Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 298 of 362
Found at i:100036735 original size:27 final size:27
Alignment explanation
Indices: 100036702--100036756 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
100036692 ACTATATATG
*
100036702 TATGAATTGTTATGATATCATGATGTA
1 TATGAATTGCTATGATATCATGATGTA
100036729 TATGAATTGCTATGATATCATGATGTA
1 TATGAATTGCTATGATATCATGATGTA
100036756 T
1 T
100036757 GATTAAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (27 bp):
TATGAATTGCTATGATATCATGATGTA
Found at i:100048927 original size:33 final size:33
Alignment explanation
Indices: 100048889--100048956 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
100048879 ACACAGAGTA
100048889 AACATTTAAGCTTAGTAAGTTCGTATAATACAG
1 AACATTTAAGCTTAGTAAGTTCGTATAATACAG
100048922 AACATTTAAGCTTAGTAAGTTCGTATAATACAG
1 AACATTTAAGCTTAGTAAGTTCGTATAATACAG
100048955 AA
1 AA
100048957 TTTAACTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (33 bp):
AACATTTAAGCTTAGTAAGTTCGTATAATACAG
Found at i:100049342 original size:25 final size:25
Alignment explanation
Indices: 100049314--100049401 Score: 149
Period size: 25 Copynumber: 3.5 Consensus size: 25
100049304 GTTGAATAAC
* * *
100049314 GGGAAGTTCATTCGAGCTGAATAAT
1 GGGAAGCTCATGCGAGCTGAAAAAT
100049339 GGGAAGCTCATGCGAGCTGAAAAAT
1 GGGAAGCTCATGCGAGCTGAAAAAT
100049364 GGGAAGCTCATGCGAGCTGAAAAAT
1 GGGAAGCTCATGCGAGCTGAAAAAT
100049389 GGGAAGCTCATGC
1 GGGAAGCTCATGC
100049402 AGTACCCCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (25 bp):
GGGAAGCTCATGCGAGCTGAAAAAT
Found at i:100052196 original size:47 final size:47
Alignment explanation
Indices: 100052087--100052197 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
100052077 CCGGGATAAG
* *
100052087 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTACAGTA
* * *
100052134 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGCCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-CAGTA
100052181 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
100052198 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.96
48 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTACAGTA
Found at i:100052969 original size:4 final size:4
Alignment explanation
Indices: 100052960--100052988 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
100052950 CCCTTTTCTA
100052960 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
100052989 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:100054144 original size:36 final size:36
Alignment explanation
Indices: 100054104--100054175 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
100054094 GGGAATGAGC
* *
100054104 TATATACAT-AATAGGTTT-AAA-AAATATATATGTA
1 TATATATATGAATAGATTTAAAAGAAAT-TATATGTA
100054138 TATATATATGAATAGATTTAAAAGAAATTATATGTA
1 TATATATATGAATAGATTTAAAAGAAATTATATGTA
100054174 TA
1 TA
100054176 AAATAACATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 8 0.24
35 8 0.24
36 13 0.39
37 4 0.12
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.39
Consensus pattern (36 bp):
TATATATATGAATAGATTTAAAAGAAATTATATGTA
Found at i:100084364 original size:16 final size:15
Alignment explanation
Indices: 100084336--100084365 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
100084326 GCCACATTTA
100084336 TTTCTTTTTTCCTTC
1 TTTCTTTTTTCCTTC
100084351 TTTCTTTCTTTCCTT
1 TTTCTTT-TTTCCTT
100084366 TTTTTCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTCTTTTTTCCTTC
Found at i:100087771 original size:16 final size:16
Alignment explanation
Indices: 100087746--100087776 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100087736 TTAAAAAATA
100087746 TTTTTCATTTTTTATT
1 TTTTTCATTTTTTATT
*
100087762 TTTTTTATTTTTTAT
1 TTTTTCATTTTTTAT
100087777 AAATTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCATTTTTTATT
Found at i:100089916 original size:26 final size:27
Alignment explanation
Indices: 100089886--100089961 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 27
100089876 TAGTTCGCGG
* *
100089886 GGATAATAAACACTGGGTAGTCTG-TA
1 GGATAATAAACACAGGGTAGTCCGCTA
* *
100089912 GGATAATAAAC-CGGGGTAGTCCGCTG
1 GGATAATAAACACAGGGTAGTCCGCTA
* *
100089938 GGATAGTAAACACAGAGTAGTCCG
1 GGATAATAAACACAGGGTAGTCCG
100089962 TCGGGATAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 10 0.24
26 22 0.52
27 10 0.24
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (27 bp):
GGATAATAAACACAGGGTAGTCCGCTA
Found at i:100089967 original size:27 final size:27
Alignment explanation
Indices: 100089927--100089981 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
100089917 ATAAACCGGG
100089927 GTAGTCCGCTGGGATAGTAAACACAGA
1 GTAGTCCGCTGGGATAGTAAACACAGA
*
100089954 GTAGTCCG-TCGGGATAGTAAATACAGA
1 GTAGTCCGCT-GGGATAGTAAACACAGA
100089981 G
1 G
100089982 ACATCCACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (27 bp):
GTAGTCCGCTGGGATAGTAAACACAGA
Found at i:100095296 original size:29 final size:28
Alignment explanation
Indices: 100095263--100095392 Score: 104
Period size: 28 Copynumber: 4.5 Consensus size: 28
100095253 AAAGTAGCCC
100095263 TAAAAAAAATTCACGAACTCTATTTCGT
1 TAAAAAAAATTCACGAACTCTATTTCGT
* * * *
100095291 TAAAAAAATTTGACGAACCCTATTTCAT
1 TAAAAAAAATTCACGAACTCTATTTCGT
* *
100095319 TCAAAAAATAATTTCA-GCAACTCTCTTTTAGT
1 T-AAAAAA-AA-TTCACG-AACTCT-ATTTCGT
*
100095351 TAAAAAAAATTCAAC-AACTCTCTTT-GTT
1 TAAAAAAAATTC-ACGAACTCTATTTCG-T
*
100095379 TAAAAAAAAATCAC
1 TAAAAAAAATTCAC
100095393 CAACCCTTTC
Statistics
Matches: 82, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.04
28 40 0.49
29 15 0.18
30 5 0.06
31 14 0.17
32 5 0.06
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (28 bp):
TAAAAAAAATTCACGAACTCTATTTCGT
Found at i:100097148 original size:46 final size:46
Alignment explanation
Indices: 100096998--100097172 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
100096988 TGTAACCCGC
* * *
100096998 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
100097044 CCACAAGTGAACTCGGACTCAACTCAAC-AGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
100097089 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
100097136 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
100097173 TGCCCAAACA
Statistics
Matches: 104, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
45 11 0.11
46 73 0.70
47 11 0.11
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:100097162 original size:92 final size:93
Alignment explanation
Indices: 100097005--100097176 Score: 283
Period size: 92 Copynumber: 1.9 Consensus size: 93
100096995 CGCCCATAAG
* * *
100097005 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
100097070 AC-AGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
100097097 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
*
100097162 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
100097177 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 62 0.85
93 11 0.15
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:100097191 original size:46 final size:46
Alignment explanation
Indices: 100097006--100097191 Score: 125
Period size: 46 Copynumber: 4.0 Consensus size: 46
100096996 GCCCATAAGC
* * * * * *
100097006 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA--CAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCTAGT
* * *
100097052 GAACTCGGACTCAACTCAAC-AGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CTAGT
* * * * *
100097098 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCTAGT
*
100097144 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGT
100097190 GA
1 GA
100097192 CATGTCACTT
Statistics
Matches: 107, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
43 3 0.03
44 10 0.09
45 8 0.07
46 71 0.66
47 10 0.09
48 1 0.01
49 4 0.04
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGT
Found at i:100100810 original size:23 final size:23
Alignment explanation
Indices: 100100784--100100830 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
100100774 AAGAATGATT
100100784 TATGGGTTAATATTAAGGATAAA
1 TATGGGTTAATATTAAGGATAAA
100100807 TATGGGTTAATATTAAGGATAAA
1 TATGGGTTAATATTAAGGATAAA
100100830 T
1 T
100100831 TAAGAAACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (23 bp):
TATGGGTTAATATTAAGGATAAA
Found at i:100101653 original size:17 final size:16
Alignment explanation
Indices: 100101619--100101681 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 16
100101609 AAATAAAGTT
100101619 TAAAATAGAAAGAGAAAA
1 TAAAATA-AAA-AGAAAA
100101637 TAAACATAAAAAG--AA
1 TAAA-ATAAAAAGAAAA
100101652 -AAAAT-AAAAGAAAA
1 TAAAATAAAAAGAAAA
*
100101666 TAAAAAGAAAAAGAAA
1 T-AAAATAAAAAGAAA
100101682 TCTAAAGACA
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
12 5 0.13
13 2 0.05
14 5 0.13
15 2 0.05
16 4 0.11
17 10 0.26
18 7 0.18
19 3 0.08
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.10
Consensus pattern (16 bp):
TAAAATAAAAAGAAAA
Found at i:100101660 original size:12 final size:11
Alignment explanation
Indices: 100101644--100101677 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
100101634 AAATAAACAT
100101644 AAAAAGAAAAA
1 AAAAAGAAAAA
*
100101655 ATAAAAGAAAAT
