Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 160 of 349
Found at i:51715574 original size:18 final size:19
Alignment explanation
Indices: 51715541--51715576 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51715531 TTAAATTTAG
*
51715541 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
51715560 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
51715577 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:51716060 original size:64 final size:66
Alignment explanation
Indices: 51715980--51716141 Score: 186
Period size: 67 Copynumber: 2.5 Consensus size: 66
51715970 AGACATTATG
* * * *
51715980 ATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
*
51716043 T
66 A
* * * *
51716044 TTGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
51716109 AA
65 AA
* *
51716111 AT-TCGCTAGGTCACATGGGTGGTACTGAGTG
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTG
51716142 TTCAGTATCT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
64 23 0.29
66 24 0.30
67 32 0.41
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
A
Found at i:51720050 original size:40 final size:40
Alignment explanation
Indices: 51720006--51720132 Score: 184
Period size: 40 Copynumber: 3.1 Consensus size: 40
51719996 GGATTTAACT
*
51720006 GGATATAGCAAATCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
51720046 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
51720086 GGATATAGTC-ACTAGCACAAAGTGCCTTCGGGTCTTAGCCC
1 GGATATAG-CAACTCGCACAAA-TGCCTTCGGGACTTAGCCC
51720127 GGATAT
1 GGATAT
51720133 CATCCGAATA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 55 0.71
41 23 0.29
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
GGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:51722835 original size:27 final size:27
Alignment explanation
Indices: 51722771--51722835 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
51722761 TAACACCGAG
*
51722771 TAAGCATAAAAGAATAGTAAGTTCATA
1 TAAGCAGAAAAGAATAGTAAGTTCATA
* * **
51722798 TAAGCATAAAAGATTAGTAAGTTTGTA
1 TAAGCAGAAAAGAATAGTAAGTTCATA
*
51722825 TAATCAGAAAA
1 TAAGCAGAAAA
51722836 CAAAACTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.51, C:0.06, G:0.15, T:0.28
Consensus pattern (27 bp):
TAAGCAGAAAAGAATAGTAAGTTCATA
Found at i:51727972 original size:38 final size:38
Alignment explanation
Indices: 51727915--51727987 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
51727905 ATTCGGGTTC
* * *
51727915 AATCCTGCAGGCTTCGTGCTGGTATTATATCCGGGATA
1 AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGGATA
*
51727953 AATCCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGG
51727988 CCTTCGTGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (38 bp):
AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGGATA
Found at i:51728035 original size:43 final size:43
Alignment explanation
Indices: 51727980--51728134 Score: 238
Period size: 43 Copynumber: 3.6 Consensus size: 43
51727970 GCTGGTATTA
* * *
51727980 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTT
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
51728023 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
51728066 TATTCGGGCCTTCTTGCCTAGCAGGGTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
51728109 TATTCGGGCCTTCGTGCCTAACAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
51728135 GTAATACCGA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.13, C:0.25, G:0.31, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:51729782 original size:48 final size:48
Alignment explanation
Indices: 51729687--51729790 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 48
51729677 TGTGCTAAGC
* * **
51729687 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
**
51729735 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAACTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAACTAGT
*
51729783 ATAAGACC
1 GTAAGACC
51729791 ATAGTTGGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 8 0.17
48 39 0.83
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
Found at i:51733476 original size:38 final size:38
Alignment explanation
Indices: 51733419--51733491 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
51733409 ATTTGGGTTC
* * *
51733419 AATCCTGCAGGCTTCGTGCTGGTATTATATCCGGGATA
1 AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGGATA
*
51733457 AATCCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGG
51733492 CCTTCGTGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (38 bp):
AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGGATA
Found at i:51733540 original size:43 final size:43
Alignment explanation
Indices: 51733463--51733647 Score: 232
Period size: 43 Copynumber: 4.3 Consensus size: 43
51733453 GATAAATCCC
* * *
51733463 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * **
51733504 GCAGGCTTAGTGCCAGTAATGTGTATTCAAGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
51733547 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
51733590 GCAGGGTTCA-TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTT-AGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
51733633 ACAGGCGTAATGCCG
1 GCAGGCTTAGTGCCG
51733648 ATGAAATGAT
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
41 14 0.11
42 3 0.02
43 107 0.86
ACGTcount: A:0.15, C:0.24, G:0.31, T:0.29
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:51738085 original size:29 final size:29
Alignment explanation
Indices: 51738050--51738188 Score: 140
Period size: 29 Copynumber: 4.8 Consensus size: 29
51738040 TGAATATAAG
* *
51738050 GTGATTTGGGCCTAATGGGCCATATAAAA
1 GTGAATTGGGCCTAATGGGCCATATAAAT
* * *
51738079 GTGATTTGGGCCTAATAGGCCATCTAAAT
1 GTGAATTGGGCCTAATGGGCCATATAAAT
* *
51738108 GTGAAATTGGGCCTGATGGGCCATATGAAT
1 GTG-AATTGGGCCTAATGGGCCATATAAAT
** *
51738138 GTGAATCAGGCC-GATGGGCCATATAAAT
1 GTGAATTGGGCCTAATGGGCCATATAAAT
*
51738166 GAG-ATTGGGCC-AAGTGGGCCATA
1 GTGAATTGGGCCTAA-TGGGCCATA
51738189 CACATGTATG
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
27 7 0.08
28 26 0.28
29 36 0.39
30 24 0.26
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATAAAT
Found at i:51738183 original size:28 final size:27
Alignment explanation
Indices: 51738055--51738188 Score: 97
Period size: 28 Copynumber: 4.7 Consensus size: 27
51738045 ATAAGGTGAT
* *
51738055 TTGGGCCTAATGGGCCATATAAAAGTGA
1 TTGGGCC-AATGGGCCATATAAATGAGA
* * *
51738083 TTTGGGCCTAATAGGCCATCTAAATGTGAAA
1 -TTGGGCC-AATGGGCCATATAAA--TGAGA
* * *
51738114 TTGGGCCTGATGGGCCATATGAATGTGAA
1 TTGGGCC-AATGGGCCATATAAATGAG-A
** *
51738143 TCAGGCCGATGGGCCATATAAATGAGA
1 TTGGGCCAATGGGCCATATAAATGAGA
51738170 TTGGGCCAAGTGGGCCATA
1 TTGGGCCAA-TGGGCCATA
51738189 CACATGTATG
Statistics
Matches: 83, Mismatches: 18, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
27 7 0.08
28 28 0.34
29 27 0.33
30 19 0.23
31 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (27 bp):
TTGGGCCAATGGGCCATATAAATGAGA
Found at i:51741262 original size:27 final size:27
Alignment explanation
Indices: 51741232--51741381 Score: 147
Period size: 27 Copynumber: 5.5 Consensus size: 27
51741222 AAATTGTACA
*
51741232 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
* ** * *
51741259 GCACTCAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
51741286 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
* *
51741313 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* * *
51741341 GCACTAAGTGTGCGATTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
51741368 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
51741382 GGCTCAATAT
Statistics
Matches: 101, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 79 0.78
28 22 0.22
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:51741345 original size:82 final size:81
Alignment explanation
Indices: 51741232--51741381 Score: 203
Period size: 82 Copynumber: 1.8 Consensus size: 81
51741222 AAATTGTACA
* * *
51741232 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
51741296 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** * *
51741313 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTATATAGCACTGAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
51741378 TGCG
65 TGCG
51741382 GGCTCAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
81 16 0.27
82 43 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:51741372 original size:55 final size:53
Alignment explanation
Indices: 51741231--51741381 Score: 158
Period size: 55 Copynumber: 2.8 Consensus size: 53
