Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 34 of 292
Found at i:9127163 original size:22 final size:22
Alignment explanation
Indices: 9127135--9127178 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9127125 AATATATGTA
9127135 CAAACATCAGATTATACAATAT
1 CAAACATCAGATTATACAATAT
*
9127157 CAAACATCATATTATACAATAT
1 CAAACATCAGATTATACAATAT
9127179 TAGATAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (22 bp):
CAAACATCAGATTATACAATAT
Found at i:9134999 original size:22 final size:22
Alignment explanation
Indices: 9134974--9135016 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9134964 GACACGGAGT
* *
9134974 ATATCAGATACAGATGCAGAAC
1 ATATCAAATACAAATGCAGAAC
*
9134996 ATATGAAATACAAATGCAGAA
1 ATATCAAATACAAATGCAGAA
9135017 TCCTACCTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (22 bp):
ATATCAAATACAAATGCAGAAC
Found at i:9140481 original size:6 final size:6
Alignment explanation
Indices: 9140470--9140504 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
9140460 GGAAAAAGTA
*
9140470 GGGGAT GGGGAT GGGGAT CGGGAT GGGGAT GGGGA
1 GGGGAT GGGGAT GGGGAT GGGGAT GGGGAT GGGGA
9140505 ATAATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.03, G:0.66, T:0.14
Consensus pattern (6 bp):
GGGGAT
Found at i:9142907 original size:85 final size:86
Alignment explanation
Indices: 9142770--9142997 Score: 345
Period size: 85 Copynumber: 2.7 Consensus size: 86
9142760 TTTATTGTGA
* * *
9142770 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGCTCAAG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTAAAGCTCAAG
*
9142835 GCTTTTAGCGGCGTTTGT-GG
66 GCTTTTAGCGACGTTTGTGGG
* * *
9142855 TAAAGCGCTGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTAAAGGTCAAG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTAAAGCTCAAG
9142920 GCTTTTAGCGACGTTTGTGGG
66 GCTTTTAGCGACGTTTGTGGG
*
9142941 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTTTT-TTACAAA-CGCCGCTAA
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTTTGGTA-AAAGCGCCGCTAA
9142998 TTTTGGCAGA
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
85 76 0.58
86 46 0.35
87 8 0.06
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTAAAGCTCAAG
GCTTTTAGCGACGTTTGTGGG
Found at i:9142997 original size:43 final size:43
Alignment explanation
Indices: 9142770--9142975 Score: 342
Period size: 43 Copynumber: 4.8 Consensus size: 43
9142760 TTTATTGTGA
* *
9142770 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
*
9142813 AAAAGCGCCGCTAAAGCTCAAGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
* *
9142856 -AAAGCGCTGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
* *
9142898 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGACGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
9142941 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
9142976 CTTTTTTTAC
Statistics
Matches: 151, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
42 39 0.26
43 112 0.74
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
Found at i:9143085 original size:31 final size:31
Alignment explanation
Indices: 9143050--9143132 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
9143040 CTTCCTGCAT
* *
9143050 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
9143081 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
9143112 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
9143133 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.61, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:9149001 original size:9 final size:9
Alignment explanation
Indices: 9148987--9149113 Score: 105
Period size: 9 Copynumber: 13.6 Consensus size: 9
9148977 ATGTATTAGT
9148987 TAAGTTATG
1 TAAGTTATG
9148996 TAAGTTGTTATG
1 TAA---GTTATG
*
9149008 TACGTTATG
1 TAAGTTATG
*
9149017 TGAGTTATG
1 TAAGTTATG
*
9149026 TAAATTATG
1 TAAGTTATG
9149035 TAAGTTATG
1 TAAGTTATG
*
9149044 TAAATTATG
1 TAAGTTATG
9149053 TAAGTTGTTATG
1 TAA---GTTATG
*
9149065 TAAATTACT-
1 TAAGTTA-TG
*
9149074 TAAGTTATA
1 TAAGTTATG
*
9149083 TGAGTTATG
1 TAAGTTATG
9149092 TAAGTTATG
1 TAAGTTATG
*
9149101 TAATTTAT-
1 TAAGTTATG
9149109 TAAGT
1 TAAGT
9149114 AATGATCAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
8 5 0.05
9 73 0.77
10 1 0.01
12 16 0.17
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:9149063 original size:57 final size:57
Alignment explanation
Indices: 9148991--9149113 Score: 160
Period size: 57 Copynumber: 2.2 Consensus size: 57
9148981 ATTAGTTAAG
** * *
9148991 TTATGTAAGTTGTTATGTACGTTA-TGTGAGTTATGTAAATTATGTAAGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAATTACT-TAAGTTATATAAATTATGTAAGTTATGTAAA
* * *
9149048 TTATGTAAGTTGTTATGTAAATTACTTAAGTTATATGAGTTATGTAAGTTATGTAAT
1 TTATGTAAGTTGTTATGTAAATTACTTAAGTTATATAAATTATGTAAGTTATGTAAA
9149105 TTAT-TAAGT
1 TTATGTAAGT
9149114 AATGATCAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
56 5 0.09
57 52 0.90
58 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (57 bp):
TTATGTAAGTTGTTATGTAAATTACTTAAGTTATATAAATTATGTAAGTTATGTAAA
Found at i:9152015 original size:25 final size:25
Alignment explanation
Indices: 9151981--9152045 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
9151971 TGCGGAAGCG
9151981 GAGAGCGACGGCGAAGGGACACAGAA
1 GAGA-CGACGGCGAAGGGACACAGAA
* *
9152007 GAGACGACGGTGAAGGGACGCAGAA
1 GAGACGACGGCGAAGGGACACAGAA
*
9152032 GAGACGATGGCGAA
1 GAGACGACGGCGAA
9152046 CAACGATGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
25 31 0.89
26 4 0.11
ACGTcount: A:0.37, C:0.17, G:0.43, T:0.03
Consensus pattern (25 bp):
GAGACGACGGCGAAGGGACACAGAA
Found at i:9152592 original size:158 final size:157
Alignment explanation
Indices: 9152296--9152670 Score: 363
Period size: 158 Copynumber: 2.4 Consensus size: 157
9152286 ATCTTTGAAG
* * * *
9152296 AAAACGACGCCG-TTCCTGTTAAGCACTAATGT-T-TTTTGCGGCGTTTATTTAAAAAATGCCGC
1 AAAACGACGCCGTTTTC-GTTAA--ACTAATCTATATTTTGCGGCGTTTATCTAAAAAACGCCGC
* * *
9152358 TAATCCCTATATACTCAACTAAAACGACGACGTGTACTATAAACTTGAATTATTTTGCGGCGTTT
63 AAATCCCTATATACTCAACTAAAACGACGACGTGTACCATAAACTTGAATTATGTTGCGGCGTTT
* *
9152423 TTGAAAGCGCCACTAATACCCGTAT--ATACT
128 TTAAAAACGCCACTAATACCC-TATCAAT-CT
* *
9152453 AAAACGGCGCCGTTTTCGTTAAACTAATCTATATTTTGTGGCGTTT-TCTATAAAAACGCCGCAA
1 AAAACGACGCCGTTTTCGTTAAACTAATCTATATTTTGCGGCGTTTATCTA-AAAAACGCCGCAA
* * * * * *
9152517 ATCCCCTATATATTGAACTAAAACGACGACGCT-T-CCAGTACACTTTACTTCTGTTGCGGCGTT
65 AT-CCCTATATACTCAACTAAAACGACGACG-TGTACCA-TAAACTTGAATTATGTTGCGGCGTT
* *
9152580 TTTAAAAACGCCACTAGTACTCTATCAATCT
127 TTTAAAAACGCCACTAATACCCTATCAATCT
* * * * * * *
9152611 AAAACGACGCCGTTTTCTTTCAACTATAT-TGTTTTTTGCGACGTTTTTTTAAAAAACGCC
1 AAAACGACGCCGTTTTCGTTAAACTA-ATCTATATTTTGCGGCGTTTATCTAAAAAACGCC
9152671 ACTAATCTCT
Statistics
Matches: 180, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
155 7 0.04
156 4 0.02
157 46 0.26
158 115 0.64
159 8 0.04
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (157 bp):
AAAACGACGCCGTTTTCGTTAAACTAATCTATATTTTGCGGCGTTTATCTAAAAAACGCCGCAAA
TCCCTATATACTCAACTAAAACGACGACGTGTACCATAAACTTGAATTATGTTGCGGCGTTTTTA
AAAACGCCACTAATACCCTATCAATCT
Found at i:9153671 original size:14 final size:14
Alignment explanation
Indices: 9153651--9153695 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
9153641 TCCTACACCT
9153651 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
9153665 TATACCCTAAA-TCA
1 TAAACCCTAAACT-A
9153679 TAAACCCTAAACTA
1 TAAACCCTAAACTA
9153693 TAA
1 TAA
9153696 TGATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:9153980 original size:7 final size:7
Alignment explanation
Indices: 9153968--9154087 Score: 91
Period size: 7 Copynumber: 17.1 Consensus size: 7
9153958 AAAAACGCCA
9153968 CTAAACC
1 CTAAACC
9153975 CTAAACC
1 CTAAACC
9153982 CTAAACC
1 CTAAACC
* *
9153989 TTAAACA
1 CTAAACC
*
9153996 CTAAACT
1 CTAAACC
9154003 CTAAACC
1 CTAAACC
*
9154010 CTTAACC
1 CTAAACC
*
9154017 CTTAACC
1 CTAAACC
*
9154024 CCAAACC
1 CTAAACC
*
9154031 CTTACACC
1 C-TAAACC
*
9154039 TTAAACTC
1 CTAAAC-C
*
9154047 C--AGCC
1 CTAAACC
*
9154052 CTAACCC
1 CTAAACC
9154059 CTAAACC
1 CTAAACC
*
9154066 CTAAATC
1 CTAAACC
* *
9154073 ATAATCC
1 CTAAACC
9154080 CTAAACC
1 CTAAACC
9154087 C
1 C
9154088 ATAATTCATC
Statistics
Matches: 87, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
5 2 0.02
6 2 0.02
7 78 0.90
8 5 0.06
ACGTcount: A:0.38, C:0.41, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:9154156 original size:21 final size:21
Alignment explanation
Indices: 9154130--9154214 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
9154120 ACTCCTAAAC
*
9154130 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* * *
9154151 CTTAAACTATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
9154176 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
9154197 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
9154215 AACTATAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 31 0.61
22 3 0.06
24 3 0.06
25 14 0.27
