Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 412 of 425
Found at i:125430327 original size:22 final size:21
Alignment explanation
Indices: 125430300--125430364 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 21
125430290 ATCATTATAA
*
125430300 TATAATATTAATATAT-ATAC
1 TATAATATTAATATATAATAT
125430320 T-TAATAATTAATATATAATAT
1 TATAAT-ATTAATATATAATAT
125430341 TATAATATTATAATATTATAATAT
1 TATAATA-T-TAATA-TATAATAT
125430365 ATATTTTAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
19 4 0.11
20 11 0.29
21 5 0.13
22 5 0.13
23 5 0.13
24 8 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAATATTAATATATAATAT
Found at i:125430346 original size:8 final size:8
Alignment explanation
Indices: 125430293--125430364 Score: 69
Period size: 8 Copynumber: 9.2 Consensus size: 8
125430283 TTATTTTATC
125430293 ATTATAAT
1 ATTATAAT
* *
125430301 ATAATATT
1 ATTATAAT
*
125430309 AATATATAT
1 ATTATA-AT
*
125430318 ACT-TAAT
1 ATTATAAT
*
125430325 AAT-TAAT
1 ATTATAAT
125430332 A-TATAAT
1 ATTATAAT
125430339 ATTATAAT
1 ATTATAAT
125430347 ATTATAAT
1 ATTATAAT
125430355 ATTATAAT
1 ATTATAAT
125430363 AT
1 AT
125430365 ATATTTTAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
6 1 0.02
7 14 0.26
8 36 0.67
9 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTATAAT
Found at i:125435181 original size:47 final size:47
Alignment explanation
Indices: 125435072--125435182 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
125435062 CCGGGATAAG
* * * *
125435072 CACATAGTGCTTCATCAGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
125435119 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
125435166 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
125435183 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:125435993 original size:4 final size:4
Alignment explanation
Indices: 125435976--125436005 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
125435966 TCTCTGTTAG
*
125435976 TCTT TCTA TCTT TCTT TCTT TCTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC
125436006 ACGTTTGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (4 bp):
TCTT
Found at i:125436048 original size:14 final size:14
Alignment explanation
Indices: 125436029--125436059 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
125436019 GTAACTTTTC
125436029 TATTCTTTACTCAT
1 TATTCTTTACTCAT
*
125436043 TATTCTTTATTCAT
1 TATTCTTTACTCAT
125436057 TAT
1 TAT
125436060 GCTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTCTTTACTCAT
Found at i:125441011 original size:40 final size:38
Alignment explanation
Indices: 125440899--125441019 Score: 170
Period size: 38 Copynumber: 3.1 Consensus size: 38
125440889 TTATGCTGAG
125440899 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
* * *
125440937 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
125440975 ATTATATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 ATTATATCCGAG-TTAAA-TCCCGCAGGCTTCGTGCTGGT
*
125441015 GTTAT
1 ATTAT
125441020 GTTTGGGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 45 0.62
39 5 0.07
40 22 0.31
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (38 bp):
ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:125443301 original size:46 final size:46
Alignment explanation
Indices: 125443241--125443514 Score: 415
Period size: 46 Copynumber: 6.0 Consensus size: 46
125443231 TTTGACATGA
* * * * * *
125443241 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
**** *
125443287 TGCCATGGTATCTTTCAACCATGGTCTTGTTTATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
125443333 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
125443379 TGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
125443425 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
125443471 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
125443515 AGAGCACACT
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 207 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:125450092 original size:47 final size:47
Alignment explanation
Indices: 125449983--125450093 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
125449973 CCGGGATAAG
* * * *
125449983 CACATAGTGCTTCATCGGAATAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
125450030 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
125450077 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
125450094 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:125450855 original size:4 final size:4
Alignment explanation
Indices: 125450846--125450924 Score: 61
Period size: 4 Copynumber: 19.2 Consensus size: 4
125450836 CCCTTTTTTA
* ** * **
125450846 TTTC TTTC TTTC TTTC CTTC TTTC TTTC TCAC GTTTGC TCTC TGTT- AGTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC T-TTC TTTC
*
125450896 TTTC TATC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
125450925 CACGTTTGCT
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
3 1 0.02
4 51 0.89
5 4 0.07
6 1 0.02
ACGTcount: A:0.04, C:0.27, G:0.05, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:125450956 original size:50 final size:51
Alignment explanation
Indices: 125450846--125450956 Score: 165
Period size: 50 Copynumber: 2.2 Consensus size: 51
125450836 CCCTTTTTTA
* *
125450846 TTTCT-TTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAGTC
1 TTTCTATTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTC
* *
125450896 TTTCTA-TCTTTCTTTCTTTCTTTCTTTCTCACGTTTGCTTTCTGTAACT-
1 TTTCTATTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTC
125450945 TTTCTATTCTTT
1 TTTCTATTCTTT
125450957 GCTCATTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
49 6 0.11
50 49 0.89
ACGTcount: A:0.06, C:0.25, G:0.06, T:0.62
Consensus pattern (51 bp):
TTTCTATTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTC
Found at i:125451677 original size:19 final size:20
Alignment explanation
Indices: 125451648--125451685 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
125451638 TCTTGGGCTT
125451648 ATATGATTATATATTATAAA
1 ATATGATTATATATTATAAA
*
125451668 ATAT-ATTATATTTTATAA
1 ATATGATTATATATTATAA
125451686 TAATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATATGATTATATATTATAAA
Found at i:125453641 original size:27 final size:27
Alignment explanation
Indices: 125453611--125453669 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
125453601 TATTTACATA
* *
125453611 AAATTTAATATAGTAAAAA-ACTATAGT
1 AAATATAATATA-AAAAAAGACTATAGT
* *
125453638 AAATATATTTTAAAAAAAGACTATAGT
1 AAATATAATATAAAAAAAGACTATAGT
125453665 AAATA
1 AAATA
125453670 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATATAATATAAAAAAAGACTATAGT
Found at i:125453674 original size:27 final size:26
Alignment explanation
Indices: 125453625--125453678 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
125453615 TTAATATAGT
*
125453625 AAAAAACTATAGTAAATATATTTTAA
1 AAAAAACTATAGTAAATAAATTTTAA
125453651 AAAAAGACTATAGTAAATAAATTTTAA
1 AAAAA-ACTATAGTAAATAAATTTTAA
125453678 A
1 A
125453679 TATATTCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
AAAAAACTATAGTAAATAAATTTTAA
Found at i:125457756 original size:51 final size:50
Alignment explanation
Indices: 125457597--125457753 Score: 233
Period size: 51 Copynumber: 3.1 Consensus size: 50
125457587 ACTTCTGATC
* * *
125457597 AGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
125457648 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
* *
125457698 AGTGATAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
125457749 AGTGA
1 AGTGA
125457754 TAAATGTGAT
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 45 0.47
51 51 0.53
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:125459257 original size:22 final size:22
Alignment explanation
Indices: 125459229--125459272 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
125459219 CATATTTGTG
125459229 AGGTTTACGTTAAAGTATTATA
1 AGGTTTACGTTAAAGTATTATA
* *
125459251 AGGTTTATGTTATAGTATTATA
1 AGGTTTACGTTAAAGTATTATA
125459273 TGTTATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.45
Consensus pattern (22 bp):
AGGTTTACGTTAAAGTATTATA
Found at i:125461516 original size:18 final size:18
Alignment explanation
Indices: 125461495--125461535 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
125461485 AACTGTTAAT
125461495 TTTTATTAATTTATATAG
1 TTTTATTAATTTATATAG
125461513 TTTTATTAATTTATATAG
1 TTTTATTAATTTATATAG
125461531 TTTTA
1 TTTTA
125461536 GCTTGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTATTAATTTATATAG
Found at i:125461548 original size:20 final size:18
Alignment explanation
Indices: 125461495--125461549 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
125461485 AACTGTTAAT
*
125461495 TTTTATTAATTTATATAG
1 TTTTATTAATTAATATAG
*
125461513 TTTTATTAATTTATATAG
1 TTTTATTAATTAATATAG
*
125461531 TTTTAGCTTGATTAATATA
1 TTTTA--TTAATTAATATA
125461550 AAAAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 23 0.70
20 10 0.30
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (18 bp):
