Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 132 of 320
Found at i:43270516 original size:63 final size:63
Alignment explanation
Indices: 43270436--43270618 Score: 188
Period size: 66 Copynumber: 2.9 Consensus size: 63
43270426 AGACATTATG
* *
43270436 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
43270499 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
43270564 A
63 A
** * * * * *
43270565 AACTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
43270619 CGAACTATAT
Statistics
Matches: 96, Mismatches: 20, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
62 1 0.01
63 39 0.41
64 5 0.05
65 6 0.06
66 45 0.47
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:43275039 original size:16 final size:18
Alignment explanation
Indices: 43275013--43275046 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
43275003 GGCCAGAATG
43275013 GGCTGTGTGGGCC-CACA
1 GGCTGTGTGGGCCTCACA
43275030 GGCT-TGTGGGCCTCACA
1 GGCTGTGTGGGCCTCACA
43275047 CGGGCAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.29, G:0.38, T:0.21
Consensus pattern (18 bp):
GGCTGTGTGGGCCTCACA
Found at i:43277195 original size:39 final size:40
Alignment explanation
Indices: 43277111--43277195 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
43277101 ACTTAATTCA
* * *
43277111 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
43277151 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
43277190 TCAGCA
1 CCAGCA
43277196 CAATTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:43277320 original size:45 final size:47
Alignment explanation
Indices: 43277266--43277374 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 47
43277256 TGCACACTTT
* **
43277266 TCACAATTGGTCATTCGGCCTTATCACAT-T-TTCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTACACAT-TCA
*
43277312 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTACACATTCA
43277359 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
43277375 ATCTTAAGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 23 0.41
46 6 0.11
47 27 0.48
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTACACATTCA
Found at i:43277850 original size:16 final size:16
Alignment explanation
Indices: 43277826--43277865 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
43277816 TTTGGTTCGC
* *
43277826 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
43277842 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
43277858 TGTAATGG
1 TGTAATGG
43277866 GAAAGCTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.38, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:43281731 original size:44 final size:45
Alignment explanation
Indices: 43281666--43281756 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
43281656 ACCTCTATTC
* * *
43281666 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
43281710 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
43281755 CA
1 CA
43281757 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:43281758 original size:16 final size:16
Alignment explanation
Indices: 43281737--43281805 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
43281727 GATTAGCTAT
43281737 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43281753 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
43281770 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43281786 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43281802 TACA
1 TACA
43281806 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:43281779 original size:33 final size:32
Alignment explanation
Indices: 43281737--43281805 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
43281727 GATTAGCTAT
43281737 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
43281770 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
43281802 TACA
1 TACA
43281806 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:43281976 original size:18 final size:17
Alignment explanation
Indices: 43281955--43281989 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43281945 TTATTATTAA
*
43281955 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43281973 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43281990 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43282126 original size:16 final size:16
Alignment explanation
Indices: 43282089--43282130 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43282079 TTAATCATAT
*
43282089 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
43282105 TT-AAATATATTATAA
1 TTAAAATATATTATAA
43282120 TTAAAATATAT
1 TTAAAATATAT
43282131 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:43282128 original size:154 final size:156
Alignment explanation
Indices: 43281842--43282155 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 156
43281832 TAGAATACCC
43281842 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
43281907 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
43281972 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAAAAA
* *
43281999 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
43282062 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
43282127 ATATAATTTAATAAAATTCTTAAAAA
131 ATATAATTTAATAAAATTCTTAAAAA
43282153 TTA
1 TTA
43282156 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
154 92 0.60
155 1 0.01
157 60 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAAAAA
Found at i:43282137 original size:14 final size:15
Alignment explanation
Indices: 43282098--43282139 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
43282088 TTTAAACATA
*
43282098 ATTATTATTAAATAT
1 ATTATAATTAAATAT
43282113 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
43282127 A-TATAATTTAATA
1 ATTATAATTAAATA
43282140 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:43282226 original size:120 final size:120
Alignment explanation
Indices: 43282092--43282314 Score: 412
Period size: 120 Copynumber: 1.9 Consensus size: 120
43282082 ATCATATTTA
43282092 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-AAATTA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAA-TA
*
43282156 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 AAATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
43282212 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
*
43282277 AATTCTTCTATGAATTTACTCAAATCATAATATATGAT
66 AATTCTTATATGAATTTACTCAAATCATAATATATGAT
43282315 TATAACTAAT
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
120 97 0.97
121 3 0.03
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
AATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:43282257 original size:14 final size:15
Alignment explanation
Indices: 43282208--43282259 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
43282198 GTAAAATATA
43282208 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
43282223 TATTAAATATATTAT
1 AATTAAATATATTAT
43282238 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
43282251 AATTTAATA
1 AATTAAATA
43282260 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:43282274 original size:44 final size:43
Alignment explanation
Indices: 43282185--43282275 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
43282175 CTCAAATCAT
* * *
43282185 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
43282228 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
43282272 AATA
1 AATA
43282276 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:43282310 original size:59 final size:59
Alignment explanation
Indices: 43282127--43282310 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
43282117 TAATTAAAAT
43282127 ATATAATTTAATAAAATTCTTAA-AAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAA-TAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * *
43282186 ATAT-ATGATACTGTAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-ATAA-TATTCTTATATGA-ATT-TACTCAAATCA
43282246 T-
58 TA
* *
43282247 ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
43282306 ATATA
1 ATATA
43282311 TGATTATAAC
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 8 0.09
61 11 0.12
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
Found at i:43282326 original size:17 final size:16
Alignment explanation
Indices: 43282304--43282350 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
43282294 ACTCAAATCA
43282304 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
43282321 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
43282335 TAAATATATGATTTAA
1 T-AATATATGATTTAA
43282351 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:43282351 original size:17 final size:17
Alignment explanation
Indices: 43282323--43282356 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43282313 ATTATAACTA
*
43282323 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
43282340 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
43282357 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:43282499 original size:93 final size:92
Alignment explanation
Indices: 43282389--43282583 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
43282379 GATTATAGTT
* * *
43282389 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
43282452 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
43282482 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
43282547 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
43282574 TATGAATTTA
1 TATGAATTTA
43282584 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:43285008 original size:12 final size:12
Alignment explanation
Indices: 43284991--43285018 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43284981 CATACAAAAA
43284991 ACAGAAGCTGCT
1 ACAGAAGCTGCT
43285003 ACAGAAGCTGCT