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:9154167 original size:46 final size:46
Alignment explanation
Indices: 9154114--9154203 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
9154104 CTTCAAATAC
*
9154114 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACTA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
9154160 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
9154204 CATAAACCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
Found at i:9154183 original size:7 final size:7
Alignment explanation
Indices: 9154169--9154222 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
9154159 ATAGTTAACT
9154169 CATAAAC
1 CATAAAC
*
9154176 CTTAAAC
1 CATAAAC
*
9154183 CCTAAAC
1 CATAAAC
* *
9154190 CATATAT
1 CATAAAC
*
9154197 CTTAAAC
1 CATAAAC
9154204 CATAAAC
1 CATAAAC
9154211 CATAAAC
1 CATAAAC
*
9154218 TATAA
1 CATAA
9154223 TGATAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:9154514 original size:42 final size:41
Alignment explanation
Indices: 9154375--9154513 Score: 217
Period size: 41 Copynumber: 3.4 Consensus size: 41
9154365 AGGGTATGAC
*
9154375 TTTTAGCGGCGTTTTTACAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
*
9154416 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
9154457 TTTTAGCGGCGTTTTTCCAAAAAGCGCCGCTAATACTCT-AT
1 TTTTAGCGGCGTTTTTCC-AAAAGCGCCGCTAATGCTCTGGT
*
9154498 TTTTTGCGGCGTTTTT
1 TTTTAGCGGCGTTTTT
9154514 TACTAAAACG
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
41 72 0.79
42 19 0.21
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:9167383 original size:18 final size:18
Alignment explanation
Indices: 9167344--9167386 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9167334 TGAATTGAAT
* *
9167344 TTTTTAATTTTTAAGTAT
1 TTTTTAATATTTAAGTAA
9167362 TTTTTAATATTTAA-TAA
1 TTTTTAATATTTAAGTAA
*
9167379 ATTTTAAT
1 TTTTTAAT
9167387 TAGATTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTAATATTTAAGTAA
Found at i:9168970 original size:30 final size:32
Alignment explanation
Indices: 9168936--9168996 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
9168926 AAACCTTTTT
*
9168936 ACTTT-TCCCTCAAAACTTTTAC-CC-CTTCCC
1 ACTTTCTCCC-CAAAACTCTTACTCCTCTTCCC
9168966 ACTTTCTCCCCAAAACTCTTACTCCTCTTCC
1 ACTTTCTCCCCAAAACTCTTACTCCTCTTCC
9168997 ATCCCAACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 16 0.59
31 6 0.22
32 5 0.19
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (32 bp):
ACTTTCTCCCCAAAACTCTTACTCCTCTTCCC
Found at i:9170425 original size:30 final size:30
Alignment explanation
Indices: 9170391--9170455 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
9170381 TCTCGACATA
9170391 AGGAAGAAAATTACTATGGCTTGATTGTGG
1 AGGAAGAAAATTACTATGGCTTGATTGTGG
9170421 AGGAAGAAAATTACTATGGCTTGATTGTGG
1 AGGAAGAAAATTACTATGGCTTGATTGTGG
9170451 AGGAA
1 AGGAA
9170456 ATGTCAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.31, T:0.28
Consensus pattern (30 bp):
AGGAAGAAAATTACTATGGCTTGATTGTGG
Found at i:9174641 original size:18 final size:18
Alignment explanation
Indices: 9174618--9174655 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9174608 TGGTTATAGG
9174618 TTTATTGGGCTTTAGTTA
1 TTTATTGGGCTTTAGTTA
9174636 TTTATTGGGCTTTAGTTA
1 TTTATTGGGCTTTAGTTA
9174654 TT
1 TT
9174656 AAATAATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.05, G:0.21, T:0.58
Consensus pattern (18 bp):
TTTATTGGGCTTTAGTTA
Found at i:9177377 original size:22 final size:21
Alignment explanation
Indices: 9177351--9177400 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
9177341 AAAAAAATAG
9177351 TTTATATATATTTGAAGGTATA
1 TTTATATAT-TTTGAAGGTATA
* *
9177373 TTTATAT-TTTTTAAGGTGTA
1 TTTATATATTTTGAAGGTATA
9177393 TTTATATA
1 TTTATATA
9177401 AAATTTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.68
21 1 0.04
22 7 0.28
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (21 bp):
TTTATATATTTTGAAGGTATA
Found at i:9179174 original size:30 final size:30
Alignment explanation
Indices: 9179104--9179175 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
9179094 GATTAATTCA
*
9179104 AAATTAAAGTTTTAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACATTTGAACC
* *
9179134 ATAGTTAAAGTTTCACATGTATA-A-TTGCACC
1 A-AATTAAAGTTTCA-A-GTATACATTTGAACC
9179165 AAATTAAAGTT
1 AAATTAAAGTT
9179176 GATGTATACA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.29
31 18 0.51
32 2 0.06
33 5 0.14
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACATTTGAACC
Found at i:9195325 original size:21 final size:21
Alignment explanation
Indices: 9195299--9195339 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9195289 ATCTGCTCAA
* *
9195299 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
9195320 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
9195340 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:9200061 original size:44 final size:44
Alignment explanation
Indices: 9200007--9200366 Score: 324
Period size: 44 Copynumber: 8.3 Consensus size: 44
9199997 ATTTGTAAAT
* * * *
9200007 AAAT-TGCCACTAGGCTATGGATGCACAGCAAGATTCGCAGATA
1 AAATCTGCCACTAGGCTATGGATACACAACAAAATTTGCAGATA
* * *
9200050 AAATCTACCACT-GGAC-AGTGAATACACAACAAAATTCGCAGATGA
1 AAATCTGCCACTAGG-CTA-TGGATACACAACAAAATTTGCAGAT-A
* * * * * * *
9200095 AAAT-TGCCACTAAGTTGTGGATGA-GCAAGAAAATTTGTAGATG
1 AAATCTGCCACTAGGCTATGGAT-ACACAACAAAATTTGCAGATA
* * * *
9200138 AAATCTGCCAAT-GGCTGTGGATACACAGCAAAATTCGCAGATA
1 AAATCTGCCACTAGGCTATGGATACACAACAAAATTTGCAGATA
* * * *
9200181 AAATCTACCACTGGGCTATGGGTACACAACAAAATTTGTAGATA
1 AAATCTGCCACTAGGCTATGGATACACAACAAAATTTGCAGATA
* *
9200225 AAATCTTCCACTA-GCTTGTGGATACACAACAAAATTTGCAGATA
1 AAATCTGCCACTAGGC-TATGGATACACAACAAAATTTGCAGATA
* * * * *
9200269 AACTCTGCCACTAAGTTATGGATACACAATAAAATTTGTAGATA
1 AAATCTGCCACTAGGCTATGGATACACAACAAAATTTGCAGATA
* **
9200313 AAATTTGCCACTAGGCCGTGGATACACAACAAAATTTGCAGAT-
1 AAATCTGCCACTAGGCTATGGATACACAACAAAATTTGCAGATA
9200356 AAA-CTGCCACT
1 AAATCTGCCACT
9200367 TTCTTCTATA
Statistics
Matches: 254, Mismatches: 51, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
42 8 0.03
43 47 0.19
44 191 0.75
45 8 0.03
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (44 bp):
AAATCTGCCACTAGGCTATGGATACACAACAAAATTTGCAGATA
Found at i:9200259 original size:131 final size:129
Alignment explanation
Indices: 9199995--9200366 Score: 403
Period size: 131 Copynumber: 2.9 Consensus size: 129
9199985 AACCACCAGT
* * *
9199995 AAATTTGTAAATAAAT-TGCCACTAGGCTATGGATGCACAGCAAGATTCGCAGATAAAATCTACC
1 AAATTTGTAGATAAATCTGCCACTAGGCTATGGATACACAGCAAAATTCGCAGATAAAATCTACC
* * * * *
9200059 ACTGGACAGTGAATACACAACAAAATTCGCAGATGAAAATTGCCACTAAGTTGTGGATGAGCAAG
66 ACTGGGCA-TGGATACACAACAAAATTTGCAGAT-AAAATTGCCACTAAGTTGTGGATGAACAAC
9200124 A
129 A
* *
9200125 AAATTTGTAGATGAAATCTGCCAAT-GGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTAC
1 AAATTTGTAGAT-AAATCTGCCACTAGGCTATGGATACACAGCAAAATTCGCAGATAAAATCTAC
* * *
9200189 CACTGGGCTATGGGTACACAACAAAATTTGTAGATAAAATCTTCCACT-AGCTTGTGGAT-ACAC
65 CACTGGGC-ATGGATACACAACAAAATTTGCAGATAAAAT-TGCCACTAAG-TTGTGGATGA-AC
9200252 AACA
126 AACA
* * * ** * * * *
9200256 AAATTTGCAGATAAACTCTGCCACTAAGTTATGGATACACAATAAAATTTGTAGATAAAATTTGC
1 AAATTTGTAGATAAA-TCTGCCACTAGGCTATGGATACACAGCAAAATTCGCAGATAAAATCTAC
* * *
9200321 CACTAGGCCGTGGATACACAACAAAATTTGCAGAT-AAACTGCCACT
65 CACT-GGGCATGGATACACAACAAAATTTGCAGATAAAATTGCCACT
9200367 TTCTTCTATA
Statistics
Matches: 203, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
130 28 0.14
131 108 0.53
132 64 0.32
133 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (129 bp):
AAATTTGTAGATAAATCTGCCACTAGGCTATGGATACACAGCAAAATTCGCAGATAAAATCTACC
ACTGGGCATGGATACACAACAAAATTTGCAGATAAAATTGCCACTAAGTTGTGGATGAACAACA
Found at i:9200359 original size:88 final size:87
Alignment explanation
Indices: 9200007--9200366 Score: 379
Period size: 88 Copynumber: 4.1 Consensus size: 87
9199997 ATTTGTAAAT
* * * * * * * * * *
9200007 AAAT-TGCCACTAGGCTATGGATGCACAGCAAGATTCGCAGATAAAATCTACCACTGGACAGTGA
1 AAATCTGCCACTAAGTTATGGATACACAACAAAATTTGTAGATAAAATCTGCCACTGG-CTGTGG
9200071 ATACACAACAAAATTCGCAGATGA
65 ATACACAACAAAATTCGCAGAT-A
* * * * *
9200095 AAAT-TGCCACTAAGTTGTGGATGA-GCAAGAAAATTTGTAGATGAAATCTGCCAATGGCTGTGG
1 AAATCTGCCACTAAGTTATGGAT-ACACAACAAAATTTGTAGATAAAATCTGCCACTGGCTGTGG
*
9200158 ATACACAGCAAAATTCGCAGATA
65 ATACACAACAAAATTCGCAGATA
* ** * * * *
9200181 AAATCTACCACTGGGCTATGGGTACACAACAAAATTTGTAGATAAAATCTTCCACTAGCTTGTGG
1 AAATCTGCCACTAAGTTATGGATACACAACAAAATTTGTAGATAAAATCTGCCACTGGC-TGTGG
*
9200246 ATACACAACAAAATTTGCAGATA
65 ATACACAACAAAATTCGCAGATA
* * * *
9200269 AACTCTGCCACTAAGTTATGGATACACAATAAAATTTGTAGATAAAATTTGCCACTAGGCCGTGG
1 AAATCTGCCACTAAGTTATGGATACACAACAAAATTTGTAGATAAAATCTGCCACT-GGCTGTGG
*
9200334 ATACACAACAAAATTTGCAGAT-
65 ATACACAACAAAATTCGCAGATA
9200356 AAA-CTGCCACT
1 AAATCTGCCACT
9200367 TTCTTCTATA
Statistics
Matches: 225, Mismatches: 42, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
86 14 0.06