TTTTATTAATTAATATAG
Found at i:125467033 original size:5 final size:5
Alignment explanation
Indices: 125467023--125467064 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
125467013 TATTTCATTA
*
125467023 AATCT AATCT AATCT AATGT AATCT AATCT AATCTT AATCT A
1 AATCT AATCT AATCT AATCT AATCT AATCT AATC-T AATCT A
125467065 TTCCATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (5 bp):
AATCT
Found at i:125468901 original size:21 final size:22
Alignment explanation
Indices: 125468845--125468902 Score: 93
Period size: 21 Copynumber: 2.7 Consensus size: 22
125468835 TGCATGGCTC
*
125468845 ACACGCCCGTGT-GGCTTAGGG
1 ACACGCCCATGTGGGCTTAGGG
125468866 ACACGCCCATGTGGGC-TAGGG
1 ACACGCCCATGTGGGCTTAGGG
125468887 ACACGCCCATGTGGGC
1 ACACGCCCATGTGGGC
125468903 AGGCAGTGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.17, C:0.31, G:0.36, T:0.16
Consensus pattern (22 bp):
ACACGCCCATGTGGGCTTAGGG
Found at i:125470027 original size:35 final size:35
Alignment explanation
Indices: 125469852--125470028 Score: 225
Period size: 35 Copynumber: 5.1 Consensus size: 35
125469842 CACGATTCAC
* * * * *
125469852 AACTCAGTATGGTTAATACCATACCTAAGTTTCAC
1 AACTCGGTATGGATAATACCATACCTACGTATCAT
*
125469887 AA-TACGGTATGGA-AATA-CTTACCTACGTATCAT
1 AACT-CGGTATGGATAATACCATACCTACGTATCAT
*
125469920 AGCTCGGTATGGATAATACCATACCTACGTATCAT
1 AACTCGGTATGGATAATACCATACCTACGTATCAT
*
125469955 AACTCGGTATGGATAATACCATACCTACGCATCAT
1 AACTCGGTATGGATAATACCATACCTACGTATCAT
** *
125469990 AACTCAATATGGATAATACCATACCTACGTGTCAT
1 AACTCGGTATGGATAATACCATACCTACGTATCAT
125470025 AACT
1 AACT
125470029 TTGCCATGAA
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
33 22 0.18
34 10 0.08
35 92 0.74
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (35 bp):
AACTCGGTATGGATAATACCATACCTACGTATCAT
Found at i:125472089 original size:22 final size:22
Alignment explanation
Indices: 125472063--125472106 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
125472053 GTCTAAAATA
125472063 TAATATATTAATAAC-AATATTT
1 TAATATATTAA-AACAAATATTT
*
125472085 TAATATTTTAAAACAAATATTT
1 TAATATATTAAAACAAATATTT
125472107 ATTATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATATATTAAAACAAATATTT
Found at i:125474431 original size:16 final size:18
Alignment explanation
Indices: 125474387--125474433 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
125474377 ACAAGTCAAC
125474387 AAATCATTTAAAAATAATA
1 AAAT-ATTTAAAAATAATA
125474406 AAATATTTTAAAAATAA-A
1 AAATA-TTTAAAAATAATA
125474424 AAA-ATTTAAA
1 AAATATTTAAA
125474434 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.22
17 1 0.04
18 5 0.19
19 15 0.56
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATATTTAAAAATAATA
Found at i:125475486 original size:2 final size:2
Alignment explanation
Indices: 125475479--125475503 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
125475469 GCATGTAGCT
125475479 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
125475504 GAAATTGATG
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:125484167 original size:1 final size:1
Alignment explanation
Indices: 125484161--125484185 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
125484151 AGCCAAACTT
125484161 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
125484186 CTTATCATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:125484234 original size:30 final size:31
Alignment explanation
Indices: 125484200--125484258 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
125484190 TCATCCCAGT
* *
125484200 GATTTAAAT-AAAATTTTCAAATAGTTCAGC
1 GATTTAAATAAAAACTTTCAAATAATTCAGC
125484230 GATTTAAATAAAAACTTTCAAATAATTCA
1 GATTTAAATAAAAACTTTCAAATAATTCA
125484259 ATGATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (31 bp):
GATTTAAATAAAAACTTTCAAATAATTCAGC
Found at i:125486904 original size:25 final size:23
Alignment explanation
Indices: 125486851--125486910 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
125486841 TACGTCAAAC
125486851 CATTTTATATATTATCTATTTTA
1 CATTTTATATATTATCTATTTTA
* *
125486874 CGTTTTATATATTAT-TTTGTTATA
1 CATTTTATATATTATCTAT-TT-TA
125486898 CTATTTTATATAT
1 C-ATTTTATATAT
125486911 GTGAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 2 0.06
23 16 0.52
24 3 0.10
25 10 0.32
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (23 bp):
CATTTTATATATTATCTATTTTA
Found at i:125487267 original size:23 final size:24
Alignment explanation
Indices: 125487236--125487287 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
125487226 TATGCATTAC
* *
125487236 TTATTTAAAATTG-TTT-TGTTAT
1 TTATTTTAAATGGCTTTATGTTAT
125487258 TTATTTTAAATGGCTTTATGTTAT
1 TTATTTTAAATGGCTTTATGTTAT
125487282 TTATTT
1 TTATTT
125487288 CATTCTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 11 0.42
23 3 0.12
24 12 0.46
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (24 bp):
TTATTTTAAATGGCTTTATGTTAT
Found at i:125493259 original size:17 final size:17
Alignment explanation
Indices: 125493237--125493295 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 17
125493227 GTAACTCTTA
125493237 ACTAACCCTTAACTAAT
1 ACTAACCCTTAACTAAT
** *
125493254 ACTAACTGTTATAACAAACT
1 ACTAAC-CCT-TAACTAA-T
125493274 AACTAACCCTTAACTAAT
1 -ACTAACCCTTAACTAAT
125493292 ACTA
1 ACTA
125493296 CTTAACTCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 10 0.31
18 2 0.06
19 12 0.38
20 2 0.06
21 6 0.19
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (17 bp):
ACTAACCCTTAACTAAT
Found at i:125507452 original size:44 final size:44
Alignment explanation
Indices: 125507404--125507495 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
125507394 CCGAAGTAAC
*
125507404 AGTAACAGTACGACACATA-AGGTGCCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACAACACATATA-GTGCCTCATCGACTC-AAGGTCGA
* *
125507448 AGTAACAGTACAACACTTATAGTGCCTCATTGACTCAAGGTCGA
1 AGTAACAGTACAACACATATAGTGCCTCATCGACTCAAGGTCGA
125507492 AGTA
1 AGTA
125507496 TCCTGAACAC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.05
44 40 0.93
45 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTAACAGTACAACACATATAGTGCCTCATCGACTCAAGGTCGA
Found at i:125508705 original size:14 final size:15
Alignment explanation
Indices: 125508687--125508724 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
125508677 TTTATTTTTA
125508687 ATAATAATCAT-AATT
1 ATAATAAT-ATAAATT
125508702 -TAATAATATAAATT
1 ATAATAATATAAATT
125508716 ATAATAATA
1 ATAATAATA
125508725 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATAATATAAATT
Found at i:125509982 original size:57 final size:57
Alignment explanation
Indices: 125509851--125509984 Score: 180
Period size: 57 Copynumber: 2.3 Consensus size: 57
125509841 TTTAATTCAT
* ** *
125509851 ATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATCTGGTTAAACTATATATTATTTTATTAAATTATATTTA
* * *
125509909 ATAATAATTATGTTAAAATCTGGTTAAACTATTTATTATTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATCTGGTTAAACTATATATTATTTTATTAAATTATATTTA
125509966 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
125509985 TTAATAACAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 51 0.76
58 16 0.24
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (57 bp):
ATAATAATTATATTAAAATCTGGTTAAACTATATATTATTTTATTAAATTATATTTA
Found at i:125510085 original size:16 final size:16
Alignment explanation
Indices: 125510064--125510102 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
125510054 TCCTTATGCT
*
125510064 ATTACAGCTCTATTCA
1 ATTACAGCCCTATTCA
*
125510080 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCA
125510096 ATTACAG
1 ATTACAG
125510103 TGAACCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:125516844 original size:11 final size:11
Alignment explanation
Indices: 125516810--125516844 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
125516800 CCTTCTGTTG
125516810 TTTTGTTATTA
1 TTTTGTTATTA
*
125516821 TATTGTTATTA
1 TTTTGTTATTA
*
125516832 TTTTGTTGTTA
1 TTTTGTTATTA
125516843 TT
1 TT
125516845 GTTTGGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:125518359 original size:14 final size:16
Alignment explanation
Indices: 125518340--125518373 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
125518330 CACTACGATG
125518340 TATATATT-T-TATCA
1 TATATATTGTGTATCA
125518354 TATATATTGTGTATCA
1 TATATATTGTGTATCA
125518370 TATA
1 TATA
125518374 CAAACAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 1 0.06
16 9 0.50
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
TATATATTGTGTATCA
Found at i:125518697 original size:9 final size:9
Alignment explanation
Indices: 125518683--125518709 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
125518673 TCAACGTTTT
125518683 TTCTTTTCA
1 TTCTTTTCA
125518692 TTCTTTTCA
1 TTCTTTTCA
125518701 TTCTTTTCA
1 TTCTTTTCA
125518710 ACCATTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (9 bp):
TTCTTTTCA
Found at i:125522911 original size:21 final size:22
Alignment explanation
Indices: 125522883--125522938 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