1 ACAGAAGCTGCT
43285015 ACAG
1 ACAG
43285019 CAATAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:43290042 original size:22 final size:20
Alignment explanation
Indices: 43290002--43290042 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
43289992 AGTCCTATTA
*
43290002 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
43290022 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
43290043 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:43291313 original size:40 final size:40
Alignment explanation
Indices: 43291269--43291533 Score: 372
Period size: 40 Copynumber: 6.9 Consensus size: 40
43291259 GAATACACAT
* *
43291269 CACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
43291309 CACCAGCACAAATGCTCTTCGGG----A---C---T-TAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
43291338 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
43291378 CACCAGCATGAATGCTCTTCGGGAATTAGCCTGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
43291418 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
43291458 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
43291498 CTCCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
43291534 CATCGGCGAG
Statistics
Matches: 200, Mismatches: 14, Indels: 22
0.85 0.06 0.09
Matches are distributed among these distances:
29 23 0.12
30 1 0.00
33 2 0.01
36 2 0.01
39 1 0.00
40 171 0.86
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:43291351 original size:29 final size:29
Alignment explanation
Indices: 43291306--43291365 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
43291296 AGCCCGGATA
*
43291306 TAACACCAGCACAAATGCTCTTCGGGACT
1 TAACACCAGCACAAATGCTCTTCGAGACT
* *
43291335 TAACTCCAGCACGAATGCTCTTCGAGACT
1 TAACACCAGCACAAATGCTCTTCGAGACT
43291364 TA
1 TA
43291366 GCCCGGATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (29 bp):
TAACACCAGCACAAATGCTCTTCGAGACT
Found at i:43294297 original size:45 final size:47
Alignment explanation
Indices: 43294233--43294342 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
43294223 ACTTTTCATA
* * **
43294233 ATTGGTCATTCGACTTTATCACAT-T-TTCACTTACACATAT-ATCAC
1 ATTGGCCATTCGACCTTATCACATATACACACTTACACAT-TCATCAC
* *
43294278 ATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCATCAC
1 ATTGGCCATTCGACCTTATCACATATACACACTTACACATTCATCAC
*
43294325 ATTGGCCATTCGATCTTA
1 ATTGGCCATTCGACCTTA
43294343 AGCTAGATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
45 21 0.39
46 2 0.04
47 31 0.57
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.36
Consensus pattern (47 bp):
ATTGGCCATTCGACCTTATCACATATACACACTTACACATTCATCAC
Found at i:43308295 original size:19 final size:19
Alignment explanation
Indices: 43308273--43308310 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
43308263 GTGCCAATAC
43308273 CATGGCCCAAGGCCAACTT
1 CATGGCCCAAGGCCAACTT
43308292 CATGGCCCAAGGCCAACTT
1 CATGGCCCAAGGCCAACTT
43308311 AATGTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.37, G:0.21, T:0.16
Consensus pattern (19 bp):
CATGGCCCAAGGCCAACTT
Found at i:43309627 original size:20 final size:20
Alignment explanation
Indices: 43309602--43309639 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
43309592 TATGGATTAA
43309602 ATTGAATGAAATGAATGACT
1 ATTGAATGAAATGAATGACT
43309622 ATTGAATGAAATGAATGA
1 ATTGAATGAAATGAATGA
43309640 TTGAATGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.21, T:0.29
Consensus pattern (20 bp):
ATTGAATGAAATGAATGACT
Found at i:43313742 original size:27 final size:26
Alignment explanation
Indices: 43313694--43313745 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
43313684 GCGAGGCTGC
*
43313694 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
43313720 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
43313746 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:43314408 original size:27 final size:27
Alignment explanation
Indices: 43314378--43314438 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
43314368 ATAGTCATTT
*
43314378 TACCCTTCAGGGGTAAATCGGTAGTGC
1 TACCCTACAGGGGTAAATCGGTAGTGC
** * *
43314405 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTAAATCGGTAGTGC
43314432 TACCCTA
1 TACCCTA
43314439 TAAGGGTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (27 bp):
TACCCTACAGGGGTAAATCGGTAGTGC
Found at i:43314445 original size:27 final size:27
Alignment explanation
Indices: 43314404--43314542 Score: 199
Period size: 27 Copynumber: 5.1 Consensus size: 27
43314394 ATCGGTAGTG
* *
43314404 CTACCCTACAGGGGTATTTCGGTATTT
1 CTACCCTACAGGGGTATTTCGATAATT
* *
43314431 CTACCCTATAAGGGTATTTC-AGTAATT
1 CTACCCTACAGGGGTATTTCGA-TAATT
* *
43314458 CTATCCTACAGGGGTATTTCAATAATT
1 CTACCCTACAGGGGTATTTCGATAATT
43314485 CTACCCTACAGGGGTATTTCGATAATT
1 CTACCCTACAGGGGTATTTCGATAATT
*
43314512 CTACCTTACAGGGGTATTTCGATAATT
1 CTACCCTACAGGGGTATTTCGATAATT
43314539 CTAC
1 CTAC
43314543 AACTTATCCA
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
27 99 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
CTACCCTACAGGGGTATTTCGATAATT
Found at i:43321219 original size:27 final size:27
Alignment explanation
Indices: 43321171--43321257 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
43321161 GCAAGGCTGT
* *
43321171 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
43321198 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
*
43321224 CATATATATATGTGGCGAAGCCACCAGATTA
1 C--AGATAT-TGTGGCGAAGCCACCAGA-TA
43321255 CAG
1 CAG
43321258 CGAGGCTGCC
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
26 2 0.04
27 21 0.45
28 5 0.11
29 17 0.36
31 2 0.04
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:43321273 original size:69 final size:67
Alignment explanation
Indices: 43321198--43321337 Score: 172
Period size: 67 Copynumber: 2.1 Consensus size: 67
43321188 TCACCAGATA
* * * *
43321198 CAGATATTGTGGCTAGGCCACCAGAACATATATATATGTGGCGAAGCCACCAGATTACAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAAC--AGATATATGTGGCGAAGCCACCAGATTACAGCGAGG
*
43321263 CTGC
64 CTCC
* * * * *
43321267 CAGATATTTTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGTGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTACAGCGAGGCT
43321332 CC
66 CC
43321334 CAGA
1 CAGA
43321338 ACGCTTCCTC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
67 39 0.64
69 22 0.36
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTACAGCGAGGCT
CC
Found at i:43321587 original size:8 final size:8
Alignment explanation
Indices: 43321574--43321602 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
43321564 TACAAAAGTG
43321574 GGCCCATT
1 GGCCCATT
43321582 GGCCCATT
1 GGCCCATT
43321590 GGCCCATT
1 GGCCCATT
43321598 GGCCC
1 GGCCC
43321603 GTTTTCGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.41, G:0.28, T:0.21
Consensus pattern (8 bp):
GGCCCATT
Found at i:43322000 original size:27 final size:27
Alignment explanation
Indices: 43321960--43322028 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
43321950 ATAGTCGTTT
* * *
43321960 TACCCTCCAGGGGTAAATCGGTAGTGC
1 TACCCTACAAGGGTAAATCAGTAGTGC
* ** * *
43321987 TACCTTACAAGGGTATTTCAGTATTTC
1 TACCCTACAAGGGTAAATCAGTAGTGC
43322014 TACCCTACAAGGGTA
1 TACCCTACAAGGGTA
43322029 TTTTGGTAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (27 bp):
TACCCTACAAGGGTAAATCAGTAGTGC
Found at i:43322029 original size:27 final size:27
Alignment explanation
Indices: 43321986--43322124 Score: 197
Period size: 27 Copynumber: 5.1 Consensus size: 27
43321976 ATCGGTAGTG
* * *
43321986 CTACCTTACAAGGGTATTTCAGTATTT
1 CTACCCTACAGGGGTATTTCAGTAATT
* **
43322013 CTACCCTACAAGGGTATTTTGGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
* *
43322040 CTATCCTACAGGGGTATTTCAATAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
43322067 CTACCCTACAGGGGTATTTCAGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
*
43322094 CTACCTTACAGGGGTATTTCAGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
43322121 CTAC
1 CTAC
43322125 AACTTATCCA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
CTACCCTACAGGGGTATTTCAGTAATT
Found at i:43324629 original size:6 final size:6
Alignment explanation
Indices: 43324618--43324642 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43324608 ACTCAGTGTA
43324618 ATTCTG ATTCTG ATTCTG ATTCTG A
1 ATTCTG ATTCTG ATTCTG ATTCTG A
43324643 ATTTCGAATA
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:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:43326972 original size:25 final size:20
Alignment explanation
Indices: 43326921--43326960 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
43326911 TATGGATTAA
43326921 ATTGAATGAAATGAATGATT
1 ATTGAATGAAATGAATGATT
43326941 ATTGAATGAAATGAATGATT
1 ATTGAATGAAATGAATGATT
43326961 GGATGGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (20 bp):
ATTGAATGAAATGAATGATT
Found at i:43327354 original size:85 final size:85
Alignment explanation
Indices: 43327208--43327363 Score: 208
Period size: 85 Copynumber: 1.8 Consensus size: 85
43327198 ATCTATGACA
* * *
43327208 TCGTGTAAGACCGTGTCTGGGACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCGTGTCTGGGACACAAGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
43327273 CATCGGTATCGTTTCTAATT
66 CATCGGTATCGTTTCTAATT
* * * *
43327293 TCGTGTAAGACCTTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCTGG
1 TCGTGTAAGACCGTGTCTGGGACACAAGCATCG--ATTGAGATTTACATATAAGACCACGTCTGG
*
43327356 GACGTCGG
64 GACATCGG
43327364 CATTGTACTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 55 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCGTGTCTGGGACACAAGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
CATCGGTATCGTTTCTAATT
Found at i:43327366 original size:43 final size:42