87 67 0.30
88 142 0.63
89 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (87 bp):
AAATCTGCCACTAAGTTATGGATACACAACAAAATTTGTAGATAAAATCTGCCACTGGCTGTGGA
TACACAACAAAATTCGCAGATA
Found at i:9200482 original size:38 final size:37
Alignment explanation
Indices: 9200426--9200525 Score: 137
Period size: 38 Copynumber: 2.6 Consensus size: 37
9200416 TGCAATAGAA
* *
9200426 CAATTCAACACTAGCAGTAGACATGTTTAACATGTACT
1 CAATTCATCACTA-CAGTAGACATGTTCAACATGTACT
9200464 CAATTCATCACTGACAGTAGACATGTTCAACATGTACT
1 CAATTCATCACT-ACAGTAGACATGTTCAACATGTACT
* *
9200502 CAATTCATCATTAACAATAGACAT
1 CAATTCATCACT-ACAGTAGACAT
9200526 TATCATGTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 55 0.98
39 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (37 bp):
CAATTCATCACTACAGTAGACATGTTCAACATGTACT
Found at i:9201367 original size:2 final size:2
Alignment explanation
Indices: 9201360--9201390 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9201350 GAAAGATAAA
9201360 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 A
9201391 GAATGTAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9207753 original size:7 final size:7
Alignment explanation
Indices: 9207741--9207766 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9207731 GGGTTTGTTG
9207741 TAGGGTT
1 TAGGGTT
9207748 TAGGGTT
1 TAGGGTT
9207755 TAGGGTT
1 TAGGGTT
9207762 TAGGG
1 TAGGG
9207767 CTCATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (7 bp):
TAGGGTT
Found at i:9210491 original size:9 final size:9
Alignment explanation
Indices: 9210473--9210507 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
9210463 ACTTGATACT
9210473 TATA-TATA
1 TATATTATA
9210481 TATATTATA
1 TATATTATA
9210490 TATATTATA
1 TATATTATA
9210499 TAGTATTAT
1 TA-TATTAT
9210508 TAATAGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 4 0.16
9 15 0.60
10 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (9 bp):
TATATTATA
Found at i:9210699 original size:34 final size:34
Alignment explanation
Indices: 9210634--9210699 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
9210624 GTGTATATTT
**
9210634 TTTAATATATATATGTATATATTATGTACATACC
1 TTTAATATATATATGTATATATTATCAACATACC
* *
9210668 TTTAATAT-TATCATGTATTTATTTTCAACATA
1 TTTAATATATAT-ATGTATATATTATCAACATA
9210700 TATATATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.11
34 24 0.89
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (34 bp):
TTTAATATATATATGTATATATTATCAACATACC
Found at i:9210886 original size:3 final size:3
Alignment explanation
Indices: 9210878--9211038 Score: 89
Period size: 3 Copynumber: 54.3 Consensus size: 3
9210868 ACTTTTACTT
* * * *
9210878 TTA TTA TTA TCA TTA -TA TTA -TA TTA TTT TTA TTTA TTT TCTA TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TTA
** * * * * * * * *
9210923 CCA TTA TCA TCA TTA TTA TTA TTA ATA TTA ATG TTC TTA TTA TGA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
9210971 TTA TTA TCA TTA TCA TTA GTA TTA TTA -TA TT- TTA ATA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9211017 TTA TT- TATA TTA TTA TTA TTA T
1 TTA TTA T-TA TTA TTA TTA TTA T
9211039 CGTTTTCGTT
Statistics
Matches: 116, Mismatches: 34, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
2 9 0.08
3 101 0.87
4 6 0.05
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:9211151 original size:2 final size:2
Alignment explanation
Indices: 9211144--9211168 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9211134 ATGCTTTTGT
9211144 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9211169 TACTAGCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9223091 original size:44 final size:42
Alignment explanation
Indices: 9223027--9223360 Score: 248
Period size: 44 Copynumber: 7.7 Consensus size: 42
9223017 GAACTCATCG
9223027 CCCTAAGCAGTAGGGAAACAGATCGAATGTGACAAGCCTTAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAA-GTGACAAGCCTTAAC
* * * * * * * *
9223070 CCTCTAAACAGTAGAGTAACAG-GCTGAAGATTA-TAGATCTTATC
1 CC-CTAAGCAGTAGGGAAACAGATC-GAAG-TGACAAG-CCTTAAC
9223114 CCCTTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAC
1 CCC-TAAGCAGTAGGGAAACAGATCGAA-GTGACAAGCCTTAAC
** * * * * *
9223158 TCCCTAAGCAGTAGGGTGATAG-GCTGAATTTAC-AGATCTTAACC
1 -CCCTAAGCAGTAGGGAAACAGATC-GAAGTGACAAG-CCTTAA-C
*
9223202 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGACAAGCTTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAG-TGACAAGCCTTAA-C
*
9223246 CCCTAAACAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAA-GTGACAAGCCTTAAC
** * * * * *
9223289 CCTCTAAGCAGTAGGGTGACAG-GCTGAATTTAC-AGATCTTATC
1 CC-CTAAGCAGTAGGGAAACAGATC-GAAGTGACAAG-CCTTAAC
9223332 ACCCTAAGCAGTAGGGAAACAGATCGAAG
1 -CCCTAAGCAGTAGGGAAACAGATCGAAG
9223361 ATGATAGACC
Statistics
Matches: 225, Mismatches: 45, Indels: 42
0.72 0.14 0.13
Matches are distributed among these distances:
42 4 0.02
43 69 0.31
44 142 0.63
45 10 0.04
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGTGACAAGCCTTAAC
Found at i:9223149 original size:88 final size:87
Alignment explanation
Indices: 9222975--9223266 Score: 372
Period size: 88 Copynumber: 3.3 Consensus size: 87
9222965 ATTTACAGAT
* * * *
9222975 CTTAACCCCCTAAACAATAGGGTAACAGGATGAAGATT-TGAAGAACTCATCGCCCTAAGCAGTA
1 CTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTAT--AGATCTTATC-CCCTAAGCAGTA
*
9223039 GGGAAACAGATCGAATGTGACAAGC
63 GGGAAACAGATCGAAGGTGACAAGC
* *
9223064 CTTAACCCTCTAAACAGTAGAGTAACAGGCTGAAGATTATAGATCTTATCCCCTTAAGCAGTAGG
1 CTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTATAGATCTTATCCCC-TAAGCAGTAGG
9223129 GAAACAGATCGAAGGTGACAAGC
65 GAAACAGATCGAAGGTGACAAGC
* * * * * * *
9223152 CTTAACTCCCTAAGCAGTAGGGTGATAGGCTGAA-TTTACAGATCTTAACCCCCTAAGCAGTAGG
1 CTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTATAGATCTT-ATCCCCTAAGCAGTAGG
*
9223216 GAAACAGATCGAAGTTGACAAGC
65 GAAACAGATCGAAGGTGACAAGC
* *
9223239 TTTAACCCCCTAAACAGTAGGGAAACAG
1 CTTAACCCCCTAAACAGTAGGGTAACAG
9223267 ATCGAAGGTG
Statistics
Matches: 177, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
87 68 0.38
88 74 0.42
89 34 0.19
90 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (87 bp):
CTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTATAGATCTTATCCCCTAAGCAGTAGGG
AAACAGATCGAAGGTGACAAGC
Found at i:9223235 original size:87 final size:87
Alignment explanation
Indices: 9222932--9223266 Score: 347
Period size: 88 Copynumber: 3.8 Consensus size: 87
9222922 ATTCACAAGC
* * * * * * * *
9222932 CTTAACCCCCTAAACAGTAGGGTAGCAGGTTGAA-TTTAC-AGATCTTAACCCCCTAAACAATAG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGTTGACAAG-CCTTAA-CCCCTAAACAGTAG
* *
9222995 GGTAACAGGATGAAGATTTGA-AGAA
64 GGTAACAGGCTGAAGA-TT-ACAGAT
* * *
9223020 CTCATCGCCCTAAGCAGTAGGGAAACAGATCGAA-TGTGACAAGCCTTAACCCTCTAAACAGTAG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGT-TGACAAGCCTTAACCC-CTAAACAGTAG
* *
9223084 AGTAACAGGCTGAAGATTATAGAT
64 GGTAACAGGCTGAAGATTACAGAT
* * * *
9223108 CTTATCCCCTTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAACTCCCTAAGCAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGTTGACAAGCCTTAAC-CCCTAAACAGTAGG
* * *
9223173 GTGATAGGCTGAA-TTTACAGAT
65 GTAACAGGCTGAAGATTACAGAT
*
9223195 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGTTGACAAGCTTTAACCCCCTAAACAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGTTGACAAGCCTTAA-CCCCTAAACAGTAGG
*
9223260 GAAACAG
65 GTAACAG
9223267 ATCGAAGGTG
Statistics
Matches: 208, Mismatches: 32, Indels: 15
0.82 0.13 0.06
Matches are distributed among these distances:
87 70 0.34
88 102 0.49
89 34 0.16
90 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (87 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGTTGACAAGCCTTAACCCCTAAACAGTAGGG
TAACAGGCTGAAGATTACAGAT
Found at i:9223257 original size:131 final size:131
Alignment explanation
Indices: 9223113--9223360 Score: 435
Period size: 131 Copynumber: 1.9 Consensus size: 131
9223103 TAGATCTTAT
* *
9223113 CCCCTTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAACTCC-CTAAGCAGTAGGGTGA
1 CCCCCTAAACAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAC-CCTCTAAGCAGTAGGGTGA
* *
9223177 TAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGTTGACAAGCTTT
65 CAGGCTGAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGTTGACAAGCTTT
9223242 AA
130 AA
9223244 CCCCCTAAACAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAACCCTCTAAGCAGTAGGGTGAC
1 CCCCCTAAACAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAACCCTCTAAGCAGTAGGGTGAC
*
9223309 AGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAG
66 AGGCTGAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAG
9223361 ATGATAGACC
Statistics
Matches: 111, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
130 2 0.02
131 109 0.98
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (131 bp):
CCCCCTAAACAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAACCCTCTAAGCAGTAGGGTGAC
AGGCTGAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGTTGACAAGCTTTA
A
Found at i:9223373 original size:87 final size:88
Alignment explanation
Indices: 9223246--9223415 Score: 220
Period size: 87 Copynumber: 1.9 Consensus size: 88
9223236 AGCTTTAACC
* * *
9223246 CCCTAAACAGTAGGGAAACAGATCGAAGGTGACAAGCCTT-AACCCTCTAAGCAGTAGGGTGACA
1 CCCTAAACAGTAGGGAAACAGATCGAAGATGACAAGCCTTAAACCCT-TAAGCAATAGGGTAACA
* *
9223310 GGCT-GAATTTACAGATCTTATCA
65 GGCTAGAAATTACAAATCTTATCA
* * * *
9223333 CCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TAGACCTTAAACCCTTATGTAATAGGGTAACA
1 CCCTAAACAGTAGGGAAACAGATCGAAGATGACAAG-CCTTAAACCCTTAAGCAATAGGGTAACA
9223397 GGCTAGAAATTACAAATCT
65 GGCTAGAAATTACAAATCT
9223416 CTTCTCCTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
86 2 0.03
87 51 0.72
88 18 0.25
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (88 bp):
CCCTAAACAGTAGGGAAACAGATCGAAGATGACAAGCCTTAAACCCTTAAGCAATAGGGTAACAG
GCTAGAAATTACAAATCTTATCA
Found at i:9225456 original size:3 final size:3
Alignment explanation
Indices: 9225442--9225591 Score: 162
Period size: 3 Copynumber: 50.7 Consensus size: 3
9225432 TTCTATTCCC
*
9225442 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
9225490 ATT ATT ATA AAT ATT AAT GTT CTT ATT ATG ACT ATT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
9225538 ATT AGT ATT ATT A-T ATT -TT AAT ACT ATT ATT ATT -TAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
9225581 ATT ATT ATT AT
1 ATT ATT ATT AT
9225592 CGTTTTCGTT
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
2 5 0.04
3 115 0.95
4 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:9225703 original size:2 final size:2
Alignment explanation
Indices: 9225696--9225732 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9225686 ATGCTTTTAT
9225696 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9225733 TACTAGCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9229334 original size:16 final size:17
Alignment explanation
Indices: 9229303--9229336 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9229293 TAAAAAAAAT
*
9229303 GAATACTACGATATAAA
1 GAATAATACGATATAAA
9229320 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
9229336 G
1 G
9229337 CAACAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:9229898 original size:25 final size:25
Alignment explanation
Indices: 9229864--9229911 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9229854 TATACATAAC
*
9229864 ATATATAAATAAAAAACAATAAATA
1 ATATAAAAATAAAAAACAATAAATA
* *
9229889 ATATAAAAATAAAACATAATAAA
1 ATATAAAAATAAAAAACAATAAA
9229912 GATTACATAA
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:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (25 bp):
ATATAAAAATAAAAAACAATAAATA
Found at i:9230031 original size:17 final size:18
Alignment explanation
Indices: 9230008--9230047 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
9229998 ATAAGTAATT
9230008 AATAAATATAATATATGTGAA
1 AATAAA-ATAATATA--TGAA
9230029 AATAAAATAATATATGAA
1 AATAAAATAATATATGAA
9230047 A
1 A
9230048 GAGATGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
AATAAAATAATATATGAA
Found at i:9232747 original size:3 final size:3
Alignment explanation
Indices: 9232739--9232782 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
9232729 AAAATAAAAG
9232739 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
9232783 TTTAAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9233967 original size:10 final size:10
Alignment explanation
Indices: 9233952--9234011 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
9233942 TAATTCTAGG
9233952 ATTTAT-TTT
1 ATTTATCTTT
9233961 CATTTATCTTT
1 -ATTTATCTTT
9233972 ATTTATCTTT
1 ATTTATCTTT
*
9233982 AATTATCTTT
1 ATTTATCTTT
9233992 ATTTAT-TTGT
1 ATTTATCTT-T
9234002 ATTTATCTTT
1 ATTTATCTTT
9234012 TAGAATTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:9234758 original size:17 final size:18
Alignment explanation
Indices: 9234726--9234759 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9234716 TTTTCCTCAT
*
9234726 TTTAATTTTTGCAATTTA
1 TTTAATTTTCGCAATTTA
9234744 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
9234760 CAATTTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:9234805 original size:22 final size:21
Alignment explanation
Indices: 9234768--9234814 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
9234758 TTCAATTTAC
9234768 TTTAAATTCTGTTTTTATTTT
1 TTTAAATTCTGTTTTTATTTT
9234789 TTTAAATTCT-TAATTTTATTTT
1 TTTAAATTCTGT--TTTTATTTT
9234811 TTTA
1 TTTA
9234815 TTTTTTCAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 1 0.04
21 10 0.42
22 13 0.54
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTAAATTCTGTTTTTATTTT
Found at i:9237632 original size:5 final size:5
Alignment explanation
Indices: 9237610--9237662 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
9237600 AGGCAGCCTA
*
9237610 ATTTT -TTTT ATTTG ATTTT ATTTT ACTATTT A--TT ATTTT ATTTT A-TTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT A-T-TTT ATTTT ATTTT ATTTT ATTTT
9237658 ATTTT
1 ATTTT
9237663 TGGATGTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
3 3 0.08
4 8 0.20
5 24 0.60
6 1 0.03
7 4 0.10
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:9239244 original size:10 final size:10
Alignment explanation
Indices: 9239229--9239270 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
9239219 TAATTCTAGG
9239229 ATTTATTTTT
1 ATTTATTTTT
*
9239239 ATTTATCTTT
1 ATTTATTTTT
*
9239249 ATTTATTTGT
1 ATTTATTTTT
9239259 ATTTATCTTTT
1 ATTTAT-TTTT
9239270 A
1 A
9239271 GAATTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 23 0.85
11 4 0.15
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:9239254 original size:20 final size:20
Alignment explanation
Indices: 9239229--9239268 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9239219 TAATTCTAGG
*
9239229 ATTTATTTTTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
9239249 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
9239269 TAGAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:9240018 original size:17 final size:18
Alignment explanation
Indices: 9239985--9240018 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9239975 TTTTCCTTAT
*
9239985 TTTAATTTCTGCAATTTA
1 TTTAATTTCTACAATTTA
9240003 TTTAATTTC-ACAATTT
1 TTTAATTTCTACAATTT
9240019 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTACAATTTA
Found at i:9240056 original size:21 final size:21
Alignment explanation
Indices: 9240030--9240070 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
9240020 AATTCACTTT
9240030 AAATTCTGT-TTTTATTTTTCC
1 AAATTCT-TATTTTATTTTTCC
9240051 AAATTCTTAATTTTATTTTT
1 AAATTCTT-ATTTTATTTTT
9240071 TATTTTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (21 bp):
AAATTCTTATTTTATTTTTCC
Found at i:9241057 original size:17 final size:18
Alignment explanation
Indices: 9241023--9241058 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9241013 TGAATTTCTA
9241023 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
9241041 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
9241058 T
1 T
9241059 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:9241456 original size:12 final size:12
Alignment explanation
Indices: 9241441--9241474 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
9241431 TCCCTTTTTT
9241441 TTTTTCTTTCCC
1 TTTTTCTTTCCC
9241453 TTTTTCTTTCCC
1 TTTTTCTTTCCC
9241465 TTTTTCTTTC
1 TTTTTCTTTC
9241475 TCCCTATGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:9241553 original size:22 final size:22
Alignment explanation
Indices: 9241511--9241553 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9241501 TTCTCCTTCA
**
9241511 TTTCTTTCTTTTATTCTTTTAG
1 TTTCTTTCTTTTATTAATTTAG
9241533 TTTCTTTAC-TTTATTAATTTA
1 TTTCTTT-CTTTTATTAATTTA
9241554 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.16, C:0.12, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTCTTTTATTAATTTAG
Found at i:9241843 original size:3 final size:3
Alignment explanation
Indices: 9241830--9241893 Score: 82
Period size: 3 Copynumber: 22.3 Consensus size: 3
9241820 AATTTACTTC
*
9241830 ATA AT- ATA ATA AT- ATA AT- ATCA ATT A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
9241872 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
9241894 CTTAATTAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 7 0.13
3 45 0.83
4 2 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9244949 original size:39 final size:38
Alignment explanation
Indices: 9244882--9245016 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 38
9244872 ACCAATATGG
* *
9244882 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGTAATAGTTGA
* *
9244921 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGTAATAGTTGA
* * * * * *
9244959 TACCCAATACCTCATCGAATCTATCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGTAATAGT--TGA
*
9245000 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
9245017 ACTCGAGGTC
