTGAGTCAAATAAAA
1 CCTTATATTTTTATTTTAAGTCAAATAAAA
*
31023147 CCTTATATTTTTATTTTAAGTCAAATAAAC
1 CCTTATATTTTTATTTTAAGTCAAATAAAA
31023177 CCTTAT
1 CCTTAT
31023183 GACTAACGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.47
Consensus pattern (30 bp):
CCTTATATTTTTATTTTAAGTCAAATAAAA
Found at i:31036962 original size:24 final size:24
Alignment explanation
Indices: 31036935--31037080 Score: 91
Period size: 24 Copynumber: 6.1 Consensus size: 24
31036925 CCTTCATTAT
31036935 CAAGACTCTTTTGACCTTGATTGC
1 CAAGACTCTTTTGACCTTGATTGC
* * *
31036959 CAAGAGT-GTTTGAGCCTTGATTTC
1 CAAGACTCTTTTGA-CCTTGATTGC
* * *
31036983 TAGGACTC-TTTGAGCCTTGATTGT
1 CAAGACTCTTTTGA-CCTTGATTGC
* * * *
31037007 CAAAAGT-GTTTGACTCTTGATTCC
1 CAAGACTCTTTTGAC-CTTGATTGC
* *
31037031 CAAGACTCTTTGGACCTTGATTAC
1 CAAGACTCTTTTGACCTTGATTGC
* * * * *
31037055 CATGAGTGTTTTGGCTTTGATTGC
1 CAAGACTCTTTTGACCTTGATTGC
31037079 CA
1 CA
31037081 GAACTATTTT
Statistics
Matches: 91, Mismatches: 26, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
23 6 0.07
24 80 0.88
25 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (24 bp):
CAAGACTCTTTTGACCTTGATTGC
Found at i:31036966 original size:48 final size:46
Alignment explanation
Indices: 31036914--31037076 Score: 157
Period size: 48 Copynumber: 3.4 Consensus size: 46
31036904 TCATTGTTAG
*
31036914 GAGTGTTTCGGCCTTCATTATCAAGACTCTTTTGACCTTGATTGCCAA
1 GAGTGTTT-GGCCTTGATT-TCAAGACTCTTTTGACCTTGATTGCCAA
* *
31036962 GAGTGTTTGAGCCTTGATTTCTAGGACTC-TTTGAGCCTTGATTGTCAA
1 GAGTGTTTG-GCCTTGATTTC-AAGACTCTTTTGA-CCTTGATTGCCAA
* * * * * *
31037010 AAGTGTTTGACTCTTGATTCCCAAGACTCTTTGGACCTTGATTACCAT
1 GAGTGTTTGGC-CTTGATT-TCAAGACTCTTTTGACCTTGATTGCCAA
*
31037058 GAGTGTTTTGGCTTTGATT
1 GAGTG-TTTGGCCTTGATT
31037077 GCCAGAACTA
Statistics
Matches: 94, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
47 9 0.10
48 75 0.80
49 10 0.11
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (46 bp):
GAGTGTTTGGCCTTGATTTCAAGACTCTTTTGACCTTGATTGCCAA
Found at i:31037763 original size:2 final size:2
Alignment explanation
Indices: 31037750--31037783 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
31037740 GCATGCATAC
*
31037750 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31037784 GAAACATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:31038011 original size:24 final size:24
Alignment explanation
Indices: 31037970--31038076 Score: 76
Period size: 24 Copynumber: 4.5 Consensus size: 24
31037960 ATTCTTTACG
*
31037970 CCTTGATTGTCA-AGAGTG-TTTGAA
1 CCTTGATTGCCAGA-AGTGATTTG-A
* *
31037994 CCTTGATTGCCAGAAGTGACTCGA
1 CCTTGATTGCCAGAAGTGATTTGA
* * *
31038018 CCTTGATTCCCAGGAGT-TTTTGGA
1 CCTTGATTGCCAGAAGTGATTT-GA
* * *
31038042 CCTTGATTGTCAGGATTGATTTGA
1 CCTTGATTGCCAGAAGTGATTTGA
*
31038066 CTTTGATTGCC
1 CCTTGATTGCC
31038077 TTGTCCTAGT
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.02
24 58 0.89
25 6 0.09
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (24 bp):
CCTTGATTGCCAGAAGTGATTTGA
Found at i:31041631 original size:14 final size:15
Alignment explanation
Indices: 31041612--31041640 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31041602 TTTAACAAAG
31041612 ATATATATTA-TTAT
1 ATATATATTACTTAT
31041626 ATATATATTACTTAT
1 ATATATATTACTTAT
31041641 TACTAAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATATTACTTAT
Found at i:31041758 original size:108 final size:107
Alignment explanation
Indices: 31041624--31041840 Score: 391
Period size: 108 Copynumber: 2.0 Consensus size: 107
31041614 ATATATTATT
31041624 ATATATATATTACTTATTACTAAGAACTTTTCATAACTTTCTTTCTGTTAAGTAAAAAATATGTC
1 ATATATATATTACTTATTACTAAGAACTTTTCATAACTTTCTTTCTGTTAAGTAAAAAATATGTC
31041689 ATTAAACCATTAATGACAAATCGTTTTTTTTTTTTTATAAAAA
66 ATTAAACCATTAATGACAAA-CGTTTTTTTTTTTTTATAAAAA
31041732 NATATAT-TATTACTTATTACTAAGAACTTTTCATAACTTTCTTTCTGTTAAGTAAAAAATATGT
1 -ATATATATATTACTTATTACTAAGAACTTTTCATAACTTTCTTTCTGTTAAGTAAAAAATATGT
*
31041796 CATTAAACCATTAATGACAAACGTTTTTTTTTTTTTTTTAAAAA
65 CATTAAACCATTAATGACAAACG-TTTTTTTTTTTTTATAAAAA
31041840 A
1 A
31041841 ATCAGCAACA
Statistics
Matches: 106, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
107 3 0.03
108 97 0.92
109 6 0.06
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (107 bp):
ATATATATATTACTTATTACTAAGAACTTTTCATAACTTTCTTTCTGTTAAGTAAAAAATATGTC
ATTAAACCATTAATGACAAACGTTTTTTTTTTTTTATAAAAA
Found at i:31044561 original size:10 final size:10
Alignment explanation