Alignment explanation
Indices: 43327256--43327366 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 42
43327246 GATTTACGTA
* * * * *
43327256 TAAGACCATGTCTGGGACATCGGTATCGTTTCTAATTTCGTG
1 TAAGACCATGTCTGGGACGTCGGCATCGTTTCGAATTACATG
* *
43327298 TAAGACCTTGTCTGGGACAG-AGGCATCGATATT-GAATTACATG
1 TAAGACCATGTCTGGGAC-GTCGGCATCG-T-TTCGAATTACATG
*
43327341 TAAGACCACGTCTGGGACGTCGGCAT
1 TAAGACCATGTCTGGGACGTCGGCAT
43327367 TGTACTTGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
42 24 0.44
43 29 0.53
44 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACGTCGGCATCGTTTCGAATTACATG
Found at i:43329154 original size:51 final size:49
Alignment explanation
Indices: 43329027--43329221 Score: 275
Period size: 49 Copynumber: 3.9 Consensus size: 49
43329017 ACTATTGTGA
* *
43329027 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
43329076 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGATAA-T-T
* * *
43329127 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
43329176 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
43329222 GCTTCGGCTA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
49 81 0.63
50 8 0.06
51 39 0.30
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:43329207 original size:100 final size:100
Alignment explanation
Indices: 43329029--43329216 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
43329019 TATTGTGAGG
*
43329029 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
43329094 AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
* *
43329129 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
43329194 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
43329217 AGATAGCTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
Found at i:43336399 original size:30 final size:30
Alignment explanation
Indices: 43336365--43336425 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43336355 TCCTTAACTC
43336365 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
43336395 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
43336425 A
1 A
43336426 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:43341456 original size:55 final size:54
Alignment explanation
Indices: 43341384--43341504 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 54
43341374 CTACCAAAAC
* **
43341384 AACACAGGCGTGAGACACACCTGTGCCTTGAAACCATGGCCAAACCTGTCAAATT
1 AACAC-GGCGTGAGACACACCCGTGCCAAGAAACCATGGCCAAACCTGTCAAATT
* * * * * * *
43341439 AACACGGACGTGTGACACGCCCGTGCCAAGTAACCGTGGTCAAACCTGTTAGATT
1 AACACGG-CGTGAGACACACCCGTGCCAAGAAACCATGGCCAAACCTGTCAAATT
43341494 AACACGGCGTG
1 AACACGGCGTG
43341505 GGCTAATTGT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
54 6 0.11
55 49 0.89
ACGTcount: A:0.30, C:0.28, G:0.24, T:0.18
Consensus pattern (54 bp):
AACACGGCGTGAGACACACCCGTGCCAAGAAACCATGGCCAAACCTGTCAAATT
Found at i:43347589 original size:20 final size:20
Alignment explanation
Indices: 43347551--43347592 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
43347541 ATTTTTAATG
*
43347551 CTTTATTAACGTATGAGTTT
1 CTTTATTAACGTATAAGTTT
**
43347571 CTTTATTAATTTATAAGTTT
1 CTTTATTAACGTATAAGTTT
43347591 CT
1 CT
43347593 ATGTTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.55
Consensus pattern (20 bp):
CTTTATTAACGTATAAGTTT
Found at i:43353704 original size:40 final size:40
Alignment explanation
Indices: 43353610--43353834 Score: 242
Period size: 40 Copynumber: 5.6 Consensus size: 40
43353600 TATTCGAATG
*
43353610 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
43353651 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
43353691 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
43353731 ATATCCGGGCTAA-AACTCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGTGACT
* *
43353771 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
43353811 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
43353835 CTTGTGCAAG
Statistics
Matches: 157, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.02
40 123 0.78
41 30 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:43353790 original size:80 final size:80
Alignment explanation
Indices: 43353610--43353870 Score: 278
Period size: 80 Copynumber: 3.3 Consensus size: 80
43353600 TATTCGAATG
* * *
43353610 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGA-TCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACT-CGAAGG
*
43353674 CATTCGTGCGAGTTGCT
64 CATTCGTGCGAGTCGCT
* * * *
43353691 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
* * *
43353756 TTTGTGCTAG-CGATT
66 TTCGTGCGAGTCG-CT
* * * * *
43353771 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
* * *
43353836 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
* *
43353850 ATATCC-AGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
43353871 ATTACTTGAG
Statistics
Matches: 153, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 13 0.08
79 15 0.10
80 92 0.60
81 33 0.22
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:43353826 original size:120 final size:121
Alignment explanation
Indices: 43353610--43353834 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 121
43353600 TATTCGAATG
** * *
43353610 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * *
43353675 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* * * *
43353731 ATATCCGGGCTAAAACTCGAAGGCATTTGTGCTA-GCGATTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
43353794 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGC
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGC
43353835 CTTGTGCAAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 3 0.03
120 56 0.63
121 30 0.34
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:43358825 original size:93 final size:93
Alignment explanation
Indices: 43358712--43358883 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
43358702 CGCCCATAAG
* *
43358712 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTCCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATCCGCATCCATAAGTGAACTCAGACTCAACTCA
43358777 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
43358805 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATCCGCATCCATAAGTGAACTCAGACTCAACTCA
*
43358870 ATGAGTTCGGATGC
66 ACGAGTTCGGATGC
43358884 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATCCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43358876 original size:46 final size:46
Alignment explanation
Indices: 43358705--43358880 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
43358695 TGTAACCCGC
* * * *
43358705 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTCCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATCCGTAT
* *
43358751 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG--ATGCC-TAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACAT-CCGTA--T
* * *
43358797 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATCCGTAT
* *
43358844 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43358881 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
44 2 0.02
45 4 0.04
46 64 0.60
47 30 0.28
48 3 0.03
49 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATCCGTAT
Found at i:43362723 original size:49 final size:49
Alignment explanation
Indices: 43362662--43362837 Score: 185
Period size: 49 Copynumber: 3.5 Consensus size: 49
43362652 TGAGGTCACG
* *
43362662 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * *
43362711 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAATT--TCGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCG--CA
* * ** * *
43362760 TGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
43362812 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
43362838 TGCATACCAG
Statistics
Matches: 105, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
47 3 0.03
49 40 0.38
50 25 0.24
51 34 0.32
52 1 0.01
54 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:43366016 original size:27 final size:26
Alignment explanation
Indices: 43365968--43366019 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
43365958 AGCAGCAACA
*
43365968 ATTAAATTTGTCCCTAAGCTAGACAC
1 ATTAAATTTGTCCCTAAACTAGACAC
43365994 ATTAAATTGATGT-CCTAAACTAGACA
1 ATTAAATT--TGTCCCTAAACTAGACA
43366020 TATTTAAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 12 0.52
28 3 0.13
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (26 bp):
ATTAAATTTGTCCCTAAACTAGACAC
Found at i:43369388 original size:49 final size:50
Alignment explanation
Indices: 43369321--43369501 Score: 183
Period size: 49 Copynumber: 3.7 Consensus size: 50
43369311 ATCTATTGTG
*
43369321 AGGTCAC--GTGTAGTACTAAGTGCAGGCTACTACGTGTAACGAATTATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACGAATAATT
* * * * * *
43369369 -GGTCTCATGTGTAGCACTAAGTGCAGGCTACTATGCGTACCTG-ATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAAC-GAATAA-TT
* * * * **
43369419 CGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATC-AATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACGAATAATT
*
43369468 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
43369502 TGCGTACCAG
Statistics
Matches: 107, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
47 5 0.05
49 64 0.60
50 5 0.05
51 33 0.31
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACGAATAATT
Found at i:43369501 original size:100 final size:100
Alignment explanation
Indices: 43369328--43369514 Score: 277
Period size: 100 Copynumber: 1.9 Consensus size: 100
43369318 GTGAGGTCAC
* * *
43369328 GTGTAGTACTAAGTGCAGGCTACTACGTGTAACGAATTATTGGTCTCATGTGTAGCACTAAGTGC
1 GTGTAGTACTAAGTGCAAGCTACTACGTGTAACGAATGATTGGTCACATGTGTAGCACTAAGTGC
*
43369393 AGGCTACTATGCGTACCTGATAACTTCGATCACGT