125522873 CCTTCAAAAA
* *
125522883 TCTATCAAATTTCATTGAAATT
1 TCTATCAAATTTCAATCAAATT
* *
125522905 T-TCTCAAAATTCAATCAAATT
1 TCTATCAAATTTCAATCAAATT
125522926 TCTATCAAATTTC
1 TCTATCAAATTTC
125522939 TTTGTTTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.43
Consensus pattern (22 bp):
TCTATCAAATTTCAATCAAATT
Found at i:125522935 original size:11 final size:11
Alignment explanation
Indices: 125522883--125522939 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
125522873 CCTTCAAAAA
125522883 TCTATCAAATT
1 TCTATCAAATT
*
125522894 TC-ATTGAAATT
1 TCTA-TCAAATT
* *
125522905 T-TCTCAAAAT
1 TCTATCAAATT
*
125522915 TCAATCAAATT
1 TCTATCAAATT
125522926 TCTATCAAATT
1 TCTATCAAATT
125522937 TCT
1 TCT
125522940 TTGTTTAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
10 7 0.20
11 28 0.80
ACGTcount: A:0.37, C:0.18, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTATCAAATT
Found at i:125522936 original size:32 final size:32
Alignment explanation
Indices: 125522876--125522937 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
125522866 AATATTCCCT
* *
125522876 TCAAAAATCTATCAAATTTCATTGAAATTTTC
1 TCAAAAATCAATCAAATTTCATTCAAATTTTC
*
125522908 TCAAAATTCAATCAAATTTC-TATCAAATTT
1 TCAAAAATCAATCAAATTTCAT-TCAAATTT
125522938 CTTTGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (32 bp):
TCAAAAATCAATCAAATTTCATTCAAATTTTC
Found at i:125523136 original size:48 final size:46
Alignment explanation
Indices: 125523072--125523206 Score: 146
Period size: 48 Copynumber: 2.8 Consensus size: 46
125523062 AGTGATAATT
*
125523072 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATT-GATATTTTTTTCATTTATGC-AATTATAA
* * *
125523120 TTAAATTTGCAATACTATTTGATACTTTATTCATTTACGCAATTATAA
1 TTAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAATTATAA
* *
125523168 TTAAAATTTCAATACTGCTTGATTTTTTTTTCATTTATG
1 TT-AAATTTCAATACT-ATTGATATTTTTTTCATTTATG
125523207 ATGTTTGCAT
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
47 7 0.10
48 58 0.79
49 8 0.11
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (46 bp):
TTAAATTTCAATACTATTGATATTTTTTTCATTTATGCAATTATAA
Found at i:125528426 original size:16 final size:17
Alignment explanation
Indices: 125528405--125528438 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
125528395 GTATTGATAT
125528405 TTGAGTTGAAT-GAGAA
1 TTGAGTTGAATGGAGAA
125528421 TTGAGTTGAATGGAGAA
1 TTGAGTTGAATGGAGAA
125528438 T
1 T
125528439 GTGTGTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (17 bp):
TTGAGTTGAATGGAGAA
Found at i:125541557 original size:21 final size:21
Alignment explanation
Indices: 125541531--125541571 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
125541521 AATAAAAAAA
*
125541531 ATATTTT-TTATTAATATTTAT
1 ATATTTTATAATTAAT-TTTAT
125541552 ATATTTTATAATTAATTTTA
1 ATATTTTATAATTAATTTTA
125541572 AATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATTTTATAATTAATTTTAT
Found at i:125544915 original size:18 final size:19
Alignment explanation
Indices: 125544888--125544931 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
125544878 AATACTTGGT
125544888 TAAT-ATAAAAAT-AATAA
1 TAATAATAAAAATAAATAA
*
125544905 TAATAATAAAATTAAATAA
1 TAATAATAAAAATAAATAA
125544924 T-ATAATAA
1 TAATAATAA
125544932 TACTATTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATAATAAAAATAAATAA
Found at i:125547001 original size:27 final size:27
Alignment explanation
Indices: 125546962--125547017 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
125546952 GTCGAAGAGG
* *
125546962 AGGAGAAGAAGAAGAAGAAAGATAAGA
1 AGGAGAAGAAGAAAAAGAAAGAAAAGA
* *
125546989 AGGATAAGGAGAAAAAGAAAGAAAAGA
1 AGGAGAAGAAGAAAAAGAAAGAAAAGA
125547016 AG
1 AG
125547018 TCGGACGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (27 bp):
AGGAGAAGAAGAAAAAGAAAGAAAAGA
Found at i:125547017 original size:93 final size:92
Alignment explanation
Indices: 125546796--125547331 Score: 588
Period size: 93 Copynumber: 5.8 Consensus size: 92
125546786 GGACAAGAAG
* * * * *
125546796 AAGAAGGATAAGGAGAAAAAGGAAGAAGAGAAGTCAGATAAAGAGGATGATGTAGAAAATGCCAA
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-GGATAAAGAGGATGAGGTAGAAGATGCC-A
125546861 AGAGAAGGAGAAGAAGAAGAAGAAGAAAGAT
64 A-AG-AGGAGAAGAAGAAGAAGAAGAAAGAT
* ** * * * *
125546892 AATAAGGATAAGGAGAAAAAGAAAGACCAGAAGTGTGATAAAGAGGATGAGGAAGAAAATGTCGA
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTG-GATAAAGAGGATGAGGTAGAAGATGCCAA
*
125546957 AGAGGAGGAGAAGAAGAAGAAGAAAGAT
65 AGAGGAGAAGAAGAAGAAGAAGAAAGAT
** *
125546985 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTCGGACGAAGAGGATGATGTAGAAGATGCCAA
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-GGATAAAGAGGATGAGGTAGAAGATGCCAA
* *
125547050 AGAGGCGAAGGAGAAGAAGAAGAAAGAT
65 AGAGGAGAAGAAGAAGAAGAAGAAAGAT
* * *
125547078 AACAAGGATAAGGAGAAAAAGAAAGATAAGAAGTGCGATAAAGAGGATGACGTAGAAGATGCC--
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTG-GATAAAGAGGATGAGGTAGAAGATGCCAA
125547141 A-A--AG-AG--G-AGAAGAAGAAAGAT
65 AGAGGAGAAGAAGAAGAAGAAGAAAGAT
* * * *
125547162 AAGAAGGATAAGGAGAAGAAGAAAGATAAGAAGTCGGATGAAGAGGATG-GAGTAGAAGATGACA
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-GGATAAAGAGGATGAG-GTAGAAGATGCCA
* * *
125547226 AAGAGGAGAAAAAGAAGAAAAAGAAAGAG
64 AAGAGGAGAAGAAGAAGAAGAAGAAAGAT
* ** * * * *
125547255 AAGAAGGATAAGGAGAAAAAGAAAGAACAGAAGTCCAATAAAGAGGATGATGTAAAAGATGACGA
1 AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-GGATAAAGAGGATGAGGTAGAAGATGCCAA
*
125547320 AGAGAAGAAGAA
65 AGAGGAGAAGAA
125547332 AGATAAGAAG
Statistics
Matches: 377, Mismatches: 48, Indels: 33
0.82 0.10 0.07
Matches are distributed among these distances:
84 69 0.18
85 2 0.01
86 1 0.00
87 3 0.01
88 1 0.00
89 2 0.01
90 2 0.01
91 1 0.00
92 2 0.01
93 236 0.63
94 3 0.01
95 1 0.00
96 54 0.14
ACGTcount: A:0.55, C:0.04, G:0.32, T:0.09
Consensus pattern (92 bp):
AAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGGATAAAGAGGATGAGGTAGAAGATGCCAAA
GAGGAGAAGAAGAAGAAGAAGAAAGAT
Found at i:125547100 original size:84 final size:82
Alignment explanation
Indices: 125547010--125547277 Score: 236
Period size: 84 Copynumber: 3.1 Consensus size: 82
125547000 AAAAAGAAAG
* * *
125547010 AAAAGAAGTCGGACGAAGAGGATGATGTAGAAGATGCCAAAGAGGCGAAGGAGAAGAAGAAGAAA
1 AAAAGAAGTCGGACGAAGAGGATGA-GTAGAAGATGCCAAAGAGGAGAAGAAGAAGAAAAAGAAA
125547075 GATAACAAGGATAAGGAGA
65 GATAA-AAGGATAAGGAGA
* *
125547094 AAAAGAAAGATAAGAAGTGCGATAAAGAGGATGACGTAGAAGATGCCAAAGAGGAGAAGAAGAA-
1 AAAAG-AAG-T-CG--G-ACG---AAGAGGATGA-GTAGAAGATGCCAAAGAGGAGAAGAAGAAG
* * * *
125547158 AGATAAGAAGGAT--AAGGAGAAGAAGAA
56 A-AAAAGAAAGATAAAAGGATAAGGAG-A
* * *
125547185 AGATAAGAAGTCGGATGAAGAGGATGGAGTAGAAGATGACAAAGAGGAGAAAAAGAAGAAAAAGA
1 A-A-AAGAAGTCGGACGAAGAGGAT-GAGTAGAAGATGCCAAAGAGGAGAAGAAGAAGAAAAAGA
*
125547250 AAGAGAAGAAGGATAAGGAGA
63 AAGATAA-AAGGATAAGGAGA
125547271 AAAAGAA
1 AAAAGAA
125547278 AGAACAGAAG
Statistics
Matches: 147, Mismatches: 19, Indels: 36
0.73 0.09 0.18
Matches are distributed among these distances:
84 53 0.36
85 7 0.05
86 3 0.02
87 12 0.08
88 1 0.01
89 1 0.01
90 13 0.09
91 3 0.02
92 5 0.03
93 49 0.33
ACGTcount: A:0.54, C:0.04, G:0.33, T:0.08
Consensus pattern (82 bp):
AAAAGAAGTCGGACGAAGAGGATGAGTAGAAGATGCCAAAGAGGAGAAGAAGAAGAAAAAGAAAG
ATAAAAGGATAAGGAGA
Found at i:125547167 original size:12 final size:12
Alignment explanation
Indices: 125547150--125547194 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
125547140 CAAAGAGGAG
125547150 AAGAAGAAAGAT
1 AAGAAGAAAGAT
*
125547162 AAGAAGGATAAGGAG
1 AAGAA-GA-AA-GAT
125547177 AAGAAGAAAGAT
1 AAGAAGAAAGAT
125547189 AAGAAG
1 AAGAAG
125547195 TCGGATGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 13 0.46
13 4 0.14
14 4 0.14
15 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (12 bp):
AAGAAGAAAGAT
Found at i:125547313 original size:84 final size:84
Alignment explanation
Indices: 125547061--125547367 Score: 336
Period size: 84 Copynumber: 3.6 Consensus size: 84
125547051 GAGGCGAAGG
* *
125547061 AGAAGAAGAAGAAAGATAACAAGGATAAGGAGAAAAAGAAAGATAAGAAGTGCGATAAAGAGGAT
1 AGAAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGATAAGAAGTCCGATAAAGAGGAT
* * ** *
125547126 GACGTAGAAGATGCCAAAG
66 GAAGTAAAAGATGAGAAAA
* * *
125547145 AGGAGAAGAAGAAAGATAAGAAGGATAAGGAGAAGAAGAAAGATAAGAAGTCGGATGAAGAGGAT
1 AGAAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGATAAGAAGTCCGAT-AA-A-GA-
*
125547210 GGAGTAGAAGATGACAAAGAGGAGAAAA
62 GGA-T-GAAG-T-A-AAAGATGAGAAAA
* * *
125547238 AGAAGAAAAAGAAAGAGAAGAAGGATAAGGAGAAAAAGAAAGA-ACAGAAGTCCAATAAAGAGGA
1 AGAAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGATA-AGAAGTCCGATAAAGAGGA
*
125547302 TGATGTAAAAGATGACG---A
65 TGAAGTAAAAGATGA-GAAAA
*
125547320 AG-AGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAGAAGAA
1 AGAAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGATAAGAA
125547368 ACACGAGGAT
Statistics
Matches: 190, Mismatches: 21, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
81 42 0.22
82 4 0.02
84 58 0.31