51741221 TAAATTGTAC
* * *
51741231 AGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
* * ** ** *
51741284 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTGACTATG
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-AATGAATATG
* * *
51741339 TAGCACTAAGTGTGCGATTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCG
51741382 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
53 1 0.01
54 36 0.46
55 41 0.52
56 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
Found at i:51748233 original size:27 final size:25
Alignment explanation
Indices: 51748198--51748292 Score: 91
Period size: 27 Copynumber: 3.6 Consensus size: 25
51748188 AGCATGGCTG
*
51748198 CCAGAACAGATAATGTGAAGGAGTCA
1 CCAGAACAGATAATGTGAA-GAGCCA
*
51748224 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GT-GAAGAGCCA
* *
51748252 CCAGAACAGATATATGTGGCAGAGCTA
1 CCAGAACAGATA-ATGT-GAAGAGCCA
*
51748279 CCAGATCAGATAAT
1 CCAGAACAGATAAT
51748293 TTGTGGCATA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
26 7 0.11
27 38 0.62
28 14 0.23
29 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (25 bp):
CCAGAACAGATAATGTGAAGAGCCA
Found at i:51748299 original size:55 final size:54
Alignment explanation
Indices: 51748198--51748310 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 54
51748188 AGCATGGCTG
51748198 CCAGAACAGATAATGTGAAGGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGAAGGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
51748252 CCAGAACAGATATATGTGGCA-GAG-CTACCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGT-GAAGGAGTC-ACCAGATACAGATAA-TCGTGGCAGAGCCA
51748307 CCAG
1 CCAG
51748311 GACACTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
54 20 0.38
55 30 0.58
56 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGAAGGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:51748309 original size:28 final size:28
Alignment explanation
Indices: 51748222--51748310 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 28
51748212 GTGAAGGAGT
*
51748222 CACCAGATACAGATAA-TCGTGGCAGAGC
1 CACCAGAT-CAGATAATTTGTGGCAGAGC
* *
51748250 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGATCAGATAATTTGTGGCAGAGC
* *
51748277 TACCAGATCAGATAATTTGTGGCATAGC
1 CACCAGATCAGATAATTTGTGGCAGAGC
51748305 CACCAG
1 CACCAG
51748311 GACACTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 26 0.51
28 24 0.47
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (28 bp):
CACCAGATCAGATAATTTGTGGCAGAGC
Found at i:51749880 original size:16 final size:16
Alignment explanation
Indices: 51749859--51749890 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
51749849 CCAAATGCCA
51749859 TACTGAAGTTCAACCG
1 TACTGAAGTTCAACCG
51749875 TACTGAAGTTCAACCG
1 TACTGAAGTTCAACCG
51749891 CGTGAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (16 bp):
TACTGAAGTTCAACCG
Found at i:51749898 original size:15 final size:15
Alignment explanation
Indices: 51749860--51749899 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
51749850 CAAATGCCAT
51749860 ACTGAAGTTCAACCG
1 ACTGAAGTTCAACCG
51749875 TACTGAAGTTCAACCG
1 -ACTGAAGTTCAACCG
51749891 -CGTGAAGTT
1 AC-TGAAGTT
51749900 TGGGGATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.04
15 7 0.30
16 15 0.65
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (15 bp):
ACTGAAGTTCAACCG
Found at i:51755020 original size:28 final size:27
Alignment explanation
Indices: 51754971--51755083 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
51754961 AGCATAGCTG
* *
51754971 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
51754997 ACAGATACAGGTAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
51755025 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
51755052 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA-TTGTGGCAGAGCCA
51755080 CCAG
1 CCAG
51755084 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.08
27 35 0.47
28 32 0.43
29 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:51755057 original size:55 final size:54
Alignment explanation
Indices: 51754971--51755083 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
51754961 AGCATAGCTG
* *
51754971 CCAGAACAGATAATGTGACAGAGTCAACAGATACAGGTAA-TTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCAACAGAT-CAGATAATTTGTGGCAGAGCCA
* * *
51755025 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCAACAGATCAGATAATTTGTGGCAGAGCCA
51755080 CCAG
1 CCAG
51755084 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 18 0.35
55 34 0.65
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCAACAGATCAGATAATTTGTGGCAGAGCCA
Found at i:51762633 original size:28 final size:26
Alignment explanation
Indices: 51762578--51762689 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 26
51762568 AGCATGGCTG
* *
51762578 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
51762604 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
51762632 CCAGAACATATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
51762659 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
51762687 CCA
1 CCA
51762690 AGACGCTCCC
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.49
28 32 0.43
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:51762661 original size:55 final size:54
Alignment explanation
Indices: 51762578--51762689 Score: 154
Period size: 55 Copynumber: 2.1 Consensus size: 54
51762568 AGCATGGCTG
*
51762578 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * * *
51762632 CCAGAACATATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
51762687 CCA
1 CCA
51762690 AGACGCTCCC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:51766477 original size:56 final size:56
Alignment explanation
Indices: 51766346--51766479 Score: 205
Period size: 56 Copynumber: 2.4 Consensus size: 56
51766336 TAGACAGGGT
* * * *
51766346 CTTAGTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACATGGT
1 CTTACTCGCACACATATATTGAAGTCACATATCGATGCCAACGTATTAAACATGGC
* * *
51766402 CTTACTTGCACACATATATTGAAGTCACATATCGATGCCAACGTCTTAAACGTGGC
1 CTTACTCGCACACATATATTGAAGTCACATATCGATGCCAACGTATTAAACATGGC
51766458 CTTACTCGCACACATATATTGA
1 CTTACTCGCACACATATATTGA
51766480 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (56 bp):
CTTACTCGCACACATATATTGAAGTCACATATCGATGCCAACGTATTAAACATGGC
Found at i:51770468 original size:20 final size:20
Alignment explanation
Indices: 51770423--51770468 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
51770413 TGACAATAGT
*
51770423 AAAAAATTATGAAAAAAGAA
1 AAAAAATTATGAAAAAACAA
*
51770443 AAAAAATTA-GAAATAACAA
1 AAAAAATTATGAAAAAACAA
51770462 AATAAAA
1 AA-AAAA
51770469 ATAAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (20 bp):
AAAAAATTATGAAAAAACAA
Found at i:51770472 original size:14 final size:13
Alignment explanation
Indices: 51770443--51770526 Score: 53
Period size: 14 Copynumber: 6.1 Consensus size: 13
51770433 GAAAAAAGAA
*
51770443 AAAAAATTAGAAAT
1 AAAAAA-TAAAAAT
51770457 AACAAAATAAAAAT
1 AA-AAAATAAAAAT
*
51770471 AAAAACTAAAATGAT
1 AAAAAATAAAA--AT
* **
51770486 AAAATATATGAA-
1 AAAAAATAAAAAT
*
51770498 AAAAATTAAAATAT
1 AAAAAATAAAA-AT
51770512 AAAAAATTAAAAAT
1 AAAAAA-TAAAAAT
51770526 A
1 A
51770527 TAAGCATAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
12 7 0.13
13 10 0.19
14 18 0.34
15 18 0.34
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:51770482 original size:26 final size:26
Alignment explanation
Indices: 51770444--51770526 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 26
51770434 AAAAAAGAAA
*
51770444 AAAAATTAGAAATAACAAAATAAAAAT
1 AAAAATTA-AAATAAAAAAATAAAAAT
* * **
51770471 AAAAACTAAAATGATAAAATATATGAA-
1 AAAAATTAAAAT-A-AAAAAATAAAAAT
51770498 AAAAATTAAAATATAAAAAATTAAAAAT
1 AAAAATTAAAATA-AAAAAA-TAAAAAT
51770526 A
1 A
51770527 TAAGCATAAG
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
26 11 0.26
27 23 0.53
28 9 0.21
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (26 bp):
AAAAATTAAAATAAAAAAATAAAAAT
Found at i:51770517 original size:15 final size:16
Alignment explanation
Indices: 51770497--51770529 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
51770487 AAATATATGA
51770497 AAAAAATT-AAAATAT
1 AAAAAATTAAAAATAT
51770512 AAAAAATTAAAAATAT
1 AAAAAATTAAAAATAT
51770528 AA
1 AA
51770530 GCATAAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATTAAAAATAT
Found at i:51774659 original size:30 final size:30
Alignment explanation
Indices: 51774625--51774681 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
51774615 CACGGACTGG