Indices: 31044542--31044573 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
31044532 TAGTCACTAT
*
31044542 AAGTTATGTG
1 AAGTTTTGTG
31044552 AAGTTTTGTG
1 AAGTTTTGTG
31044562 AAGTTTTGTG
1 AAGTTTTGTG
31044572 AA
1 AA
31044574 AATTTAGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (10 bp):
AAGTTTTGTG
Found at i:31046969 original size:24 final size:24
Alignment explanation
Indices: 31046942--31047036 Score: 84
Period size: 24 Copynumber: 4.0 Consensus size: 24
31046932 GCCTACATTG
* * *
31046942 CCAGGAGTGTTTCGATCTTGATTT
1 CCAGGAGTCTTTAGGTCTTGATTT
* * *
31046966 CCAGGACTCTTTTGGTCTTGATTG
1 CCAGGAGTCTTTAGGTCTTGATTT
* *
31046990 CC-GAGAGTGTTTAGGCCTTGATTT
1 CCAG-GAGTCTTTAGGTCTTGATTT
* *
31047014 TCAGGAGTCTTTGGGTCTTGATT
1 CCAGGAGTCTTTAGGTCTTGATT
31047037 GACGGGAATG
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
23 1 0.02
24 53 0.96
25 1 0.02
ACGTcount: A:0.15, C:0.17, G:0.27, T:0.41
Consensus pattern (24 bp):
CCAGGAGTCTTTAGGTCTTGATTT
Found at i:31046999 original size:48 final size:48
Alignment explanation
Indices: 31046938--31047060 Score: 131
Period size: 48 Copynumber: 2.6 Consensus size: 48
31046928 TTGGGCCTAC
* * *
31046938 ATTGCCAGGAGTGTTTCGATCTTGATTTCCAGGACTCTTTTGGTCTTG
1 ATTGCCAGGAGTGTTTAGACCTTGATTTCCAGGACTCTTTGGGTCTTG
* * *
31046986 ATTGCC-GAGAGTGTTTAGGCCTTGATTTTCAGGAGTCTTTGGGTCTTG
1 ATTGCCAG-GAGTGTTTAGACCTTGATTTCCAGGACTCTTTGGGTCTTG
* * * * *
31047034 ATTGACGGGAATGTTTTGGCCTTGATT
1 ATTGCCAGGAGTGTTTAGACCTTGATT
31047061 CTCAAAACTC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 1 0.02
48 62 0.97
49 1 0.02
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.41
Consensus pattern (48 bp):
ATTGCCAGGAGTGTTTAGACCTTGATTTCCAGGACTCTTTGGGTCTTG
Found at i:31047057 original size:24 final size:24
Alignment explanation
Indices: 31046975--31047060 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 24
31046965 TCCAGGACTC
* * *
31046975 TTTTGGTCTTGATTGCCGAGAGTG
1 TTTTGGCCTTGATTGACGGGAGTG
* ** * *
31046999 TTTAGGCCTTGATTTTCAGGAGTC
1 TTTTGGCCTTGATTGACGGGAGTG
* * *
31047023 TTTGGGTCTTGATTGACGGGAATG
1 TTTTGGCCTTGATTGACGGGAGTG
31047047 TTTTGGCCTTGATT
1 TTTTGGCCTTGATT
31047061 CTCAAAACTC
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.14, C:0.13, G:0.30, T:0.43
Consensus pattern (24 bp):
TTTTGGCCTTGATTGACGGGAGTG
Found at i:31047073 original size:48 final size:48
Alignment explanation
Indices: 31046971--31047076 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 48
31046961 GATTTCCAGG
* * * * **
31046971 ACTCTTTTGGTCTTGATTGCCGAGAGTGTTTAGGCCTTGATTTTCAGG
1 ACTCTTTGGGTCTTGATTGACGAGAATGTTTAGGCCTTGATTCTCAAA
* * *
31047019 AGTCTTTGGGTCTTGATTGACGGGAATGTTTTGGCCTTGATTCTCAAA
1 ACTCTTTGGGTCTTGATTGACGAGAATGTTTAGGCCTTGATTCTCAAA
31047067 ACTCTTTGGG
1 ACTCTTTGGG
31047077 CTTTCACTGC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (48 bp):
ACTCTTTGGGTCTTGATTGACGAGAATGTTTAGGCCTTGATTCTCAAA
Found at i:31047095 original size:24 final size:24
Alignment explanation
Indices: 31047067--31047127 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
31047057 GATTCTCAAA
31047067 ACTCTTTGGGCTTTCACTGC-CAGG
1 ACTCTTTGGGCTTTCACT-CTCAGG
* *
31047091 ACTCTTTGGGCTTTGAGTCTCAGG
1 ACTCTTTGGGCTTTCACTCTCAGG
*
31047115 ACTCTTAGGGCTT
1 ACTCTTTGGGCTT
31047128 GGATTATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.13, C:0.25, G:0.26, T:0.36
Consensus pattern (24 bp):
ACTCTTTGGGCTTTCACTCTCAGG
Found at i:31047194 original size:24 final size:24
Alignment explanation
Indices: 31047141--31047207 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
31047131 TTATCAAGTG
* * *
31047141 TGTTTGGGTCTTGATTACCAGGAC
1 TGTTTTGGTCTTGATTGCCAAGAC
31047165 TGTTTTGGTCTTGATTGCCAAGAC
1 TGTTTTGGTCTTGATTGCCAAGAC
* *
31047189 TGTTTTTGCCTTGATTGCC
1 TGTTTTGGTCTTGATTGCC
31047208 TTGCCTTGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.13, C:0.18, G:0.25, T:0.43
Consensus pattern (24 bp):
TGTTTTGGTCTTGATTGCCAAGAC
Found at i:31047972 original size:2 final size:2
Alignment explanation
Indices: 31047951--31048010 Score: 52
Period size: 2 Copynumber: 30.5 Consensus size: 2
31047941 ACTTAGATAC
* * * *
31047951 AT AT AT AA AT AC AT AA AT AT AT AT AT AT AT AT -T AT AT -T CCT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
*
31047992 AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
31048011 AATGTAACAT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
1 2 0.04
2 43 0.93
3 1 0.02