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
38 18 0.24
39 37 0.50
40 4 0.05
41 15 0.20
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGTAATAGTTGA
Found at i:9246607 original size:5 final size:5
Alignment explanation
Indices: 9246589--9246619 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
9246579 TTTCTTTTAT
9246589 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
9246620 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:9254034 original size:6 final size:6
Alignment explanation
Indices: 9254026--9254080 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
9254016 TTCAGTTTCA
* * * *
9254026 ATTTTA ATTTTG ATTTTG ATTTTG ATTTCT- ATTTCG ATTTTG ATTATA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTT-TG ATTTTG ATTTTG ATTTTG
9254074 ATTTTG A
1 ATTTTG A
9254081 AACACTCACT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 39 0.98
7 1 0.03
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.62
Consensus pattern (6 bp):
ATTTTG
Found at i:9254119 original size:18 final size:18
Alignment explanation
Indices: 9254098--9254167 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
9254088 ACTGATTCTG
9254098 ATTTAGATTTCGATTTCA
1 ATTTAGATTTCGATTTCA
* * *
9254116 ATTTCGATTTCGATCTCT
1 ATTTAGATTTCGATTTCA
* * *
9254134 ATTTAGAATTAGAATTT-G
1 ATTTAGATTTCG-ATTTCA
*
9254152 ATTTTGATTTCGATTT
1 ATTTAGATTTCGATTT
9254168 AGGGTTACTT
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
17 4 0.10
18 33 0.82
19 3 0.08
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (18 bp):
ATTTAGATTTCGATTTCA
Found at i:9254356 original size:64 final size:64
Alignment explanation
Indices: 9254284--9254483 Score: 337
Period size: 64 Copynumber: 3.1 Consensus size: 64
9254274 ATGTTTATTG
*
9254284 TTTGTATCTACCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTAATTA
1 TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTAATTA
* ** *
9254348 TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTGTTGTGTATATCTGCCATTG
1 TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTAATTA
* *
9254412 TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTTATTT
1 TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTAATTA
9254476 TTTGTATC
1 TTTGTATC
9254484 CAAGCACCTA
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 127 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.47
Consensus pattern (64 bp):
TTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTAATTA
Found at i:9254811 original size:15 final size:15
Alignment explanation
Indices: 9254791--9254819 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9254781 GAAGAAAACA
9254791 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
9254806 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
9254820 AGTGATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.38, T:0.41
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:9256358 original size:17 final size:17
Alignment explanation
Indices: 9256331--9256370 Score: 71
Period size: 17 Copynumber: 2.3 Consensus size: 17
9256321 TAAGGTAAAG
9256331 ATTCTTTCTGATGCCTAT
1 ATTC-TTCTGATGCCTAT
9256349 ATTCTTCTGATGCCTAT
1 ATTCTTCTGATGCCTAT
9256366 ATTCT
1 ATTCT
9256371 AACTTCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.17, C:0.23, G:0.10, T:0.50
Consensus pattern (17 bp):
ATTCTTCTGATGCCTAT
Found at i:9256459 original size:40 final size:40
Alignment explanation
Indices: 9256403--9256506 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
9256393 GCTATTTTAG
*
9256403 TGAATGTTTTTTAATATGCATGCACTGATTGTTGGTGTGT
1 TGAATATTTTTTAATATGCATGCACTGATTGTTGGTGTGT
* * *
9256443 TGAATATTTTTGAATATGCATGTAGTGATTGTTGGTGTGT
1 TGAATATTTTTTAATATGCATGCACTGATTGTTGGTGTGT
**
9256483 TGCCTATTTTTTAATATGCATGCA
1 TGAATATTTTTTAATATGCATGCA
9256507 GTGCGATCGT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.22, C:0.08, G:0.23, T:0.47
Consensus pattern (40 bp):
TGAATATTTTTTAATATGCATGCACTGATTGTTGGTGTGT
Found at i:9259490 original size:6 final size:6
Alignment explanation
Indices: 9259479--9259506 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9259469 AAATCTGCTG
9259479 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
9259507 GTAGTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:9266492 original size:21 final size:21
Alignment explanation
Indices: 9266437--9266492 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
9266427 AAGTTGGTGT
*
9266437 CCCAACTCAGCAACAGGCTAC
1 CCCAACTCAGCAAGAGGCTAC
* * *
9266458 CCCAAATCGGCAAGAGGGTAC
1 CCCAACTCAGCAAGAGGCTAC
*
9266479 CCCAACTCAACAAG
1 CCCAACTCAGCAAG
9266493 CTGCCCTAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.38, G:0.18, T:0.09
Consensus pattern (21 bp):
CCCAACTCAGCAAGAGGCTAC
Found at i:9266993 original size:18 final size:18
Alignment explanation
Indices: 9266970--9267004 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9266960 TTCTAACAAC
*
9266970 TGTGTGACTATTGAGAAA
1 TGTGTGACAATTGAGAAA
*
9266988 TGTGTGAGAATTGAGAA
1 TGTGTGACAATTGAGAA
9267005 TTGAGAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.31
Consensus pattern (18 bp):
TGTGTGACAATTGAGAAA
Found at i:9267799 original size:3 final size:3
Alignment explanation
Indices: 9267784--9267836 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
9267774 CCATTTTTCC
* * * *
9267784 TCT TCT CCT TCT TCT TCT TCT TCT TC- TCT TCT TCC TCC TCC TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
9267831 TCT TCT
1 TCT TCT
9267837 ACTATTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (3 bp):
TCT
Found at i:9271191 original size:32 final size:31
Alignment explanation
Indices: 9271114--9271195 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 31
9271104 TTTAAAATAA
*
9271114 ATTTTTAAAAAATTTATTAAATAACAAAAAAT
1 ATTTTTAAAAAATTTATT-TATAACAAAAAAT
*
9271146 A-TTTTACATAAATTTATTTA-AACAAATAAATT
1 ATTTTTA-AAAAATTTATTTATAACAAA-AAA-T
*
9271178 ATTTTTTAAAAA-TTATTT
1 ATTTTTAAAAAATTTATTT
9271196 TCCGTATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
30 6 0.14
31 15 0.36
32 17 0.40
33 4 0.10
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (31 bp):
ATTTTTAAAAAATTTATTTATAACAAAAAAT
Found at i:9271865 original size:39 final size:39
Alignment explanation
Indices: 9271822--9271900 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
9271812 ATTGAATGTG
*
9271822 AAGCACGTAGGTTTTGGGAGTTATTTCTTCTTATTCGTT
1 AAGCACGTAGGTGTTGGGAGTTATTTCTTCTTATTCGTT
9271861 AAGCACGTAGGTGTTGGGAGTTATTTCTTCTTATTCGTT
1 AAGCACGTAGGTGTTGGGAGTTATTTCTTCTTATTCGTT
9271900 A
1 A
9271901 TTATTGTTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.19, C:0.13, G:0.24, T:0.44
Consensus pattern (39 bp):
AAGCACGTAGGTGTTGGGAGTTATTTCTTCTTATTCGTT
Found at i:9278219 original size:27 final size:27
Alignment explanation
Indices: 9278188--9278243 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
9278178 ATACAAAAAC
9278188 ACTTTTATACATTTAAGGCACCTATAT
1 ACTTTTATACATTTAAGGCACCTATAT
9278215 ACTTTTATACATTTAAGGCACCTATAT
1 ACTTTTATACATTTAAGGCACCTATAT
9278242 AC
1 AC
9278244 ATGCCACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (27 bp):
ACTTTTATACATTTAAGGCACCTATAT
Found at i:9281018 original size:31 final size:31
Alignment explanation
Indices: 9280983--9281051 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
9280973 ACAGGCAAAT
* *
9280983 TCATAGAAGAAGATTTATAGATATGACAGAC
1 TCATACAAGAAGATTCATAGATATGACAGAC
* ** *
9281014 TCATACATGCGGATTCATAGATATGGCAGAC
1 TCATACAAGAAGATTCATAGATATGACAGAC
*
9281045 TTATACA
1 TCATACA
9281052 TGCAAATTCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (31 bp):
TCATACAAGAAGATTCATAGATATGACAGAC
Found at i:9281018 original size:45 final size:45
Alignment explanation
Indices: 9280941--9281034 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
9280931 TGTGAACTTG
* *
9280941 TAGAAGAAGATTCATAGATATGTAGGAGTCATACAGGCAAATTCA
1 TAGAAGAAGATTCATAGATATGTAAGACTCATACAGGCAAATTCA
* * **
9280986 TAGAAGAAGATTTATAGATATG-ACAGACTCATACATGCGGATTCA
1 TAGAAGAAGATTCATAGATATGTA-AGACTCATACAGGCAAATTCA
9281031 TAGA
1 TAGA
9281035 TATGGCAGAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.02
45 41 0.98
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (45 bp):
TAGAAGAAGATTCATAGATATGTAAGACTCATACAGGCAAATTCA
Found at i:9281052 original size:31 final size:31
Alignment explanation
Indices: 9280994--9281054 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
9280984 CATAGAAGAA
*
9280994 GATTTATAGATATGACAGACTCATACATGCG
1 GATTCATAGATATGACAGACTCATACATGCG
* *
9281025 GATTCATAGATATGGCAGACTTATACATGC
1 GATTCATAGATATGACAGACTCATACATGC
9281055 AAATTCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (31 bp):
GATTCATAGATATGACAGACTCATACATGCG
Found at i:9281074 original size:45 final size:45
Alignment explanation
Indices: 9281025--9281124 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
9281015 CATACATGCG
* *
9281025 GATTCATAGATATGGCAGACTTATACATGCAAATTCT-TAAAAGAA