51774625 CACATGGGCGTA-TGGCCAGCCCATGTGGCT
1 CACATGGGCG-AGTGGCCAGCCCATGTGGCT
* *
51774655 CACATGGGTGAGTGGCCAGCCCGTGTG
1 CACATGGGCGAGTGGCCAGCCCATGTG
51774682 AAAATGCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.16, C:0.28, G:0.37, T:0.19
Consensus pattern (30 bp):
CACATGGGCGAGTGGCCAGCCCATGTGGCT
Found at i:51783552 original size:9 final size:9
Alignment explanation
Indices: 51783538--51783612 Score: 60
Period size: 9 Copynumber: 7.9 Consensus size: 9
51783528 TAAGTTGAAG
51783538 AAAATAAAA
1 AAAATAAAA
51783547 AAAATAAAA
1 AAAATAAAA
* *
51783556 CAACTAAAA
1 AAAATAAAA
51783565 CAAAATTAAAA
1 -AAAA-TAAAA
* *
51783576 AGAAAGATAA
1 A-AAATAAAA
*
51783586 AAAATAATA
1 AAAATAAAA
51783595 AAAATAATAA
1 AAAATAA-AA
*
51783605 ATAATAAA
1 AAAATAAA
51783613 TAATAAACTC
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
9 29 0.57
10 14 0.27
11 8 0.16
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.16
Consensus pattern (9 bp):
AAAATAAAA
Found at i:51783598 original size:23 final size:23
Alignment explanation
Indices: 51783538--51783619 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
51783528 TAAGTTGAAG
* *
51783538 AAAATAAAAAAAATAAAACAACTAA
1 AAAATAATAAAAATAATA-AA-TAA
* *
51783563 AACAA-AATTAAAAAGAA-AGATAA
1 AA-AATAA-TAAAAATAATAAATAA
51783586 AAAATAATAAAAATAATAAATAA
1 AAAATAATAAAAATAATAAATAA
*
51783609 TAAATAATAAA
1 AAAATAATAAA
51783620 CTCAATGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
22 10 0.21
23 22 0.47
24 1 0.02
25 5 0.11
26 9 0.19
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (23 bp):
AAAATAATAAAAATAATAAATAA
Found at i:51783616 original size:7 final size:7
Alignment explanation
Indices: 51783582--51783619 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
51783572 AAAAAGAAAG
*
51783582 ATAAAAA
1 ATAAATA
51783589 AT-AATA
1 ATAAATA
51783595 A-AAATA
1 ATAAATA
51783601 ATAAATA
1 ATAAATA
51783608 ATAAATA
1 ATAAATA
51783615 ATAAA
1 ATAAA
51783620 CTCAATGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 9 0.32
7 19 0.68
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
ATAAATA
Found at i:51783713 original size:14 final size:15
Alignment explanation
Indices: 51783694--51783769 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 15
51783684 AAAAAATTAG
*
51783694 AAATAACAA-AATAA
1 AAATAAAAATAATAA
51783708 AAATAAAAATAAT-A
1 AAATAAAAATAATAA
51783722 AAATGAAATATATAA-AA
1 AAAT-AAA-A-ATAATAA
51783739 AAATTAAAAAT-ATAA
1 AAA-TAAAAATAATAA
** *
51783754 GTATAAGAATAATAA
1 AAATAAAAATAATAA
51783769 A
1 A
51783770 TTAATTAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.41
15 15 0.31
16 2 0.04
17 11 0.22
18 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (15 bp):
AAATAAAAATAATAA
Found at i:51783736 original size:23 final size:20
Alignment explanation
Indices: 51783694--51783739 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
51783684 AAAAAATTAG
*
51783694 AAATAACAAAATAAAAATAA
1 AAATAATAAAATAAAAATAA
51783714 AAATAATAAAATGAAATATATAA
1 AAATAATAAAAT-AAA-A-ATAA
51783737 AAA
1 AAA
51783740 AATTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 3 0.14
22 1 0.05
23 7 0.32
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (20 bp):
AAATAATAAAATAAAAATAA
Found at i:51783741 original size:17 final size:17
Alignment explanation
Indices: 51783712--51783753 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
51783702 AAATAAAAAT
*
51783712 AAAA-ATAATAAAATGA
1 AAAATATAAAAAAATGA
* *
51783728 AATATATAAAAAAATTA
1 AAAATATAAAAAAATGA
51783745 AAAATATAA
1 AAAATATAA
51783754 GTATAAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAATATAAAAAAATGA
Found at i:51784644 original size:61 final size:63
Alignment explanation
Indices: 51784511--51784644 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 63
51784501 ACTGGGCCTA
* *
51784511 AGCCCTATT-CAGAAATCAGAGTTAATTGGGCCTTAGCCCATATCAATATTAATCTAGGCCAT
1 AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCAT
* * * * * *
51784573 AGCCC-CTTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAATCTGGGTCGT
1 AGCCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCAT
51784633 AGCCCTATTACA
1 AGCCCTATTACA
51784645 AGTCATGATA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
60 31 0.52
61 21 0.35
62 8 0.13
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (63 bp):
AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCAT
Found at i:51793752 original size:42 final size:42
Alignment explanation
Indices: 51793705--51793819 Score: 108
Period size: 42 Copynumber: 2.8 Consensus size: 42
51793695 TGACATTAGG
* *
51793705 GTTATGAG-TTTACGTGTAAGACCATATCTGGGATATGGAATC
1 GTTATGAGATTT-CGTGTAAGACAATATCTGGGACATGGAATC
* * *
51793747 GTTATGAGATTTTGTGTAAGACAATGTCTGGGACATGGCATC
1 GTTATGAGATTTCGTGTAAGACAATATCTGGGACATGGAATC
** * * * *
51793789 AATATGAAAATT-GTGTAAGACCATAGCTGGG
1 GTTATGAGATTTCGTGTAAGACAATATCTGGG
51793820 CTATTGGCAT
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 16 0.27
42 41 0.68
43 3 0.05
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.31
Consensus pattern (42 bp):
GTTATGAGATTTCGTGTAAGACAATATCTGGGACATGGAATC
Found at i:51793819 original size:41 final size:42
Alignment explanation
Indices: 51793718--51793819 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
51793708 ATGAGTTTAC
* * ** **
51793718 GTGTAAGACCATATCTGGGATATGGAATCGTTATGAGATTTT
1 GTGTAAGACCATAGCTGGGACATGGAATCAATATGAGAAATT
* *
51793760 GTGTAAGACAAT-GTCTGGGACATGGCATCAATATGA-AAATT
1 GTGTAAGACCATAG-CTGGGACATGGAATCAATATGAGAAATT
51793801 GTGTAAGACCATAGCTGGG
1 GTGTAAGACCATAGCTGGG
51793820 CTATTGGCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
41 19 0.39
42 30 0.61
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGACATGGAATCAATATGAGAAATT
Found at i:51793829 original size:42 final size:42
Alignment explanation
Indices: 51793718--51793839 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 42
51793708 ATGAGTTTAC
* * * ** **
51793718 GTGTAAGACCATATCTGGGATATGGAATCGTTATGAGATTTT
1 GTGTAAGACCATAGCTGGGCTATGGCATCAATATGAGAAATT
*
51793760 GTGTAAGACAAT-GTCTGGGAC-ATGGCATCAATATGA-AAATT
1 GTGTAAGACCATAG-CTGGG-CTATGGCATCAATATGAGAAATT
**
51793801 GTGTAAGACCATAGCTGGGCTATTGGCATTGATATGAGA
1 GTGTAAGACCATAGCTGGGCTA-TGGCATCAATATGAGA
51793840 TCCCATGTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
40 1 0.02
41 20 0.32
42 41 0.65
43 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCAATATGAGAAATT
Found at i:51801568 original size:39 final size:38
Alignment explanation
Indices: 51801456--51801583 Score: 130
Period size: 39 Copynumber: 3.3 Consensus size: 38
51801446 CTTTAACCCG
* * *
51801456 GATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
1 GATATTTTTCCAGCATGTAGCCTGCGGA-CTCATGTCCA
* ** * *
51801495 GATATATTTATAGCATATAGCCTGCAGATCTCATGTCCA
1 GATATTTTTCCAGCATGTAGCCTGCGGA-CTCATGTCCA
* *
51801534 GATATTTTTCCAGCATGTAGCCTGTGGACATCATGTTCA
1 GATATTTTTCCAGCATGTAGCCTGCGGAC-TCATGTCCA
51801573 GATATATTTTC
1 GATAT-TTTTC
51801584 AATCTTATAC
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
38 1 0.01
39 65 0.92
40 5 0.07
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (38 bp):
GATATTTTTCCAGCATGTAGCCTGCGGACTCATGTCCA
Found at i:51809351 original size:39 final size:39
Alignment explanation
Indices: 51809308--51809432 Score: 178
Period size: 39 Copynumber: 3.2 Consensus size: 39
51809298 GGTCTTTAAC
* *
51809308 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATGTAGCCTGCGGACCTCATGT
* ** * *
51809347 CCGGATATATTTATAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATGTAGCCTGCGGACCTCATGT
*
51809386 CCGGATATTTTTCCAGCATGTAGCCTGCAGACCTCATGT
1 CCGGATATTTTTCCAGCATGTAGCCTGCGGACCTCATGT
51809425 CCGGATAT
1 CCGGATAT
51809433 ACTTTCAATC
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATGTAGCCTGCGGACCTCATGT
Found at i:51812361 original size:35 final size:35
Alignment explanation
Indices: 51812315--51812387 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
51812305 CCATGGTTTG
51812315 ATGCCTCATAGCATGCTACAAACTCTACTACCATA
1 ATGCCTCATAGCATGCTACAAACTCTACTACCATA
*
51812350 ATGCCTCATAGCATGCTACAAACTCTACTGCCATA
1 ATGCCTCATAGCATGCTACAAACTCTACTACCATA
51812385 ATG
1 ATG
51812388 GAAGAAGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26
Consensus pattern (35 bp):
ATGCCTCATAGCATGCTACAAACTCTACTACCATA
Found at i:51818987 original size:68 final size:67
Alignment explanation
Indices: 51818915--51819066 Score: 166
Period size: 67 Copynumber: 2.3 Consensus size: 67
51818905 CATCATGTGT
* * * * *