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:31047987 original size:31 final size:31
Alignment explanation
Indices: 31047952--31048010 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
31047942 CTTAGATACA
31047952 TATATAAATACATAAATATATATATATATAT
1 TATATAAATACATAAATATATATATATATAT
*** *
31047983 TATATTCCTACATATATATATATATATA
1 TATATAAATACATAAATATATATATATA
31048011 AATGTAACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (31 bp):
TATATAAATACATAAATATATATATATATAT
Found at i:31050995 original size:21 final size:21
Alignment explanation
Indices: 31050969--31051008 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
31050959 TTTCTTACTA
31050969 ACCTTTCAAGAGACAAAGATG
1 ACCTTTCAAGAGACAAAGATG
*
31050990 ACCTTTTAAGAGACAAAGA
1 ACCTTTCAAGAGACAAAGA
31051009 CGACGATACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.20
Consensus pattern (21 bp):
ACCTTTCAAGAGACAAAGATG
Found at i:31054507 original size:18 final size:18
Alignment explanation
Indices: 31054460--31054499 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
31054450 TCATTTGGAA
* *
31054460 GCATTCGAAGATTGGGAG
1 GCATTCAAAGATTGAGAG
31054478 GCATTCAAAGATTGAGA-
1 GCATTCAAAGATTGAGAG
31054495 GCATT
1 GCATT
31054500 TCAGAGATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (18 bp):
GCATTCAAAGATTGAGAG
Found at i:31054597 original size:29 final size:30
Alignment explanation
Indices: 31054535--31054597 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
31054525 TTTTGAAGTG
* *
31054535 AAGATTAAGCAGCAGCGAAGTTCATGATTC
1 AAGATTAAGCAGCAACGAAGTTCATGAATC
* *
31054565 -AGATTGAGCAGCAACGAAGTTCGT-AATC
1 AAGATTAAGCAGCAACGAAGTTCATGAATC
31054593 AAGAT
1 AAGAT
31054598 CAAAGCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (30 bp):
AAGATTAAGCAGCAACGAAGTTCATGAATC
Found at i:31054615 original size:33 final size:33
Alignment explanation
Indices: 31054576--31054641 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
31054566 GATTGAGCAG
31054576 CAACGAAGTTCGTAATCAAGATCAAAG-CATCAA
1 CAACGAAGTTCGTAATCAAGATC-AAGTCATCAA
*
31054609 CAACGAAGTTCGTGATCAAGATCAAGTCATCAA
1 CAACGAAGTTCGTAATCAAGATCAAGTCATCAA
31054642 GATAAGTTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (33 bp):
CAACGAAGTTCGTAATCAAGATCAAGTCATCAA
Found at i:31054642 original size:14 final size:14
Alignment explanation
Indices: 31054623--31054667 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
31054613 GAAGTTCGTG
31054623 ATCAAGATCAAGTC
1 ATCAAGATCAAGTC
31054637 ATCAAGAT-AAGT-
1 ATCAAGATCAAGTC
**
31054649 -TCGTGATCAAGTC
1 ATCAAGATCAAGTC
31054662 ATCAAG
1 ATCAAG
31054668 CAAAGTTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
11 5 0.21
12 4 0.17
13 4 0.17
14 11 0.46
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (14 bp):
ATCAAGATCAAGTC
Found at i:31054740 original size:14 final size:14
Alignment explanation
Indices: 31054721--31054765 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
31054711 TGAATTCGTG
31054721 ATCAAGATCAAGTC
1 ATCAAGATCAAGTC
31054735 ATCAAGAT-AAGT-
1 ATCAAGATCAAGTC
**
31054747 -TCGTGATCAAGTC
1 ATCAAGATCAAGTC
31054760 ATCAAG
1 ATCAAG
31054766 CAAAGTCGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
11 5 0.21
12 4 0.17
13 4 0.17
14 11 0.46
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (14 bp):
ATCAAGATCAAGTC
Found at i:31066762 original size:24 final size:24
Alignment explanation
Indices: 31066696--31066774 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 24
31066686 TCGCTTAGAA
* * *
31066696 CTTGATTCTCAGGACTCTTTGAGT
1 CTTGATTATCAGAACTGTTTGAGT
* * *
31066720 CTGGATTATCA-AGAGTGTTTGGGT
1 CTTGATTATCAGA-ACTGTTTGAGT
**
31066744 CTTGATTATCAGAACTGTTTCCGT
1 CTTGATTATCAGAACTGTTTGAGT
31066768 CTTGATT
1 CTTGATT
31066775 GCCAGGACTA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 42 0.98
25 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (24 bp):
CTTGATTATCAGAACTGTTTGAGT
Found at i:31067533 original size:2 final size:2
Alignment explanation
Indices: 31067526--31067560 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
31067516 ACATACTTGG
*
31067526 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31067561 ATTACACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31073723 original size:2 final size:2
Alignment explanation
Indices: 31073716--31073757 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
31073706 GTGTATTAAC
31073716 AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31073757 A