85 4 0.02
86 2 0.01
87 5 0.03
88 4 0.02
89 4 0.02
90 5 0.03
91 2 0.01
92 4 0.02
93 56 0.29
ACGTcount: A:0.57, C:0.04, G:0.31, T:0.08
Consensus pattern (84 bp):
AGAAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGATAAGAAGTCCGATAAAGAGGAT
GAAGTAAAAGATGAGAAAA
Found at i:125547334 original size:12 final size:12
Alignment explanation
Indices: 125547319--125547367 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
125547309 AAAGATGACG
125547319 AAGAGAAGAAGA
1 AAGAGAAGAAGA
*
125547331 AAGATAAGAAGGA
1 AAGAGAAGAA-GA
*
125547344 TAAGGAGAAAAAGA
1 -AA-GAGAAGAAGA
125547358 AAGAGAAGAA
1 AAGAGAAGAA
125547368 ACACGAGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 16 0.53
13 4 0.13
14 4 0.13
15 6 0.20
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (12 bp):
AAGAGAAGAAGA
Found at i:125547385 original size:177 final size:175
Alignment explanation
Indices: 125546965--125547367 Score: 587
Period size: 177 Copynumber: 2.3 Consensus size: 175
125546955 GAAGAGGAGG
*
125546965 AGAAGAAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTCGGACGAAGAG
1 AGAAG-AGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTCGGATGAAGAG
* * ** * *
125547030 GATGATGTAGAAGATGCCAAAGAGGCGAAGGAGAAGAAGAAGAAAGATAACAAGGATAAGGAGAA
65 GATGATGTAGAAGATGACAAAGAGGAGAAAAAGAAGAAAAAGAAAGAGAACAAGGATAAGGAGAA
* * *
125547095 AAAGAAAGATAAGAAGTGCGATAAAGAGGATGACGTAGAAGATGCCAA
130 AAAGAAAGATAAGAAGTCCAATAAAGAGGATGACGTAAAAGATG-C-A
* * *
125547143 AGAGGAGAAGAAGAAAGATAAGAAGGATAAGGAGAAGAAGAAAGATAAGAAGTCGGATGAAGAGG
1 AGAAGAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTCGGATGAAGAGG
*
125547208 ATGGA-GTAGAAGATGACAAAGAGGAGAAAAAGAAGAAAAAGAAAGAGAAGAAGGATAAGGAGAA
66 AT-GATGTAGAAGATGACAAAGAGGAGAAAAAGAAGAAAAAGAAAGAGAACAAGGATAAGGAGAA
*
125547272 AAAGAAAGA-ACAGAAGTCCAATAAAGAGGATGATGTAAAAGATG-A
130 AAAGAAAGATA-AGAAGTCCAATAAAGAGGATGACGTAAAAGATGCA
* *
125547317 CGAAGAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAGAAGAA
1 AGAAGAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAA
125547368 ACACGAGGAT
Statistics
Matches: 204, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
174 48 0.24
176 1 0.00
177 149 0.73
178 6 0.03
ACGTcount: A:0.56, C:0.04, G:0.32, T:0.08
Consensus pattern (175 bp):
AGAAGAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTCGGATGAAGAGG
ATGATGTAGAAGATGACAAAGAGGAGAAAAAGAAGAAAAAGAAAGAGAACAAGGATAAGGAGAAA
AAGAAAGATAAGAAGTCCAATAAAGAGGATGACGTAAAAGATGCA
Found at i:125549181 original size:2 final size:2
Alignment explanation
Indices: 125549162--125549200 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
125549152 TTAGCCTAGC
* *
125549162 AT AT AC AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
125549201 CACACGCAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:125554659 original size:23 final size:23
Alignment explanation
Indices: 125554615--125554659 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
125554605 TCCAATTCAA
*
125554615 CATATTTTCAAGATAGATTCATG
1 CATATTTTCAAGATAGACTCATG
*
125554638 CATATTTAT-AAGATAGCCTCAT
1 CATATTT-TCAAGATAGACTCAT
125554660 CACACAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAGACTCATG
Found at i:125560347 original size:21 final size:21
Alignment explanation
Indices: 125560321--125560361 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
125560311 ATCTGCTCAA
* *
125560321 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
125560342 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
125560362 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:125569791 original size:19 final size:19
Alignment explanation
Indices: 125569767--125569803 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
125569757 TATTATTAGT
*
125569767 ATATTTATAATTTTAATAA
1 ATATTTATAATTTAAATAA
*
125569786 ATATTTATTATTTAAATA
1 ATATTTATAATTTAAATA
125569804 TTAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTATAATTTAAATAA
Found at i:125569910 original size:26 final size:26
Alignment explanation
Indices: 125569881--125569930 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
125569871 AAATATTAAA
*
125569881 TAATATATTAAAATAATAAATTATAT
1 TAATAAATTAAAATAATAAATTATAT
* *
125569907 TAATAAATTATATTAATAAATTAT
1 TAATAAATTAAAATAATAAATTAT
125569931 TATATGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TAATAAATTAAAATAATAAATTATAT
Found at i:125569911 original size:16 final size:15
Alignment explanation
Indices: 125569879--125569930 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 15
125569869 TGAAATATTA
*
125569879 AATAATATATTA-A-
1 AATAATAAATTATAT
125569892 AATAATAAATTATAT
1 AATAATAAATTATAT
125569907 --TAATAAATTATAT
1 AATAATAAATTATAT
125569920 --TAATAAATTAT
1 AATAATAAATTAT
125569931 TATATGATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
13 35 0.97
14 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAATAAATTATAT
Found at i:125569935 original size:16 final size:13
Alignment explanation
Indices: 125569894--125569930 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
125569884 TATATTAAAA
125569894 TAATAAATTATAT
1 TAATAAATTATAT
125569907 TAATAAATTATAT
1 TAATAAATTATAT
125569920 TAATAAATTAT
1 TAATAAATTAT
125569931 TATATGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATAAATTATAT
Found at i:125570909 original size:42 final size:43
Alignment explanation
Indices: 125570849--125570980 Score: 124
Period size: 49 Copynumber: 3.0 Consensus size: 43
125570839 GAATTGAGTA
* **
125570849 CTTCATTTACTCGATGTCATAGTTCAACTATGGTCTTACACAT
1 CTTCATATACTCGATGTCATAGCCCAACTATGGTCTTACACAT
*
125570892 CTTCATATA-TCGATGTCATAGCCCAGCTATGGTCTTACACGTAAT
1 CTTCATATACTCGATGTCATAGCCCAACTATGGTCTTACAC---AT
* * *
125570937 C-ACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC
1 CTTCATAT-AC---TCGATGTCATAGCCCAACTATGGTCTTACAC
125570981 GAATCACATA
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
42 28 0.37
43 8 0.11
44 5 0.07
45 4 0.05
49 30 0.40
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (43 bp):
CTTCATATACTCGATGTCATAGCCCAACTATGGTCTTACACAT
Found at i:125570961 original size:49 final size:48
Alignment explanation
Indices: 125570900--125571070 Score: 197
Period size: 47 Copynumber: 3.6 Consensus size: 48
125570890 ATCTTCATAT
* *
125570900 ATCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* *
125570948 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * *
125570996 CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* *
125571042 ACCGATGCCATATCCCAGATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
125571071 TACGGAAATC
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
46 26 0.24
47 37 0.34
48 13 0.12
49 32 0.30
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:125571127 original size:31 final size:31
Alignment explanation
Indices: 125571092--125571302 Score: 296
Period size: 31 Copynumber: 6.8 Consensus size: 31
125571082 CTTGTCACTT
*
125571092 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * * *
125571123 GTAGCCGGAGTTACCATTTTTCATTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
125571154 GTAGTCGAAGCTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
125571185 GTAACAGAAGCTACCACTTTTCACTTATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
125571216 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
125571247 GTAGCCGAAGCTACCACTTTTCACTTATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
125571278 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
125571303 TGTCATTTGT
Statistics
Matches: 160, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 160 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:125571387 original size:50 final size:51
Alignment explanation
Indices: 125571282--125571406 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 51
125571272 TATCAGGTAG
* * * * *
125571282 CCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAG
1 CCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTAA
* *
125571333 CCGAAGCTATTACTTATCACTT-TCACTTATCTTTGATCAGATAAGTGTAA
1 CCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTAA
125571383 CCGAAGCTATCACTTATCACTTGT
1 CCGAAGCTATCACTTATCACTTGT
125571407 TGCCATGGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
50 45 0.69
51 20 0.31
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (51 bp):
CCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTAA
Found at i:125574186 original size:3 final size:3
Alignment explanation
Indices: 125574178--125574225 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
125574168 AACAATGAAT
125574178 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
125574226 GTTAGTAAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:125574396 original size:25 final size:25
Alignment explanation
Indices: 125574334--125574401 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
125574324 TACAAAGTAT
* *
125574334 ATATATAGTATAAAAAATATATACATA
1 ATATATAGT-T-AAAAATACACACATA
*
125574361 GTATA-ATGTTAAAAATACACACATA
1 ATATATA-GTTAAAAATACACACATA