51818915 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGA-A-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
51818978 TGTAG
63 TGTAG
* * * *
51818983 ACAAGATAGCTACGAG-ATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACTATG
1 ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATG
51819047 TAG
65 TAG
51819050 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
51819067 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
64 23 0.33
65 3 0.04
66 3 0.04
67 26 0.37
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGT
AG
Found at i:51822581 original size:17 final size:17
Alignment explanation
Indices: 51822559--51822601 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
51822549 ATTTCATTTA
**
51822559 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
51822576 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
51822593 AAAT-TCAAT
1 AAATGTCAAT
51822602 GCAAACATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:51823900 original size:50 final size:51
Alignment explanation
Indices: 51823835--51823965 Score: 173
Period size: 50 Copynumber: 2.6 Consensus size: 51
51823825 CGGATACCCG
* *
51823835 GTGGCCTGCAGATAGTACCACCCTTGTAGTCAAAGCTA-C-TTCTTCACAAA
1 GTGGCCTTCACATAGTACCA-CCTTGTAGTCAAAGCTATCTTTCTTCACAAA
*
51823885 GTGGCCTTCACATAGTACCA-CTTGT-GACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACCTTGTAG-TCAAAGCTATCTTTCTTCACAAA
51823935 GTGGCCTTCACATAGTACCACACTTG-AGTCA
1 GTGGCCTTCACATAGTACCAC-CTTGTAGTCA
51823966 CTAGTGACAT
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
47 1 0.01
48 13 0.18
49 1 0.01
50 49 0.69
51 2 0.03
52 5 0.07
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACCTTGTAGTCAAAGCTATCTTTCTTCACAAA
Found at i:51827539 original size:47 final size:47
Alignment explanation
Indices: 51827488--51827662 Score: 251
Period size: 47 Copynumber: 3.7 Consensus size: 47
51827478 AACTAATAAG
* * ** * ** *
51827488 TACCTATACCATGGCCCGTAACCAAATCAAGGTAACTTATCCCGGAG
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCTAAA
*
51827535 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTAAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCTAAA
*
51827582 TACCTATATCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCTAAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCTAAA
*
51827629 TACCTATATCATGGCCCATAGCCAAATCAAGGTA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTA
51827663 TTATTCACAC
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 119 1.00
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCTAAA
Found at i:51835713 original size:25 final size:24
Alignment explanation
Indices: 51835671--51835718 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
51835661 GCTTTATCAT
*
51835671 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGGAGGCATAGCC-CTTTTA
51835696 ATAACTGG-GGCATAAGCCCTTTT
1 ATAACTGGAGGCAT-AGCCCTTTT
51835719 TCGGTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGAGGCATAGCCCTTTTA
Found at i:51838735 original size:28 final size:27
Alignment explanation
Indices: 51838675--51838829 Score: 247
Period size: 27 Copynumber: 5.7 Consensus size: 27
51838665 GTTTAAATTG
*
51838675 TGTAGCACTAAGTGTGCGAATTGACTA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
51838702 TGTAGCACTAAGTGTGCGAGTTTGACTA
1 TGTAGCACTAAGTGTGCGAG-TTGACTA
51838730 TGTAGCACTAAGTGTGCGAGTTGACTA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
*
51838757 TGTAGCACTAAGTGTGCGAGTTTGATTA
1 TGTAGCACTAAGTGTGCGAG-TTGACTA
*
51838785 TGTAGCACTAAGTGTGCGAGTTGATTA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
* *
51838812 TATAGCACTGAGTGTGCG
1 TGTAGCACTAAGTGTGCG
51838830 GACTTAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 69 0.57
28 53 0.43
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (27 bp):
TGTAGCACTAAGTGTGCGAGTTGACTA
Found at i:51838742 original size:55 final size:55
Alignment explanation
Indices: 51838675--51838829 Score: 265
Period size: 55 Copynumber: 2.8 Consensus size: 55
51838665 GTTTAAATTG
*
51838675 TGTAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTA
1 TGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTA
*
51838730 TGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTA
1 TGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTA
* * *
51838785 TGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 TGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
51838830 GACTTAATAT
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 95 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (55 bp):
TGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTA
Found at i:51846735 original size:28 final size:27
Alignment explanation
Indices: 51846678--51846829 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
51846668 TAAATTGTGC
*
51846678 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
51846705 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
51846733 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
51846760 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
51846788 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
51846815 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51846830 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:51846742 original size:55 final size:55
Alignment explanation
Indices: 51846678--51846829 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
51846668 TAAATTGTGC
*
51846678 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
51846733 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
51846788 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
51846830 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:51855063 original size:40 final size:40
Alignment explanation
Indices: 51855004--51855085 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
51854994 AATAGATGCA
*
51855004 AAACTTGAATTCTATAAGTTAAAGGTGTCTAATTGTTATG
1 AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
51855044 AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
1 AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
51855084 AA
1 AA
51855086 GTTTTAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (40 bp):
AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
Found at i:51855287 original size:21 final size:21
Alignment explanation
Indices: 51855262--51855301 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
51855252 CCCCCATAGT
51855262 AGAAAATTTCAAGGGAAGAGC
1 AGAAAATTTCAAGGGAAGAGC
51855283 AGAAAATTTCAAGGGAAGA
1 AGAAAATTTCAAGGGAAGA
51855302 CATAGTTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.28, T:0.15
Consensus pattern (21 bp):
AGAAAATTTCAAGGGAAGAGC
Found at i:51855572 original size:21 final size:22
Alignment explanation
Indices: 51855546--51855586 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
51855536 CTCTTAACAC
*
51855546 AGGGGT-ACACGCCCTTGTGGA
1 AGGGGTAACACGCCCGTGTGGA
51855567 AGGGGTAACACGCCCGTGTG
1 AGGGGTAACACGCCCGTGTG
51855587 ACATTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.24, G:0.39, T:0.17
Consensus pattern (22 bp):
AGGGGTAACACGCCCGTGTGGA
Found at i:51870321 original size:12 final size:12
Alignment explanation
Indices: 51870306--51870330 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51870296 AATATTAAAT
51870306 ATAATAAAATAA
1 ATAATAAAATAA
51870318 ATAATAAAATAA
1 ATAATAAAATAA
51870330 A
1 A
51870331 AAGTACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAATAAAATAA
Found at i:51871663 original size:39 final size:39
Alignment explanation
Indices: 51871609--51871688 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
51871599 TAGCCACATG
51871609 TTACACTGTTTATTTTTACTATTCTTCCTATTGTTTCTT
1 TTACACTGTTTATTTTTACTATTCTTCCTATTGTTTCTT
51871648 TTACACTGTTTATTTTTACTATTCTTCCTATTGTTTCTT
1 TTACACTGTTTATTTTTACTATTCTTCCTATTGTTTCTT
51871687 TT
1 TT
51871689 GCGTGTTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.15, C:0.17, G:0.05, T:0.62
Consensus pattern (39 bp):
TTACACTGTTTATTTTTACTATTCTTCCTATTGTTTCTT
Found at i:51873266 original size:39 final size:40
Alignment explanation
Indices: 51873223--51873444 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
51873213 TCCTCGTTCA
* * * * *
51873223 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
51873262 AATGCCTTCGGGAC-TAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
51873301 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
51873341 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
51873381 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