1 A
31073758 GTTCATACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31074025 original size:48 final size:47
Alignment explanation
Indices: 31073952--31074098 Score: 154
Period size: 48 Copynumber: 3.1 Consensus size: 47
31073942 AACGTTATTG
* * *
31073952 TTTTGGCCTTCATTCCCAAGAGTGTTTCGACCTTGATT-TCCAGGACTC
1 TTTTGGGCTTGATTGCC-AGAGTGTTTCGACCTTGATTCT-CAGGACTC
* **
31074000 TTTTGGGCTTGATTGCCGAGAGTGTTTCGGCCTTGATTCTCAAAACTC
1 TTTTGGGCTTGATTGCC-AGAGTGTTTCGACCTTGATTCTCAGGACTC
* * *
31074048 -TTTGGGCTTTGATTGCCAGGATTGTTTGGAACTTGATTCTCAGGACTC
1 TTTTGGGC-TTGATTGCCA-GAGTGTTTCGACCTTGATTCTCAGGACTC
31074096 TTT
1 TTT
31074099 GGGTCTGGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
47 8 0.10
48 71 0.87
49 3 0.04
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.39
Consensus pattern (47 bp):
TTTTGGGCTTGATTGCCAGAGTGTTTCGACCTTGATTCTCAGGACTC
Found at i:31074034 original size:24 final size:23
Alignment explanation
Indices: 31073950--31074038 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 23
31073940 GAAACGTTAT
* *
31073950 TGTTTTGGCCTTCATTCCCAAGAG
1 TGTTTCGGCCTTGATTCCC-AGAG
* * *
31073974 TGTTTCGACCTTGATTTCCAGGAC
1 TGTTTCGGCCTTGATTCCCA-GAG
* * * *
31073998 TCTTTTGGGCTTGATTGCCGAGAG
1 TGTTTCGGCCTTGATT-CCCAGAG
31074022 TGTTTCGGCCTTGATTC
1 TGTTTCGGCCTTGATTC
31074039 TCAAAACTCT
Statistics
Matches: 48, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
23 2 0.04
24 44 0.92
25 2 0.04
ACGTcount: A:0.13, C:0.22, G:0.25, T:0.39
Consensus pattern (23 bp):
TGTTTCGGCCTTGATTCCCAGAG
Found at i:31074099 original size:24 final size:23
Alignment explanation
Indices: 31074031--31074100 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 23
31074021 GTGTTTCGGC
** *
31074031 CTTGATTCTCAAAACTCTTTGGG
1 CTTGATTCTCAGGACTCTTTGGA
* *
31074054 CTTTGATTGC-CAGGATTGTTTGGAA
1 C-TTGATT-CTCAGGACTCTTTGG-A
31074079 CTTGATTCTCAGGACTCTTTGG
1 CTTGATTCTCAGGACTCTTTGG
31074101 GTCTGGATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
23 2 0.06
24 32 0.89
25 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (23 bp):
CTTGATTCTCAGGACTCTTTGGA
Found at i:31075132 original size:24 final size:24
Alignment explanation
Indices: 31075089--31075239 Score: 85
Period size: 24 Copynumber: 6.3 Consensus size: 24
31075079 TGATTCGGCA
* * *
31075089 TTGATTGCCAGGAGTGTTTGAGCC
1 TTGATTGTCAAGACTGTTTGAGCC
* *
31075113 TTGATTGTCAAGACTCTTTG-GATC
1 TTGATTGTCAAGACTGTTTGAG-CC
* * *
31075137 TTGATTG-CTAGAAGTGGTT-AGACC
1 TTGATTGTCAAG-ACTGTTTGAG-CC
* *
31075161 TTGATTCTCAAGACTTTTTGAGCC
1 TTGATTGTCAAGACTGTTTGAGCC
** * * *
31075185 TTGATTACCAGGAGTGTTTGGGCC
1 TTGATTGTCAAGACTGTTTGAGCC
**
31075209 TTGATTGTTTAGACTGTTTCG-GCC
1 TTGATTGTCAAGACTGTTT-GAGCC
31075233 TTGATTG
1 TTGATTG
31075240 CCAAAATTGC
Statistics
Matches: 94, Mismatches: 27, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
23 4 0.04
24 84 0.89
25 6 0.06
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (24 bp):
TTGATTGTCAAGACTGTTTGAGCC
Found at i:31075223 original size:48 final size:47
Alignment explanation
Indices: 31075089--31075242 Score: 164
Period size: 48 Copynumber: 3.2 Consensus size: 47
31075079 TGATTCGGCA
* * *
31075089 TTGATTGCCAGGAGTGTTTGAGCCTTGATTGTCAAGACTCTTTGGATC
1 TTGATTGCCAGGAGTGTTTGGGCCTTGATTGTCAAGACTTTTTGG-CC
* * * * * *
31075137 TTGATTGCTAGAAGTGGTTAGACCTTGATTCTCAAGACTTTTTGAGCC
1 TTGATTGCCAGGAGTGTTTGGGCCTTGATTGTCAAGACTTTTTG-GCC
* ** *
31075185 TTGATTACCAGGAGTGTTTGGGCCTTGATTGTTTAGACTGTTTCGGCC
1 TTGATTGCCAGGAGTGTTTGGGCCTTGATTGTCAAGACT-TTTTGGCC
31075233 TTGATTGCCA
1 TTGATTGCCA
31075243 AAATTGCTTT
Statistics
Matches: 84, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
48 79 0.94
49 5 0.06
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (47 bp):
TTGATTGCCAGGAGTGTTTGGGCCTTGATTGTCAAGACTTTTTGGCC
Found at i:31081507 original size:17 final size:17
Alignment explanation
Indices: 31081485--31081521 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
31081475 CTAGCTGAAC
*
31081485 TTTTTTT-TTCTTTTTA
1 TTTTTTTGTTCTTTTGA
31081501 TTTTTTTGTTCTTTTGA
1 TTTTTTTGTTCTTTTGA
31081518 TTTT
1 TTTT
31081522 CAAAATGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.84
Consensus pattern (17 bp):
TTTTTTTGTTCTTTTGA
Found at i:31081786 original size:17 final size:18
Alignment explanation
Indices: 31081766--31081805 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
31081756 TAAAGTAAGG
*
31081766 TAAAATAAAATATAA-AA
1 TAAAAGAAAATATAATAA