1 A-AAAAGAAAAA
100101667 AAAAAGAAAAA
1 AAAAAGAAAAA
100101678 GAAATCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:100104029 original size:43 final size:43
Alignment explanation
Indices: 100103966--100104052 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
100103956 ATGGCCTAAG
* *
100103966 ACACGCCCATGTGTCCAAGCCATGTGGTCCACACGGCCGTGTC
1 ACACGCCCATGTGTCCAAGCCATATGGTCCACACGACCGTGTC
* *
100104009 ACACGCCCTTGTGTCTAAGCCATATGGTCCACACGACCGTGTC
1 ACACGCCCATGTGTCCAAGCCATATGGTCCACACGACCGTGTC
100104052 A
1 A
100104053 TGTACCCGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.21, C:0.36, G:0.23, T:0.21
Consensus pattern (43 bp):
ACACGCCCATGTGTCCAAGCCATATGGTCCACACGACCGTGTC
Found at i:100109201 original size:33 final size:33
Alignment explanation
Indices: 100109122--100109203 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
100109112 AGAAAGTTCA
* *
100109122 TTGGGATAGTAAACACAGAATAGATAAAGTCTG
1 TTGGGACAGTAAACACAGAATAGAGAAAGTCTG
* * * *
100109155 TTGAGACAATAAACATAGAATAGAGAAGGTCT-
1 TTGGGACAGTAAACACAGAATAGAGAAAGTCTG
100109187 TTCGGGACAGTAAACAC
1 TT-GGGACAGTAAACAC
100109204 GAGTAAGTCT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
32 2 0.05
33 37 0.95
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (33 bp):
TTGGGACAGTAAACACAGAATAGAGAAAGTCTG
Found at i:100109223 original size:27 final size:27
Alignment explanation
Indices: 100109193--100109266 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
100109183 GTCTTTCGGG
100109193 ACAGTAAACACGAGTAAGTCTGCCTGA
1 ACAGTAAACACGAGTAAGTCTGCCTGA
* * * *
100109220 ACAGTAAATATGGGTAAGTCTGCCTGG
1 ACAGTAAACACGAGTAAGTCTGCCTGA
100109247 ACAGTAAACACGAGTAAGTC
1 ACAGTAAACACGAGTAAGTC
100109267 CGTCGGGATA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (27 bp):
ACAGTAAACACGAGTAAGTCTGCCTGA
Found at i:100109279 original size:27 final size:27
Alignment explanation
Indices: 100109189--100109295 Score: 106
Period size: 27 Copynumber: 4.0 Consensus size: 27
100109179 GAAGGTCTTT
100109189 CGGGACAGTAAACACGAGTAAGTCTGC
1 CGGGACAGTAAACACGAGTAAGTCTGC
* * * * *
100109216 CTGAACAGTAAATATGGGTAAGTCTGC
1 CGGGACAGTAAACACGAGTAAGTCTGC
* * *
100109243 CTGGACAGTAAACACGAGTAAGTCCGT
1 CGGGACAGTAAACACGAGTAAGTCTGC
* * **
100109270 CGGGATAGTAAAAAATAGTAAGTCTG
1 CGGGACAGTAAACACGAGTAAGTCTG
100109296 TTAAGACAAA
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.21
Consensus pattern (27 bp):
CGGGACAGTAAACACGAGTAAGTCTGC
Found at i:100109291 original size:54 final size:54
Alignment explanation
Indices: 100109191--100109295 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
100109181 AGGTCTTTCG
* * * *
100109191 GGACAGTAAACACGAGTAAGTCTGCCTGAACAGTAAATATGGGTAAGTCTGCCT
1 GGACAGTAAACACGAGTAAGTCCGCCGGAACAGTAAAAATGAGTAAGTCTGCCT
* * *
100109245 GGACAGTAAACACGAGTAAGTCCGTCGGGATAGTAAAAAAT-AGTAAGTCTG
1 GGACAGTAAACACGAGTAAGTCCGCCGGAACAGT-AAAAATGAGTAAGTCTG
100109296 TTAAGACAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 38 0.88
55 5 0.12
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (54 bp):
GGACAGTAAACACGAGTAAGTCCGCCGGAACAGTAAAAATGAGTAAGTCTGCCT
Found at i:100113928 original size:28 final size:28
Alignment explanation
Indices: 100113864--100113940 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
100113854 TGATTGAATC
*
100113864 GGTTGATG-AATTTTTTGAAGCAAAGAG
1 GGTTTATGAAATTTTTTGAAGCAAAGAG
* *
100113891 AG-TTATTGAAATTTTTTGAA-CGAAATAG
1 GGTTTA-TGAAATTTTTTGAAGC-AAAGAG
* *
100113919 GGTTTATGAAAATTTTTAAAGC
1 GGTTTATGAAATTTTTTGAAGC
100113941 TATATTCAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 29 0.74
29 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (28 bp):
GGTTTATGAAATTTTTTGAAGCAAAGAG
Found at i:100124237 original size:35 final size:35
Alignment explanation
Indices: 100124073--100124235 Score: 211
Period size: 35 Copynumber: 4.6 Consensus size: 35
100124063 CATGGCAAAG
* * *
100124073 TGTGAAATGTAAGGTATAGTATTAACCATACTGAGT
1 TGTGAAACGT-AGGTATGGTATTATCCATACTGAGT
*
100124109 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
100124144 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
** ** *
100124179 TAAGAAACGTAGGTATGACATT-TCCGATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCC-ATACTGAGT
*
100124214 TGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
100124236 TCAATGAGGA
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
34 3 0.03
35 101 0.89
36 9 0.08
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
Found at i:100126573 original size:5 final size:5
Alignment explanation
Indices: 100126563--100126605 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
100126553 TATTTTTTAT
* * *
100126563 TATAA TATAA TATAA TTTAA TTTAA TTTAA TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
100126606 CTTAATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (5 bp):
TATAA
Found at i:100126617 original size:25 final size:28
Alignment explanation
Indices: 100126554--100126615 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
100126544 TTCTTTATTT
* *
100126554 ATTTTTTATTATAATATAATATAATTTA
1 ATTTTTTAATATAATATAATATAACTTA
100126582 ATTTAATTTAATATAATAT-ATAT-ACTTA
1 ATTT--TTTAATATAATATAATATAACTTA
100126610 ATTTTT
1 ATTTTT
100126616 AAGGTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 2 0.07
28 12 0.40
29 4 0.13
30 12 0.40
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTTTTTAATATAATATAATATAACTTA
Found at i:100136124 original size:84 final size:84
Alignment explanation
Indices: 100136015--100136180 Score: 260
Period size: 84 Copynumber: 2.0 Consensus size: 84
100136005 CCAGTACCAC
* **
100136015 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCATCATTGTCCTTCACACCACCTTCT
1 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACACCACCTTCT
100136080 CTTCTATTCACCACCTCAT
66 CTTCTATTCACCACCTCAT
* * *
100136099 TAGTTCCACCATTTAGATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACATCACCTTCT
1 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACACCACCTTCT
* *
100136164 CTTTTATTCACCCCCTC
66 CTTCTATTCACCACCTC
100136181 TTCATTAACC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.23, C:0.37, G:0.05, T:0.35
Consensus pattern (84 bp):
TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACACCACCTTCT
CTTCTATTCACCACCTCAT
Found at i:100136790 original size:225 final size:216
Alignment explanation
Indices: 100136404--100136827 Score: 661
Period size: 225 Copynumber: 1.9 Consensus size: 216
100136394 CTCTCCACCA
* * *
100136404 CCACCACCAACACTCTTAGACTGTTCGCTGCCTGAATCCCGTGACCATGTTGGTGACCTTGACTT
1 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACTT
* *
100136469 AGACTTCGACTTGGAGCTTCTCCTCTTCAAATCCTCCTCCCTTGATTCCCCAACAACCCTGCCTG
66 AGACTTCGACTTGGAGCTTCTCCTCCTCAAATCCTCCTCCCTTGATTCCCCAACAACCCTCCCTG
*
100136534 CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCTTCAGTTGCACCTTA
131 CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAGTTGCACCTTA
100136599 CTACCTCTAGTCTCATCAATT
196 CTACCTCTAGTCTCATCAATT
100136620 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACAT
1 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGAC--
* * *
100136685 TGACGTAGACATT-GCCTTGGTGCTTCTCCTCCTCAAATCTTCCCTTTCCCTTGATTCCCCAACA
64 T----TAGAC-TTCGACTTGGAGCTTCTCCTCCTCAAATCCT-CC--TCCCTTGATTCCCCAACA
*
100136749 ACCCTCCCTGCCCCCAAAGAATCCCTTGACCTTGTAGGTGAGCTCACATCCCTAACATCCCTCAG
121 ACCCTCCCTGCCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAG
100136814 TTGCACCTTACTAC
186 TTGCACCTTACTAC
100136828 TCCCTCTAAC
Statistics
Matches: 188, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
216 60 0.32
218 1 0.01
222 29 0.15
223 4 0.02
225 94 0.50
ACGTcount: A:0.21, C:0.37, G:0.14, T:0.28
Consensus pattern (216 bp):
CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACTT
AGACTTCGACTTGGAGCTTCTCCTCCTCAAATCCTCCTCCCTTGATTCCCCAACAACCCTCCCTG
CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAGTTGCACCTTA
CTACCTCTAGTCTCATCAATT
Found at i:100142269 original size:40 final size:39
Alignment explanation
Indices: 100142218--100142359 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 39
100142208 GATTCGGATA
*
100142218 TATATATGGCACTTAGTATGCGATTCGAGATAACTTCGGC
1 TATATATGGCACTTAGTGTGCGA-TCGAGATAACTTCGGC
* * * * *
100142258 TGTATATGGCACTTGGTGTGCGAATCGAAATAGCTCCGGC
1 TATATATGGCACTTAGTGTGCG-ATCGAGATAACTTCGGC
* *
100142298 TATATGTGGCACTTAGTGTGCAAGACCGAGATAACTTCGGC
1 TATATATGGCACTTAGTGTGC--GATCGAGATAACTTCGGC
*
100142339 TATGA-AAGGCACTTAGTGTGC
1 TAT-ATATGGCACTTAGTGTGC
100142360 AAGATTAAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
40 50 0.60
41 31 0.37
42 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (39 bp):
TATATATGGCACTTAGTGTGCGATCGAGATAACTTCGGC
Found at i:100142383 original size:41 final size:42
Alignment explanation
Indices: 100142305--100142411 Score: 99
Period size: 41 Copynumber: 2.5 Consensus size: 42
100142295 GGCTATATGT
*** * *
100142305 GGCACTTAGTGTGCAAGACCGAGATAACTTCGGCTATG-AAA
1 GGCACTTAGTGTGCAAGATTAAAATAACTTCGACTATGTAAA
* * ***
100142346 GGCACTTAGTGTGCAAGATTAAAATAGCTTCTACTATGTTTT
1 GGCACTTAGTGTGCAAGATTAAAATAACTTCGACTATGTAAA