51873421 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
51873445 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 19 0.12
39 31 0.19
40 101 0.64
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:51873453 original size:41 final size:41
Alignment explanation
Indices: 51873376--51873453 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
51873366 TTAGTATCTC
* * *
51873376 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
51873417 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
51873454 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:51881141 original size:39 final size:40
Alignment explanation
Indices: 51881098--51881319 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
51881088 TCCTCGTTCA
* * * * *
51881098 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
51881137 AATGCCTTCGGGAC-TAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
51881176 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
51881216 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
51881256 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
51881296 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
51881320 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 19 0.12
39 31 0.19
40 101 0.64
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:51881328 original size:41 final size:41
Alignment explanation
Indices: 51881251--51881328 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
51881241 TTAGTATCTC
* * *
51881251 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
51881292 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
51881329 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:51885962 original size:25 final size:25
Alignment explanation
Indices: 51885934--51886010 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
51885924 TAATGGCCGA
51885934 TGTGATGAATGTGAAAGTGTATATG
1 TGTGATGAATGTGAAAGTGTATATG
* *** ***
51885959 TGTGAT-AAGGCCTAA-TGCCGA--
1 TGTGATGAATGTGAAAGTGTATATG
51885980 TGTGATGAATGTGAAAGTGTATATG
1 TGTGATGAATGTGAAAGTGTATATG
51886005 TGTGAT
1 TGTGAT
51886011 AATAGCCGAT
Statistics
Matches: 34, Mismatches: 14, Indels: 8
0.61 0.25 0.14
Matches are distributed among these distances:
21 6 0.18
22 5 0.15
23 6 0.18
24 5 0.15
25 12 0.35
ACGTcount: A:0.30, C:0.05, G:0.31, T:0.34
Consensus pattern (25 bp):
TGTGATGAATGTGAAAGTGTATATG
Found at i:51886063 original size:47 final size:47
Alignment explanation
Indices: 51886010--51886287 Score: 432
Period size: 47 Copynumber: 5.9 Consensus size: 47
51886000 ATATGTGTGA
*
51886010 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
51886057 TAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
51886104 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
51886151 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
**
51886198 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-CGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * * *
51886244 GAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
51886288 TCCCGAAGGG
Statistics
Matches: 214, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 37 0.17
47 177 0.83
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:51886147 original size:94 final size:93
Alignment explanation
Indices: 51885917--51886287 Score: 542
Period size: 94 Copynumber: 4.0 Consensus size: 93
51885907 GAAATGATAG
*
51885917 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGCCGATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
*
51885982 TGATGAATGTGAAAGTGTATATGTGTGA
66 TGATGAATGTGAAAGTGTATATATGTGA
51886010 TAA----T-A--GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGAT
*
51886068 GTGATGAATGCGAAAGTGTATATATGTGA
65 GTGATGAATGTGAAAGTGTATATATGTGA
*
51886097 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGAT
51886162 GTGATGAATGTGAAAGTGTATATATGTGA
65 GTGATGAATGTGAAAGTGTATATATGTGA
** * * * *
51886191 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-CGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGAT
* * *
51886255 GTGATGGATGTGAAAGTGCATAAATGTGA
65 GTGATGAATGTGAAAGTGTATATATGTGA
51886284 TAAG
1 TAAG
51886288 TCCCGAAGGG
Statistics
Matches: 254, Mismatches: 16, Indels: 16
0.89 0.06 0.06
Matches are distributed among these distances:
86 45 0.18
87 36 0.14
88 1 0.00
89 1 0.00
91 1 0.00
92 1 0.00
93 44 0.17
94 125 0.49
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (93 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
TGATGAATGTGAAAGTGTATATATGTGA
Found at i:51886200 original size:141 final size:135
Alignment explanation
Indices: 51885917--51886288 Score: 543
Period size: 141 Copynumber: 2.7 Consensus size: 135
51885907 GAAATGATAG
*
51885917 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAAT-GCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
51885981 GTGATGAATGTGAAAGTGTATATGTGTGATAA-TAGCCGATGTGATGAATGTGAAAGTGTATATA
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGTAGCCGATGTGATGAATGTGAAAGTGTATATA
51886045 TGTGA
131 TGTGA
* *
51886050 TAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
51886115 GTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAA-G--T-A--GCCGATGTGATGAATGTGAAAGTG
51886180 TATATATGTGA
125 TATATATGTGA
** * * * *
51886191 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-CGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
51886255 GTGATGGATGTGAAAGTGCATAAATGTGATAAGT
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGT
51886289 CCCGAAGGGC
Statistics
Matches: 214, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
133 55 0.26
134 36 0.17
137 1 0.00
138 1 0.00
139 2 0.01
140 39 0.18
141 80 0.37
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (135 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGTAGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGA
Found at i:51886463 original size:38 final size:37
Alignment explanation
Indices: 51886406--51886485 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 37
51886396 CCGAGCTCTA
* *
51886406 AAGACCCGATGACTACGTGTGG-GAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-A-TTATGTCCGGGT
*
51886444 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
51886481 AAGAC
1 AAGAC
51886486 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 16 0.42
38 21 0.55
39 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:51886485 original size:37 final size:38
Alignment explanation
Indices: 51886406--51886485 Score: 110
Period size: 37 Copynumber: 2.1 Consensus size: 38
51886396 CCGAGCTCTA
* *
51886406 AAGACCCGATGACTACGTGTGGGAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTTATGTCCGGGT
*
51886444 AAGACCCGATAACTTCGTGT-GGAGA-TTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGA-ATTTATGTCCGGGT
51886481 AAGAC
1 AAGAC
51886486 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 19 0.50
38 19 0.50
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (38 bp):
AAGACCCGATAACTACGTGTGGGAATTTATGTCCGGGT
Found at i:51890372 original size:40 final size:40
Alignment explanation
Indices: 51890181--51890372 Score: 176
Period size: 40 Copynumber: 4.8 Consensus size: 40
51890171 TTGAATGATG
* * * * *
51890181 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTAAA
* * * *
51890221 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGAGCGAGTTACTAAA
* * *
51890261 TCCAGGCTAAG-CCTGAAGGCATTTGCGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
* * *
51890300 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTA-AA
* *
51890341 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
51890373 AGCTATATCC
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
39 32 0.26
40 82 0.66
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
Found at i:51890387 original size:79 final size:79
Alignment explanation
Indices: 51890234--51890398 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
51890224 GGACTAAGAT
* * * **
51890234 CCGAAGGCATTTGTGCGAGATACTAATTCCAGGCTAAGCCTGAAGGCATTTGCGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
51890299 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
51890313 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCAGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
51890376 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
51890392 CCGAAGG
1 CCGAAGG
51890399 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:51893239 original size:17 final size:17
Alignment explanation
Indices: 51893217--51893250 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