*
31081783 TAAAAGAACATATAATAA
1 TAAAAGAAAATATAATAA
31081801 TAAAA
1 TAAAA
31081806 ACGGTGTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
TAAAAGAAAATATAATAA
Found at i:31093835 original size:24 final size:24
Alignment explanation
Indices: 31093801--31093867 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
31093791 TGAACATTAT
* *
31093801 TGTTTTCGCCTTGATTGCCAAAAG
1 TGTTTTAGCCTTGATTGCCAAAAC
* **
31093825 TGTTTTAGCCTTGATTGTCAGGAC
1 TGTTTTAGCCTTGATTGCCAAAAC
*
31093849 TGTTTTGGCCTTGATTGCC
1 TGTTTTAGCCTTGATTGCC
31093868 TTGTCCCGGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (24 bp):
TGTTTTAGCCTTGATTGCCAAAAC
Found at i:31094043 original size:135 final size:135
Alignment explanation
Indices: 31093793--31094516 Score: 1031
Period size: 135 Copynumber: 5.4 Consensus size: 135
31093783 AAACAGCATG
* * * ** * * *
31093793 AACATTATTGTTTTCGCCTTGATTGCCAAAAGTGTTTTAGCCTTGATTGTCAGGACTGTTTTGGC
1 AACACTATTGTTTTTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAGGACTGTTTTCGC
* **
31093858 CTTGATTGCCTTGTCCCGGTAACATCCAATTTATGAAAGGAAGCTTTGGGGACGGTGGAGTGCTA
66 CTTGATTGCCTTGTCCCGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTA
31093923 TTAGA
131 TTAGA
* * * * * * *
31093928 AACACTACTGTTTTTGCCTTGACTGTCAGGAGTCTCTTGGCCTTGATTGCCAAGACCGTTTTCTC
1 AACACTATTGTTTTTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAGGACTGTTTTCGC
*
31093993 CTTGATTG-CTGTGCCCCGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCT
66 CTTGATTGCCT-TGTCCCGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCT
*
31094057 ATCAGA
130 ATTAGA
* * *
31094063 AACACTATTGTTTGTGCCTTGATTGTC-GAGAGTCTTTTGGCCTTGATCGCCAGGA-TGGTTTTC
1 AACACTATTGTTTTTGCCTTGATTGTCAG-GAGTGTTTTGGCCTTGATTGCCAGGACT-GTTTTC
31094126 GCCTTGATTGCCTTGTCCCGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGC
64 GCCTTGATTGCCTTGTCCCGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGC
31094191 TATTAGA
129 TATTAGA
* * * *
31094198 AACACTGTTGTTTGTGCCTTGATTGTCAGAAGTGTTTTGGCCTTGATTGCCAGGACTATTTTCGC
1 AACACTATTGTTTTTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAGGACTGTTTTCGC
* * *
31094263 CTTGATTGCTTTGTCCTGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGTTGGAGTGCTA
66 CTTGATTGCCTTGTCCCGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTA
31094328 TTAGA
131 TTAGA
* * * *
31094333 AACACTATTGTTTTTGCCTTGAATGTCAAGAATGTTTTGGCCTTGATTGCCAGGAATGTTTTCGC
1 AACACTATTGTTTTTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAGGACTGTTTTCGC
* * *
31094398 CTTGCTTGCCTTGTCCTGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGTTA
66 CTTGATTGCCTTGTCCCGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTA
31094463 TTAGA
131 TTAGA
* * * *
31094468 AACACTACTGTTGTCGCCTCGATTGTCAGGAGTGTTTTGGCCTTGATTG
1 AACACTATTGTTTTTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTG
31094517 TCTTGTCCTG
Statistics
Matches: 526, Mismatches: 57, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
134 3 0.01
135 519 0.99
136 4 0.01
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (135 bp):
AACACTATTGTTTTTGCCTTGATTGTCAGGAGTGTTTTGGCCTTGATTGCCAGGACTGTTTTCGC
CTTGATTGCCTTGTCCCGGTAACATCCAATTGATGAAAGGAAGCTTTGGGGGTGGTGGAGTGCTA
TTAGA
Found at i:31094259 original size:24 final size:24
Alignment explanation
Indices: 31094208--31094271 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
31094198 AACACTGTTG
* * *
31094208 TTTGTGCCTTGATTGTCAGAAGTGT
1 TTTG-GCCTTGATTGCCAGAACTAT
*
31094233 TTTGGCCTTGATTGCCAGGACTAT
1 TTTGGCCTTGATTGCCAGAACTAT
*
31094257 TTTCGCCTTGATTGC
1 TTTGGCCTTGATTGC
31094272 TTTGTCCTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 30 0.88
25 4 0.12
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (24 bp):
TTTGGCCTTGATTGCCAGAACTAT
Found at i:31094406 original size:24 final size:24
Alignment explanation
Indices: 31094341--31094407 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
31094331 GAAACACTAT
* * * *
31094341 TGTTTTTGCCTTGAATGTCAAGAA
1 TGTTTTCGCCTTGATTGCCAGGAA
*
31094365 TGTTTTGGCCTTGATTGCCAGGAA
1 TGTTTTCGCCTTGATTGCCAGGAA
*
31094389 TGTTTTCGCCTTGCTTGCC
1 TGTTTTCGCCTTGATTGCC
31094408 TTGTCCTGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (24 bp):
TGTTTTCGCCTTGATTGCCAGGAA
Found at i:31094561 original size:45 final size:45
Alignment explanation
Indices: 31094510--31094599 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
31094500 TGTTTTGGCC
31094510 TTGATTGTCTTGTCCTGGTAACATCCAATTGATGAAAGGAACCTT