*
100142388 GGCACTTAGTGTGCGAGAATTAAA
1 GGCACTTAGTGTGCAAG-ATTAAA
100142412 GTATTCAACA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 31 0.58
42 16 0.30
43 6 0.11
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
GGCACTTAGTGTGCAAGATTAAAATAACTTCGACTATGTAAA
Found at i:100147706 original size:46 final size:45
Alignment explanation
Indices: 100147535--100147704 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 45
100147525 TGTAACCCGC
* *
100147535 CCATAAATGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
* *
100147581 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
100147627 ACATCTCTCGAACTCGGACTCAAATCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
100147674 CCATAAGTGAACTCAGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
100147705 TTTGGATGCC
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 58 0.59
47 30 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:100149399 original size:20 final size:19
Alignment explanation
Indices: 100149371--100149412 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
100149361 TGTCCCCTGT
100149371 TTTGAGAAAAATTT-TCTAAG
1 TTTGAG-AAAATTTCT-TAAG
*
100149391 TTTGTGAAAATTTCTTAAG
1 TTTGAGAAAATTTCTTAAG
100149410 TTT
1 TTT
100149413 TCGGTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (19 bp):
TTTGAGAAAATTTCTTAAG
Found at i:100153976 original size:18 final size:19
Alignment explanation
Indices: 100153953--100153992 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
100153943 TATTTCATAC
100153953 TATGC-ACAAACAAGTAAA
1 TATGCAACAAACAAGTAAA
*
100153971 TATGCAACAAACAAGTCAA
1 TATGCAACAAACAAGTAAA
100153990 TAT
1 TAT
100153993 CCAGCAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.20
Consensus pattern (19 bp):
TATGCAACAAACAAGTAAA
Found at i:100155857 original size:17 final size:17
Alignment explanation
Indices: 100155835--100155871 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
100155825 CATATTTATA
*
100155835 TTTTGTCCAAATCTATT
1 TTTTGTCCAAATCAATT
100155852 TTTTGTCCAAATCAATT
1 TTTTGTCCAAATCAATT
100155869 TTT
1 TTT
100155872 CCAGCTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTTGTCCAAATCAATT
Found at i:100157592 original size:5 final size:5
Alignment explanation
Indices: 100157570--100157609 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
100157560 TTAATATTTA
* *
100157570 ATTAT ATAAT AATAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
100157610 TATAATAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:100157712 original size:13 final size:13
Alignment explanation
Indices: 100157670--100157733 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
100157660 AACAAAGTTA
*
100157670 AAAACGAAACAGAG
1 AAAA-GAAAAAGAG
100157684 AAGAA-AAAAA-ATG
1 AA-AAGAAAAAGA-G
100157697 AAAAGAAAAAGAG
1 AAAAGAAAAAGAG
*
100157710 -AAAGAAAAGGAG
1 AAAAGAAAAAGAG
*
100157722 AAAAGATAAAGA
1 AAAAGAAAAAGA
100157734 TTTCAAAGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
12 14 0.34
13 22 0.54
14 3 0.07
15 2 0.05
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAAGAG
Found at i:100158022 original size:18 final size:19
Alignment explanation
Indices: 100157993--100158028 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
100157983 GTGAAAAATT
*
100157993 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
100158012 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
100158029 ATATAGCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:100160404 original size:23 final size:25
Alignment explanation
Indices: 100160352--100160406 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
100160342 CATTATCTTA
* *
100160352 CCATTTCATTATATACATATATCAT
1 CCATTTCAATATATACATATACCAT
*
100160377 CCATTTCAATATAT-CATGTACCAT
1 CCATTTCAATATATACATATACCAT
100160401 -CATTTC
1 CCATTTC
100160407 CATGTATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 6 0.22
24 8 0.30
25 13 0.48
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.42
Consensus pattern (25 bp):
CCATTTCAATATATACATATACCAT
Found at i:100166770 original size:73 final size:73
Alignment explanation
Indices: 100166691--100166845 Score: 181
Period size: 73 Copynumber: 2.1 Consensus size: 73
100166681 TTGTATAACG
* *
100166691 GGAAGCTCATAAAAGTCATA-ATCAGG-AAGCTTAAGTGAGCCAATAACGGGTA-GCTTTGAAGA
1 GGAAGCTCATAAAAGCCATATATC-GGAAAGCTTAAGTGAGCC-ATAACGGG-ACGCTCTGAAGA
100166753 GCCATTAATCA
63 GCCATTAATCA
* * * * * * *
100166764 GGAAGCTCCTGATAGCCATATATCGGAAAGTTTAAGTGAGTCATATCGGGACGCTCTGGAGAGCC
1 GGAAGCTCATAAAAGCCATATATCGGAAAGCTTAAGTGAGCCATAACGGGACGCTCTGAAGAGCC
100166829 ATTAATCA
66 ATTAATCA
100166837 GGAAGCTCA
1 GGAAGCTCA
100166846 CTAAGAACCT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
72 1 0.01
73 52 0.75
74 16 0.23
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (73 bp):
GGAAGCTCATAAAAGCCATATATCGGAAAGCTTAAGTGAGCCATAACGGGACGCTCTGAAGAGCC
ATTAATCA
Found at i:100166860 original size:26 final size:25
Alignment explanation
Indices: 100166831--100166902 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
100166821 GGAGAGCCAT
100166831 TAATCAGGAAGCTCACTAAGAACCTA
1 TAATCAGGAAGCTCACTAAGAACC-A
* *
100166857 TAATCAGAAAGCTCACTAAGAGCCA
1 TAATCAGGAAGCTCACTAAGAACCA
* *
100166882 TATATCGGGACGCTCA-TAAGA
1 TA-ATCAGGAAGCTCACTAAGA
100166903 GTTGTGGTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
25 8 0.20
26 32 0.80
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (25 bp):
TAATCAGGAAGCTCACTAAGAACCA
Found at i:100173414 original size:131 final size:132
Alignment explanation
Indices: 100172985--100173500 Score: 438
Period size: 131 Copynumber: 3.9 Consensus size: 132
100172975 TCATTCATTC
* * ** * * *
100172985 AAAAATTCTTCAAAACGAAGACGAGGTTTGATGTTTGGCAATTCGCGGAATCATTCCCTAACGTG
1 AAAAATCCTTCAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCAGAATCATGCCCTAACGTG
* * *
100173050 TTGGGTTGCAATTTCGT-GTTTGCTCAAAATAATTGAATA-TCACTTCAAAATTTCACTCATGTC
66 CTGGGTTGCAATTTC-TCATTTGCTCAAAACAATTGAATATTC-CTTCAAAATTTCACTCATGTC
100173113 TTTT
129 TTTT
* * * ** *
100173117 AAAAATCCCTT--AAACGAAGGCGATATGCAATATTTGGCAATTCGTGGAATCGTGCCCTAACGT
1 AAAAAT-CCTTCAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCAGAATCATGCCCTAACGT
* * * * ** * *
100173180 GCTGGGTTGCAATTTCCCATTTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCT
65 GCTGGGTTGCAATTTCTCATTTGCTCAAAACAATTGAATATTCCTTCAAAATTTCACTCATGTCT
*
100173245 TCT
130 TTT
* ** * * * *
100173248 AAAAATCCTTTAAAACGAAGGTAATATTTGGTGTTTGACAATTCG-AGAATCATGCCCTATCGTG
1 AAAAATCCTTCAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCAGAATCATGCCCTAACGTG
** * * *** *
100173312 CTGGGTTGTGATTTCTCGTTTGTTCAAAACAATTGAATATTCCTTCAGGTTTTCATTCATGT-TT
66 CTGGGTTGCAATTTCTCATTTGCTCAAAACAATTGAATATTCCTTCAAAATTTCACTCATGTCTT
100173376 ATT
131 -TT
* * * * *
100173379 AAAAA-CCATTCAAAACGAAGGCGATGTTCGATGTTTGGCGATTTG-AGAATTGA-GCCCTATCG
1 AAAAATCC-TTCAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCAGAA-TCATGCCCTAACG
** * * * * **
100173441 TGCTGGGTTGCGCTTTTTCATTTGCTCAAAACAATCGAAGATCCCTTCGGAATTTCACTC
64 TGCTGGGTTGCAATTTCTCATTTGCTCAAAACAATTGAATATTCCTTCAAAATTTCACTC
100173501 GTATTTTCTA
Statistics
Matches: 307, Mismatches: 69, Indels: 17
0.78 0.18 0.04
Matches are distributed among these distances:
130 8 0.03
131 262 0.85
132 34 0.11
133 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (132 bp):
AAAAATCCTTCAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCAGAATCATGCCCTAACGTG
CTGGGTTGCAATTTCTCATTTGCTCAAAACAATTGAATATTCCTTCAAAATTTCACTCATGTCTT
TT
Found at i:100173487 original size:262 final size:262
Alignment explanation
Indices: 100173011--100173500 Score: 569
Period size: 262 Copynumber: 1.9 Consensus size: 262
100173001 GAAGACGAGG
* * * *
100173011 TTTGATGTTTGGCAATTCGCGGAATCATTCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCA
1 TTTGATGTTTGACAATTCGCAGAATCATGCCCTAACGTGCTGGGTTGCAATTTCGTGTTTGCTCA
* *
100173076 AAATAATTGAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTTAAACGAAGGCGAT
66 AAACAATTGAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCATTAAACGAAGGCGAT
* * *
100173141 ATGCAATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCCCATTTGTTT
131 ATGCAATATTTGGCAATTC-TGGAATCGAGCCCTAACGTGCTGGGTTGCAATTTCCCATTTGCTC
* *
100173206 AAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGTA
195 AAAACAATCAAAGATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGTA
100173271 ATA
260 ATA
* * ** *
100173274 TTTGGTGTTTGACAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGTGATTTC-TCGTTTGTTC
1 TTTGATGTTTGACAATTCGCAGAATCATGCCCTAACGTGCTGGGTTGCAATTTCGT-GTTTGCTC
*** *
100173337 AAAACAATTGAATATTC-CTTCAGGTTTTCATTCATGT-TTATTAAAAA-CCATTCAAAACGAAG
65 AAAACAATTGAATA-TCACTTCAAAATTTCACTCATGTCTT-TTAAAAATCCATT--AAACGAAG
* * * * * * * ** **
100173399 GCGATGTTCGATGTTTGGCGATT-TGAGAATTGAGCCCTATCGTGCTGGGTTGCGCTTTTTCATT
126 GCGATATGCAATATTTGGCAATTCTG-GAATCGAGCCCTAACGTGCTGGGTTGCAATTTCCCATT
* **
100173463 TGCTCAAAACAATCGAAGATCCCTTCGGAATTTCACTC
190 TGCTCAAAACAATCAAAGATCCCTTCAAAATTTCACTC
100173501 GTATTTTCTA
Statistics
Matches: 187, Mismatches: 34, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