125574386 ATATATAGTTATAAAA
1 ATATATAGTTA-AAAA
125574402 AAAAATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
25 21 0.62
26 7 0.21
27 6 0.18
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (25 bp):
ATATATAGTTAAAAATACACACATA
Found at i:125574649 original size:23 final size:22
Alignment explanation
Indices: 125574619--125574681 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
125574609 ACATAAATAT
*
125574619 ATATATACCTATATATATTAAAA-
1 ATATATA-C-ATATATAATAAAAC
125574642 ATATATACATATATAATAAAAC
1 ATATATACATATATAATAAAAC
125574664 ATATACTA-ATAT-TAATAA
1 ATATA-TACATATATAATAA
125574682 TAATAAGGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 18 0.49
22 10 0.27
23 9 0.24
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (22 bp):
ATATATACATATATAATAAAAC
Found at i:125574667 original size:20 final size:21
Alignment explanation
Indices: 125574629--125574669 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
125574619 ATATATACCT
* *
125574629 ATATATATTAAAAATATATAC
1 ATATATAATAAAAACATATAC
125574650 ATATATAAT-AAAACATATAC
1 ATATATAATAAAAACATATAC
125574670 TAATATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (21 bp):
ATATATAATAAAAACATATAC
Found at i:125574675 original size:20 final size:21
Alignment explanation
Indices: 125574631--125574681 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
125574621 ATATACCTAT
*
125574631 ATATATT-A-AAAATATATAC
1 ATATATTAATAAAACATATAC
125574650 ATATA-TAATAAAACATATAC
1 ATATATTAATAAAACATATAC
125574670 -TAATATTAATAA
1 AT-ATATTAATAA
125574682 TAATAAGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.04
19 7 0.26
20 13 0.48
21 6 0.22
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATATTAATAAAACATATAC
Found at i:125574771 original size:22 final size:21
Alignment explanation
Indices: 125574693--125574778 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
125574683 AATAAGGATA
125574693 ATATAAAAATATATACATGAAAC
1 ATATAAAAATATATACAT--AAC
125574716 AGTATAAAAAATATATATAACTAATAAC
1 A-TAT--AAAA-ATATAT-AC--ATAAC
125574744 AT-T-AAAATATATACATAAC
1 ATATAAAAATATATACATAAC
125574763 ATATATAAAATATATA
1 ATATA-AAAATATATA
125574779 ATTGATAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 21
0.72 0.00 0.28
Matches are distributed among these distances:
19 7 0.13
20 1 0.02
21 2 0.04
22 16 0.30
23 4 0.08
24 3 0.06
26 5 0.09
27 7 0.13
28 6 0.11
30 2 0.04
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (21 bp):
ATATAAAAATATATACATAAC
Found at i:125584695 original size:50 final size:50
Alignment explanation
Indices: 125584629--125584805 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 50
125584619 CCATGACAAC
* *
125584629 AAGTGATAAGTAATAGCTTCGGCCACACTTATCCGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
125584679 AAGTGATAAGTAATAGCTTCGGCTACAATTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
125584729 AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* ** *
125584779 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTAATAGCTTCGGCTAC
125584806 CTGATCAATG
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 93 0.81
51 22 0.19
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:125584821 original size:31 final size:31
Alignment explanation
Indices: 125584781--125584898 Score: 175
Period size: 31 Copynumber: 3.8 Consensus size: 31
125584771 ACAAATGACA
*
125584781 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
125584812 AATGAAAAGTGGTAGCTTCTGCTACCTGAAT-
1 AGTGAAAAGTGGTAGCTTCGGCTACCTG-ATC
*
125584843 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
125584874 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
125584899 AAGTGACAAG
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
30 2 0.03
31 74 0.95
32 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:125585066 original size:56 final size:56
Alignment explanation
Indices: 125584989--125585101 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
125584979 GCATCAGTGA
*
125584989 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTG-ATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
125585044 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
125585101 G
1 G
125585102 TAAGACCATA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
55 11 0.20
56 37 0.67
57 7 0.13
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (56 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
Found at i:125585103 original size:42 final size:43
Alignment explanation
Indices: 125585057--125585171 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
125585047 ATGTGATTAC
*
125585057 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
125585099 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
125585141 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
125585172 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:125587031 original size:22 final size:24
Alignment explanation
Indices: 125587004--125587050 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
125586994 AAAATTTTAA
125587004 TAAATTAAAAAAAAT-TAAA-ATT
1 TAAATTAAAAAAAATATAAATATT
*
125587026 TAAATTAAAAATAATATAAATATT
1 TAAATTAAAAAAAATATAAATATT
125587050 T
1 T
125587051 TATTCAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 4 0.18
24 4 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TAAATTAAAAAAAATATAAATATT
Found at i:125591439 original size:25 final size:25
Alignment explanation
Indices: 125591411--125591460 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
125591401 TTGAATTATA
125591411 ATAATAAAA-ATGCAAAATCAAGCAC
1 ATAA-AAAATATGCAAAATCAAGCAC
125591436 ATAAAAAATATGCAAAATCAAGCAC
1 ATAAAAAATATGCAAAATCAAGCAC
125591461 TTAACATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (25 bp):
ATAAAAAATATGCAAAATCAAGCAC
Found at i:125594118 original size:10 final size:10
Alignment explanation
Indices: 125594105--125594133 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
125594095 TCTTCAACAT
125594105 TCTTCTTTCC
1 TCTTCTTTCC
125594115 TCTTCTTTCC
1 TCTTCTTTCC
125594125 TCTTCTTTC
1 TCTTCTTTC
125594134 TTTGGTGCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TCTTCTTTCC
Found at i:125607459 original size:18 final size:18
Alignment explanation
Indices: 125607432--125607508 Score: 102
Period size: 18 Copynumber: 4.3 Consensus size: 18
125607422 ATAAGTATAA
* *
125607432 AATTAGCTGAAGTAACCG
1 AATTAACTGAATTAACCG
*
125607450 AATTAACTGAATTACCCG
1 AATTAACTGAATTAACCG
*
125607468 AATT-ACTCAAATTAACCG
1 AATTAACT-GAATTAACCG
125607486 AATTAACTGAATTAACCG
1 AATTAACTGAATTAACCG
125607504 AATTA
1 AATTA
125607509 TTTGTATAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
17 3 0.06
18 45 0.88
19 3 0.06
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (18 bp):
AATTAACTGAATTAACCG
Found at i:125607461 original size:9 final size:9
Alignment explanation
Indices: 125607444--125607508 Score: 78
Period size: 9 Copynumber: 7.2 Consensus size: 9
125607434 TTAGCTGAAG
125607444 TAACCGAAT
1 TAACCGAAT
*
125607453 TAACTGAAT
1 TAACCGAAT
*
125607462 TACCCGAAT
1 TAACCGAAT
*
125607471 T-ACTCAAAT
1 TAAC-CGAAT
125607480 TAACCGAAT
1 TAACCGAAT
*
125607489 TAACTGAAT
1 TAACCGAAT
125607498 TAACCGAAT
1 TAACCGAAT
125607507 TA
1 TA
125607509 TTTGTATAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
8 1 0.02
9 43 0.93
10 2 0.04
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (9 bp):
TAACCGAAT
Found at i:125607542 original size:6 final size:6
Alignment explanation
Indices: 125607531--125607569 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
125607521 TATATGTTTC
*
125607531 TTTATT TTTATT TTTAGTT TTAGATT TTTATT TTTATT T
1 TTTATT TTTATT TTTA-TT TT-TATT TTTATT TTTATT T
125607570 ATTAAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 20 0.69
7 8 0.28
8 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:125613757 original size:9 final size:8
Alignment explanation
Indices: 125613733--125613777 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
125613723 AATACAACCC
125613733 AAAAT-AA
1 AAAATAAA
125613740 AAAATAAA
1 AAAATAAA
125613748 AAAATAAA
1 AAAATAAA
125613756 AAAATGAAGA
1 AAAAT-AA-A
*
125613766 AAAAGAAA
1 AAAATAAA
125613774 AAAA
1 AAAA
125613778 CCTAACCTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
7 5 0.15
8 20 0.59
9 4 0.12
10 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (8 bp):
AAAATAAA
Found at i:125626640 original size:35 final size:35
Alignment explanation
Indices: 125626613--125626740 Score: 157
Period size: 35 Copynumber: 3.5 Consensus size: 35
125626603 CATGGCAAAG
*
125626613 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
* *
125626648 TGTGAAATGTAAGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
125626683 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
**
125626723 TAAGAAATGTAGGTATGG
1 TGTGAAATGTAGGTATGG
125626741 CATTTCCCAT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
35 49 0.61
38 3 0.04
40 28 0.35
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:125626732 original size:75 final size:75