1 TTGATTGTCTTGTCCTGGTAACATCCAATTGATGAAAGGAACCTT
31094555 TTGATTGTCTTGTCCTGGTAACATCCAATTGATGAAAGGAACCTT
1 TTGATTGTCTTGTCCTGGTAACATCCAATTGATGAAAGGAACCTT
31094600 CGGGGTTGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (45 bp):
TTGATTGTCTTGTCCTGGTAACATCCAATTGATGAAAGGAACCTT
Found at i:31096552 original size:24 final size:24
Alignment explanation
Indices: 31096520--31096630 Score: 87
Period size: 24 Copynumber: 4.6 Consensus size: 24
31096510 AATACTATTA
* * *
31096520 TTTTTGCCTTGATTGCTAGGAGTG
1 TTTTGGCCTTGATTGCCAGGATTG
* **
31096544 TTTTGGCCTTGATTCCCAATATTG
1 TTTTGGCCTTGATTGCCAGGATTG
* * *
31096568 TTTTGGTCTTGATTGCCATGACTG
1 TTTTGGCCTTGATTGCCAGGATTG
* * * **
31096592 CTTTGGTCTTGGTTGCTTGGATTG
1 TTTTGGCCTTGATTGCCAGGATTG
*
31096616 TTTAGGCCTTGATTG
1 TTTTGGCCTTGATTG
31096631 TCTTGTCCTG
Statistics
Matches: 66, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.12, C:0.15, G:0.26, T:0.47
Consensus pattern (24 bp):
TTTTGGCCTTGATTGCCAGGATTG
Found at i:31097398 original size:2 final size:2
Alignment explanation
Indices: 31097391--31097423 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
31097381 AAGTTTGAAG
31097391 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31097424 GAGAGAGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31097488 original size:2 final size:2
Alignment explanation
Indices: 31097483--31097511 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
31097473 AANAATACTA
31097483 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31097512 GAGAGAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31097531 original size:88 final size:87
Alignment explanation
Indices: 31097395--31097562 Score: 311
Period size: 88 Copynumber: 1.9 Consensus size: 87
31097385 TTGAAGATAT
31097395 ATATATATATATATATATATATATATATAGAGAGAGAATAAATAAGAGAATGGTAGTTCTAACAA
1 ATATATATATATATATATATATATATATAGAGAGAGAATAAATAAGAGAATGGTAGTTCTAACAA
31097460 AGAGCAAATAAAAAANAATACTA
66 AGAGCAAATAAAAAA-AATACTA
31097483 ATATATATATATATATATATATATATATAGAGAGAG-ATAAAATAAGAGAATGGTAGTTCTAACA
1 ATATATATATATATATATATATATATATAGAGAGAGAAT-AAATAAGAGAATGGTAGTTCTAACA
31097547 AAGAGCAAATAAAAAA
65 AAGAGCAAATAAAAAA
31097563 GTGAGAGGAT
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
87 2 0.03
88 77 0.97
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.27
Consensus pattern (87 bp):
ATATATATATATATATATATATATATATAGAGAGAGAATAAATAAGAGAATGGTAGTTCTAACAA
AGAGCAAATAAAAAAAATACTA
Found at i:31101857 original size:14 final size:15
Alignment explanation
Indices: 31101830--31101864 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
31101820 TGATGCTGCT
31101830 GACTGCTAACTGTGA
1 GACTGCTAACTGTGA
31101845 GACTGCT-ACTGTGA
1 GACTGCTAACTGTGA
*
31101859 AACTGC
1 GACTGC
31101865 ATTGCAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (15 bp):
GACTGCTAACTGTGA
Found at i:31102771 original size:26 final size:25
Alignment explanation
Indices: 31102728--31102777 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
31102718 TGAAGAATAC
* *
31102728 AAAAGGGGATGAAGAGAATATATAG
1 AAAAGGGAATGAAAAGAATATATAG
31102753 AAAAGGGAAATGAAAAGAATATATA
1 AAAAGGG-AATGAAAAGAATATATA
31102778 ACAATGGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (25 bp):
AAAAGGGAATGAAAAGAATATATAG
Found at i:31103040 original size:2 final size:2
Alignment explanation
Indices: 31103033--31103062 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31103023 TAATCATAAA
31103033 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31103063 TTTTGTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31105495 original size:19 final size:19
Alignment explanation
Indices: 31105471--31105508 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
31105461 TTAGGCTATA
31105471 TATATTAATCACTAATATT
1 TATATTAATCACTAATATT
31105490 TATATTAATCACTAATATT
1 TATATTAATCACTAATATT
31105509 AGGCGAGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATTAATCACTAATATT
Found at i:31120518 original size:17 final size:18
Alignment explanation
Indices: 31120496--31120529 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31120486 CACTTAGCTG
*
31120496 AAGAAAATAAAA-AAAAA
1 AAGAAAAGAAAATAAAAA
31120513 AAGAAAAGAAAATAAAA
1 AAGAAAAGAAAATAAAA
31120530 TTGCCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (18 bp):
AAGAAAAGAAAATAAAAA
Found at i:31133704 original size:23 final size:22
Alignment explanation
Indices: 31133677--31133729 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