261 9 0.05
262 133 0.71
263 45 0.24
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (262 bp):
TTTGATGTTTGACAATTCGCAGAATCATGCCCTAACGTGCTGGGTTGCAATTTCGTGTTTGCTCA
AAACAATTGAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCATTAAACGAAGGCGAT
ATGCAATATTTGGCAATTCTGGAATCGAGCCCTAACGTGCTGGGTTGCAATTTCCCATTTGCTCA
AAACAATCAAAGATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGTAA
TA
Found at i:100174643 original size:15 final size:15
Alignment explanation
Indices: 100174623--100174657 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
100174613 TAAAACTAAA
100174623 GGGTATGAGGTTAAT
1 GGGTATGAGGTTAAT
100174638 GGGTATGAGGTTAAT
1 GGGTATGAGGTTAAT
100174653 GGGTA
1 GGGTA
100174658 GAATTAAGTT
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:0.26, C:0.00, G:0.43, T:0.31
Consensus pattern (15 bp):
GGGTATGAGGTTAAT
Found at i:100179486 original size:142 final size:143
Alignment explanation
Indices: 100179229--100179515 Score: 522
Period size: 142 Copynumber: 2.0 Consensus size: 143
100179219 CTCTCTTGTA
100179229 CACTGGCTGAATGTTTAAAATGTGTTATATCACTGTTAAGAGACACTGCATATCAGTGGTGGAAT
1 CACTGGCTGAATGTTTAAAATGTGTTATATCACTGTTAAGAGACACTGCATATCAGTGGTGGAAT
*
100179294 ACGTCAGTATCTGTGGTACCGAGGGAGAGAGTCACCTGAAAATTCTTTCAGACCGAGTTCCGAAA
66 ACGTCAGTATCCGTGGTACCGAGGGAGAGAGTCACCTGAAAATTCTTTCAGACCGAGTTCCGAAA
100179359 GAAATACATAAGT
131 GAAATACATAAGT
100179372 CACTGGCTGAATGTTTAAAATGTGTTATATCACTGTTAAGAGACACTGC-TATCAGTGGTGGAAT
1 CACTGGCTGAATGTTTAAAATGTGTTATATCACTGTTAAGAGACACTGCATATCAGTGGTGGAAT
* ** *
100179436 ACGTTAGTATCCGTGGTACCGAGGGAGAGAGTCACCTGGGAATTCTTTCAGATCGAGTTCCGAAA
66 ACGTCAGTATCCGTGGTACCGAGGGAGAGAGTCACCTGAAAATTCTTTCAGACCGAGTTCCGAAA
100179501 GAAATACATAAGT
131 GAAATACATAAGT
100179514 CA
1 CA
100179516 ACGGTTTCTG
Statistics
Matches: 139, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
142 90 0.65
143 49 0.35
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (143 bp):
CACTGGCTGAATGTTTAAAATGTGTTATATCACTGTTAAGAGACACTGCATATCAGTGGTGGAAT
ACGTCAGTATCCGTGGTACCGAGGGAGAGAGTCACCTGAAAATTCTTTCAGACCGAGTTCCGAAA
GAAATACATAAGT
Found at i:100179950 original size:26 final size:26
Alignment explanation
Indices: 100179914--100179996 Score: 157
Period size: 26 Copynumber: 3.2 Consensus size: 26
100179904 GTACATCTAA
100179914 GACACGCCCGTGTTGTCACCCTGTGT
1 GACACGCCCGTGTTGTCACCCTGTGT
*
100179940 GACATGCCCGTGTTGTCACCCTGTGT
1 GACACGCCCGTGTTGTCACCCTGTGT
100179966 GACACGCCCGTGTTGTCACCCTGTGT
1 GACACGCCCGTGTTGTCACCCTGTGT
100179992 GACAC
1 GACAC
100179997 ACACGTTAGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.13, C:0.34, G:0.27, T:0.27
Consensus pattern (26 bp):
GACACGCCCGTGTTGTCACCCTGTGT
Found at i:100179991 original size:13 final size:13
Alignment explanation
Indices: 100179923--100179991 Score: 63
Period size: 13 Copynumber: 5.3 Consensus size: 13
100179913 AGACACGCCC
100179923 GTGTTGTCACCCT
1 GTGTTGTCACCCT
*
100179936 GTG-TGACATGCCC-
1 GTGTTGTCA--CCCT
100179949 GTGTTGTCACCCT
1 GTGTTGTCACCCT
* *
100179962 GTG-TGACACGCCC
1 GTGTTGTCAC-CCT
100179975 GTGTTGTCACCCT
1 GTGTTGTCACCCT
100179988 GTGT
1 GTGT
100179992 GACACACACG
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
12 12 0.27
13 20 0.45
14 12 0.27
ACGTcount: A:0.10, C:0.30, G:0.28, T:0.32
Consensus pattern (13 bp):
GTGTTGTCACCCT
Found at i:100182006 original size:8 final size:8
Alignment explanation
Indices: 100181993--100182036 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
100181983 CTTTTATGTT
100181993 TTATTATA
1 TTATTATA
*
100182001 TTATTAAA
1 TTATTATA
100182009 TTATTATA
1 TTATTATA
*
100182017 TTAATATA
1 TTATTATA
100182025 TTATTATA
1 TTATTATA
100182033 TTAT
1 TTAT
100182037 ATACTTAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATTATA
Found at i:100187554 original size:40 final size:40
Alignment explanation
Indices: 100187510--100187657 Score: 183
Period size: 40 Copynumber: 3.6 Consensus size: 40
100187500 ATGACAATTC
*
100187510 GGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTT
1 GGCTATGTATGGCACTTAGTGTGCGATTCGAAATAGCTTT
* * *
100187550 GGCTATGTATGGCTCTTAGTGTGCGTTTCGAAATAGCTTC
1 GGCTATGTATGGCACTTAGTGTGCGATTCGAAATAGCTTT
* *
100187590 GGCTATGTATGACACTTAGTGTGCAAGATT-AAAATAG-TTT
1 GGCTATGTATGGCACTTAGTGTGC--GATTCGAAATAGCTTT
*
100187630 CAGCTATGTATTGGCACTTAGTGTGCGA
1 -GGCTATGTA-TGGCACTTAGTGTGCGA
100187658 GAATTTGAGT
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
40 62 0.67
41 14 0.15
42 17 0.18
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (40 bp):
GGCTATGTATGGCACTTAGTGTGCGATTCGAAATAGCTTT
Found at i:100195837 original size:25 final size:25
Alignment explanation
Indices: 100195806--100195860 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
100195796 CTCCAAATCG
*
100195806 TTTTCCCCAAATCCCTAACTTAGTT
1 TTTTCCCCAAATCCCTAACTTAATT
*
100195831 TTTTCCCCAATTCCCTAACTTAATT
1 TTTTCCCCAAATCCCTAACTTAATT
100195856 TTTTC
1 TTTTC
100195861 TTTCCCATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTTCCCCAAATCCCTAACTTAATT
Found at i:100200242 original size:43 final size:44
Alignment explanation
Indices: 100200181--100200274 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 44
100200171 GCATTTTCCC
* *
100200181 ACAAACGCCACTATAGAACATAATCTTTAGGGGCGCTTT-TA-CT
1 ACAAACGCCACTAAAGAACATAATCTTTAGCGGCG-TTTCTAGCT
* * *
100200224 ACAAACGCCGCTAAAGAACATGATCTTTTGCGGCGTTTCTAGCT
1 ACAAACGCCACTAAAGAACATAATCTTTAGCGGCGTTTCTAGCT
100200268 ACAAACG
1 ACAAACG
100200275 TCACAACATG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 3 0.07
43 32 0.73
44 9 0.20
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (44 bp):
ACAAACGCCACTAAAGAACATAATCTTTAGCGGCGTTTCTAGCT
Found at i:100200589 original size:17 final size:18
Alignment explanation
Indices: 100200542--100200594 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 18
100200532 TTATTATTTT
100200542 ATTAAGATTTAATATTAA
1 ATTAAGATTTAATATTAA
* * *
100200560 ATCAAGA-TAAATATTAG
1 ATTAAGATTTAATATTAA
100200577 ATTAA-ATTTAATATTAA
1 ATTAAGATTTAATATTAA
100200594 A
1 A
100200595 GTGATTAAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 1 0.04
17 21 0.75
18 6 0.21
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.40
Consensus pattern (18 bp):
ATTAAGATTTAATATTAA
Found at i:100204183 original size:53 final size:51
Alignment explanation
Indices: 100204125--100204236 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
100204115 CCGTAGAGGT
*
100204125 AACAGTAACAGTAACAGT-AGTGTACACAGAGTACCTCATCGGAACAAATCCAG
1 AACAGTAACAGTAACAATCAG-GT--ACAGAGTACCTCATCGGAACAAATCCAG
* *
100204178 AACAGTAATAGTAACAATCAGGTACAGAGTACCTCTTCGGAACAAATCCAG
1 AACAGTAACAGTAACAATCAGGTACAGAGTACCTCATCGGAACAAATCCAG
100204229 AACAGTAA
1 AACAGTAA
100204237 TAGTGGTCGA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
51 35 0.64
53 18 0.33
54 2 0.04
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (51 bp):
AACAGTAACAGTAACAATCAGGTACAGAGTACCTCATCGGAACAAATCCAG
Found at i:100207226 original size:19 final size:19
Alignment explanation
Indices: 100207202--100207256 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
100207192 TTTAAGATAT
100207202 TATATTTATTTATAATTAA
1 TATATTTATTTATAATTAA
** * *
100207221 TATATTTAAATAAAATTAT
1 TATATTTATTTATAATTAA
*
100207240 TAATATTAATTTATAAT
1 T-ATATTTATTTATAAT
100207257 AAGTGTTTCA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATTTATTTATAATTAA
Found at i:100225654 original size:72 final size:72
Alignment explanation
Indices: 100225516--100225661 Score: 193
Period size: 72 Copynumber: 2.0 Consensus size: 72
100225506 CAAGTCGCCT
* * *
100225516 CTTGAAGCCCTTTTGTCTGACATGCAAGTAACAGGTACTGCTTCCTGCTCTAAGAAAAGTGATGA
1 CTTGAAGCCCTTTTGTCAGACATGCAAGTAACAGATACTGCTTCCTGCTCTAAGAAAAGAGATGA
100225581 TGGTTCC
66 TGGTTCC
* * * *
100225588 CTTGGAGCCCTTTTGTCAGACATGCAAGTCACAGATACTGCTGCTTCCTGCTCTAAAAAAAGTGA
1 CTTGAAGCCCTTTTGTCAGACATGCAAGTAACAGATA---CTGCTTCCTGCTCTAAGAAAAGAGA
*
100225653 TGATAGTTC
63 TGATGGTTC
100225662 TCAACCTGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
72 33 0.51
75 32 0.49
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (72 bp):
CTTGAAGCCCTTTTGTCAGACATGCAAGTAACAGATACTGCTTCCTGCTCTAAGAAAAGAGATGA
TGGTTCC
Found at i:100230302 original size:116 final size:115
Alignment explanation
Indices: 100230094--100230321 Score: 447
Period size: 116 Copynumber: 2.0 Consensus size: 115
100230084 GGCAGGCCTA
100230094 GTTTATATGATTGTGAAAACCAGTTAAATGTGTCGCATTCCGATGTTGTAATCGGAAAAACAAAG
1 GTTTATATGATTGTGAAAACCAGTTAAATGTGTCGCATTCCGATGTTGTAATCGGAAAAACAAAG
100230159 AAATAGAACATACTCAAAAGGCTTTTGCAGCTTTGTCATTCTTTCGATGT
66 AAATAGAACATACTCAAAAGGCTTTTGCAGCTTTGTCATTCTTTCGATGT
100230209 GTTTAATATGATTGTGAAAACCAGTTAAATGTGTCGCATTCCGATGTTGTAATCGGAAAAACAAA
1 GTTT-ATATGATTGTGAAAACCAGTTAAATGTGTCGCATTCCGATGTTGTAATCGGAAAAACAAA
100230274 GAAATAGAACATACTCAAAAGGCTTTTGCAGCTTTGTCATTCTTTCGA
65 GAAATAGAACATACTCAAAAGGCTTTTGCAGCTTTGTCATTCTTTCGA
100230322 AACTTGCAAA
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
115 4 0.04
116 108 0.96
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (115 bp):