66 AGGCTACTATGCGTACCAGATAACTTCGATCACGT
* * * *
43369428 GTGTAGTACTAAGTGCAAGCTACTACGTGTATC-AATGGTTAGGTCACGTGTGTAGTACTAAGTG
1 GTGTAGTACTAAGTGCAAGCTACTACGTGTAACGAATGATT-GGTCACATGTGTAGCACTAAGTG
*
43369492 TAGGCTACTATGCGTACCAGATA
65 CAGGCTACTATGCGTACCAGATA
43369515 GCTTTGGCTA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 5 0.06
100 72 0.94
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
GTGTAGTACTAAGTGCAAGCTACTACGTGTAACGAATGATTGGTCACATGTGTAGCACTAAGTGC
AGGCTACTATGCGTACCAGATAACTTCGATCACGT
Found at i:43376473 original size:13 final size:13
Alignment explanation
Indices: 43376455--43376483 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
43376445 GGTTGTTTAT
43376455 TAAACTAATTAAC
1 TAAACTAATTAAC
43376468 TAAACTAATTAAC
1 TAAACTAATTAAC
43376481 TAA
1 TAA
43376484 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:43389799 original size:25 final size:25
Alignment explanation
Indices: 43389753--43389807 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
43389743 ATTAAGTCCC
* * *
43389753 ACACGGCCTGAGACATGGGCGTTTG
1 ACACGGCCTGAGACACGAGCGTGTG
43389778 ACACGGCCTG-GCACACGAGCGTGTG
1 ACACGGCCTGAG-ACACGAGCGTGTG
43389803 ACACG
1 ACACG
43389808 ACCATGTGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.22, C:0.29, G:0.35, T:0.15
Consensus pattern (25 bp):
ACACGGCCTGAGACACGAGCGTGTG
Found at i:43392093 original size:42 final size:42
Alignment explanation
Indices: 43392020--43392168 Score: 131
Period size: 42 Copynumber: 3.5 Consensus size: 42
43392010 TAGAAAGCTC
* * *** *
43392020 ATACAATGCCAACGTCCCAGATGTGGTCTTACATGTAACCAA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACACGTAACCAA
* * * *
43392062 ATATCGATGGCACT-TCCCAGACAAGGTCTTACACGAAATCAA
1 ATA-CGATGCCAATGTCCCAGACAAGGTCTTACACGTAACCAA
* *
43392104 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACACGT-AACCA-A
*
43392148 AGT-CGATGCCAACGTCCCAGA
1 A-TACGATGCCAATGTCCCAGA
43392169 TGTGGTCTTA
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 8 0.09
42 48 0.55
43 11 0.13
44 19 0.22
45 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAAGGTCTTACACGTAACCAA
Found at i:43394090 original size:23 final size:23
Alignment explanation
Indices: 43394019--43394173 Score: 100
Period size: 23 Copynumber: 6.8 Consensus size: 23
43394009 CATACTTTGC
*
43394019 AATGCCTTTGTGGCGTATTCTGT
1 AATGCCTTTGTGGCGTATTCTAT
* ** *
43394042 AATACGC--TGTGGAATATTCTAA
1 AATGC-CTTTGTGGCGTATTCTAT
* * *
43394064 AATGCCTTTTTTGCGTATTCTGT
1 AATGCCTTTGTGGCGTATTCTAT
*
43394087 AATGCCTTTGTGGCGTATTTTAT
1 AATGCCTTTGTGGCGTATTCTAT
* * * **
43394110 AATGCC-TTGTGCCATATTTTGC
1 AATGCCTTTGTGGCGTATTCTAT
* * * *
43394132 ATTACCTTTTTGGCATATTCTAT
1 AATGCCTTTGTGGCGTATTCTAT
* *
43394155 AATGCCTTTCTGCCGTATT
1 AATGCCTTTGTGGCGTATT
43394174 TGCAATGTCT
Statistics
Matches: 96, Mismatches: 32, Indels: 8
0.71 0.24 0.06
Matches are distributed among these distances:
21 1 0.01
22 31 0.32
23 63 0.66
24 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (23 bp):
AATGCCTTTGTGGCGTATTCTAT
Found at i:43394127 original size:68 final size:68
Alignment explanation
Indices: 43394019--43394174 Score: 161
Period size: 68 Copynumber: 2.3 Consensus size: 68
43394009 CATACTTTGC
* * * * * *
43394019 AATGCCTTTGTGGCGTATTCTGTAATACGCTGTGGAATATTCTAAAATGCCTTTTTTGCGTATTC
1 AATGCCTTTGTGGCGTATTTTATAATACGCTGTGCAATATTCTAAAATACCTTTTTGGCATATTC
*
43394084 TGT
66 TAT
* * * ** *
43394087 AATGCCTTTGTGGCGTATTTTATAATGC-CTTGTGCCATATTTTGCATTACCTTTTTGGCATATT
1 AATGCCTTTGTGGCGTATTTTATAATACGC-TGTGCAATATTCTAAAATACCTTTTTGGCATATT
43394151 CTAT
65 CTAT
* *
43394155 AATGCCTTTCTGCCGTATTT
1 AATGCCTTTGTGGCGTATTT
43394175 GCAATGTCTT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
67 1 0.01
68 71 0.99
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (68 bp):
AATGCCTTTGTGGCGTATTTTATAATACGCTGTGCAATATTCTAAAATACCTTTTTGGCATATTC
TAT
Found at i:43394176 original size:45 final size:45
Alignment explanation
Indices: 43394000--43394179 Score: 127
Period size: 45 Copynumber: 4.0 Consensus size: 45
43393990 ACTTGAAAAG
** * * *
43394000 CCTTTGTGGCATACTT-TGCAATGCCTTTGTGGCGTATTCTGTAATA
1 CCTTTGTGGCATA-TTCTATAATGCCTTTCTGCCGTATT-TGCAATA
* * * * *
43394046 CGC--TGTGGAATATTCTAAAATGCCTTTTTTG-CGTATTCTGTAATG
1 C-CTTTGTGGCATATTCTATAATGCC-TTTCTGCCGTATT-TGCAATA
* * * * *
43394091 CCTTTGTGGCGTATTTTATAATGCC-TTGTGCCATATTTTGCATTA
1 CCTTTGTGGCATATTCTATAATGCCTTTCTGCCGTA-TTTGCAATA
*
43394136 CCTTTTTGGCATATTCTATAATGCCTTTCTGCCGTATTTGCAAT
1 CCTTTGTGGCATATTCTATAATGCCTTTCTGCCGTATTTGCAAT
43394180 GTCTTTGTTG
Statistics
Matches: 106, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
44 7 0.07
45 65 0.61
46 33 0.31
47 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (45 bp):
CCTTTGTGGCATATTCTATAATGCCTTTCTGCCGTATTTGCAATA
Found at i:43398814 original size:27 final size:27
Alignment explanation
Indices: 43398799--43398851 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
43398789 GGGTATCTCT
43398799 TTTAGAGTTCGTCACAAAGGCTATTCA
1 TTTAGAGTTCGTCACAAAGGCTATTCA
** *
43398826 TTTAGAGTTCACCATAAAGGCTATTC
1 TTTAGAGTTCGTCACAAAGGCTATTC
43398852 TTAGTTGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (27 bp):
TTTAGAGTTCGTCACAAAGGCTATTCA
Found at i:43402202 original size:6 final size:6
Alignment explanation
Indices: 43402191--43402222 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
43402181 AATTCAGATA
*
43402191 TGGACT TGGACT TGGACT TGGATT TGGACT TG
1 TGGACT TGGACT TGGACT TGGACT TGGACT TG
43402223 AATTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.12, G:0.34, T:0.38
Consensus pattern (6 bp):
TGGACT
Found at i:43404915 original size:92 final size:93
Alignment explanation
Indices: 43404803--43404973 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
43404793 CGCCCATAAG
* *
43404803 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAA-TCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43404867 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
43404895 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43404960 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
43404974 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43404963 original size:46 final size:46
Alignment explanation
Indices: 43404796--43404970 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
43404786 TGTAACCCGC
* * *
43404796 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43404842 CCATAAGTGAA-TCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
43404891 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
43404934 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43404971 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 25 0.23
46 42 0.39
47 27 0.25
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43412150 original size:93 final size:93
Alignment explanation
Indices: 43412037--43412208 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
43412027 CGCCCATAAG
* *
43412037 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43412102 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
43412130 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGATCTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43412195 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
43412209 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43412205 original size:46 final size:46
Alignment explanation
Indices: 43412030--43412205 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
43412020 TGTAACCCGC
* * *
43412030 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43412076 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
43412126 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43412169 CCATAAGTGATCTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43412206 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43418380 original size:20 final size:20
Alignment explanation
Indices: 43418355--43418397 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
43418345 ATAGTAAAGT
43418355 CATCTCATAGCTTAACAAAA
1 CATCTCATAGCTTAACAAAA
*
43418375 CATCTCATTGCTTAACAAAA
1 CATCTCATAGCTTAACAAAA
43418395 CAT
1 CAT
43418398 GTACCACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.28
Consensus pattern (20 bp):
CATCTCATAGCTTAACAAAA
Found at i:43419464 original size:56 final size:56
Alignment explanation
Indices: 43419397--43419561 Score: 215
Period size: 56 Copynumber: 2.9 Consensus size: 56
43419387 TACATGTAAT
* * *
43419397 CACATATCGATGCCAACGTACTAGACGTGGTCTTACTTGCACACATATATC-ATAAC
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA-AAC
* * * * *
43419453 CACATATCGATGCCAATGTATTAAATGTGGTCTTACTCGCATACATATCTCGAAAT
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGAAAC
* * *
43419509 CACATATCGATGCCAAGGTATTAAACATGGTCTTACTCGTACACATATATCGA
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
43419562 TGCCATGGTC
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
56 93 0.99
57 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (56 bp):
CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGAAAC
Found at i:43419913 original size:15 final size:15
Alignment explanation
Indices: 43419889--43419918 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43419879 GTTCTTGATC
43419889 TAAAAATATTCAAAT
1 TAAAAATATTCAAAT
*
43419904 TAAAATTATTCAAAT
1 TAAAAATATTCAAAT
43419919 ATAATTTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAAATATTCAAAT
Found at i:43429315 original size:56 final size:56
Alignment explanation
Indices: 43429228--43429337 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
43429218 TCTTTCATAT
* *
43429228 AATCACATATTGATGCCAACGTACTAGACATGGTCTTACTCGCACACATATATCGG