31133667 AATGAAACAT
31133677 TATTAATATTAATATGATTAAAA
1 TATTAATATTAATAT-ATTAAAA
* *
31133700 TATTAAATATTAATATTTTAAAT
1 TATT-AATATTAATATATTAAAA
31133723 TATTAAT
1 TATTAAT
31133730 GTTTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 3 0.11
23 13 0.48
24 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TATTAATATTAATATATTAAAA
Found at i:31133743 original size:15 final size:16
Alignment explanation
Indices: 31133675--31133735 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
31133665 TAAATGAAAC
31133675 ATTATTAATA--TTAA
1 ATTATTAATATTTTAA
* * *
31133689 TATGATTAAAATATTAA
1 -ATTATTAATATTTTAA
31133706 A-TATTAATATTTTAA
1 ATTATTAATATTTTAA
*
31133721 ATTATTAATGTTTTA
1 ATTATTAATATTTTA
31133736 TTTATTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
15 20 0.54
16 13 0.35
17 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTATTAATATTTTAA
Found at i:31134517 original size:91 final size:89
Alignment explanation
Indices: 31134403--31134599 Score: 252
Period size: 91 Copynumber: 2.2 Consensus size: 89
31134393 TAAATTTATC
*
31134403 ACTA-AAATATTAATAATTTAAAATGTTAATGATTCAATTATAAATAAAATATTAATATCTAAAT
1 ACTATAAATATTAAT-ATTTAAAATGTTAATGATTAAATTATAAATAAAATATTAATATCTAAAT
* * * * *
31134467 TATCGATTATTAATATTTTCATTAA
65 GATCAATTATAAATATTTTAAATAA
* * * *
31134492 ACTATAAAGTATTAATATTTAAAAATGTTAATGATTAAATTGTAAATAAAATATTGATTTTTAAA
1 ACTATAAA-TATTAATATTT-AAAATGTTAATGATTAAATTATAAATAAAATATTAATATCTAAA
31134557 TGATCAATTATAAATATTTTAAATAA
64 TGATCAATTATAAATATTTTAAATAA
* *
31134583 ATTATAAATTTTAATAT
1 ACTATAAATATTAATAT
31134600 AAAAACAAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
89 4 0.04
90 15 0.16
91 74 0.80
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.43
Consensus pattern (89 bp):
ACTATAAATATTAATATTTAAAATGTTAATGATTAAATTATAAATAAAATATTAATATCTAAATG
ATCAATTATAAATATTTTAAATAA
Found at i:31134737 original size:42 final size:42
Alignment explanation
Indices: 31134640--31134740 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
31134630 AAAATAACAT
* * *
31134640 TTAAATTTATAAATAAACTATTAATATTTCAAAATGTTAATGA
1 TTAAATTT-TAAATAAAATATTAATATTTCAAAATATCAATGA
* * *
31134683 TTAAATTATAAATAAAATATTAATATTT-AAATTATCAATTA
1 TTAAATTTTAAATAAAATATTAATATTTCAAAATATCAATGA
31134724 TTAATATTTTAAATAAA
1 TTAA-ATTTTAAATAAA
31134741 TTATAAATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 13 0.26
42 30 0.60
43 7 0.14
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (42 bp):
TTAAATTTTAAATAAAATATTAATATTTCAAAATATCAATGA
Found at i:31134844 original size:156 final size:156
Alignment explanation
Indices: 31134495--31134873 Score: 557
Period size: 156 Copynumber: 2.4 Consensus size: 156
31134485 TCATTAAACT
* * * *
31134495 ATAAAGTATTAATATTTAAAAATGTTAATGATTAAATTGTAAATAAAATATTGATTTTTAAATGA
1 ATAAACTATTAATATTTAAAAATGTTAATGATTAAATTATAAATAAAATATTAATTTTTAAATTA
31134560 TCAATTATAAATATTTTAAATAAATTATAAATTTTAATATAAAAACAAAATAAAATAAAAACAAA
66 TCAATTATAAATATTTTAAATAAATTATAAA-TTTAATATAAAAACAAAATAAAATAAAAACAAA
31134625 TAATCAAAATAACATTTAAATTTATAA
130 TAATCAAAATAACATTTAAATTTATAA
* *
31134652 ATAAACTATTAATATTTCAAAATGTTAATGATTAAATTATAAATAAAATATTAATATTTAAATTA
1 ATAAACTATTAATATTTAAAAATGTTAATGATTAAATTATAAATAAAATATTAATTTTTAAATTA
* *** *
31134717 TCAATTATTAATATTTTAAATAAATTATAAA-TTAATA-ACATTTCAAAAATAAAATAAAAATAA
66 TCAATTATAAATATTTTAAATAAATTATAAATTTAATATA-AAAAC-AAAATAAAATAAAAACAA
* *
31134780 ATAATCATAATAACATTTGAATTTATAA
129 ATAATCAAAATAACATTTAAATTTATAA
* * *
31134808 ATGAAA-TATTAATATTTTAGAATGTTAATGATTAAATTATAAATAAATTATTAATTTTTAAATT
1 AT-AAACTATTAATATTTAAAAATGTTAATGATTAAATTATAAATAAAATATTAATTTTTAAATT
31134872 AT
65 AT
31134874 TAACTTTTAA
Statistics
Matches: 202, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
154 1 0.00
155 8 0.04
156 101 0.50
157 92 0.46
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (156 bp):
ATAAACTATTAATATTTAAAAATGTTAATGATTAAATTATAAATAAAATATTAATTTTTAAATTA
TCAATTATAAATATTTTAAATAAATTATAAATTTAATATAAAAACAAAATAAAATAAAAACAAAT
AATCAAAATAACATTTAAATTTATAA
Found at i:31134849 original size:42 final size:41
Alignment explanation
Indices: 31134802--31135017 Score: 142
Period size: 42 Copynumber: 5.2 Consensus size: 41
31134792 ACATTTGAAT
*
31134802 TTATAAATGAAATATTAATATTTTAGAATGTTAATGATTAAA
1 TTATAAATAAAATATTAATATTTTA-AATGTTAATGATTAAA
* * *
31134844 TTATAAATAAATTATTAAT-TTTTAAATTATTAACT-TTTAAA
1 TTATAAATAAAATATTAATATTTTAAA-TGTTAA-TGATTAAA