51893207 GATGTAAAGG
51893217 AAGAGAAATAAA-AGAAA
1 AAGAG-AATAAATAGAAA
51893234 AAGAGAATAAATAGAAA
1 AAGAGAATAAATAGAAA
51893251 GATTGAGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (17 bp):
AAGAGAATAAATAGAAA
Found at i:51895235 original size:25 final size:25
Alignment explanation
Indices: 51895207--51895277 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
51895197 TTGTAAGTAA
* *
51895207 TTTCTT-TTCATTCCCATATTCTCTG
1 TTTCTTCTT-ATTACCATATTCTATG
*
51895232 TTTCTTCTTGTTACCATATTCTATG
1 TTTCTTCTTATTACCATATTCTATG
**
51895257 TTTCTTCTTGCTACCATATTC
1 TTTCTTCTTATTACCATATTC
51895278 ACAGTTTGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 39 0.95
26 2 0.05
ACGTcount: A:0.14, C:0.25, G:0.06, T:0.55
Consensus pattern (25 bp):
TTTCTTCTTATTACCATATTCTATG
Found at i:51895284 original size:25 final size:25
Alignment explanation
Indices: 51895220--51895284 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
51895210 CTTTTCATTC
* *
51895220 CCATATTCTCTGTTTCTTCTTGTTA
1 CCATATTCACTGTTTCTTCTTGCTA
51895245 CCATATTCTA-TGTTTCTTCTTGCTA
1 CCATATTC-ACTGTTTCTTCTTGCTA
*
51895270 CCATATTCACAGTTT
1 CCATATTCACTGTTT
51895285 GTAAATGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.17, C:0.25, G:0.08, T:0.51
Consensus pattern (25 bp):
CCATATTCACTGTTTCTTCTTGCTA
Found at i:51895364 original size:19 final size:19
Alignment explanation
Indices: 51895340--51895378 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
51895330 CGGTTCAACC
51895340 TTTGGTAGGCACCCAAATG
1 TTTGGTAGGCACCCAAATG
51895359 TTTGGTAGGCACCCAAATG
1 TTTGGTAGGCACCCAAATG
51895378 T
1 T
51895379 ATGTAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (19 bp):
TTTGGTAGGCACCCAAATG
Found at i:51897514 original size:39 final size:40
Alignment explanation
Indices: 51897471--51897568 Score: 108
Period size: 46 Copynumber: 2.3 Consensus size: 40
51897461 TATTGAATGC
*
51897471 ATACTTTCAATTTACTAA-AATAATAGATGAGTCCGAGAG
1 ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
**
51897510 ATACTTTCAATTTTTTACCAATCTTTCTAATAGATGAGTCCGAGAG
1 ATACTTTCAA---TTTACCAA---TAATAATAGATGAGTCCGAGAG
51897556 ATACTTTCAATTT
1 ATACTTTCAATTT
51897569 TTTACTAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
39 10 0.20
42 7 0.14
43 3 0.06
46 29 0.59
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (40 bp):
ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
Found at i:51899877 original size:32 final size:32
Alignment explanation
Indices: 51899841--51900000 Score: 248
Period size: 32 Copynumber: 5.0 Consensus size: 32
51899831 TATAACTATG
51899841 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* * *
51899873 CTACTTTTTCATATGCAAAACTAATGTACGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
51899905 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
51899937 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
51899969 CTACTATTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
51900001 ATTTTTTATG
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 114 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:51899942 original size:64 final size:64
Alignment explanation
Indices: 51899841--51900000 Score: 275
Period size: 64 Copynumber: 2.5 Consensus size: 64
51899831 TATAACTATG
*
51899841 CTACTTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTACGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTACGAT
* * *
51899905 CTACTTTTTTATATGTGAACCTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTACGAT
*
51899969 CTACTATTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGAT
51900001 ATTTTTTATG
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 90 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTACGAT
Found at i:51902384 original size:213 final size:213
Alignment explanation
Indices: 51902017--51902444 Score: 829
Period size: 213 Copynumber: 2.0 Consensus size: 213
51902007 GTTTCTAATC
*
51902017 TCACCGCTACAGTAACTAATCTCACCGCCACCGCTGTTTTTAACCTCACCGGAGGTAAACACATC
1 TCACCGCTACAGTAACTAATCTCACCGCCACCGCTGTTTTTAACCTCACCGGAGGTAAACACACC
51902082 GCCCATCCAAACTAAGCCTTAGTCAAATGCTTAATATATGAGCAAATTATGACACACCTACGATG
66 GCCCATCCAAACTAAGCCTTAGTCAAATGCTTAATATATGAGCAAATTATGACACACCTACGATG
*
51902147 TGTATGAAAAATAAAATTATGTAACAAATATTTGTAAAAGAAATATATAAATTAACCATGGGAGT
131 TGTATGAAAAATAAAATTATGTAACAAATATTTCTAAAAGAAATATATAAATTAACCATGGGAGT
51902212 TAGGTGAGATGGCAATGA
196 TAGGTGAGATGGCAATGA
51902230 TCACCGCTACAGTAACTAATCTCACCGCCACCGCTGTTTTTAACCTCACCGGAGGTAAACACACC
1 TCACCGCTACAGTAACTAATCTCACCGCCACCGCTGTTTTTAACCTCACCGGAGGTAAACACACC
*
51902295 GCCCATCTAAACTAAGCCTTAGTCAAATGCTTAATATATGAGCAAATTATGACACACCTACGATG
66 GCCCATCCAAACTAAGCCTTAGTCAAATGCTTAATATATGAGCAAATTATGACACACCTACGATG
51902360 TGTATGAAAAATAAAATTATGTAACAAATATTTCTAAAAGAAATATATAAATTAACCATGGGAGT
131 TGTATGAAAAATAAAATTATGTAACAAATATTTCTAAAAGAAATATATAAATTAACCATGGGAGT
51902425 TAGGTGAGATGGCAATGA
196 TAGGTGAGATGGCAATGA
51902443 TC
1 TC
51902445 TCTCCTACCT
Statistics
Matches: 212, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 212 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (213 bp):
TCACCGCTACAGTAACTAATCTCACCGCCACCGCTGTTTTTAACCTCACCGGAGGTAAACACACC
GCCCATCCAAACTAAGCCTTAGTCAAATGCTTAATATATGAGCAAATTATGACACACCTACGATG
TGTATGAAAAATAAAATTATGTAACAAATATTTCTAAAAGAAATATATAAATTAACCATGGGAGT
TAGGTGAGATGGCAATGA
Found at i:51903722 original size:180 final size:180
Alignment explanation
Indices: 51903450--51903787 Score: 523
Period size: 180 Copynumber: 1.9 Consensus size: 180
51903440 TCCGAGAGCT
* * * *
51903450 GTACAATGAGATACATAATTTTTAGTGAAGAGAGGTCAGAACTGTCGGACAGTGAAACAGGGGTA
1 GTACAATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGACAGTGAAACAGGAGTA
* * ** *
51903515 CCTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAATTTTTTATGGTAAGAATA
66 CCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAGA
* * *
51903580 TATGTGAGTCTAGTTTCTGGGAAAATTAGTGGTTCTCAATTTGGAGTCTC
131 TATATGAGTCTAGTTTCAGAGAAAATTAGTGGTTCTCAATTTGGAGTCTC
* * * *
51903630 GTACGATGAAATAAATAGTTTTTAGTGAAGAGAGGTCGGAACTGTCAGACAGTGAAATAGGAGTA
1 GTACAATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGACAGTGAAACAGGAGTA
*
51903695 TCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAGA
66 CCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAGA
51903760 TATATGAGTCTAGTTTCAGAGAAAATTA
131 TATATGAGTCTAGTTTCAGAGAAAATTA
51903788 ACGAATCTTA
Statistics
Matches: 141, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
180 141 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (180 bp):
GTACAATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGACAGTGAAACAGGAGTA
CCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAGA
TATATGAGTCTAGTTTCAGAGAAAATTAGTGGTTCTCAATTTGGAGTCTC
Found at i:51906608 original size:15 final size:14
Alignment explanation
Indices: 51906588--51906632 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
51906578 TATGATATTG
51906588 TATCTTGGATTTCT
1 TATCTTGGATTTCT
*
51906602 CTATCTTGGACTTCT
1 -TATCTTGGATTTCT
*
51906617 TAATCCTGGATTTCT
1 T-ATCTTGGATTTCT
51906632 T
1 T
51906633 GTTATCTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 1 0.04
15 25 0.96
ACGTcount: A:0.16, C:0.20, G:0.13, T:0.51
Consensus pattern (14 bp):
TATCTTGGATTTCT
Found at i:51909165 original size:27 final size:27
Alignment explanation
Indices: 51909135--51909188 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
51909125 CTACATGTAT
*
51909135 CAGATGGATAAGTCACGTGTGTAGTAC
1 CAGATGGATAAGTCACATGTGTAGTAC
* *
51909162 CAGATTGATAGGTCACATGTGTAGTAC
1 CAGATGGATAAGTCACATGTGTAGTAC
51909189 TAAATGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
CAGATGGATAAGTCACATGTGTAGTAC
Found at i:51910087 original size:180 final size:181
Alignment explanation
Indices: 51909774--51910102 Score: 554
Period size: 180 Copynumber: 1.8 Consensus size: 181
51909764 ATCTGAGAGC
* * * *
51909774 TGTACCATGAGATAAATAATTTTTAGTGAATAGAGGTCGGAACTGTCGGACAGTGAAATAGGGGT
1 TGTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCGAAACTATCGGACAGTGAAATAGGGGT
*
51909839 ATCTTTAATGAATAAACTGTACTAATTGGCTAAAATAAAAATTAAAAAATTTTTATGGTAAGAAT
66 ATCTTTAATGAATAAACTGTACTAATTGGCTAAAACAAAAATTAAAAAATTTTTATGGTAAGAAT
51909904 ATATATGAGTATA-TTTTATGGTAAAATTAGTGGTTCTCAATTTGGAGTTT
131 ATATATGAGTATAGTTTTATGGTAAAATTAGTGGTTCTCAATTTGGAGTTT
*
51909954 TGTACCGTGAAATAAATAATTTTTAGTGAAGAGAGGTCGAAACTATCGGACAGTGAAATAGGGGT
1 TGTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCGAAACTATCGGACAGTGAAATAGGGGT
* *
51910019 ATCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAA-TTTTATGGTAAGAA