Alignment explanation
Indices: 125626613--125626783 Score: 203
Period size: 75 Copynumber: 2.4 Consensus size: 75
125626603 CATGGCAAAG
** *
125626613 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAAGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAAGTATGGCATT-TC
*
125626672 CCATACTGAGC
65 CCATACCGAGC
*
125626683 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAAGTATGGCATTTCC
*
125626748 CATACCGAGT
66 CATACCGAGC
** *
125626758 TGAAAAATGTAAGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
125626784 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 59 0.69
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAAGTATGGCATTTCC
CATACCGAGC
Found at i:125626751 original size:35 final size:35
Alignment explanation
Indices: 125626616--125626781 Score: 149
Period size: 35 Copynumber: 4.6 Consensus size: 35
125626606 GGCAAAGTGT
* **
125626616 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* * **
125626651 GAAATGTAAGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
125626686 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
125626726 GAAATGTAGGTATGGCATTTCCCATACCGAGTTGAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
125626762 -AAATGTAAGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
125626782 AATGAGGAAA
Statistics
Matches: 113, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
35 80 0.71
36 2 0.02
39 2 0.02
40 29 0.26
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:125629083 original size:61 final size:64
Alignment explanation
Indices: 125629013--125629135 Score: 173
Period size: 61 Copynumber: 2.0 Consensus size: 64
125629003 CATAACCATT
*
125629013 CATTTAGTTAAGAACATTTGATTCATTTC-AT-A-A-TATCCTAATTATTTGACATAAAGCATCA
1 CATTTAGTTAAGAACATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACAT-AAGCATCA
* * *
125629074 CATTTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CATTTAGTTAAGAACATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
125629136 AGATACATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
61 27 0.50
62 2 0.04
63 1 0.02
64 7 0.13
65 17 0.31
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.39
Consensus pattern (64 bp):
CATTTAGTTAAGAACATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCATCA
Found at i:125629332 original size:47 final size:47
Alignment explanation
Indices: 125629281--125629428 Score: 125
Period size: 47 Copynumber: 3.3 Consensus size: 47
125629271 TCAGGCGGGG
125629281 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* * * * * *
125629328 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TATATTAGGCG-GGG
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTA--CGTTGA
*
125629369 AGCATATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* *
125629416 AGCAAATCCAAGA
1 AGCAGATCGAAGA
125629429 TGATTTGGCG
Statistics
Matches: 74, Mismatches: 15, Indels: 24
0.65 0.13 0.21
Matches are distributed among these distances:
39 2 0.03
40 6 0.08
41 19 0.26
42 4 0.05
46 4 0.05
47 31 0.42
48 6 0.08
49 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (47 bp):
AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
Found at i:125629394 original size:88 final size:88
Alignment explanation
Indices: 125629245--125629468 Score: 351
Period size: 88 Copynumber: 2.6 Consensus size: 88
125629235 AGCTGAAGAT
* *
125629245 ATCCAAGATGATTTGGCATTTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTATATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
*
125629310 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAA
* *
125629333 ATCCAAGATGATTTGGCATCTCTATATTAGGCGGGGAGCATATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTATATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
125629398 TTCACGTGTTTACGTTGAAGCAA
66 TTCACGTGTTTACGTTGAAGCAA
* * * * *
125629421 ATCCAAGATGATTTGGCGTCTCTGTAGCA-GCAGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTATATCAGGCGGGGAGCAGATCGAAGA
125629469 TAACAGATTT
Statistics
Matches: 124, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
87 16 0.13
88 108 0.87
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTATATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
TTCACGTGTTTACGTTGAAGCAA
Found at i:125629484 original size:44 final size:44
Alignment explanation
Indices: 125629430--125630402 Score: 1468
Period size: 44 Copynumber: 22.4 Consensus size: 44
125629420 AATCCAAGAT
* *
125629430 GATTTGGCGTCTCTGTAGCAGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
125629474 GATTTGGCGTCTCTGTAACGGCGGAGAGCAGACCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
125629518 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGGTCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
125629562 GATTTGGCGTCTCTGTAGCGGCGGAGAGCA-AGTCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA-TCGAAGATAACA
*
125629606 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGAT---A
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
125629647 -ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
125629690 GATTTGGCATCTCTGTAGCGGTGGAAAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
125629734 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** *
125629778 GATTTGGCGTCTCTGTAGCGGCTTAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ** *
125629822 GATTTGGCGTCTTTGTAGCGGCGGAGAGCAGATAAAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
125629866 GATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
125629910 GATTTGGCGTCTCTGTAGTGGTGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
125629950 GATTTGGCATCTCTGTAACAGCAGAGAACAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
125629994 GATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
125630038 AATTTGGCGTCTCTGTAGCGACGGAGAGCAAATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
125630082 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
125630126 AATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
125630170 GATTTGACGTCTCTGTAGCGGCGAAGAGTAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
125630210 GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
125630254 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
125630298 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
125630342 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
125630386 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
125630403 TTAGACGGGG
Statistics
Matches: 843, Mismatches: 72, Indels: 28
0.89 0.08 0.03
Matches are distributed among these distances:
40 105 0.12
41 1 0.00
43 1 0.00
44 735 0.87
45 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:125629661 original size:216 final size:218
Alignment explanation
Indices: 125629416--125630402 Score: 1433
Period size: 216 Copynumber: 4.6 Consensus size: 218
125629406 TTTACGTTGA
* * *
125629416 AGCAAATCCAAGAT--GATTTGGCGTCTCTGTAGCAGCAGAGAGCAGATCGAAGATAACAGATTT
1 AGCAAATCAAAGATAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT
* *
125629479 GGCGTCTCTGTAACGGCGGAGAGCAGACCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
66 GGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* *
125629544 AGCAGGTCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA-AGTCGAAGATAACAGA
131 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGA-TCGAAGATAACAGA
125629608 TTTGGCGTCTCTGTAGCGGCGGAG
195 TTTGGCGTCTCTGTAGCGGCGGAG
* *
125629632 AGCAAATCGAAGAT-A-ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT
1 AGCAAATCAAAGATAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT
* * *
125629695 GGCATCTCTGTAGCGGTGGAAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
66 GGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* * ** *
125629760 AGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCTTAGAGCAGATCAAAGATAACAGAT
131 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGAT
*
125629825 TTGGCGTCTTTGTAGCGGCGGAG
196 TTGGCGTCTCTGTAGCGGCGGAG
* * * *
125629848 AGCAGATAAAAAATAACAGATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
1 AGCAAATCAAAGAT-A-AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
* * * * * *
125629913 TTGGCGTCTCTGTAGTGGTGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAACAGCAG
64 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG
* *
125629974 AGAACAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAA
129 AGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAG
*
125630039 ATTTGGCGTCTCTGTAGCGACGGAG
194 ATTTGGCGTCTCTGTAGCGGCGGAG
* *
125630064 AGCAAATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACAAAT
1 AGCAAATCAAAGAT-A-AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
* * *
125630129 TTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGA
64 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG
* *
125630194 AGAGTAGATCGAAGAT----GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAG
129 AGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAG
125630255 ATTTGGCGTCTCTGTAGCGGCGGAG