** * * * *
31134885 AAATAAAATAAAATA-AAAAATAATTATAA---TAA-CATTTAAA
1 TTAT-AAATAAAATATTAATAT-TTTA-AATGTTAATGA-TTAAA
* * *
31134925 TTATAAATAAAATATTATTATTTTAAAATGTTAATGACTGAA
1 TTATAAATAAAATATTAATATTTT-AAATGTTAATGATTAAA
* * *
31134967 TTATAAATAAAATATTAATA-TTTAAATGATCAATTATTATA
1 TTATAAATAAAATATTAATATTTTAAATG-TTAATGATTAAA
*
31135008 TTTTAAATAA
1 TTATAAATAA
31135018 TTATATATTA
Statistics
Matches: 132, Mismatches: 27, Indels: 31
0.69 0.14 0.16
Matches are distributed among these distances:
39 14 0.11
40 21 0.16
41 38 0.29
42 53 0.40
43 4 0.03
44 2 0.02
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (41 bp):
TTATAAATAAAATATTAATATTTTAAATGTTAATGATTAAA
Found at i:31134871 original size:15 final size:15
Alignment explanation
Indices: 31134851--31134884 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
31134841 AAATTATAAA
*
31134851 TAAATTATTAATTTT
1 TAAATTATTAACTTT
31134866 TAAATTATTAACTTT
1 TAAATTATTAACTTT
31134881 TAAA
1 TAAA
31134885 AAATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAATTATTAACTTT
Found at i:31134938 original size:156 final size:154
Alignment explanation
Indices: 31134495--31134938 Score: 475
Period size: 156 Copynumber: 2.8 Consensus size: 154
31134485 TCATTAAACT
* * * *
31134495 ATAAAGTATTAATATTTAAAAATGTTAATGATTAAATTGTAAATAAAATATTGATTTTTAAATGA
1 ATAAACTATTAATATTTAAAAATGTTAATGATTAAATTATAAATAAAATATTAATTTTTAAATTA
* ** * *
31134560 TCAATTATAAATATTTTAAATAAATTATAAATTTTAA-TATAAAAACAAAATAAA-ATAAAAACA
66 TCAATTTTAAA-ATTTTAAATAAA--ATAAAAATTAATTATAATAAC-AAATAAATATAAATA-A
31134623 AATAATCAAAATAACATTTAAATTTATAA
126 AATAATCAAAATAACATTTAAATTTATAA
* *
31134652 ATAAACTATTAATATTTCAAAATGTTAATGATTAAATTATAAATAAAATATTAATATTTAAATTA
1 ATAAACTATTAATATTTAAAAATGTTAATGATTAAATTATAAATAAAATATTAATTTTTAAATTA
* * * * * * *
31134717 TCAATTATTAATATTTTAAATAAATTATAAATTAATAACATTTCAA-AAATAAA-ATAAAAATAA
66 TCAATT-TTAAAATTTTAAATAAAATAAAAATTAATTATA-AT-AACAAATAAATATAAATA-AA
* *
31134780 ATAATCATAATAACATTTGAATTTATAA
127 ATAATCAAAATAACATTTAAATTTATAA
* * *
31134808 ATGAAA-TATTAATATTTTAGAATGTTAATGATTAAATTATAAATAAATTATTAATTTTTAAATT
1 AT-AAACTATTAATATTTAAAAATGTTAATGATTAAATTATAAATAAAATATTAATTTTTAAATT
* ** * * **
31134872 ATTAACTTTTAAAAAATAAAATAAAATAAAAAATAATTATAATAACATTTAAATTATAAATAAAA
65 ATCAA-TTTTAAAATTTTAAATAAAATAAAAATTAATTATAATAACAAATAAA-TATAAATAAAA
31134937 TA
128 TA
31134939 TTATTATTTT
Statistics
Matches: 241, Mismatches: 37, Indels: 19
0.81 0.12 0.06
Matches are distributed among these distances:
154 2 0.01
155 13 0.05
156 133 0.55
157 88 0.37
158 5 0.02
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (154 bp):
ATAAACTATTAATATTTAAAAATGTTAATGATTAAATTATAAATAAAATATTAATTTTTAAATTA
TCAATTTTAAAATTTTAAATAAAATAAAAATTAATTATAATAACAAATAAATATAAATAAAATAA
TCAAAATAACATTTAAATTTATAA
Found at i:31134941 original size:123 final size:122
Alignment explanation
Indices: 31134744--31134993 Score: 358
Period size: 123 Copynumber: 2.0 Consensus size: 122
31134734 AAATAAATTA
* * *
31134744 TAAATTAATAACATTTCAAAAATAAAATAAAAATAAATAATCATAATAACATTTGAATTTATAAA
1 TAAATTAATAACATTTAAAAAATAAAATAAAAAAAAATAATCATAATAACATTTGAAATTATAAA
* * * * *
31134809 TGAAATATTAATATTTTAGAATGTTAATGATTAAATTATAAATAAATTATTAATTTT
66 TAAAATATTAATATTTTAAAATGTTAATGACTAAATTATAAATAAAATATTAATATT
* * *
31134866 TAAATTATTAACTTTTAAAAAATAAAATAAAATAAAAAATAATTATAATAACATTT-AAATTATA
1 TAAATTAATAACATTTAAAAAATAAAAT-AAA-AAAAAATAATCATAATAACATTTGAAATTATA
* *
31134930 AATAAAATATTATTATTTTAAAATGTTAATGACTGAATTATAAATAAAATATTAATATT
64 AATAAAATATTAATATTTTAAAATGTTAATGACTAAATTATAAATAAAATATTAATATT
31134989 TAAAT
1 TAAAT
31134994 GATCAATTAT
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
122 25 0.22
123 67 0.59
124 21 0.19
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (122 bp):
TAAATTAATAACATTTAAAAAATAAAATAAAAAAAAATAATCATAATAACATTTGAAATTATAAA
TAAAATATTAATATTTTAAAATGTTAATGACTAAATTATAAATAAAATATTAATATT
Found at i:31135037 original size:25 final size:22
Alignment explanation
Indices: 31134979--31135039 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 22
31134969 ATAAATAAAA
*
31134979 TATTAATATTTAAATGATCAAT
1 TATTAATATTTAAATAATCAAT
*
31135001 TATT-ATATTTTAAATAATTATATAT
1 TATTAATA-TTTAAATAA-T-CA-AT
31135026 TATTAATATTTAAA
1 TATTAATATTTAAA
31135040 AATATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 3 0.09
22 12 0.38
23 1 0.03
24 1 0.03
25 12 0.38
26 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTAATATTTAAATAATCAAT
Done.