66 ATCTTTAATGAATAAACTGTACTAATTGGCTAAAACAAAAATT-AAAAAATTTTTATGGTAAGAA
*
51910083 TATATATGAGTCTAGTTTTA
130 TATATATGAGTATAGTTTTA
51910103 GAAAAAATTA
Statistics
Matches: 138, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
180 128 0.93
181 10 0.07
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (181 bp):
TGTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCGAAACTATCGGACAGTGAAATAGGGGT
ATCTTTAATGAATAAACTGTACTAATTGGCTAAAACAAAAATTAAAAAATTTTTATGGTAAGAAT
ATATATGAGTATAGTTTTATGGTAAAATTAGTGGTTCTCAATTTGGAGTTT
Found at i:51916554 original size:22 final size:21
Alignment explanation
Indices: 51916521--51916568 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
51916511 TATGAACTTG
51916521 TTCGACCATGATTCGAAAATGA
1 TTCGACCATGATTCG-AAATGA
*
51916543 TTCGA-CAGTGATTTGAAATGA
1 TTCGACCA-TGATTCGAAATGA
51916564 TTCGA
1 TTCGA
51916569 GTACAATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (21 bp):
TTCGACCATGATTCGAAATGA
Found at i:51923570 original size:55 final size:54
Alignment explanation
Indices: 51923441--51923581 Score: 165
Period size: 55 Copynumber: 2.6 Consensus size: 54
51923431 ATTAGGGTTT
* * * * *
51923441 AAGAATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTCTACAAGGCA
1 AAGAA-ACCATGTAAGACCATGCCAAGACATGACATTGATAACTACTACAAGGCA
* * * *
51923496 AGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAACTACTATAAGGCA
1 AAGAAACCATGTAAGACCATGCCAAGACATGACATTGAT-AACTACTACAAGGCA
**
51923551 AAGATCCCATGTAAGACCATGCCAAGACATG
1 AAGAAACCATGTAAGACCATGCCAAGACATG
51923582 GAAATGGTGA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
54 29 0.41
55 42 0.59
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (54 bp):
AAGAAACCATGTAAGACCATGCCAAGACATGACATTGATAACTACTACAAGGCA
Found at i:51932399 original size:6 final size:6
Alignment explanation
Indices: 51932376--51932509 Score: 103
Period size: 6 Copynumber: 21.8 Consensus size: 6
51932366 TATAAAAACT
* * *
51932376 AGAATC AAAATG AGAATC AGAATC AGAATC AGAATC A-AGTGAC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * * * *
51932425 AGAATC AGAATC AGAATC AAAATC AAAATT AG-TTGAC AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
51932474 AGAATC AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
51932510 GTGAATGCAA
Statistics
Matches: 101, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
5 5 0.05
6 85 0.84
7 7 0.07
8 4 0.04
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:51932424 original size:43 final size:44
Alignment explanation
Indices: 51932376--51932500 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 44
51932366 TATAAAAACT
* *
51932376 AGAATCAAAATGAGAATCAGAATCAGAATCAGAATCAAG-TGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAAGTTGAC
* * *
51932419 AGAATCAGAATCAGAATCAGAATCAAAATCAAAAT-TAGTTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAAGTTGAC
* *
51932462 AGAATTAGAATCAGAATCAGTATCAGGTAA-CAGAATCAA
1 AGAATCAGAATCAGAATCAGAATCA-G-AATCAGAATCAA
51932501 AATCAGAATG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.03
43 58 0.85
44 5 0.07
45 3 0.04
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (44 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAAGTTGAC
Found at i:51932438 original size:37 final size:37
Alignment explanation
Indices: 51932388--51932509 Score: 124
Period size: 37 Copynumber: 3.3 Consensus size: 37
51932378 AATCAAAATG
*
51932388 AGAATCAGAATCAGAATCAGAATCAAGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAAGTAACAGAATC
* * *
51932425 AGAATCAGAATCAGAATCAAAATCAA--AATTAG-TTGAC
1 AGAATCAGAATCAGAATCAGAATCAAGTAA-CAGAAT--C
* * *
51932462 AGAATTAGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAAGTAACAGAATC
*
51932499 AAAATCAGAAT
1 AGAATCAGAAT
51932510 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
35 2 0.03
36 2 0.03
37 58 0.87
38 2 0.03
39 3 0.04
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAAGTAACAGAATC
Found at i:51932676 original size:27 final size:26
Alignment explanation
Indices: 51932628--51932687 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
51932618 GCGAGGCTAC
*
51932628 CAGATATTGTGACGAAGTCACCAGAGA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
51932655 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
51932681 CAGATAT
1 CAGATAT
51932688 ATATACATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:51933045 original size:27 final size:27
Alignment explanation
Indices: 51933015--51933271 Score: 309
Period size: 27 Copynumber: 9.5 Consensus size: 27
51933005 AACACCTTAG
* *
51933015 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
*
51933042 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
* *
51933069 GGGTAAAATAGTAATTCTGTAAGTCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
* * *
51933096 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
* * *
51933123 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
**
51933150 GGGTAAAAGGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
*
51933177 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
* **
51933204 GGGTAAAA-CGATAATTCTATAAATTAA
1 GGGTAAAATAG-TAATTCTATAAATCGA
* * *
51933231 GGGTAAAACAATAATTTTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
*
51933258 GGGTAAAATTGTAA
1 GGGTAAAATAGTAA
51933272 ATCGAGGGTA
Statistics
Matches: 199, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 198 0.99
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAATAGTAATTCTATAAATCGA
Found at i:51933083 original size:54 final size:53
Alignment explanation
Indices: 51933015--51933362 Score: 368
Period size: 54 Copynumber: 6.6 Consensus size: 53
51933005 AACACCTTAG
*
51933015 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAAC-GTAATTCTATAAATCGA
* * * * * *
51933069 GGGTAAAATAGTAATTCTGTAAGTCGAGGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAA-CGTAATTCTATAAATCGA
* * *
51933123 GGATAAAATAGTAATTTTGTAAATCGAGGGTAAAAGGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAA-CGTAATTCTATAAATCGA
* * **
51933177 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATTAA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACG-TAATTCTATAAATCGA
* * *
51933231 GGGTAAAACAATAATTTTATAAATCGAGGGT--AA---AA-T-TGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGTAATTCTATAAATCGA
* * * *
51933277 GGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACG-TAATTCTATAAATCGA
** * * *
51933331 GGGTAATTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTA
51933363 TTTCAGTAAT
Statistics
Matches: 248, Mismatches: 36, Indels: 20
0.82 0.12 0.07
Matches are distributed among these distances:
46 35 0.14
47 1 0.00
48 4 0.02
52 4 0.02
53 2 0.01
54 202 0.81
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (53 bp):
GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGTAATTCTATAAATCGA
Found at i:51933150 original size:81 final size:80
Alignment explanation
Indices: 51933015--51933362 Score: 363
Period size: 81 Copynumber: 4.4 Consensus size: 80
51933005 AACACCTTAG
*
51933015 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA-AG
* *
51933080 TAATTCTGTAAGTCGA
65 TAATTCTATAAATCGA
* * * * * * *
51933096 GGGTAAAATGGTAATTTTGTAAATCGAGGATAAAATAGTAATTTTGTAAATCGAGGGTAAAAGGG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA-AG
51933161 TAATTCTATAAATCGA
65 TAATTCTATAAATCGA
** * *
51933177 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAC-GATAATTCTATAAATTAAGGGTAAAACA
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAG-TAATTCTATAAATCAAGGGTAAAA-A
* *
51933241 ATAATTTTATAAATCGA
64 GTAATTCTATAAATCGA
* * * *
51933258 GGGT--AA----AA--TTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACGA
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAAAG-
*
51933315 TAATTCTGTAAATCGA
65 TAATTCTATAAATCGA
** * *
51933331 GGGTAATTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTA
51933363 TTTCAGTAAT
Statistics
Matches: 219, Mismatches: 37, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
73 57 0.26
74 1 0.00
75 2 0.01
79 4 0.02
80 1 0.00
81 154 0.70
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (80 bp):
GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAAAGT
AATTCTATAAATCGA
Found at i:51933285 original size:73 final size:73
Alignment explanation
Indices: 51933196--51933336 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 73
51933186 AGTAATTCTA
* *
51933196 TAAATCGAGGGTAAAAC-GATAATTCTATAAATTAAGGGTAAAACAATAATTTTATAAATCGAGG
1 TAAATCGAGGGTAAAACAG-TAATTCTATAAATCAAGGGTAAAACAATAATTCTATAAATCGAGG