1 GATTCATAGATATGACAGACTCATACATGCAAATT-TATAAAAGAA
* *
9281070 GATTCATAGATATGATAGACTCATACATGCAGATTTATAAAAGAA
1 GATTCATAGATATGACAGACTCATACATGCAAATTTATAAAAGAA
* *
9281115 TATTTATAGA
1 GATTCATAGA
9281125 AGTGAACTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (45 bp):
GATTCATAGATATGACAGACTCATACATGCAAATTTATAAAAGAA
Found at i:9281079 original size:76 final size:76
Alignment explanation
Indices: 9280948--9281104 Score: 217
Period size: 76 Copynumber: 2.1 Consensus size: 76
9280938 TTGTAGAAGA
* * * *
9280948 AGATTCATAGATATGTAGGAGTCATACAGGCAAATTCATAGAAGAAGATTTATAGATATGACAGA
1 AGATTCATAGATATGCAGGACTCATACAGGCAAATTCATAAAAGAAGATTCATAGATATGACAGA
9281013 CTCATACATGC
66 CTCATACATGC
* * * * *
9281024 GGATTCATAGATATGGCA-GACTTATACATGCAAATTCTTAAAAGAAGATTCATAGATATGATAG
1 AGATTCATAGATAT-GCAGGACTCATACAGGCAAATTCATAAAAGAAGATTCATAGATATGACAG
9281088 ACTCATACATGC
65 ACTCATACATGC
9281100 AGATT
1 AGATT
9281105 TATAAAAGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
76 68 0.97
77 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (76 bp):
AGATTCATAGATATGCAGGACTCATACAGGCAAATTCATAAAAGAAGATTCATAGATATGACAGA
CTCATACATGC
Found at i:9285012 original size:15 final size:15
Alignment explanation
Indices: 9284992--9285025 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9284982 TAGTTAATCC
*
9284992 AAATGACATTACAAG
1 AAATGACATCACAAG
*
9285007 AAATGACATCACCAG
1 AAATGACATCACAAG
9285022 AAAT
1 AAAT
9285026 TCATAATGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (15 bp):
AAATGACATCACAAG
Found at i:9288196 original size:45 final size:45
Alignment explanation
Indices: 9288129--9288296 Score: 147
Period size: 45 Copynumber: 3.7 Consensus size: 45
9288119 ATGCGAACTC
* * * * * * *
9288129 ATACATTCAAAATCGTATAAGAAGATTCATAGATATGGCGGACTT
1 ATACATACAAATTCATAGAAGAAGATTCATAGATATGACGGAATA
** *
9288174 ATACATATGAATTCATAGAAGAAGTTTCATAGATATGACGGAATA
1 ATACATACAAATTCATAGAAGAAGATTCATAGATATGACGGAATA
* ** * ** *
9288219 ATACATGCAAATTCATAGAAGAAGATTCATAGCCATGAAGGGCTC
1 ATACATACAAATTCATAGAAGAAGATTCATAGATATGACGGAATA
* * *
9288264 ATACATGCAAATTTATAAAAAGAAGATTCATAG
1 ATACATACAAATTCAT-AGAAGAAGATTCATAG
9288297 TTGCGAATTG
Statistics
Matches: 100, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
45 85 0.85
46 15 0.15
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.27
Consensus pattern (45 bp):
ATACATACAAATTCATAGAAGAAGATTCATAGATATGACGGAATA
Found at i:9291852 original size:40 final size:40
Alignment explanation
Indices: 9291807--9291936 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
9291797 CGGAATATAA
9291807 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
9291847 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
9291887 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
9291927 CCGGATATAA
1 CCGGATATAA
9291937 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:9291951 original size:40 final size:39
Alignment explanation
Indices: 9291823--9291973 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
9291813 ATAACCATGT
* * *
9291823 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
9291863 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
9291903 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
9291942 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
9291974 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:9291957 original size:80 final size:79
Alignment explanation
Indices: 9291807--9291973 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
9291797 CGGAATATAA
*
9291807 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
9291872 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
9291887 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
9291949 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
9291966 CCGGATAT
1 CCGGATAT
9291974 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:9299303 original size:44 final size:44
Alignment explanation
Indices: 9299243--9299454 Score: 142
Period size: 44 Copynumber: 4.7 Consensus size: 44
9299233 TATCTCTCTA
*
9299243 AGGTAGCAA-GAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTG
1 AGGTAGCAAGGA-AGCAGATTGAAGATTGAAGTCTTATCTTCCTG
* * * * ** * *
9299287 AGGTAGCAAGGAAGCAGACTAAAGATTGGAGGCAAATCTTATCTCC
1 AGGTAGCAAGGAAGCAGATTGAAGATTGAAGTCTTATCTT-CCT-G
* * ** * *
9299333 ATGTATCGGCAATGG-AGCAGATTTAAGCCTCAAGCCTTATC-TCTCTG
1 AGGTA---GCAA-GGAAGCAGATTGAAGATTGAAGTCTTATCTTC-CTG
* * * * *
9299380 AGGTAGCAAGAAAGCTGGTTCAATATTGAAGTCTTATCTTCCTG
1 AGGTAGCAAGGAAGCAGATTGAAGATTGAAGTCTTATCTTCCTG
*
9299424 AGGTAGCAAGGAAGCAGACTGAAGATTGAAG
1 AGGTAGCAAGGAAGCAGATTGAAGATTGAAG
9299455 ATTGGAAGAG
Statistics
Matches: 121, Mismatches: 37, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
43 1 0.01
44 80 0.66
45 6 0.05
46 4 0.03
47 4 0.03
48 3 0.02
49 21 0.17
50 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (44 bp):
AGGTAGCAAGGAAGCAGATTGAAGATTGAAGTCTTATCTTCCTG
Found at i:9299449 original size:137 final size:138
Alignment explanation
Indices: 9299199--9299598 Score: 574
Period size: 147 Copynumber: 2.9 Consensus size: 138
9299189 GATTTCAGTA
* * *
9299199 GTATCGGCAATGAAGCAGATTTTA-CCATCAA-CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGT
1 GTATCGGCAATGGAGCAGATTTAAGCC-TCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
*
9299262 TGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTG-GAGGCAAATCT
65 TAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAGAGGCAAATCT
9299326 TATCTCCAT
130 TATCTCCAT
* *
9299335 GTATCGGCAATGGAGCAGATTTAAGCCTCAAGCCTTATCTCTCTGAGGTAGCAAGAAAGCTGGTT
1 GTATCGGCAATGGAGCAGATTTAAGCCTCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
* *
9299400 CAATATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTGGAAGAG
66 AAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT----A---AAGATT-G-AGAG
9299465 GCAAATCTTATCTCCAT
122 GCAAATCTTATCTCCAT
*
9299482 GTATCGACAATGGAGCAGATTTAAGCCTCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
1 GTATCGGCAATGGAGCAGATTTAAGCCTCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
* * *
9299547 AAAGATTG-AGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGACTAAAGATTGA
66 AAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGA
9299599 ATATCTTATC
Statistics
Matches: 237, Mismatches: 15, Indels: 23
0.86 0.05 0.08
Matches are distributed among these distances:
136 26 0.11
137 75 0.32
138 1 0.00
139 6 0.03
141 1 0.00
142 1 0.00
144 6 0.03
145 1 0.00
146 32 0.14
147 88 0.37
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (138 bp):
GTATCGGCAATGGAGCAGATTTAAGCCTCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
AAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAGAGGCAAATCTT
ATCTCCAT
Found at i:9299570 original size:43 final size:43
Alignment explanation
Indices: 9299515--9299598 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
9299505 AGCCTCAAGC
* **
9299515 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAGATTGAGT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTAAAGATTGAGT
* *
9299558 CTTATCTTTCTGAGGTAGCAAGAAAGTAGACTAAAGATTGA
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTAAAGATTGA
9299599 ATATCTTATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTAAAGATTGAGT
Found at i:9299833 original size:177 final size:177
Alignment explanation
Indices: 9299459--9299867 Score: 509
Period size: 177 Copynumber: 2.3 Consensus size: 177
9299449 TTGAAGATTG
* * *
9299459 GAAGA-GGCAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCTCAAGCCTTATCTC
1 GAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTC
* * *
9299523 TCTGAGGTAGCAAGAGAGCAGGTTAAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGA
66 TCTGAAGTAGCAAGAGAGCAGGTTAAAGATTGAGTCTTATCTTCCTGAGGTAGAAAGAAAGTAGA
* * *
9299588 CTAAAGATTGAATATCTTATCTCCCCTAAGCGGTAGTGGAGTAGATC
131 CTAAAGATTGAAGATCTTATCTCCCCTAAGCAGTAGTGGAGCAGATC
* ** * * *
9299635 GAATATGGTGAATCGTATCTCCATGTACCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTC
1 GAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTC
* *** * *
9299700 TCTGAAGTAGCAAGAGAGTAGGTTGGTGATTTTAGTCTTATCTTCCTGAGGTAGAAAGGAAGTAG
66 TCTGAAGTAGCAAGAGAGCAGGTTAAAGA-TTGAGTCTTATCTTCCTGAGGTAGAAAGAAAGTAG
* * * * * *
9299765 ATTGAAGATTGAAGATC-TAT-TTCCCTAAAGTAGTTGTGGAGCAGATT
130 ACTAAAGATTGAAGATCTTATCTCCCCT-AAGCAGTAGTGGAGCAGATC
* * *
9299812 GAGGATGGCAAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAGTCACTAG
1 GAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAG
9299868 TGCTATTTCC
Statistics
Matches: 194, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
176 9 0.05
177 140 0.72
178 45 0.23
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (177 bp):
GAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTC
TCTGAAGTAGCAAGAGAGCAGGTTAAAGATTGAGTCTTATCTTCCTGAGGTAGAAAGAAAGTAGA
CTAAAGATTGAAGATCTTATCTCCCCTAAGCAGTAGTGGAGCAGATC
Found at i:9300205 original size:19 final size:19
Alignment explanation