GTTTATATGATTGTGAAAACCAGTTAAATGTGTCGCATTCCGATGTTGTAATCGGAAAAACAAAG
AAATAGAACATACTCAAAAGGCTTTTGCAGCTTTGTCATTCTTTCGATGT
Found at i:100234444 original size:30 final size:29
Alignment explanation
Indices: 100234378--100234448 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
100234368 GAGAAGTTAG
*
100234378 GTAGGACTCTTATAATTAAAGAAGTTTTT
1 GTAGGACTCTTATAAATAAAGAAGTTTTT
* **
100234407 TTAGGACTCTTA-AAATAGAAGTGGTGTTTT
1 GTAGGACTCTTATAAATA-AAGAAGT-TTTT
100234437 GTAGGACT-TTAT
1 GTAGGACTCTTAT
100234449 TTAGTTGCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
28 4 0.12
29 19 0.56
30 11 0.32
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (29 bp):
GTAGGACTCTTATAAATAAAGAAGTTTTT
Found at i:100249049 original size:22 final size:22
Alignment explanation
Indices: 100249001--100249050 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
100248991 AAATCCATAA
*
100249001 AATTAAAAAAGAAAAACGAATC
1 AATTCAAAAAGAAAAACGAATC
*
100249023 AATTCAAAAATAATAAA-GAATC
1 AATTCAAAAAGAA-AAACGAATC
100249045 AATTCA
1 AATTCA
100249051 TTTTCAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.64, C:0.10, G:0.06, T:0.20
Consensus pattern (22 bp):
AATTCAAAAAGAAAAACGAATC
Found at i:100250404 original size:22 final size:23
Alignment explanation
Indices: 100250354--100250412 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
100250344 TATCTTCCAA
* *
100250354 TATTT-TATTATAAATATTTAAT
1 TATTTATATAATAAATATTAAAT
*
100250376 TAATTATATAATAAAT-TTAAAT
1 TATTTATATAATAAATATTAAAT
100250398 TATTTAT-TAGATAAA
1 TATTTATATA-ATAAA
100250413 ATGATAATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 20 0.65
23 9 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTTATATAATAAATATTAAAT
Found at i:100251257 original size:68 final size:68
Alignment explanation
Indices: 100251148--100251280 Score: 214
Period size: 68 Copynumber: 2.0 Consensus size: 68
100251138 GTGTGTTTTC
* *
100251148 CAAATGAAATCTCATTCCTATTTATAAGAATTTTCATGTCTCTTCATAGAGACATCTTTCTATAG
1 CAAATGAAATCTCATTCCTATTTATAAGAATTTTCATGTCTCTTCATAAAGACATCTTTCAATAG
100251213 TTT
66 TTT
* *
100251216 CAAATGAAATC-CTATTCCTATTTATAGGAATTTTCATGTCTCTTCATAAAGACGTCTTTCAATA
1 CAAATGAAATCTC-ATTCCTATTTATAAGAATTTTCATGTCTCTTCATAAAGACATCTTTCAATA
100251280 G
65 G
100251281 GTGTCTTTCT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 1 0.02
68 59 0.98
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.41
Consensus pattern (68 bp):
CAAATGAAATCTCATTCCTATTTATAAGAATTTTCATGTCTCTTCATAAAGACATCTTTCAATAG
TTT
Found at i:100256076 original size:20 final size:21
Alignment explanation
Indices: 100256053--100256091 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
100256043 ATTTAATTTA
*
100256053 TTTTTAT-TTAAATAAATAGG
1 TTTTTATATGAAATAAATAGG
100256073 TTTTTATATGAAATAAATA
1 TTTTTATATGAAATAAATA
100256092 AAATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (21 bp):
TTTTTATATGAAATAAATAGG
Found at i:100257476 original size:6 final size:6
Alignment explanation
Indices: 100257465--100257510 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
100257455 CTGTGTACCA
* *
100257465 TTACTG TTACTG TTACTG TTACTG TTATTG TTATTG TTACTG TTAC
1 TTACTG TTACTG TTACTG TTACTG TTACTG TTACTG TTACTG TTAC
100257511 CATTATGGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.17, C:0.13, G:0.15, T:0.54
Consensus pattern (6 bp):
TTACTG
Found at i:100257723 original size:18 final size:18
Alignment explanation
Indices: 100257624--100257812 Score: 99
Period size: 18 Copynumber: 10.4 Consensus size: 18
100257614 TAAATAAAGG
* *
100257624 TACTGAATAATTGACTGC
1 TACTGAATAATTGATTGT
* * *
100257642 TACTGACTAACTGACTGT
1 TACTGAATAATTGATTGT
* * * *
100257660 TACTGGATAACTGACTGC
1 TACTGAATAATTGATTGT
** **
100257678 TACTGCGTAAATAAATTGT
1 TACTGAAT-AATTGATTGT
* *
100257697 TACTAAATAATTGATTAT
1 TACTGAATAATTGATTGT
* *
100257715 TACTGAATAATTTATCGT
1 TACTGAATAATTGATTGT
* *
100257733 TACTGAATAACTGACTGT
1 TACTGAATAATTGATTGT
** * * *
100257751 TAAAGAGTTATTGATTAT
1 TACTGAATAATTGATTGT
* * *
100257769 TATTGAATAACTAATTGT
1 TACTGAATAATTGATTGT
* * *
100257787 TATTGAATGATTGAATGT
1 TACTGAATAATTGATTGT
100257805 TACTGAAT
1 TACTGAAT
100257813 GAAACTGAAA
Statistics
Matches: 124, Mismatches: 46, Indels: 2
0.72 0.27 0.01
Matches are distributed among these distances:
18 114 0.92
19 10 0.08
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGATTGT
Found at i:100292316 original size:42 final size:42
Alignment explanation
Indices: 100292270--100292351 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
100292260 TAAAAAGGTC
* *
100292270 CACACGGGTAGACACATGGGCATG-TGTCTGGGCCGTGTGTGA
1 CACACGGATAGACACATGGGCATGTTGCCT-GGCCGTGTGTGA
* * *
100292312 CACACGGATAGCCCCATGGGCTTGTTGCCTGGCCGTGTGT
1 CACACGGATAGACACATGGGCATGTTGCCTGGCCGTGTGT
100292352 CCCCTGCACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 30 0.88
43 4 0.12
ACGTcount: A:0.16, C:0.26, G:0.35, T:0.23
Consensus pattern (42 bp):
CACACGGATAGACACATGGGCATGTTGCCTGGCCGTGTGTGA
Found at i:100293371 original size:32 final size:32
Alignment explanation
Indices: 100293334--100293398 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
100293324 AAGGAAAGAT
100293334 AACCAATATTTCGGCCCAACAGCTTCAAAACC
1 AACCAATATTTCGGCCCAACAGCTTCAAAACC
100293366 AACCAATATTTCGGCCCAACAGCTTCAAAACC
1 AACCAATATTTCGGCCCAACAGCTTCAAAACC
100293398 A
1 A
100293399 CTGTTGCTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.34, G:0.09, T:0.18
Consensus pattern (32 bp):
AACCAATATTTCGGCCCAACAGCTTCAAAACC
Found at i:100295682 original size:47 final size:47
Alignment explanation
Indices: 100295532--100295747 Score: 173
Period size: 47 Copynumber: 4.6 Consensus size: 47
100295522 TGTGCTAGTT
* **
100295532 TAAGACATGTCTGGGACAT-GCATTGGCCACATT-ATGAGAGCTTGTG
1 TAAGACATGTCTGGGACATGGCATCGGCCAC-TTGATGAGAGCCAGTG
* * ** *
100295578 TAAGACCATGTCTGGGACATGGAATCGG-CA-TTAAGATGAGTGTTAGTC
1 TAAGA-CATGTCTGGGACATGGCATCGGCCACTT--GATGAGAGCCAGTG
*
100295626 TAAGACATGTCTGGGACAT-GCATCGGCCTCTTGATGTA-AGCCAGTG
1 TAAGACATGTCTGGGACATGGCATCGGCCACTTGATG-AGAGCCAGTG
*
100295672 TAAGACCATGT-TAGGGACATGGCATC-G--ACTTAATGTGAGAGCCAGTG
1 TAAGA-CATGTCT-GGGACATGGCATCGGCCACTTGA--TGAGAGCCAGTG
*
100295719 TAAAATCATGTCTGGGACATGGCATCGGC
1 TAAGA-CATGTCTGGGACATGGCATCGGC
100295748 ATTATAACCT
Statistics
Matches: 137, Mismatches: 16, Indels: 31
0.74 0.09 0.17
Matches are distributed among these distances:
45 6 0.04
46 26 0.19
47 77 0.56
48 28 0.20
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (47 bp):
TAAGACATGTCTGGGACATGGCATCGGCCACTTGATGAGAGCCAGTG
Found at i:100295693 original size:94 final size:93
Alignment explanation
Indices: 100295525--100295747 Score: 247
Period size: 94 Copynumber: 2.4 Consensus size: 93
100295515 ATGTTTGTGT
* * **
100295525 GCTAGTTTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTTGTGTAAGACCATGTC
1 GCTAGTCTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
* *
100295590 TGGGACATGGAATCGGCATTAA-GATGAGT
66 TGGGACATGGAATCGAC-TTAATG-TGAGA
* *
100295619 GTTAGTCTAAGACATGTCTGGGACATGCATCGGCCTC-TTGATGTA-AGCCAGTGTAAGACCATG
1 GCTAGTCTAAGACATGTCTGGGACATGCATCGGCCACATT-ATG-AGAGCCAGTGTAAGACCATG
*
100295682 T-TAGGGACATGGCATCGACTTAATGTGAGA
64 TCT-GGGACATGGAATCGACTTAATGTGAGA
* * *
100295712 GCCAGTGTAAAATCATGTCTGGGACATGGCATCGGC
1 GCTAGTCTAAGA-CATGTCTGGGACAT-GCATCGGC
100295748 ATTATAACCT
Statistics
Matches: 110, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
93 19 0.17
94 82 0.75
95 9 0.08
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (93 bp):
GCTAGTCTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGAATCGACTTAATGTGAGA
Found at i:100305409 original size:25 final size:26
Alignment explanation
Indices: 100305381--100305432 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
100305371 AAAAATCGAC
100305381 CTAATCCCACAAAT-TTAAAAAAAAA
1 CTAATCCCACAAATATTAAAAAAAAA
* * *
100305406 CTAATCCGATAAATATTTAAAAAAAA
1 CTAATCCCACAAATATTAAAAAAAAA
100305432 C
1 C
100305433 CCAGCATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.58, C:0.17, G:0.02, T:0.23
Consensus pattern (26 bp):
CTAATCCCACAAATATTAAAAAAAAA
Found at i:100308433 original size:37 final size:37
Alignment explanation
Indices: 100308383--100308456 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
100308373 CACCAGTATG
100308383 CCGAGTCTCTCAACAAAGATATGGCACACTTTAAGCA
1 CCGAGTCTCTCAACAAAGATATGGCACACTTTAAGCA
100308420 CCGAGTCTCTCAACAAAGATATGGCACACTTTAAGCA
1 CCGAGTCTCTCAACAAAGATATGGCACACTTTAAGCA
100308457 TTCTTCGGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (37 bp):
CCGAGTCTCTCAACAAAGATATGGCACACTTTAAGCA
Found at i:100310160 original size:41 final size:41
Alignment explanation
Indices: 100310103--100310182 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
100310093 GCTTAGTAAG
100310103 TACATATATGCAAATAAAGTGTAATTAAAAGAAAATCATGC
1 TACATATATGCAAATAAAGTGTAATTAAAAGAAAATCATGC
100310144 TACATATATGCAAATAAAGTGTAATTAAAAGAAAATCAT
1 TACATATATGCAAATAAAGTGTAATTAAAAGAAAATCAT
100310183 ATTCATCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.28
Consensus pattern (41 bp):