194 ATTTGGCGTCTCTGTAGCGGCGGAG
* * * *
125630280 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCAAAGATAACAGAT
1 AGCAAATCAAAGAT-A-AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
*
125630345 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTA
64 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
125630403 TTAGACGGGG
Statistics
Matches: 695, Mismatches: 66, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
216 583 0.84
217 1 0.00
219 1 0.00
220 110 0.16
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (218 bp):
AGCAAATCAAAGATAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT
GGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGAT
TTGGCGTCTCTGTAGCGGCGGAG
Found at i:125629732 original size:260 final size:258
Alignment explanation
Indices: 125629416--125630402 Score: 1498
Period size: 260 Copynumber: 3.8 Consensus size: 258
125629406 TTTACGTTGA
* * * *
125629416 AGCAAATCCAAGATGATTTGGCGTCTCTGTAGCAGCAGAGAGCAGATCGAAGATAACAGATTTGG
1 AGCAGATCGAAGATGATTTGGCATCTCTGTAGCAGCAGAAAGCAGATCGAAGATAACAGATTTGG
* *
125629481 CGTCTCTGTAACGGCGGAGAGCAGACCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
66 CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* *
125629546 CAGGTCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA-AGTCGAAGATAACAGATT
131 CAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA-TCGAAGATAACAGATT
* *
125629610 TGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGAT-A-ATTTGGCATCTCTGTAGCGGCGGAG
195 TGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAGATTTGGCGTCTCTGTAGCGGCGGAG
* **
125629672 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGTGGAAAGCAGATCGAAGATAACAGAT
1 AGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCAGCAGAAAGCAGATCGAAGATAACAGAT
* **
125629737 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCTT
62 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG
* ** *
125629802 AGAGCAGATCAAAGATAACAGATTTGGCGTCTTTGTAGCGGCGGAGAGCAGATAAAAAATAACAG
127 AGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
125629867 ATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGT
192 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-A-AGATTTGGCGTCTCTGTAGCGGC
125629932 GGAG
255 GGAG
*
125629936 AGCAGATCGAAGATGATTTGGCATCTCTGTAACAGCAGAGAA-CAGATCGAAGATAACAGATTTG
1 AGCAGATCGAAGATGATTTGGCATCTCTGTAGCAGCAGA-AAGCAGATCGAAGATAACAGATTTG
* * *
125630000 GCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCTGTAGCGACGGAGA
65 GCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
* * *
125630065 GCAAATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACAAATT
130 GCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
* * *
125630130 TGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGAA
195 TGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-A-AGATTTGGCGTCTCTGTAGCGGCGGA
125630195 G
258 G
* * *
125630196 AGTAGATCGAAGATGATTTGGCATCTCTGTAGC-GACGGAGAGCAGATCGAAGATAACAGATTTG
1 AGCAGATCGAAGATGATTTGGCATCTCTGTAGCAG-CAGAAAGCAGATCGAAGATAACAGATTTG
*
125630260 GCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAGA
65 GCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
*
125630325 GCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACGGATT
130 GCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
125630390 TGGCGTCTCTGTA
195 TGGCGTCTCTGTA
125630403 TTAGACGGGG
Statistics
Matches: 661, Mismatches: 58, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
256 12 0.02
259 2 0.00
260 607 0.92
261 3 0.00
263 1 0.00
264 36 0.05
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (258 bp):
AGCAGATCGAAGATGATTTGGCATCTCTGTAGCAGCAGAAAGCAGATCGAAGATAACAGATTTGG
CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
CAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT
GGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAGATTTGGCGTCTCTGTAGCGGCGGAG
Found at i:125630714 original size:16 final size:17
Alignment explanation
Indices: 125630693--125630736 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
125630683 AATACAACCC
125630693 AAAATAAAAAAT-AAAA
1 AAAATAAAAAATGAAAA
*
125630709 AAAATAAAAAATGAATA
1 AAAATAAAAAATGAAAA
*
125630726 AAAAGAAAAAA
1 AAAATAAAAAA
125630737 ACCTAACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAATAAAAAATGAAAA
Found at i:125631020 original size:2 final size:2
Alignment explanation
Indices: 125631013--125631048 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
125631003 TTTTCTTTAT
125631013 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
125631049 CATAATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:125631646 original size:2 final size:2
Alignment explanation
Indices: 125631639--125631665 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
125631629 TCTGTTTATG
125631639 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 T
125631666 TTAGCTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:125631957 original size:19 final size:19
Alignment explanation
Indices: 125631933--125631970 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
125631923 TTGAGATTGC
*
125631933 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
125631952 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
125631971 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:125633564 original size:16 final size:15
Alignment explanation
Indices: 125633539--125633568 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
125633529 CGATATCAAT
125633539 AAAAATTATAAAAAG
1 AAAAATTATAAAAAG
125633554 AAAAATATATAAAAA
1 AAAAAT-TATAAAAA
125633569 TGGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AAAAATTATAAAAAG
Found at i:125634376 original size:28 final size:29
Alignment explanation
Indices: 125634343--125634403 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
125634333 AGTTCCATGA
* *
125634343 TTTTATTTTGTTCA-TTT-TTTTTATAATT
1 TTTTATTTTATCCACTTTATTTTT-TAATT
125634371 TTTTATTTTATCCACTTTATTTTTTAATT
1 TTTTATTTTATCCACTTTATTTTTTAATT
125634400 TTTT
1 TTTT
125634404 TTAAAAGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 12 0.41
29 12 0.41
30 5 0.17
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.74
Consensus pattern (29 bp):
TTTTATTTTATCCACTTTATTTTTTAATT
Found at i:125638709 original size:29 final size:29
Alignment explanation
Indices: 125638670--125638726 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
125638660 AACTTTTATA
*
125638670 AAAATGCTCAAATAA-AGACGAAACTTTTC
1 AAAATGATCAAATAAGAG-CGAAACTTTTC
*
125638699 AAAATGATCAAATAAGAGCTAAACTTTT
1 AAAATGATCAAATAAGAGCGAAACTTTT
125638727 TTAAAAGCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (29 bp):
AAAATGATCAAATAAGAGCGAAACTTTTC
Found at i:125652954 original size:18 final size:19
Alignment explanation
Indices: 125652906--125652947 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
125652896 TGGTTCATGT
*
125652906 TTTCAATCTC-ATATCTCAA
1 TTTCAAT-TCAATTTCTCAA
125652925 TTTCAATTCAATTTCTC-A
1 TTTCAATTCAATTTCTCAA
125652943 TTTCA
1 TTTCA
125652948 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTCAATTCAATTTCTCAA
Found at i:125653074 original size:23 final size:23
Alignment explanation
Indices: 125653044--125653101 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
125653034 GCGGATTCCT
125653044 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
125653067 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
125653090 CCCAAACACACC
1 CCCAAACACACC
125653102 CGAAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.47, C:0.43, G:0.03, T:0.07
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:125653595 original size:2 final size:2
Alignment explanation
Indices: 125653590--125653626 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
125653580 TACATAGATC
125653590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
125653627 ATTTCAATCA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:125653642 original size:15 final size:15
Alignment explanation
Indices: 125653622--125653672 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
125653612 ATATATATAT
125653622 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
125653637 ATATAAATTCAATCA
1 ATATAATTTCAATCA
* * *
125653652 AAATGATTTCAATTA
1 ATATAATTTCAATCA
125653667 ATATAA
1 ATATAA
125653673 ATTTGATAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:125655001 original size:18 final size:17
Alignment explanation
Indices: 125654969--125655010 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
125654959 AATTTTTATT
* *
125654969 TTAAAAAAATGATATAA
1 TTAATAAAATCATATAA
125654986 TATAATAAAATCATATAA
1 T-TAATAAAATCATATAA
125655004 TTAATAA
1 TTAATAA
125655011 TTATATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
TTAATAAAATCATATAA
Found at i:125655021 original size:17 final size:18
Alignment explanation
Indices: 125654974--125655010 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
125654964 TTATTTTAAA
*
125654974 AAAATGATATAATATAAT
1 AAAATCATATAATATAAT