Indices: 9300181--9300219 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9300171 CTTCCGCCCA
9300181 GCCTCCATGCTCCAC-AACG
1 GCCTCCATGC-CCACGAACG
9300200 GCCTCCATGCCCACGAACG
1 GCCTCCATGCCCACGAACG
9300219 G
1 G
9300220 TTTCTCCACG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.21, C:0.46, G:0.21, T:0.13
Consensus pattern (19 bp):
GCCTCCATGCCCACGAACG
Found at i:9301420 original size:21 final size:22
Alignment explanation
Indices: 9301378--9301420 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9301368 ATAAAGATTT
* *
9301378 CAAAATAATAATTTATTTAAAC
1 CAAAATAATAAATTATTAAAAC
9301400 CAAAATAA-AAATTATTAAAAC
1 CAAAATAATAAATTATTAAAAC
9301421 AGTTCTGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
CAAAATAATAAATTATTAAAAC
Found at i:9302446 original size:17 final size:18
Alignment explanation
Indices: 9302419--9302456 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
9302409 GGACTTTAAT
9302419 TTTAGTTTTGTATTATGG
1 TTTAGTTTTGTATTATGG
* *
9302437 TTTA-TTTTGTTTTTTGG
1 TTTAGTTTTGTATTATGG
9302454 TTT
1 TTT
9302457 TTGTATGGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.11, C:0.00, G:0.18, T:0.71
Consensus pattern (18 bp):
TTTAGTTTTGTATTATGG
Found at i:9305140 original size:39 final size:40
Alignment explanation
Indices: 9305024--9305201 Score: 238
Period size: 39 Copynumber: 4.5 Consensus size: 40
9305014 GGATATAACG
* *
9305024 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
* *
9305064 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
9305104 ACTCGCACAAATGCCTTCGGG-CTTAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
*
9305143 ACTCGCACAAATGCCTTCGGG-CTTAACCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * *
9305182 ACTAGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
9305202 ATCTTAGTCC
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 72 0.57
40 51 0.40
41 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:9305237 original size:78 final size:79
Alignment explanation
Indices: 9305051--9305251 Score: 210
Period size: 79 Copynumber: 2.6 Consensus size: 79
9305041 CGGGACAAAC
* ** * * * *
9305051 CCCGGTTATAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACAAAT
1 CCCGGATATAGTAACTAACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCACAAAC
9305116 GCCTTCGGGCTTAA
66 GCCTTCGGGCTTAA
* ** * *
9305130 CCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTAGCACGAAC
1 CCCGGATATAGTAACTAACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCACAAAC
* *
9305194 GCCTTCGGATCTTAG
66 GCCTTCGG-GCTTAA
* * *
9305209 TCCGGATAT-GTCACTTAACACAAA-GCCTTCGGGACTTAGCCCG
1 CCCGGATATAGTAAC-TAACACAAATGCCTTCGGGACTTAACCCG
9305252 TACATCATTC
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 46 0.45
79 57 0.55
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CCCGGATATAGTAACTAACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCACAAAC
GCCTTCGGGCTTAA
Found at i:9313955 original size:51 final size:51
Alignment explanation
Indices: 9313884--9313986 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
9313874 CTAATCACAT
*
9313884 TTATCACTTTTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCAC
*
9313935 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCAC
9313986 T
1 T
9313987 AGTCAGATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCAC
Found at i:9313980 original size:44 final size:44
Alignment explanation
Indices: 9313932--9314037 Score: 136
Period size: 37 Copynumber: 2.6 Consensus size: 44
9313922 TACCACTTAT
*
9313932 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTAC
* *
9313976 CACTTATCAC---T-A--G-TCAGATAAGTATAGCTGAGGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTAC
9314013 CACTTATCACTTGTCACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
9314038 AGTACTCAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
37 31 0.60
38 1 0.02
40 2 0.04
41 2 0.04
43 1 0.02
44 15 0.29
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTAC
Found at i:9315949 original size:2 final size:2
Alignment explanation
Indices: 9315942--9315984 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9315932 AATTAATGTG
9315942 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9315984 T
1 T
9315985 GAAATGTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9319048 original size:12 final size:12
Alignment explanation
Indices: 9319031--9319056 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9319021 ATTTTTCTCA
9319031 AATAATTAAGCG
1 AATAATTAAGCG
9319043 AATAATTAAGCG
1 AATAATTAAGCG
9319055 AA
1 AA
9319057 ATCAAGTCAT
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:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (12 bp):
AATAATTAAGCG
Found at i:9322760 original size:46 final size:46
Alignment explanation
Indices: 9322708--9322900 Score: 325
Period size: 46 Copynumber: 4.2 Consensus size: 46
9322698 GCTTTTTGAA
* *
9322708 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
* *
9322754 ATGAAATGTGTAAGACCATCGTTGAAAGACACCATGGCAAC-GTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAG-GAT
9322800 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
9322846 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
*
9322892 ATAAAATGT
1 ATGAAATGT
9322901 AACGCTCCGA
Statistics
Matches: 138, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
46 137 0.99
47 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
Found at i:9323119 original size:16 final size:17
Alignment explanation
Indices: 9323083--9323119 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
9323073 AAATTTTAAT
9323083 TATTATTATGAGATAAA
1 TATTATTATGAGATAAA
*
9323100 -ATTATTATTAGA-AAA
1 TATTATTATGAGATAAA
9323115 TATTA
1 TATTA
9323120 CTGTATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (17 bp):
TATTATTATGAGATAAA
Found at i:9323150 original size:12 final size:12
Alignment explanation
Indices: 9323133--9323157 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9323123 TATGTATGTT
9323133 TGAAAATTTTTA
1 TGAAAATTTTTA
9323145 TGAAAATTTTTA
1 TGAAAATTTTTA
9323157 T
1 T
9323158 TATTTGCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:9323220 original size:3 final size:3
Alignment explanation
Indices: 9323212--9323274 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
9323202 GTTTATGAAT
9323212 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9323260 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
9323275 GTAATTAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9323756 original size:125 final size:125
Alignment explanation
Indices: 9323534--9323786 Score: 470
Period size: 125 Copynumber: 2.0 Consensus size: 125
9323524 CGCGGCTAGA
9323534 ATAAGGGTTAAGAGGAATTGCGAGTATAAGTTAATCAAAAAGAGCTTATAGCGCAGTGGCAGTAG
1 ATAAGGGTTAAGAGGAATTGCGAGTATAAGTTAATCAAAAAGAGCTTATAGCGCAGTGGCAGTAG
* *
9323599 GGTGCTAGGAGTTCCACAAGGGCACGGGTTCGAGTCTAGGCGCAGGTATGTCTTAATTTT
66 GGTGCTAGGAGTTCCACAAAGGCACGAGTTCGAGTCTAGGCGCAGGTATGTCTTAATTTT
* *
9323659 ATAAGGGTTAAGAGGAATTGTGATTATAAGTTAATCAAAAAGAGCTTATAGCGCAGTGGCAGTAG
1 ATAAGGGTTAAGAGGAATTGCGAGTATAAGTTAATCAAAAAGAGCTTATAGCGCAGTGGCAGTAG
9323724 GGTGCTAGGAGTTCCACAAAGGCACGAGTTCGAGTCTAGGCGCAGGTATGTCTTAATTTT
66 GGTGCTAGGAGTTCCACAAAGGCACGAGTTCGAGTCTAGGCGCAGGTATGTCTTAATTTT
9323784 ATA
1 ATA
9323787 TTTTTAAAAT
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (125 bp):
ATAAGGGTTAAGAGGAATTGCGAGTATAAGTTAATCAAAAAGAGCTTATAGCGCAGTGGCAGTAG
GGTGCTAGGAGTTCCACAAAGGCACGAGTTCGAGTCTAGGCGCAGGTATGTCTTAATTTT
Found at i:9325449 original size:46 final size:47
Alignment explanation
Indices: 9325351--9325472 Score: 151
Period size: 46 Copynumber: 2.6 Consensus size: 47
9325341 CATAAAATGT
**
9325351 GTAAGACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATGAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTAACATGAAATGAA
* *
9325398 -CAAGACCATGGTTGAAAGATACCATGGCAACCTGACA-GAAAAT-AA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTAACATG-AAATGAA
* * *
9325443 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
9325473 TCATGTCAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
45 3 0.05
46 62 0.95
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (47 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACCTAACATGAAATGAA
Found at i:9325779 original size:16 final size:17
Alignment explanation
Indices: 9325758--9325790 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9325748 ATGATAGAGC
9325758 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
9325774 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
9325791 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:9326325 original size:15 final size:15
Alignment explanation
Indices: 9326305--9326358 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
9326295 ATTAATTAAC
9326305 ATAAAAATGAAAAAA
1 ATAAAAATGAAAAAA
9326320 ATAAAAA-GAAAAAA
1 ATAAAAATGAAAAAA
*
9326334 TTTGAAAAAT-AAAAAA
1 -AT-AAAAATGAAAAAA
9326350 ACTAAAAAT
1 A-TAAAAAT