TACATATATGCAAATAAAGTGTAATTAAAAGAAAATCATGC
Found at i:100314197 original size:26 final size:26
Alignment explanation
Indices: 100314142--100314228 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
100314132 AATTAGGTAG
*
100314142 TTAATTAATTAAACTTCAACATTAA-T-T
1 TTAATTAA-TAAA-TT-AAAATTAATTAT
100314169 TTAATTAATAAATTAAAATTAATTAT
1 TTAATTAATAAATTAAAATTAATTAT
* ** *
100314195 TTAATCAACCAA-TAAAAATAATTAAT
1 TTAATTAATAAATTAAAATTAATT-AT
100314221 TTAATTAA
1 TTAATTAA
100314229 ATAATTTACA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
24 7 0.14
25 13 0.25
26 23 0.45
27 8 0.16
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (26 bp):
TTAATTAATAAATTAAAATTAATTAT
Found at i:100316830 original size:21 final size:21
Alignment explanation
Indices: 100316749--100316832 Score: 54
Period size: 21 Copynumber: 4.1 Consensus size: 21
100316739 TTATTTTCCA
100316749 TCAT-TTTCTTTCTTT-TTTCT
1 TCATCTTTC-TTCTTTCTTTCT
*
100316769 T-ATTTTTCTT-TTTCTTT-T
1 TCATCTTTCTTCTTTCTTTCT
* * *
100316787 TCTAGCCTTACTTCTATAC-TTCT
1 TC-A-TCTTTCTTCT-TTCTTTCT
100316810 TCATCTTTCTTCTTTCTTTCT
1 TCATCTTTCTTCTTTCTTTCT
100316831 TC
1 TC
100316833 TATAAAAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 17
0.67 0.10 0.24
Matches are distributed among these distances:
18 5 0.10
19 7 0.15
20 8 0.17
21 19 0.40
22 4 0.08
23 5 0.10
ACGTcount: A:0.08, C:0.24, G:0.01, T:0.67
Consensus pattern (21 bp):
TCATCTTTCTTCTTTCTTTCT
Found at i:100326944 original size:16 final size:16
Alignment explanation
Indices: 100326919--100326950 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
100326909 GTTCAACTCC
*
100326919 TAATATAAAGGCCTCT
1 TAATACAAAGGCCTCT
100326935 TAATACAAAGGCCTCT
1 TAATACAAAGGCCTCT
100326951 ACGATACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (16 bp):
TAATACAAAGGCCTCT
Found at i:100329309 original size:6 final size:6
Alignment explanation
Indices: 100329298--100329322 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
100329288 CGAATCCATT
100329298 GTTTTC GTTTTC GTTTTC GTTTTC G
1 GTTTTC GTTTTC GTTTTC GTTTTC G
100329323 AGTTCGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.20, T:0.64
Consensus pattern (6 bp):
GTTTTC
Found at i:100330118 original size:29 final size:29
Alignment explanation
Indices: 100330076--100330134 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
100330066 TGATTAGAAA
100330076 ATTGATGATAACAGAAAATTAAGCCACAT
1 ATTGATGATAACAGAAAATTAAGCCACAT
100330105 ATTGATGATAACAGAAAATTAAGCCACAT
1 ATTGATGATAACAGAAAATTAAGCCACAT
100330134 A
1 A
100330135 GTAGAAGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
ATTGATGATAACAGAAAATTAAGCCACAT
Found at i:100333257 original size:23 final size:23
Alignment explanation
Indices: 100333230--100333276 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
100333220 CTATCTTATC
100333230 TAACCTAGCTATCAATGAATCTT
1 TAACCTAGCTATCAATGAATCTT
100333253 TAACCTAGCTATCAATGAATCTT
1 TAACCTAGCTATCAATGAATCTT
100333276 T
1 T
100333277 CTTTCAGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (23 bp):
TAACCTAGCTATCAATGAATCTT
Found at i:100338524 original size:26 final size:26
Alignment explanation
Indices: 100338477--100338534 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
100338467 TGGCTATCTG
**
100338477 GAGC-TCTTGATTAAAGGCTCTTCGT
1 GAGCTTCTTGATTAAAAACTCTTCGT
* *
100338502 GAGCTTCTTGATTAAAAATTCTTTGT
1 GAGCTTCTTGATTAAAAACTCTTCGT
*
100338528 GAACTTC
1 GAGCTTC
100338535 CTGACTATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (26 bp):
GAGCTTCTTGATTAAAAACTCTTCGT
Found at i:100338869 original size:23 final size:23
Alignment explanation
Indices: 100338840--100338883 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
100338830 AATACATGAA
100338840 AAATGATGAT-ACATGATATATGG
1 AAATGAT-ATCACATGATATATGG
*
100338863 AAATGATATCACTTGATATAT
1 AAATGATATCACATGATATAT
100338884 TGAAGCATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (23 bp):
AAATGATATCACATGATATATGG
Found at i:100339950 original size:27 final size:27
Alignment explanation
Indices: 100339920--100339976 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
100339910 TCCCTAAGTT
100339920 ATATTAATATCTCTTTCTAGAGTAAAA
1 ATATTAATATCTCTTTCTAGAGTAAAA
100339947 ATATTAATATCTCTTTCTAGAGTAAAA
1 ATATTAATATCTCTTTCTAGAGTAAAA
100339974 ATA
1 ATA
100339977 ACTGACTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (27 bp):
ATATTAATATCTCTTTCTAGAGTAAAA
Found at i:100351085 original size:32 final size:32
Alignment explanation
Indices: 100351046--100351110 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
100351036 ATGCTCTATT
100351046 AAAAAATACATTCATGTCATTATTAAGCTAAC
1 AAAAAATACATTCATGTCATTATTAAGCTAAC
*
100351078 AAAAAATATATTCATGTCATTATTAAGCTAAC
1 AAAAAATACATTCATGTCATTATTAAGCTAAC
100351110 A
1 A
100351111 TAATAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (32 bp):
AAAAAATACATTCATGTCATTATTAAGCTAAC
Found at i:100353630 original size:22 final size:21
Alignment explanation
Indices: 100353592--100353642 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
100353582 TGCTAAGTTG
100353592 ATAAAGATTAATCTATAAATT
1 ATAAAGATTAATCTATAAATT
*
100353613 ATAATAGATATAAT-TATATA-T
1 ATAA-AGAT-TAATCTATAAATT
100353634 -TAAAGATTA
1 ATAAAGATTA
100353643 TCATCTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 2 0.07
19 4 0.15
20 3 0.11
21 5 0.19
22 9 0.33
23 4 0.15
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (21 bp):
ATAAAGATTAATCTATAAATT
Found at i:100357035 original size:16 final size:15
Alignment explanation
Indices: 100357014--100357044 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
100357004 GGAGTTTTGG
100357014 GTATTCTTTATGTTTT
1 GTATTCTTTAT-TTTT
100357030 GTATTCTTTATTTTT
1 GTATTCTTTATTTTT
100357045 CTGAGATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (15 bp):
GTATTCTTTATTTTT
Found at i:100375909 original size:35 final size:39
Alignment explanation
Indices: 100375859--100375953 Score: 110
Period size: 38 Copynumber: 2.5 Consensus size: 39
100375849 CGGATAGATT
100375859 CGATGAGGCGTTGGTCGCCAC-T-TTT-CTTCG-ACTTAGC
1 CGATGA-GCGTTGGTCGCCACTTATTTGCTTCGAAC-TAGC
* *
100375896 CGATGA-CGTTGGTCGTCACTTATTTGCTTCGAACTATC
1 CGATGAGCGTTGGTCGCCACTTATTTGCTTCGAACTAGC
100375934 CGATGAGGCGTTGGTCGCCA
1 CGATGA-GCGTTGGTCGCCA
100375954 TTCTGGTGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
35 12 0.24
36 1 0.02
37 9 0.18
38 14 0.29
39 2 0.04
40 11 0.22
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (39 bp):
CGATGAGCGTTGGTCGCCACTTATTTGCTTCGAACTAGC
Found at i:100379149 original size:24 final size:25
Alignment explanation
Indices: 100379122--100379170 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
100379112 AGGAAGCCTG
100379122 GATAGAATTTC-AAAGGCAATATCC
1 GATAGAATTTCAAAAGGCAATATCC
100379146 GATAGAATTTCAAAAGGCAATATCC
1 GATAGAATTTCAAAAGGCAATATCC
100379171 TACTTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (25 bp):
GATAGAATTTCAAAAGGCAATATCC
Found at i:100381008 original size:11 final size:11
Alignment explanation
Indices: 100380994--100381042 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
100380984 CAATTTCACT
100380994 TTCAATTCAAA
1 TTCAATTCAAA
100381005 TTCACAATTC-AA
1 TT--CAATTCAAA
**
100381017 TTCAATTCTCA
1 TTCAATTCAAA
100381028 TTCAATTCAAA
1 TTCAATTCAAA
100381039 TTCA
1 TTCA
100381043 CTTTTCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 6 0.19
11 16 0.50
12 4 0.12
13 6 0.19
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (11 bp):
TTCAATTCAAA
Found at i:100382221 original size:3 final size:3
Alignment explanation
Indices: 100382213--100382261 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
100382203 TATATATTAG
* *
100382213 ATA ATA ATA TTA ATA ATA ATA ATA CATT ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
100382258 ATA A
1 ATA A
100382262 ATATGTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:100382683 original size:5 final size:5
Alignment explanation
Indices: 100382675--100382724 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
100382665 TATTTATTTC
* * *
100382675 ATAAT ATAAT ATAAT ATAATT ATAAT ATAAT -TATT ATAAT TTAAC ATAAT
1 ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
100382725 TAAATTTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
4 3 0.08
5 29 0.78
6 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:100382700 original size:16 final size:16
Alignment explanation
Indices: 100382675--100382726 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
100382665 TATTTATTTC
100382675 ATAA-TATAATATAAT
1 ATAATTATAATATAAT
100382690 ATAATTATAATATAAT
1 ATAATTATAATATAAT
* *
100382706 -T-ATTATAATTTAAC
1 ATAATTATAATATAAT
100382720 ATAATTA
1 ATAATTA
100382727 AATTTATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 11 0.34
15 6 0.19
16 15 0.47
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTATAATATAAT
Found at i:100383567 original size:27 final size:26
Alignment explanation
Indices: 100383523--100383573 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
100383513 ATATAATGTT
*
100383523 ATTGATGATTTGCGATTTTTAATTAG