1 AATCACATATCGATGCCAACGTACTAAACATGGTCTTACTCGCACACATATATCGG
* *
43429284 AATCACATATCGATGCCAATGTATTAAACATGGTCTTACTCGCACACATATATC
1 AATCACATATCGATGCCAACGTACTAAACATGGTCTTACTCGCACACATATATC
43429338 AATGCCATGG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTACTAAACATGGTCTTACTCGCACACATATATCGG
Found at i:43435699 original size:23 final size:22
Alignment explanation
Indices: 43435645--43435701 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
43435635 ACATTTATCT
*
43435645 CAAATATGCATTAATAAATGAA
1 CAAATATGCATTAATAAATCAA
43435667 -ATAATCATGCATTAATAAATCATA
1 CA-AAT-ATGCATTAATAAATCA-A
43435691 CAAATATGCAT
1 CAAATATGCAT
43435702 ATTAGGGGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.03
22 3 0.10
23 21 0.70
24 4 0.13
25 1 0.03
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (22 bp):
CAAATATGCATTAATAAATCAA
Found at i:43444280 original size:47 final size:47
Alignment explanation
Indices: 43444170--43444384 Score: 204
Period size: 48 Copynumber: 4.5 Consensus size: 47
43444160 GATAAGCCAG
* * *
43444170 ACATGGTCTTACACTAGCTCTCAT-AC-ATCGGTGCTGATGCCATGCCCAA
1 ACATGGTCTTACACTGGCTCACATAACAAT--GT-C-GATGCCATGTCCAA
43444219 ACATGGTCTTACACTGGCTCACATAACAATGTCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCACATAACAATGTCGATGCCATG-TCCAA
* * *** * *
43444267 ACATGGTC-GACACTGGCTCACGTATTGA-GGCTGATGCCATGTCCTAG
1 ACATGGTCTTACACTGGCTCACATAACAATGTC-GATGCCATGTCC-AA
* *
43444314 ACATGGTCTTACACTAGCTCTCATAACAATGTCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCACATAACAATGTCGATGCCATG-TCCAA
* *
43444362 ACATGGTTTTACATTGGCTCACA
1 ACATGGTCTTACACTGGCTCACA
43444385 CATAACCCTA
Statistics
Matches: 135, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
46 5 0.04
47 42 0.31
48 55 0.41
49 29 0.21
50 2 0.01
51 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (47 bp):
ACATGGTCTTACACTGGCTCACATAACAATGTCGATGCCATGTCCAA
Found at i:43454796 original size:49 final size:50
Alignment explanation
Indices: 43454727--43454972 Score: 271
Period size: 49 Copynumber: 4.9 Consensus size: 50
43454717 ATCTATTGTG
* * *
43454727 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCGGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
** ** *
43454777 -GGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-TT
* * ** * *** **
43454827 CGATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* *
43454877 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* *
43454927 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
43454973 GCTTTAGCTA
Statistics
Matches: 163, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
49 81 0.50
50 46 0.28
51 36 0.22
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:43454924 original size:101 final size:98
Alignment explanation
Indices: 43454730--43454971 Score: 286
Period size: 100 Copynumber: 2.4 Consensus size: 98
43454720 TATTGTGAGG
* * * * **
43454730 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCGGATTATTGGTCGTATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACT
*
43454795 AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCATACCCGATAA-TT-GA
* ** * *
43454830 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATT-GGTCACATGTGTAGTAC
** * *
43454895 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCATACCCGATAATTGA
* * *
43454929 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
43454972 AGCTTTAGCT
Statistics
Matches: 119, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
99 38 0.32
100 41 0.34
101 40 0.34
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCATACCCGATAATTGA
Found at i:43455002 original size:150 final size:150
Alignment explanation
Indices: 43454727--43455005 Score: 400
Period size: 150 Copynumber: 1.9 Consensus size: 150
43454717 ATCTATTGTG
* * **
43454727 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCGGATTATTGGTCGTATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGT
* * * * *
43454792 ACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCATGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCATACCAGATAACTTAGATCAAGTGTGTAGAAATAAGTGCAGGCT
43454857 ACTACGTGTATTAGATGGTT
131 ACTACGTGTATTAGATGGTT
*
43454877 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGT
* * * *
43454942 ACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTTAGCTACAAGTGT-TA-AAATATGTGCAGG
66 ACTAAGTGCAGGCTACTATGCATACCAGATAAC-TTAGAT-CAAGTGTGTAGAAATAAGTGCAGG
43455005 C
129 C
43455006 AACTGAGTAT
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
150 101 0.89
151 6 0.05
152 6 0.05
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGT
ACTAAGTGCAGGCTACTATGCATACCAGATAACTTAGATCAAGTGTGTAGAAATAAGTGCAGGCT
ACTACGTGTATTAGATGGTT
Found at i:43458675 original size:55 final size:54
Alignment explanation
Indices: 43458580--43458729 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
43458570 CTACTTTGTT
* ** * *
43458580 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
43458634 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
43458689 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
43458730 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:43458692 original size:27 final size:27
Alignment explanation
Indices: 43458552--43458729 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
43458542 TAAATTGTAC
43458552 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
43458579 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
43458605 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
43458633 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
43458661 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
43458688 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
43458715 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43458730 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:43458693 original size:82 final size:81
Alignment explanation
Indices: 43458553--43458708 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
43458543 AAATTGTACA
* * * *
43458553 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
43458618 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
43458634 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
43458697 TGTGCGAGTTGA
63 TGTGCGAATTGA
43458709 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:43463283 original size:47 final size:48
Alignment explanation
Indices: 43463214--43463390 Score: 180
Period size: 47 Copynumber: 3.6 Consensus size: 48
43463204 GGTGTAATGC
43463214 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CAACAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACAACAAGT
* * * * *
43463261 CGATGTCATGTCCCAGACATGGTTTTACACTGACT-ATCAAAATCAAGCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACAA-CAAG-T
* * * * **
43463310 CGACGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCACATCTCCGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACAAC-AAGT
*
43463358 GCCGATGCCATGTCCCAGACATGGTCTTTCACT
1 --CGATGCCATGTCCCAGACATGGTCTTACACT
43463391 AACACATCTC
Statistics
Matches: 104, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
46 3 0.03
47 34 0.33
48 5 0.05
49 34 0.33
50 28 0.27
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACAACAAGT
Found at i:43463479 original size:46 final size:46
Alignment explanation
Indices: 43463212--43463484 Score: 157
Period size: 46 Copynumber: 5.8 Consensus size: 46
43463202 AGGGTGTAAT
* * * *
43463212 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCAACAA
1 GCCGATG-CATGTCCCAAACATGGTCTTACACTAGCTTACAT-C-TCGA
* * * ** *
43463259 GTCGATGTCATGTCCCAGACATGGTTTTACACT-GAC-TATCAAAATCAA
1 GCCGATG-CATGTCCCAAACATGGTCTTACACTAG-CTTA-C-ATCTCGA
* *
43463307 GCCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATCTCCGT
1 G-CCGATG-CATGTCCCAAACATGGTCTTACACTAGCT-T-ACATCT-CGA
* * *
43463358 GCCGATGCCATGTCCCAGACATGGTCTTTCACTAAC--ACATCTCGTA
1 GCCGATG-CATGTCCCAAACATGGTCTTACACTAGCTTACATCTCG-A
* * ** * *
43463404 GCTGATGCATGTCCCACACA-CATCATACACTGGCTTACATCTCGA
1 GCCGATGCATGTCCCAAACATGGTCTTACACTAGCTTACATCTCGA
*
43463449 GGCCAATGCATGTCCCAAACAT-GTCTTACACTAGCT
1 -GCCGATGCATGTCCCAAACATGGTCTTACACTAGCT
43463485 CTCGTCTTAA
Statistics
Matches: 177, Mismatches: 34, Indels: 31
0.73 0.14 0.13
Matches are distributed among these distances:
44 8 0.05
45 15 0.08
46 49 0.28
47 32 0.18
48 4 0.02
49 29 0.16
50 35 0.20
51 4 0.02
52 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGGTCTTACACTAGCTTACATCTCGA
Found at i:43465914 original size:40 final size:40
Alignment explanation
Indices: 43465869--43466043 Score: 260
Period size: 40 Copynumber: 4.4 Consensus size: 40
43465859 TATGTGCACA
*
43465869 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
** *
43465909 GCATTCGTGAAGGTTATTATAATCGGGCTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
*
43465949 GCATTCGTACGGGTTATTATAACCGGGCTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
* * * *
43465989 GCATTCGTGCGAGTTATTATTACCGGGTTAAGTCCCAAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
*
43466029 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
43466044 GTTACATCCG
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
Found at i:43466067 original size:80 final size:80
Alignment explanation
Indices: 43465869--43466067 Score: 202
Period size: 80 Copynumber: 2.5 Consensus size: 80
43465859 TATGTGCACA
* * * ** * *
43465869 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGAAGGTTATTATAATCG
1 GCATTCGTACGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGAAGGTTATTATAACCG
*
43465934 GGCTAAGTCCCGAAG
66 GGCTAAGTCCCAAAG
* * * * * *
43465949 GCATTCGTACGGGTTATTATAACCGGGCTAAGTCCCGAAGGCATTCGTG-CGAGTTATTATTACC
1 GCATTCGTACGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGAAG-GTTATTATAACC