9326359 TGTTAAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 7 0.21
15 14 0.42
16 12 0.36
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (15 bp):
ATAAAAATGAAAAAA
Found at i:9326334 original size:22 final size:22
Alignment explanation
Indices: 9326307--9326348 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9326297 TAATTAACAT
9326307 AAAAATGAAAAAAATAAAAAGA
1 AAAAATGAAAAAAATAAAAAGA
***
9326329 AAAAATTTGAAAAATAAAAA
1 AAAAATGAAAAAAATAAAAA
9326349 AACTAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAAATGAAAAAAATAAAAAGA
Found at i:9326349 original size:24 final size:24
Alignment explanation
Indices: 9326312--9326359 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9326302 AACATAAAAA
*
9326312 TGAAAAAAATAAAAAGAAAAAATT
1 TGAAAAAAATAAAAACAAAAAATT
*
9326336 TGAAAAATAA-AAAAACTAAAAATT
1 TGAAAAA-AATAAAAACAAAAAATT
9326360 GTTAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (24 bp):
TGAAAAAAATAAAAACAAAAAATT
Found at i:9328316 original size:12 final size:11
Alignment explanation
Indices: 9328287--9328312 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9328277 AAGGTATAGT
9328287 AAAATATTTTA
1 AAAATATTTTA
9328298 AAAATATTTTA
1 AAAATATTTTA
9328309 AAAA
1 AAAA
9328313 ATATGTGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:9334705 original size:15 final size:15
Alignment explanation
Indices: 9334685--9334719 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
9334675 GTAGACAATT
9334685 GTTTTTATTAATAAA
1 GTTTTTATTAATAAA
9334700 GTTTTTATTAATAAA
1 GTTTTTATTAATAAA
9334715 GTTTT
1 GTTTT
9334720 CATCTCTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (15 bp):
GTTTTTATTAATAAA
Found at i:9336479 original size:23 final size:23
Alignment explanation
Indices: 9336422--9336481 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 23
9336412 ACACATAAAA
9336422 TGCCT-AAA-ACGACACACGAGG
1 TGCCTGAAATACGACACACGAGG
* *
9336443 TGTCTG--ATATGACACACGAGG
1 TGCCTGAAATACGACACACGAGG
9336464 TGCCTGAAATACGACACA
1 TGCCTGAAATACGACACA
9336482 TAAAGTGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 21 0.68
23 9 0.29
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (23 bp):
TGCCTGAAATACGACACACGAGG
Found at i:9336489 original size:23 final size:23
Alignment explanation
Indices: 9336407--9336493 Score: 65
Period size: 21 Copynumber: 4.0 Consensus size: 23
9336397 CCTGATCAGT
* *
9336407 ATACGACACATAAAATGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
9336429 A-ACGACACACGAGGTGTCTG--
1 ATACGACACACAAAGTGCCTGAA
* * *
9336449 ATATGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
9336472 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
9336494 TCAGTAAAGC
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
20 1 0.02
21 30 0.60
22 1 0.02
23 18 0.36
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:9342910 original size:21 final size:21
Alignment explanation
Indices: 9342866--9342906 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
9342856 TTTGAAATAA
9342866 AAATAAAATAAAATAAAATTT
1 AAATAAAATAAAATAAAATTT
9342887 AAAT-AAAT-AAATAAACATTT
1 AAATAAAATAAAATAAA-ATTT
9342907 TAAACCTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 8 0.42
21 4 0.21
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATAAAATAAAATAAAATTT
Found at i:9344313 original size:27 final size:27
Alignment explanation
Indices: 9344283--9344334 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
9344273 GTGTCATGTG
*
9344283 AAATTGAATGGAAAATTATTGTTACAC
1 AAATTGAATGGAAAATTATTATTACAC
* **
9344310 AAATTGAGTGTTAAATTATTATTAC
1 AAATTGAATGGAAAATTATTATTAC
9344335 CTGGGTTGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.38
Consensus pattern (27 bp):
AAATTGAATGGAAAATTATTATTACAC
Found at i:9344724 original size:49 final size:50
Alignment explanation
Indices: 9344584--9344729 Score: 179
Period size: 51 Copynumber: 2.9 Consensus size: 50
9344574 TTTATTGTGA
9344584 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCGATAACTTC
* * * * * *
9344635 GATCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCGAATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCG-ATAACTTC
* *
9344684 GGTCGCATGGGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATA
9344730 GCTTTGGCTA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
49 36 0.46
50 6 0.08
51 37 0.47
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (50 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGATAACTTC
Found at i:9350562 original size:20 final size:20
Alignment explanation
Indices: 9350539--9350615 Score: 88
Period size: 19 Copynumber: 4.0 Consensus size: 20
9350529 TTTTTATAAA
9350539 TAAAATAATT-TTTTGAATTT
1 TAAAA-AATTATTTTGAATTT
* *
9350559 T-AAAATTTAATTTGAATTT
1 TAAAAAATTATTTTGAATTT
9350578 T-AAAAATTATTTTGAATTT
1 TAAAAAATTATTTTGAATTT
* *
9350597 TTAAAAATTATTTCGAATT
1 TAAAAAATTATTTTGAATT
9350616 ATTTTGTAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
18 3 0.06
19 30 0.60
20 17 0.34
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (20 bp):
TAAAAAATTATTTTGAATTT
Found at i:9350574 original size:19 final size:19
Alignment explanation
Indices: 9350550--9350615 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
9350540 AAAATAATTT
*
9350550 TTTGAATTTTAAAATTTAA
1 TTTGAATTTTAAAAATTAA
*
9350569 TTTGAATTTTAAAAATTAT
1 TTTGAATTTTAAAAATTAA
9350588 TTTGAATTTTTAAAAATT-A
1 TTTGAA-TTTTAAAAATTAA
9350607 TTTCGAATT
1 TTT-GAATT
9350616 ATTTTGTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 28 0.67
20 14 0.33
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (19 bp):
TTTGAATTTTAAAAATTAA
Found at i:9350720 original size:18 final size:18
Alignment explanation
Indices: 9350697--9350736 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
9350687 CACTAATTCG
9350697 TTATTTGAAC-TATTCAAA
1 TTATTTG-ACTTATTCAAA
9350715 TTATTTGACTTATTCAAA
1 TTATTTGACTTATTCAAA
9350733 TTAT
1 TTAT
9350737 AAAATTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (18 bp):
TTATTTGACTTATTCAAA
Found at i:9356166 original size:24 final size:23
Alignment explanation
Indices: 9356139--9356187 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
9356129 AATTTTTTGG
*
9356139 TTTTT-TTCTGGGCTTGGTTTTGA
1 TTTTTGTTTTGGGCTTGGTTTT-A
9356162 TTTTTGTTTTGGGCTTGGTTTTA
1 TTTTTGTTTTGGGCTTGGTTTTA
9356185 TTT
1 TTT
9356188 GTCAGTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.04, C:0.06, G:0.24, T:0.65
Consensus pattern (23 bp):
TTTTTGTTTTGGGCTTGGTTTTA
Found at i:9359041 original size:56 final size:57
Alignment explanation
Indices: 9358980--9359094 Score: 214
Period size: 56 Copynumber: 2.0 Consensus size: 57
9358970 TTAAATAAAA
*
9358980 ATAGATTTTAATAAATAATAATATAAACTGAACCG-AACAAATCCAAAGTTAAATTT
1 ATAGATTTTAATAAATAATAATATAAACTGAACCGAAACAAATCCAAAATTAAATTT
9359036 ATAGATTTTAATAAATAATAATATAAACTGAACCGAAACAAATCCAAAATTAAATTT
1 ATAGATTTTAATAAATAATAATATAAACTGAACCGAAACAAATCCAAAATTAAATTT
9359093 AT
1 AT
9359095 CTCATCGACC
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 35 0.61
57 22 0.39
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.30
Consensus pattern (57 bp):
ATAGATTTTAATAAATAATAATATAAACTGAACCGAAACAAATCCAAAATTAAATTT
Found at i:9359296 original size:2 final size:2
Alignment explanation
Indices: 9359289--9359317 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9359279 AAAAGAGGGG
9359289 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
9359318 CATTTCGATC
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9361422 original size:19 final size:18
Alignment explanation
Indices: 9361400--9361460 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 18
9361390 AATTACAAAA
9361400 AAAATTCAAAATCATTTT
1 AAAATTCAAAATCATTTT
* *
9361418 CAAAAATTTAAAATAACTTTT
1 --AAAATTCAAAATCA-TTTT
*
9361439 AAAAGTCAAAATC-TTTAT
1 AAAATTCAAAATCATTT-T
9361457 AAAA
1 AAAA
9361461 ATTCTAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 3 0.09
18 5 0.15
19 10 0.29
20 12 0.35
21 4 0.12
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTCAAAATCATTTT
Found at i:9361422 original size:20 final size:19
Alignment explanation
Indices: 9361399--9361469 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
9361389 AAATTACAAA
9361399 AAAAATTCAAAATCATTTT
1 AAAAATTCAAAATCATTTT
* *
9361418 CAAAAATTTAAAATAACTTTT
1 -AAAAATTCAAAATCA-TTTT
*
9361439 -AAAAGTCAAAATC-TTTAT
1 AAAAATTCAAAATCATTT-T
*
9361457 AAAAATTCTAAAT
1 AAAAATTCAAAAT
9361470 TTTATATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
17 3 0.07
18 1 0.02
19 20 0.49
20 13 0.32
21 4 0.10
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATCATTTT
Found at i:9361512 original size:18 final size:17
Alignment explanation
Indices: 9361482--9361518 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
9361472 TATATTTTTT
9361482 TAAAAAATATAAAAATA
1 TAAAAAATATAAAAATA
*
9361499 TAAAAAATTCTAAAAATA
1 TAAAAAA-TATAAAAATA
9361517 TA
1 TA
9361519 TAAAGAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAAAATATAAAAATA
Done.