1 ATTGATGATTTGCGATTTTGAATTAG
100383549 ATTGAATGATTTGTC-ATTTTGAATT
1 ATTG-ATGATTTG-CGATTTTGAATT
100383574 GCAAGCAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 4 0.18
27 17 0.77
28 1 0.05
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.51
Consensus pattern (26 bp):
ATTGATGATTTGCGATTTTGAATTAG
Found at i:100387708 original size:15 final size:15
Alignment explanation
Indices: 100387685--100387728 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
100387675 AAACAGATCT
100387685 GCAATGCAAGGCAAG
1 GCAATGCAAGGCAAG
*
100387700 GCAAGGCAAGGCAAG
1 GCAATGCAAGGCAAG
*
100387715 GCAATGCAATGCAA
1 GCAATGCAAGGCAA
100387729 TGAGAATGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.32, T:0.07
Consensus pattern (15 bp):
GCAATGCAAGGCAAG
Found at i:100387730 original size:5 final size:5
Alignment explanation
Indices: 100387685--100387728 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
100387675 AAACAGATCT
* * *
100387685 GCAAT GCAAG GCAAG GCAAG GCAAG GCAAG GCAAT GCAAT GCAA
1 GCAAG GCAAG GCAAG GCAAG GCAAG GCAAG GCAAG GCAAG GCAA
100387729 TGAGAATGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.41, C:0.20, G:0.32, T:0.07
Consensus pattern (5 bp):
GCAAG
Found at i:100392380 original size:21 final size:21
Alignment explanation
Indices: 100392353--100392405 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
100392343 CATCAGCGAC
* * *
100392353 AATGAGATTACGTACTGTAGT
1 AATGAGATTAAGTACTATAGA
*
100392374 AGTGAGATTAAGTACTATAGA
1 AATGAGATTAAGTACTATAGA
100392395 AATGAGATTAA
1 AATGAGATTAA
100392406 AATCGGTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.30
Consensus pattern (21 bp):
AATGAGATTAAGTACTATAGA
Found at i:100393136 original size:38 final size:38
Alignment explanation
Indices: 100393094--100393174 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
100393084 TGCCATTTCA
100393094 TATATCATACCTTAATCAACTAAAGTAAATCTAAGTTG
1 TATATCATACCTTAATCAACTAAAGTAAATCTAAGTTG
100393132 TATATCATACCTTAATCAACTAAAGTAAATCTAAGTTG
1 TATATCATACCTTAATCAACTAAAGTAAATCTAAGTTG
100393170 TATAT
1 TATAT
100393175 ATATACATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (38 bp):
TATATCATACCTTAATCAACTAAAGTAAATCTAAGTTG
Found at i:100396023 original size:18 final size:18
Alignment explanation
Indices: 100396000--100396035 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
100395990 ATACTAAATC
100396000 GCCATTCTAGCGTACTAT
1 GCCATTCTAGCGTACTAT
*
100396018 GCCATTCTGGCGTACTAT
1 GCCATTCTAGCGTACTAT
100396036 CTTATGATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.33
Consensus pattern (18 bp):
GCCATTCTAGCGTACTAT
Found at i:100408698 original size:30 final size:30
Alignment explanation
Indices: 100408657--100408716 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
100408647 TTTATTGTTA
*
100408657 AATTTTTTTATTATTTTAAAGACATTTGCT
1 AATTTTGTTATTATTTTAAAGACATTTGCT
* * *
100408687 AATTTTGTTATTGTTTTAGAGGCATTTGCT
1 AATTTTGTTATTATTTTAAAGACATTTGCT
100408717 TGTTAAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.55
Consensus pattern (30 bp):
AATTTTGTTATTATTTTAAAGACATTTGCT
Found at i:100408861 original size:12 final size:12
Alignment explanation
Indices: 100408838--100408871 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
100408828 TATATATTTT
100408838 AAAATT-ATATA
1 AAAATTAATATA
100408849 AAAATTAATATA
1 AAAATTAATATA
100408861 AAAATTAATAT
1 AAAATTAATAT
100408872 GGGCGGACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:100409711 original size:18 final size:19
Alignment explanation
Indices: 100409683--100409732 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
100409673 TGTGACGGAT
*
100409683 ATAACTTAAAAAATA-AAA
1 ATAATTTAAAAAATATAAA
*
100409701 ATATTTTAAAAAATATAAA
1 ATAATTTAAAAAATATAAA
*
100409720 TTAATTTAAAAAA
1 ATAATTTAAAAAA
100409733 AGTATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAATTTAAAAAATATAAA
Found at i:100411042 original size:15 final size:15
Alignment explanation
Indices: 100410998--100411050 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
100410988 GAGAGAATAG
100410998 AAAAT-AAAGAAAAA
1 AAAATAAAAGAAAAA
** *
100411012 AAAAGGAAAGCTAAAA
1 AAAATAAAAG-AAAAA
100411028 AAAATAAAAGAAAAA
1 AAAATAAAAGAAAAA
*
100411043 AAATTAAA
1 AAAATAAA
100411051 TTGCTCAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 4 0.13
15 15 0.48
16 12 0.39
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAATAAAAGAAAAA
Found at i:100413322 original size:3 final size:3
Alignment explanation
Indices: 100413314--100413347 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
100413304 CCCTTGTCCT
**
100413314 TCA TCA TCA TCA TTG TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
100413348 TTTGATCACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:100415962 original size:31 final size:29
Alignment explanation
Indices: 100415908--100415977 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
100415898 AACTAGAAGC
100415908 ATTATAAAAATTTATTAAAAATATAGAAA
1 ATTATAAAAATTTATTAAAAATATAGAAA
*
100415937 ATTAT-AAAATTTATTGACAAAAATATATAAA
1 ATTATAAAAATTTATT---AAAAATATAGAAA
*
100415968 A-TATCAAAAT
1 ATTATAAAAAT
100415978 AAAAATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 10 0.28
29 5 0.14
30 3 0.08
31 18 0.50
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (29 bp):
ATTATAAAAATTTATTAAAAATATAGAAA
Found at i:100415968 original size:9 final size:9
Alignment explanation
Indices: 100415956--100416136 Score: 53
Period size: 9 Copynumber: 20.4 Consensus size: 9
100415946 TTTATTGACA
100415956 AAAATATAT
1 AAAATATAT
*
100415965 AAAATAT-C
1 AAAATATAT
*
100415973 AAAATA-AA
1 AAAATATAT
100415981 AATAATAT-T
1 AA-AATATAT
100415990 AAAATATAT
1 AAAATATAT
** *
100415999 --TTTTTA-
1 AAAATATAT
100416005 AAAATTATAT
1 AAAA-TATAT
*
100416015 AAATTATA-
1 AAAATATAT
100416023 AAAATATAT
1 AAAATATAT
* *
100416032 AAATTA-AA
1 AAAATATAT
*
100416040 AAAATGTA-
1 AAAATATAT
*
100416048 AAAATTATAA
1 AAAA-TATAT
*
100416058 AAAATATTT
1 AAAATATAT
*
100416067 AAAATATAG
1 AAAATATAT
*
100416076 ATAAT-TATT
1 AAAATATA-T
100416085 AAAAATAATAAT
1 -AAAAT-AT-AT
* *
100416097 AAAATTTAC
1 AAAATATAT
100416106 AAAATATTAT
1 AAAATA-TAT
*
100416116 AAAA-ACAT
1 AAAATATAT
100416124 AAAA-ATTAT
1 AAAATA-TAT
100416133 AAAA
1 AAAA
100416137 CAAATTAAAA
Statistics
Matches: 124, Mismatches: 29, Indels: 38
0.65 0.15 0.20
Matches are distributed among these distances:
7 3 0.02
8 38 0.31
9 57 0.46
10 18 0.15
11 5 0.04
12 2 0.02
13 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATATAT
Found at i:100416024 original size:18 final size:18
Alignment explanation
Indices: 100416003--100416087 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 18
100415993 ATATATTTTT
100416003 TAAAAATTATATAAATTA
1 TAAAAATTATATAAATTA
100416021 TAAAAA-TATATAAATTA
1 TAAAAATTATATAAATTA
*
100416038 AAAAAATGTA-A-AAATTA
1 TAAAAAT-TATATAAATTA
* * *
100416055 TAAAAAATATTTAAAATA
1 TAAAAATTATATAAATTA
*
100416073 TAGATAATTAT-TAAA
1 TA-AAAATTATATAAA
100416088 AATAATAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
16 2 0.04
17 27 0.49
18 18 0.33
19 8 0.15
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAAAATTATATAAATTA
Found at i:100416049 original size:15 final size:17
Alignment explanation
Indices: 100415955--100416064 Score: 86
Period size: 17 Copynumber: 6.6 Consensus size: 17
100415945 ATTTATTGAC
*
100415955 AAAAATATATAAAATAT
1 AAAAATATATAAATTAT
*
100415972 CAAAATA-A-AAATAATAT
1 AAAAATATATAAAT--TAT
* * *
100415989 TAAAATATAT--TTTTT
1 AAAAATATATAAATTAT
100416004 AAAAATTATATAAATTAT
1 AAAAA-TATATAAATTAT
*
100416022 AAAAATATATAAATTAA
1 AAAAATATATAAATTAT
* *
100416039 AAAAATGTAAAAATTAT
1 AAAAATATATAAATTAT
100416056 AAAAA-ATAT
1 AAAAATATAT
100416065 TTAAAATATA
Statistics
Matches: 72, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
15 9 0.12
16 8 0.11
17 46 0.64
18 9 0.12
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.34
Consensus pattern (17 bp):
AAAAATATATAAATTAT
Found at i:100416098 original size:19 final size:18
Alignment explanation
Indices: 100416046--100416151 Score: 63
Period size: 19 Copynumber: 5.6 Consensus size: 18
100416036 TAAAAAAATG
*
100416046 TAAAAATTATAAAAAATAT
1 TAAAAA-TATAATAAATAT
* *
100416065 TTAAAATATAGATAATTAT
1 TAAAAATATA-ATAAATAT
100416084 TAAAAATAATAATAAA-ATT
1 TAAAAAT-ATAATAAATA-T
* * *
100416103 TACAAAATATTATAAAAACA
1 TA-AAAATATAATAAATA-T
*
100416123 TAAAAATTATAA-AACAAAT
1 TAAAAA-TATAATAA-ATAT
100416142 TAAAAATATA
1 TAAAAATATA
100416152 TGAAAAAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
18 9 0.13
19 43 0.61
20 18 0.26
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (18 bp):
TAAAAATATAATAAATAT
Found at i:100416127 original size:39 final size:38
Alignment explanation
Indices: 100416084--100416158 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 38
100416074 AGATAATTAT
*
100416084 TAAAAATAATAATAA-AATTTACAAAATATTAT-AAAAACA
1 TAAAAATAATAA-AACAAATTA-AAAATA-TATGAAAAACA
*
100416123 TAAAAATTATAAAACAAATTAAAAATATATGAAAAA
1 TAAAAATAATAAAACAAATTAAAAATATATGAAAAA
100416159 AAATTACAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 3 0.09