*
43466013 GGGTTAAGTCCCAAAG
65 GGGCTAAGTCCCAAAG
* * * * *
43466029 GCATTCGTGCTGGTTGTTACATCCGAGCCAAATTCCGAA
1 GCATTCGTACGGGTTATTACAACCGAGCCAAATCCCGAA
43466068 AGTATTTATG
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
79 1 0.01
80 101 0.99
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
GCATTCGTACGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGAAGGTTATTATAACCG
GGCTAAGTCCCAAAG
Found at i:43481696 original size:13 final size:13
Alignment explanation
Indices: 43481675--43481715 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
43481665 GCTCGGCAGG
43481675 GACACGCCCGTGT
1 GACACGCCCGTGT
* *
43481688 GACATGCCCTTGT
1 GACACGCCCGTGT
*
43481701 GATACGCCCGTGT
1 GACACGCCCGTGT
43481714 GA
1 GA
43481716 ATCGTGCTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.17, C:0.32, G:0.29, T:0.22
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:43496384 original size:46 final size:46
Alignment explanation
Indices: 43496330--43496457 Score: 193
Period size: 46 Copynumber: 2.8 Consensus size: 46
43496320 ATTTGGGCAT
* * *
43496330 CCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
43496376 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
43496422 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACCTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43496458 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:43499101 original size:40 final size:39
Alignment explanation
Indices: 43499033--43499337 Score: 236
Period size: 40 Copynumber: 7.6 Consensus size: 39
43499023 ACCGGACGAT
* * *
43499033 AAAC-GGGGCCACGTAAGTGCATTTAGGGGTACATAAGTAC
1 AAACAGGGG-CACGTATGTGTATTCAGGGGTAC-TAAGTAC
* * *
43499073 AAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTAC
1 AAACAGGGGCACGTATGTGTATTCAGGGGTA-CTAAGTAC
** * * *
43499113 AATTAGGGGCACGGATGTGTATTTAGGGGTACTGAAATAC
1 AAACAGGGGCACGTATGTGTATTCAGGGGTACT-AAGTAC
* * * *
43499153 AAACATGGGCATGTATGTGTACTCAGGGGTATCGAAGTA-
1 AAACAGGGGCACGTATGTGTATTCAGGGGTA-CTAAGTAC
* * * * *
43499192 AAATTAGGGGCACGGATATGTATTTAGGGGTACTGAAGTGC
1 AAA-CAGGGGCACGTATGTGTATTCAGGGGTACT-AAGTAC
* * * *
43499233 AAATAGGGGCGCGTATGTGCATTCAGGGGTATCGAAGTAC
1 AAACAGGGGCACGTATGTGTATTCAGGGGTA-CTAAGTAC
* * * * *
43499273 AATCAAGGGCACGTATGTGCATTTAAGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTGTATTCAGGGGTACT-AAGTAC
* *
43499313 AAACAGGGGCACATATGTGCATTCA
1 AAACAGGGGCACGTATGTGTATTCA
43499338 CTCAATAATT
Statistics
Matches: 206, Mismatches: 50, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
39 6 0.03
40 190 0.92
41 10 0.05
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (39 bp):
AAACAGGGGCACGTATGTGTATTCAGGGGTACTAAGTAC
Found at i:43499186 original size:80 final size:80
Alignment explanation
Indices: 43499053--43499323 Score: 391
Period size: 80 Copynumber: 3.4 Consensus size: 80
43499043 ACGTAAGTGC
43499053 ATTTAGGGGTACAT-AAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATT
1 ATTTAGGGGTAC-TGAAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATT
43499117 AGGGGCACGGATGTGT
65 AGGGGCACGGATGTGT
* * *
43499133 ATTTAGGGGTACTGAAATACAAACATGGGCATGTATGTGTACTCAGGGGTATCGAAGTAAAATTA
1 ATTTAGGGGTACTGAAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATTA
*
43499198 GGGGCACGGATATGT
66 GGGGCACGGATGTGT
* * ** * * *
43499213 ATTTAGGGGTACTGAAGTGCAAATAGGGGCGCGTATGTGCATTCAGGGGTATCGAAGTACAATCA
1 ATTTAGGGGTACTGAAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATTA
* * *
43499278 AGGGCACGTATGTGC
66 GGGGCACGGATGTGT
*
43499293 ATTTAAGGGTACTGAAGTACAAACAGGGGCA
1 ATTTAGGGGTACTGAAGTACAAACAGGGGCA
43499324 CATATGTGCA
Statistics
Matches: 168, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
79 1 0.01
80 167 0.99
ACGTcount: A:0.31, C:0.13, G:0.32, T:0.24
Consensus pattern (80 bp):
ATTTAGGGGTACTGAAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATTA
GGGGCACGGATGTGT
Found at i:43499303 original size:120 final size:120
Alignment explanation
Indices: 43499059--43499324 Score: 272
Period size: 120 Copynumber: 2.2 Consensus size: 120
43499049 GTGCATTTAG
* * * * * *
43499059 GGGTACAT-AAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATTAGGGGC
1 GGGTAC-TGAAGTACAAACAGGGGCACGGATATGTATTTAGGGGTATCGAAGTACAAATAGGGGC
* * * * * *
43499123 ACGGATGTGTATTTAGGGGTACTGAAATACAAACATGGGCATGTATGTGTACTCAG
65 ACGGATGTGCATTCAGGGGTACTGAAATACAAACAAGGGCACGTATGTGCACTCAA
* *
43499179 GGGTA-TCGAAGTA-AAATTAGGGGCACGGATATGTATTTAGGGGTA-CTGAAGTGCAAATAGGG
1 GGGTACT-GAAGTACAAA-CAGGGGCACGGATATGTATTTAGGGGTATC-GAAGTACAAATAGGG
* * * * * *
43499241 GCGCGTATGTGCATTCAGGGGTA-TCGAAGTACAATCAAGGGCACGTATGTGCATTTAA
63 GCACGGATGTGCATTCAGGGGTACT-GAAATACAAACAAGGGCACGTATGTGCACTCAA
43499299 GGGTACTGAAGTACAAACAGGGGCAC
1 GGGTACTGAAGTACAAACAGGGGCAC
43499325 ATATGTGCAT
Statistics
Matches: 118, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
118 1 0.01
119 5 0.04
120 108 0.92
121 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.24
Consensus pattern (120 bp):
GGGTACTGAAGTACAAACAGGGGCACGGATATGTATTTAGGGGTATCGAAGTACAAATAGGGGCA
CGGATGTGCATTCAGGGGTACTGAAATACAAACAAGGGCACGTATGTGCACTCAA
Found at i:43504127 original size:27 final size:27
Alignment explanation
Indices: 43504096--43504273 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43504086 TAAATTGTAC
43504096 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43504123 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43504149 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43504177 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43504205 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43504232 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43504259 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43504274 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43504210 original size:82 final size:81
Alignment explanation
Indices: 43504097--43504252 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43504087 AAATTGTACA
* *
43504097 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43504161 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43504178 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43504243 TGCGAGTTGA
65 TGCGAATTGA
43504253 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43504264 original size:82 final size:81
Alignment explanation
Indices: 43504093--43504273 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
43504083 GATTAAATTG
* *
43504093 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43504158 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43504174 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43504238 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43504256 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43504274 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43509984 original size:39 final size:40
Alignment explanation
Indices: 43509939--43510106 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
43509929 CGGGGTTTAG
* * *
43509939 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
43509978 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
43510018 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
43510058 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
43510099 CCGGATAT
1 CCGGATAT
43510107 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:43510089 original size:41 final size:40
Alignment explanation
Indices: 43509962--43510106 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
43509952 CTCGCACAAG
* * * * *
43509962 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
43510002 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
43510042 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
43510083 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
43510107 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:43517965 original size:39 final size:40
Alignment explanation
Indices: 43517920--43518086 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
43517910 CGGGGTTTAG
* * *
43517920 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
43517959 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
43517999 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* * * * * *
43518039 CCGGATGTAGTCC-TTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATA-ACCACTAGCATAAAGGCCTTCGGGACTTAAC
43518079 CCGGATAT
1 CCGGATAT
43518087 CATTCGAGTA
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 18 0.17
40 83 0.79
41 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:43517990 original size:40 final size:39
Alignment explanation
Indices: 43517943--43518086 Score: 182
Period size: 40 Copynumber: 3.6 Consensus size: 39
43517933 CTCGCACAAG
* * * *
43517943 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-CTAGCACAAAT
43517983 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-CTAGCACAAAT
* * *
43518023 GCCTTC-GGATCTTAGTCCGGATGTAGTCCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCC-TAGCACAAAT
43518063 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
43518087 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 4 0.04
40 84 0.92
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCCTAGCACAAAT
Found at i:43525154 original size:39 final size:40
Alignment explanation
Indices: 43525109--43525276 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
43525099 CGGGGTTTAG
* * *
43525109 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
43525148 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
43525188 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
43525228 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
43525269 CCGGATAT