125654992 AAAATCATATAAT-TAAT
1 AAAATCATATAATATAAT
125655009 AA
1 AA
125655011 TTATATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAATCATATAATATAAT
Found at i:125658134 original size:16 final size:17
Alignment explanation
Indices: 125658113--125658147 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
125658103 TTAGCACTCA
125658113 TTTAA-TATAAAATATT
1 TTTAATTATAAAATATT
*
125658129 TTTAATTATTAAATATT
1 TTTAATTATAAAATATT
125658146 TT
1 TT
125658148 ATGTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATTATAAAATATT
Found at i:125664419 original size:15 final size:15
Alignment explanation
Indices: 125664399--125664431 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
125664389 CCGGCACTGG
*
125664399 CAGCAGTGGCGGTGA
1 CAGCAGCGGCGGTGA
125664414 CAGCAGCGGCGGTGA
1 CAGCAGCGGCGGTGA
125664429 CAG
1 CAG
125664432 TATGGCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.45, T:0.09
Consensus pattern (15 bp):
CAGCAGCGGCGGTGA
Found at i:125670777 original size:18 final size:20
Alignment explanation
Indices: 125670758--125670794 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
125670748 TTTTTTCATA
125670758 TTAATTTTTAAAT-TTGTAT
1 TTAATTTTTAAATATTGTAT
*
125670777 TTCATTTTTAAATATTGT
1 TTAATTTTTAAATATTGT
125670795 TAAAAGGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (20 bp):
TTAATTTTTAAATATTGTAT
Found at i:125682751 original size:16 final size:18
Alignment explanation
Indices: 125682732--125682764 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
125682722 TAAAAATCAT
125682732 AAATT-TTT-TTTAAAAA
1 AAATTATTTGTTTAAAAA
125682748 AAATTATTTGTTTAAAA
1 AAATTATTTGTTTAAAA
125682765 TTTTAGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (18 bp):
AAATTATTTGTTTAAAAA
Found at i:125683185 original size:13 final size:13
Alignment explanation
Indices: 125683167--125683193 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
125683157 TAAGGTGTTA
125683167 TACAAAACGAAAG
1 TACAAAACGAAAG
125683180 TACAAAACGAAAG
1 TACAAAACGAAAG
125683193 T
1 T
125683194 GATAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.11
Consensus pattern (13 bp):
TACAAAACGAAAG
Found at i:125688381 original size:23 final size:21
Alignment explanation
Indices: 125688349--125688393 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
125688339 TTAAGAGATT
*
125688349 ATTATGTGTTCTATTTATTTTTA
1 ATTATGTGTT-T-TTAATTTTTA
*
125688372 ATTATTTGTTTTTAATTTTTA
1 ATTATGTGTTTTTAATTTTTA
125688393 A
1 A
125688394 ATTCACAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (21 bp):
ATTATGTGTTTTTAATTTTTA
Found at i:125688383 original size:14 final size:14
Alignment explanation
Indices: 125688360--125688392 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
125688350 TTATGTGTTC
125688360 TATTTATTTTTAAT
1 TATTTATTTTTAAT
*
125688374 TATTTGTTTTTAAT
1 TATTTATTTTTAAT
125688388 T-TTTA
1 TATTTA
125688393 AATTCACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TATTTATTTTTAAT
Found at i:125696092 original size:46 final size:44
Alignment explanation
Indices: 125695988--125696095 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
125695978 TGTCTTTGAC
** * * *
125695988 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
125696032 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
125696078 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
125696096 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:125702231 original size:46 final size:44
Alignment explanation
Indices: 125702127--125702234 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
125702117 TGTCTTTGAC
** * * *
125702127 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
125702171 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
125702217 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
125702235 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:125707589 original size:5 final size:5
Alignment explanation
Indices: 125707579--125707608 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
125707569 GTAACAATAA
125707579 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
125707609 AAACCAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:125707630 original size:13 final size:13
Alignment explanation
Indices: 125707585--125707632 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
125707575 ATAATAAATT
*
125707585 AAATTAAATTAAATT
1 AAATTAAA-TAAA-A
*
125707600 AAATTAAATAAAC
1 AAATTAAATAAAA
*
125707613 CAATTAAATAAAA
1 AAATTAAATAAAA
125707626 AAATTAA
1 AAATTAA
125707633 TAATCTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 17 0.59
14 4 0.14
15 8 0.28
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATTAAATAAAA
Found at i:125708365 original size:24 final size:25
Alignment explanation
Indices: 125708319--125708366 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
125708309 AATTAAAAAG
*
125708319 TTTTAGTTTTTTTTTTTTGATAATT
1 TTTTAGTTTTTTTTTATTGATAATT
125708344 TTTTA-TTTTTTTTTAATT-ATAAT
1 TTTTAGTTTTTTTTT-ATTGATAAT
125708367 GGTCGCGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTAGTTTTTTTTTATTGATAATT
Found at i:125708525 original size:1 final size:1
Alignment explanation
Indices: 125708519--125708544 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
125708509 GTTGTTGTTG
125708519 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
125708545 ATGTATATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:125710233 original size:19 final size:21
Alignment explanation
Indices: 125710187--125710234 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
125710177 TTATATGAAG
125710187 ATAAAAAAATTATTAAAAATT
1 ATAAAAAAATTATTAAAAATT
*
125710208 A-ATAAAATATT-TT-AAAATT
1 ATA-AAAAAATTATTAAAAATT
125710227 ATAAAAAA
1 ATAAAAAA
125710235 TCACGTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
19 11 0.48
20 4 0.17
21 8 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAAAATTATTAAAAATT
Found at i:125711355 original size:26 final size:26
Alignment explanation
Indices: 125711318--125711401 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
125711308 TGATACAAAT
* *
125711318 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125711344 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125711370 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125711396 TGATAA
1 TGATAA
125711402 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:125717121 original size:26 final size:26
Alignment explanation
Indices: 125717084--125717167 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
125717074 TGATACAAAT
* *
125717084 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125717110 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125717136 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125717162 TGATAA
1 TGATAA
125717168 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:125722064 original size:31 final size:31
Alignment explanation
Indices: 125722024--125722092 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
125722014 TTATAAAATT
*
125722024 GTCATTAAACAATTCAG-AAGTTTTCATTTAA
1 GTCACTAAACAATT-AGAAAGTTTTCATTTAA
* * *
125722055 GTTACTAAACTATTTGAAAGTTTTCATTTAA
1 GTCACTAAACAATTAGAAAGTTTTCATTTAA
125722086 GTCACTA
1 GTCACTA
125722093 GGCCGTTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (31 bp):
GTCACTAAACAATTAGAAAGTTTTCATTTAA
Found at i:125723532 original size:19 final size:19
Alignment explanation
Indices: 125723510--125723550 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
125723500 ACATTCTTTT
125723510 ACATCCTTCACATGAACTC
1 ACATCCTTCACATGAACTC
*
125723529 ACATGCTTCACATGAACTC
1 ACATCCTTCACATGAACTC
125723548 ACA
1 ACA
125723551 AGTAATGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.24
Consensus pattern (19 bp):
ACATCCTTCACATGAACTC
Found at i:125724774 original size:21 final size:22
Alignment explanation
Indices: 125724739--125724781 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
125724729 AATCAGCCTA
125724739 ACTTTCAAATTTGTTGTTGTTT
1 ACTTTCAAATTTGTTGTTGTTT
*
125724761 ACTTTC-ATTTTGTTGTTGTTT
1 ACTTTCAAATTTGTTGTTGTTT
125724782 TGTTGACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.63
Consensus pattern (22 bp):
ACTTTCAAATTTGTTGTTGTTT
Found at i:125726434 original size:22 final size:23
Alignment explanation
Indices: 125726400--125726444 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
125726390 ATACATGCAG
125726400 AATAATATGGAAACAA-TAATAA
1 AATAATATGGAAACAATTAATAA
125726422 AATATATAT-GAAACAATTAATAA
1 AATA-ATATGGAAACAATTAATAA
125726445 CGTTGTGCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (23 bp):
AATAATATGGAAACAATTAATAA
Found at i:125729921 original size:2 final size:2
Alignment explanation
Indices: 125729914--125729965 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
125729904 TTTAAAAATG
125729914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125729956 AT AT AT AT AT
1 AT AT AT AT AT
125729966 TCACATTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.