38 13 0.41
39 16 0.50
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (38 bp):
TAAAAATAATAAAACAAATTAAAAATATATGAAAAACA
Found at i:100417313 original size:18 final size:18
Alignment explanation
Indices: 100417290--100417337 Score: 51
Period size: 23 Copynumber: 2.4 Consensus size: 18
100417280 ATAATGCAAT
100417290 TACAAATACAAGACATGG
1 TACAAATACAAGACATGG
100417308 TACAAATTGCATACAAGACATGG
1 TAC-AA----ATACAAGACATGG
100417331 TACAAAT
1 TACAAAT
100417338 TGCACATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
18 5 0.20
19 2 0.08
22 2 0.08
23 16 0.64
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (18 bp):
TACAAATACAAGACATGG
Found at i:100417321 original size:23 final size:23
Alignment explanation
Indices: 100417295--100417341 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
100417285 GCAATTACAA
100417295 ATACAAGACATGGTACAAATTGC
1 ATACAAGACATGGTACAAATTGC
100417318 ATACAAGACATGGTACAAATTGC
1 ATACAAGACATGGTACAAATTGC
100417341 A
1 A
100417342 CATACAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (23 bp):
ATACAAGACATGGTACAAATTGC
Found at i:100423757 original size:19 final size:21
Alignment explanation
Indices: 100423733--100423771 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
100423723 AAAGAATCAC
100423733 TTAGGA-AATAGAAA-ATAAG
1 TTAGGAGAATAGAAATATAAG
*
100423752 TTAGGAGAATTGAAATATAA
1 TTAGGAGAATAGAAATATAA
100423772 CTCGTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.26
Consensus pattern (21 bp):
TTAGGAGAATAGAAATATAAG
Found at i:100428372 original size:18 final size:17
Alignment explanation
Indices: 100428332--100428373 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
100428322 GTTTAGAAAT
100428332 TATTTTTATCATATTAA
1 TATTTTTATCATATTAA
100428349 TAATTTTTAT-AGTAATTAA
1 T-ATTTTTATCA-T-ATTAA
100428368 TATTTT
1 TATTTT
100428374 AAAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.09
18 14 0.64
19 6 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTTTTATCATATTAA
Found at i:100429696 original size:16 final size:18
Alignment explanation
Indices: 100429661--100429699 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
100429651 ATCCTTATTT
100429661 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
100429679 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
100429695 AAATA
1 AAATA
100429700 CATATAGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
18 10 0.48
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:100436110 original size:26 final size:26
Alignment explanation
Indices: 100436081--100436188 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
100436071 TGATACAAAT
100436081 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
100436107 TGATAACGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
100436133 TGATTATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100436159 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100436185 TGAT
1 TGAT
100436189 TGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:100441331 original size:18 final size:19
Alignment explanation
Indices: 100441308--100441347 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
100441298 GTACGATTTT
100441308 ATGCACTT-ACGTGCCAGG
1 ATGCACTTCACGTGCCAGG
*
100441326 ATGCACTTCATGTGCCAGG
1 ATGCACTTCACGTGCCAGG
100441345 ATG
1 ATG
100441348 TCCTATGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (19 bp):
ATGCACTTCACGTGCCAGG
Found at i:100441779 original size:6 final size:6
Alignment explanation
Indices: 100441768--100441797 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
100441758 CCACCAATCG
100441768 AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
100441798 TTTAGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:100445419 original size:17 final size:17
Alignment explanation
Indices: 100445383--100445420 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
100445373 TTCCACCTAT
*
100445383 TTTATTTTATGTTTGAA
1 TTTATTTTATGTTAGAA
100445400 TTTATTTATATGTTAG-A
1 TTTATTT-TATGTTAGAA
100445417 TTTA
1 TTTA
100445421 AGTAGAGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (17 bp):
TTTATTTTATGTTAGAA
Found at i:100447448 original size:23 final size:24
Alignment explanation
Indices: 100447393--100447448 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
100447383 AGCCTTGTAA
*
100447393 CGGGAAGCTCACACAGAGCCATTT
1 CGGGAAGCTCACAAAGAGCCATTT
*
100447417 CGGGAAGCTCATAAAGAGCC-TATT
1 CGGGAAGCTCACAAAGAGCCAT-TT
100447441 -GGGAAGCT
1 CGGGAAGCT
100447449 TATCTGGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAGCCATTT
Found at i:100447514 original size:24 final size:24
Alignment explanation
Indices: 100447477--100447537 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
100447467 AGTAGCTCAT
*
100447477 AAGAGCCATAATCAGGAAGTTCACA
1 AAGAACCAT-ATCAGGAAGTTCACA
*
100447502 AAGAACCTTATCAGGAAGTTCACA
1 AAGAACCATATCAGGAAGTTCACA
100447526 AAGAACCATATC
1 AAGAACCATATC
100447538 GAGAATCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 26 0.79
25 7 0.21
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.18
Consensus pattern (24 bp):
AAGAACCATATCAGGAAGTTCACA
Found at i:100448591 original size:26 final size:27
Alignment explanation
Indices: 100448542--100448681 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
100448532 ATGACGGAGT
*
100448542 CACCAGATACAGAT-ATTGTCGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGC
* *
100448569 CACCAAATCAGATTA-TGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
**
100448595 CACCAGATCAGATAATTGTGGCCTAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
*
100448622 CACCAGGA-CAGAT-ATATGTGACAGAGC
1 CACCA-GATCAGATAAT-TGTGGCAGAGC
*
100448649 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
100448676 CACCAG
1 CACCAG
100448682 GATGCTTCCT
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
26 32 0.33
27 60 0.62
28 4 0.04
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCAGAGC
Found at i:100448655 original size:54 final size:55
Alignment explanation
Indices: 100448525--100448684 Score: 204
Period size: 54 Copynumber: 3.0 Consensus size: 55
100448515 CGAGGCTGCG
* * * * * *
100448525 AGATAT-TATGACGGAGTCACCAGATACAGAT-ATTGTCGCAGAGCCACCA-AATC
1 AGATATATGTGACAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGATC
* *
100448578 AGAT-TATGTGGCAGAGCCACCAGATCAGATAATTGTGGCCTAGCCACCAGGA-C
1 AGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGATC
100448631 AGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAT
1 AGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAT
100448685 GCTTCCTCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
52 6 0.07
53 39 0.42
54 47 0.51
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.20
Consensus pattern (55 bp):
AGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGATC
Found at i:100450311 original size:26 final size:26
Alignment explanation
Indices: 100450280--100450387 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
100450270 TGAAATGCCC
*
100450280 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
100450306 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
100450332 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
100450358 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
100450384 ATCA
1 ATCA
100450388 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:100452510 original size:43 final size:43
Alignment explanation
Indices: 100452444--100452799 Score: 319
Period size: 43 Copynumber: 8.3 Consensus size: 43
100452434 TATGTGAAAA
* *** *
100452444 AAACGCCGCTAAAGAATATGACCTTTAGCGGCGCTTTGCCCAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
100452487 AAACCCCGCTAAAGAACATGACCTTTAGTGGCACTTTT-TC-C
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
100452528 ATAATCGCCGCTATAGAACATGACCTTTAGTGGCACTTTTATCAC
1 A-AA-CGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * * *
100452573 AAATGCTGCTAAAGAACATGACCTTTAGCGGTGCTTTTTTTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * * * *
100452616 AAATGCCACTATAGAACATGTCCTTTAGCAGCGGTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* *
100452659 AAACACCGCTAAAGAACATGACTTTTAGCGGCG-TTTTA-CAAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC--AC
* * * * * *
100452702 AAACACCGCTATAGAGCATGACTTTTAGCGGC-ATTTTTTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
100452744 AAACGCCACTAAAGAACA-GTACCTTTAGTGGCGCTTTTATTAC
1 AAACGCCGCTAAAGAACATG-ACCTTTAGCGGCGCTTTTATCAC
*
100452787 AAACGCCGTTAAA
1 AAACGCCGCTAAA
100452800 AGTACCGTTC
Statistics
Matches: 256, Mismatches: 47, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
41 3 0.01
42 34 0.13
43 212 0.83
44 5 0.02
45 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
Found at i:100453583 original size:13 final size:14
Alignment explanation
Indices: 100453557--100453585 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
100453547 ACTAACGATG
100453557 AATTAAACCATTAT
1 AATTAAACCATTAT
100453571 AATTAAA-CATTAT
1 AATTAAACCATTAT
100453584 AA
1 AA
100453586 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Done.