1 CCGGATAT
43525277 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:43525259 original size:41 final size:40
Alignment explanation
Indices: 43525132--43525276 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
43525122 CTCGCACAAG
* * * * *
43525132 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
43525172 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
43525212 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
43525253 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
43525277 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:43539683 original size:27 final size:28
Alignment explanation
Indices: 43539631--43539683 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
43539621 ATACTGTAAG
* * *
43539631 GGGCTATGGCCCAGATTAAGATTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
43539659 GGGCTAAGGCCCA-ATTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
43539684 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:43542081 original size:19 final size:18
Alignment explanation
Indices: 43542057--43542101 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
43542047 TATATAATAA
*
43542057 AAATTTTAAGAATAAATTT
1 AAATTTTAACAAT-AATTT
* *
43542076 AAATTTTACCTATAATTT
1 AAATTTTAACAATAATTT
43542094 AAATTTTA
1 AAATTTTA
43542102 CTTATAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (18 bp):
AAATTTTAACAATAATTT
Found at i:43542094 original size:18 final size:18
Alignment explanation
Indices: 43542071--43542110 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
43542061 TTTAAGAATA
43542071 AATTTAAATTTTACCTAT
1 AATTTAAATTTTACCTAT
*
43542089 AATTTAAATTTTACTTAT
1 AATTTAAATTTTACCTAT
43542107 AATT
1 AATT
43542111 CTATTGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTTAAATTTTACCTAT
Found at i:43544851 original size:6 final size:6
Alignment explanation
Indices: 43544840--43544867 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
43544830 TAGTTTATTA
43544840 CACTTC CACTTC CACTTC CACTTC CACT
1 CACTTC CACTTC CACTTC CACTTC CACT
43544868 GATTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.50, G:0.00, T:0.32
Consensus pattern (6 bp):
CACTTC
Found at i:43545148 original size:16 final size:16
Alignment explanation
Indices: 43545110--43545180 Score: 81
Period size: 16 Copynumber: 4.4 Consensus size: 16
43545100 GTTTGGTTTA
*
43545110 CTGTAATAGAATAG-G
1 CTGTAATGGAATAGAG
* *
43545125 ACTATAATTGAATAGAG
1 -CTGTAATGGAATAGAG
*
43545142 CTGTAATGGAATAAAG
1 CTGTAATGGAATAGAG
*
43545158 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAG
43545174 CTGTAAT
1 CTGTAAT
43545181 CAGTAATTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
16 46 0.98
17 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:43545361 original size:25 final size:26
Alignment explanation
Indices: 43545328--43545377 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
43545318 TAGGTAGATG
*
43545328 ATTATTGTT-ATTAAATTTTAATAAT
1 ATTATTGTTAAATAAATTTTAATAAT
*
43545353 ATTATTGTTAAATATATTTTAATAA
1 ATTATTGTTAAATAAATTTTAATAA
43545378 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAT
Found at i:43545439 original size:61 final size:58
Alignment explanation
Indices: 43545353--43545478 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 58
43545343 TTTTAATAAT
* * * *
43545353 ATTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATAAATTTTAAT-AAAAT---AATAAATAATTTAATAACATTCTTAACATA
* *
43545414 ATTATTATTAAATACAATTTT-ATAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATA-AATTTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
43545472 ATTATTA
1 ATTATTA
43545479 ATAATATTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
57 18 0.32
58 14 0.25
60 5 0.09
61 15 0.26
62 5 0.09
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAATAAATTTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:43545495 original size:13 final size:12
Alignment explanation
Indices: 43545441--43545503 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
43545431 TTTTATAAAA
43545441 TAATATATAA-TT
1 TAATA-ATAATTT
*
43545453 TAATAA-CATTCT
1 TAATAATAATT-T
43545465 TAAT-ATAATTAT
1 TAATAATAATT-T
43545477 TAATAAT-A-TT
1 TAATAATAATTT
43545487 TAATAATAATTT
1 TAATAATAATTT
43545499 TAATA
1 TAATA
43545504 TAAAATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 9 0.21
11 5 0.12
12 26 0.62
13 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:43556821 original size:49 final size:49
Alignment explanation
Indices: 43556726--43556970 Score: 265
Period size: 49 Copynumber: 4.9 Consensus size: 49
43556716 TCTATTGTGA
* ** * *
43556726 GGTCACGTGTGTAGTACTAAGTGCAGGGAACTACGTGTATCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
43556775 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
** * * ** **
43556825 CGACCACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTTTCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
43556875 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
43556925 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
43556971 GCTTTGGCTA
Statistics
Matches: 159, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
49 80 0.50
50 44 0.28
51 35 0.22
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:43556922 original size:101 final size:99
Alignment explanation
Indices: 43556729--43556954 Score: 285
Period size: 101 Copynumber: 2.3 Consensus size: 99
43556719 ATTGTGAGGT
* * *
43556729 CACGTGTGTAGTACTAAGTGCAGG-GAACTACGTGTATCGGATAATTGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTAACTACGTGTATCAGATAATTGGTCACATGTGTAGTACT
* * *
43556793 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGAC
66 AAGTGCAGGCTACCACGCGTACCGGATAA-TT-GAC
* ** *
43556829 CACGTGTGTAGTACTAAGTGCAGGCTAA-TACGTGTTTCAGATGGTTAGGTCACGTGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTAACTACGTGTATCAGATAATT-GGTCACATGTGTAGTAC
* **
43556893 TAAGTGCAGGCTACCACGTGTACCGGATAATTGGT
65 TAAGTGCAGGCTACCACGCGTACCGGATAATTGAC
*
43556928 CACATGTGTAGTACTAAGTGCAGGCTA
1 CACGTGTGTAGTACTAAGTGCAGGCTA
43556955 CTATGCGTAC
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
99 27 0.25
100 40 0.36
101 43 0.39
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (99 bp):
CACGTGTGTAGTACTAAGTGCAGGCTAACTACGTGTATCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACCACGCGTACCGGATAATTGAC
Found at i:43572733 original size:18 final size:18
Alignment explanation
Indices: 43572684--43572733 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
43572674 TACAAAATAG
43572684 ACCCACT-ACCCAAACCT
1 ACCCACTAACCCAAACCT
*
43572701 ACCCAAC-AGACCCAAACTT
1 ACCC-ACTA-ACCCAAACCT
43572720 ACCCACTAACCCAA
1 ACCCACTAACCCAA
43572734 TACTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 14 0.50
ACGTcount: A:0.40, C:0.48, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:43574812 original size:24 final size:25
Alignment explanation
Indices: 43574784--43574848 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
43574774 TTTTTATATA
43574784 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
43574809 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
43574833 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
43574849 TTCAAATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:43582741 original size:12 final size:12
Alignment explanation
Indices: 43582724--43582749 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43582714 CATTCCGAAG
43582724 TATATATATACA
1 TATATATATACA
43582736 TATATATATACA
1 TATATATATACA
43582748 TA
1 TA
43582750 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:43583262 original size:27 final size:27
Alignment explanation
Indices: 43583231--43583407 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
43583221 TAAATTGTAC
43583231 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43583258 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43583284 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43583312 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43583340 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43583367 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43583394 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
43583408 AGACTCAATA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43583345 original size:82 final size:81
Alignment explanation
Indices: 43583232--43583387 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43583222 AAATTGTACA
* *
43583232 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43583296 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43583313 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43583378 TGCGAGTTGA
65 TGCGAATTGA
43583388 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43583399 original size:82 final size:81
Alignment explanation
Indices: 43583228--43583407 Score: 227
Period size: 82 Copynumber: 2.2 Consensus size: 81
43583218 GATTAAATTG
* *
43583228 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43583293 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43583309 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43583373 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43583391 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
43583408 AGACTCAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43591360 original size:27 final size:27
Alignment explanation
Indices: 43591329--43591506 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
43591319 TAAATTGTAC
43591329 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
43591356 TGCACTAAGTGTCCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43591382 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43591410 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43591438 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
43591465 AGCTCTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43591492 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43591507 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43591473 original size:82 final size:81
Alignment explanation
Indices: 43591330--43591485 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
43591320 AAATTGTACA
* *
43591330 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTCCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGATGCACTAAGTGT
43591395 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** * *
43591411 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCTCTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGAT-GCACTAAGT
*
43591475 GTGCGAGTTGA
64 GTGCGAATTGA
43591486 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43591497 original size:82 final size:81
Alignment explanation
Indices: 43591326--43591506 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
43591316 GATTAAATTG
* *
43591326 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTCCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGATGCACTAA
43591391 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** * *
43591407 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCTCT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGAT-GCACT
* **
43591471 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43591489 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43591507 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43596156 original size:107 final size:107
Alignment explanation
Indices: 43595970--43596183 Score: 410
Period size: 107 Copynumber: 2.0 Consensus size: 107
43595960 TGAGAAGAAA
*
43595970 ACCAATTGGCTGATGCTCTGGCCACTTTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
1 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
43596035 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
66 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
43596077 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
1 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
*
43596142 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTGCACATTGT
66 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
43596184 TTCAGCATTG
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (107 bp):
ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
Found at i:43598475 original size:74 final size:74
Alignment explanation
Indices: 43598350--43598824 Score: 399
Period size: 74 Copynumber: 6.2 Consensus size: 74
43598340 TGATGTTTTT
* ** * * * *
43598350 ATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGGGTTGAGCCTCAATAGACGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
43598413 GTATTTTCA
66 GTATTTTCA
* * *
43598422 ATTTCTGTCTTTCAAAAAAATCAACTCATA-TGTGAGAGGTGAGTTGATCCTCAAGACATGCTGA
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
43598486 GGTATTTTCA
65 GGTATTTTCA
* * ** *
43598496 ATTTCTGTTTGTC--AAAAATCAACTCAAATTGCGATAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 ATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
43598559 GGTATTTTCA
65 GGTATTTTCA
* * * *
43598569 ATTTTTGTTTTTTAATTTATGTTTCAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAA
1 ATTTCTG--TTTTCA---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* *** *
43598634 GTCATATTGAGGTATTCTCA
55 GACACGCTGAGGTATTTTCA
* ** **
43598654 A-TT-TATCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACACGCT
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACACGCT
43598716 GAGGTATTTTCA
63 GAGGTATTTTCA
** * *
43598728 ATTTCTACATTTCAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACG
1 ATTTCT-GTTTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
43598793 CTGAGGTATTTTCA
61 CTGAGGTATTTTCA
43598807 ATTTCTGTTTGTCAAAAA
1 ATTTCTGTTT-TCAAAAA
43598825 TCAATATTTT
Statistics
Matches: 320, Mismatches: 53, Indels: 57
0.74 0.12 0.13
Matches are distributed among these distances:
72 57 0.18
73 50 0.16
74 61 0.19
75 24 0.08
76 1 0.00
77 2 0.01
78 4 0.01
79 27 0.08
80 1 0.00
81 40 0.12
83 1 0.00
84 2 0.01
85 50 0.16
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
GTATTTTCA
Found at i:43598698 original size:72 final size:76
Alignment explanation
Indices: 43598594--43598810 Score: 232
Period size: 72 Copynumber: 2.9 Consensus size: 76
43598584 TTTATGTTTC
* * *
43598594 AAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAAG-TCATA-TTGAGGTATTCTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGCTCACACCTGAGGTATTCTCAATT
43598657 TAT-CA-TC-AA
65 TATACATTCAAA
* *
43598666 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACAC-CTGAGGTATTCTCAATT
*
43598731 TCTACATTTCAAAAAA
65 TATACA-TTC---AAA
* * * *
43598747 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACAC-CTGAGGTATTCTCAATT
43598810 T
65 T
43598811 CTGTTTGTCA
Statistics
Matches: 125, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
71 1 0.01
72 41 0.33
74 17 0.14
75 2 0.02
77 2 0.02
79 23 0.18
81 39 0.31
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACACCTGAGGTATTCTCAATTT
ATACATTCAAA
Found at i:43598798 original size:153 final size:153
Alignment explanation
Indices: 43598435--43598810 Score: 391
Period size: 153 Copynumber: 2.4 Consensus size: 153
43598425 TCTGTCTTTC
*
43598435 AAAAAAATCAACTCATATGT-GAGAGGTGAGTTGATCCTCAAGACATGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATAT-TCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
* ** *** * **
43598499 TCTGTTTGTCAAAAATCAACTCAAATTGCGATAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
65 TATGCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAT
* *** * *
43598564 TTTCAATTTTTGTTTTTTAATTTATGTT
130 TTTCAATTTCTACATTTCAA--TA--TA
** * * * ** *
43598592 TCAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTCTCAATT
1 AAAAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
* *
43598657 TAT-CATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGT
65 TATGCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGGT
43598721 ATTTTCAATTTCTACATTTCAA-A-A
128 ATTTTCAATTTCTACATTTCAATATA
* *
43598745 AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
43598810 T
65 T
43598811 CTGTTTGTCA
Statistics
Matches: 178, Mismatches: 37, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
153 55 0.31
156 2 0.01
157 53 0.30
158 40 0.22
159 28 0.16
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (153 bp):
AAAAAAATCAACTCATATTCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTT
ATGCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTATT
TTCAATTTCTACATTTCAATATA
Found at i:43598956 original size:86 final size:87
Alignment explanation
Indices: 43598666--43599081 Score: 430
Period size: 86 Copynumber: 4.8 Consensus size: 87
43598656 TTATCATCAA
*
43598666 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
* * *
43598731 TCTACATTTCAAA---A---A--A
66 TCT--GTTTTAAATTCATGTATTC
*
43598747 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAAT
* * *
43598809 TTCTGTTTGTCAAAAATCAATATTTTTC
65 TTCTGTTT-T--AAATTC-AT-GTATTC
* * * * *
43598837 ATAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
*
43598902 TCTGTTTT-ACTTCATGTATTC
66 TCTGTTTTAAATTCATGTATTC
**
43598923 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAAT
* * *
43598985 TTCTGTTTTCAATTTATGTTTTTC
65 TTCTGTTTTAAATTCATG-TATTC
* * * *
43599009 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
43599074 TCTGTTTT
66 TCTGTTTT
43599082 TAATATCTGT
Statistics
Matches: 282, Mismatches: 30, Indels: 39
0.80 0.09 0.11
Matches are distributed among these distances:
77 3 0.01
79 25 0.09
80 3 0.01
81 36 0.13
82 2 0.01
84 29 0.10
85 8 0.03
86 76 0.27
87 4 0.01
88 30 0.11
89 2 0.01
90 36 0.13
91 1 0.00
92 27 0.10
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
TCTGTTTTAAATTCATGTATTC
Found at i:43599010 original size:14 final size:13
Alignment explanation
Indices: 43598977--43599006 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43598967 CGCTGAGGTA
*
43598977 TTTTCAATTTCTG
1 TTTTCAATTTATG
43598990 TTTTCAATTTATG
1 TTTTCAATTTATG
43599003 TTTT
1 TTTT
43599007 TCAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:43599073 original size:172 final size:172
Alignment explanation
Indices: 43598666--43599081 Score: 581
Period size: 172 Copynumber: 2.4 Consensus size: 172
43598656 TTATCATCAA
* *
43598666 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
** * **
43598731 TC---TACATTTCAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACG
66 TCTGTTTTACTTCAAAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACG
43598793 CTGAGGTATTTTCAATTTCTGTTTGTCAAAAATCAATATTTTTC
131 CTGAGGTATTTTCAATTTCTGTTTGTC--AAATCAATATTTTTC
* * * *
43598837 ATAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
* *** *
43598902 TCTGTTTTACTTCATGTATTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
66 TCTGTTTTACTTCA--AAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACA
** *
43598967 CGCTGAGGTATTTTCAATTTCTGTTT-TC-AATTTATGTTTTTC
129 CGCTGAGGTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
*
43599009 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
43599074 TCTGTTTT
66 TCTGTTTT
43599082 TAATATCTGT
Statistics
Matches: 216, Mismatches: 24, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
171 61 0.28
172 79 0.37
174 6 0.03
175 2 0.01
176 68 0.31
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (172 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
TCTGTTTTACTTCAAAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
Done.