51933260 GTAAAATTG
65 GTAAAATTG
* * * *
51933269 TAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGG
51933334 TAA
66 TAA
51933337 TTTGGTAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 60 0.98
74 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.28
Consensus pattern (73 bp):
TAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGG
TAAAATTG
Found at i:51933290 original size:19 final size:19
Alignment explanation
Indices: 51933250--51933290 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
51933240 AATAATTTTA
**
51933250 TAAATCGAGGGTAAAATTG
1 TAAATCGAGGGTAAAACAG
51933269 TAAATCGAGGGTAAAACAG
1 TAAATCGAGGGTAAAACAG
51933288 TAA
1 TAA
51933291 TTTTGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.22
Consensus pattern (19 bp):
TAAATCGAGGGTAAAACAG
Found at i:51933345 original size:27 final size:26
Alignment explanation
Indices: 51933266--51933362 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 26
51933256 GAGGGTAAAA
*
51933266 TTGTAAATCGAGGGTAAAACAGTAATT
1 TTGTAAATCGAGGGTAAAACGGTAA-T
* *
51933293 TTGTAAATCAAGGGTAAAACGATAAT
1 TTGTAAATCGAGGGTAAAACGGTAAT
***
51933319 TCTGTAAATCGAGGGTAATTTGGTAAT
1 T-TGTAAATCGAGGGTAAAACGGTAAT
51933346 TT-TACAAGTCGAGGGTA
1 TTGTA-AA-TCGAGGGTA
51933363 TTTCAGTAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.03
26 5 0.08
27 52 0.88
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (26 bp):
TTGTAAATCGAGGGTAAAACGGTAAT
Found at i:51933371 original size:27 final size:27
Alignment explanation
Indices: 51933324--51933508 Score: 169
Period size: 27 Copynumber: 6.9 Consensus size: 27
51933314 ATAATTCTGT
*
51933324 AAATCGAGGGTAATTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* **
51933351 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
** * * * * *
51933378 AGGTGGAGGGTGTTTTAGTAATTTCAA
1 AAATCGAGGGTATTTTGGTAATTTTAC
*
51933405 AAATC-AGAGGTATTTTGATAATTTTAC
1 AAATCGAG-GGTATTTTGGTAATTTTAC
*
51933432 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATCGA-GGGTATTTTGGTAATTTTAC
*
51933459 AAATC-AGTGGTATTTTGGTAATTTTAT
1 AAATCGAG-GGTATTTTGGTAATTTTAC
* * *
51933486 AAACCAATGGTATTTTGGTAATT
1 AAATCGAGGGTATTTTGGTAATT
51933509 CTACCCTACA
Statistics
Matches: 130, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
26 4 0.03
27 123 0.95
28 3 0.02
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGGTAATTTTAC
Found at i:51933527 original size:27 final size:27
Alignment explanation
Indices: 51933503--51933573 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
51933493 TGGTATTTTG
51933503 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* *
51933530 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* *
51933557 GTAATGCTAGCCTACAG
1 GTAATTCTACCCTACAG
51933574 ATATGAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGCATTTCA
Found at i:51937830 original size:29 final size:27
Alignment explanation
Indices: 51937812--51937881 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
51937802 ATATTAAGTC
51937812 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
51937839 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
51937867 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
51937882 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:51937875 original size:28 final size:28
Alignment explanation
Indices: 51937812--51937909 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
51937802 ATATTAAGTC
*
51937812 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
51937839 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51937867 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
51937896 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51937910 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51945701 original size:29 final size:27
Alignment explanation
Indices: 51945683--51945752 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
51945673 ATATTAAGTC
51945683 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
51945710 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
51945738 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
51945753 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:51945746 original size:28 final size:28
Alignment explanation
Indices: 51945683--51945780 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
51945673 ATATTAAGTC
*
51945683 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
51945710 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51945738 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
51945767 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51945781 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51950745 original size:53 final size:53
Alignment explanation
Indices: 51950568--51950774 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 53
51950558 ATTAGGGTTT
* * * * * *
51950568 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTAGTAAGTTCTTCAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAT-AAGGC
* * * * * *
51950622 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* ** * * *
51950677 AAAGATCCCATGTAAGACCATGCCAAGGCATCGCAATGGTGAGTTCATAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
51950730 AAGGAAACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
51950775 TAAAAAGGAA
Statistics
Matches: 121, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 44 0.36
54 36 0.30
55 40 0.33
56 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:51953259 original size:21 final size:21
Alignment explanation
Indices: 51953234--51953276 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
51953224 CCATGATTCG
51953234 GAAATGATTTGAC-AGTGATTT
1 GAAATGATTTGACTAG-GATTT
51953255 GAAATGATTTGACTAGGATTT
1 GAAATGATTTGACTAGGATTT
51953276 G
1 G
51953277 GTATTGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (21 bp):
GAAATGATTTGACTAGGATTT
Found at i:51956268 original size:26 final size:26
Alignment explanation
Indices: 51956239--51956344 Score: 194
Period size: 26 Copynumber: 4.1 Consensus size: 26
51956229 TGATACAAAT
*
51956239 TGATAATGGGATAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51956265 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51956291 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51956317 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51956343 TG
1 TG
51956345 GTGGGAATTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51959562 original size:12 final size:12
Alignment explanation
Indices: 51959542--51959572 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51959532 TACTCGGGCA
*
51959542 GAGGTCGTGGTC
1 GAGGCCGTGGTC
51959554 GAGGCCGTGGTC
1 GAGGCCGTGGTC
51959566 GAGGCCG
1 GAGGCCG
51959573 CAAGCTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.23, G:0.52, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:51962948 original size:26 final size:26
Alignment explanation
Indices: 51962919--51963001 Score: 157
Period size: 26 Copynumber: 3.2 Consensus size: 26
51962909 TGATACAAAT
51962919 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51962945 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51962971 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51962997 TGATA
1 TGATA
51963002 GGAATTTCAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51966579 original size:17 final size:16
Alignment explanation
Indices: 51966559--51966602 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
51966549 TTAAATAATA
*
51966559 TAATTTTATTTTAAAAT
1 TAATTTTATTGT-AAAT
*
51966576 TAATTATTAATGTAAAT
1 TAATT-TTATTGTAAAT
51966593 TAATTTTATT
1 TAATTTTATT
51966603 CAAGTTGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 14 0.61
18 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TAATTTTATTGTAAAT
Found at i:51966586 original size:29 final size:30
Alignment explanation
Indices: 51966532--51966600 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
51966522 AATTTTATTT
* *
51966532 ATTTATTTTTAAATTTATTAAATAATATAA
1 ATTTATTTTAAAATTAATTAAATAATATAA
* * *
51966562 TTTTATTTTAAAATTAATT-ATTAATGTAA
1 ATTTATTTTAAAATTAATTAAATAATATAA
*
51966591 ATTAATTTTA
1 ATTTATTTTA
51966601 TTCAAGTTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (30 bp):
ATTTATTTTAAAATTAATTAAATAATATAA
Found at i:51967464 original size:18 final size:18
Alignment explanation
Indices: 51967441--51967476 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51967431 AATTAATATT
*
51967441 TTAATTAAACTAATTAAA
1 TTAATTAAACTAACTAAA
*
51967459 TTAATTAACCTAACTAAA
1 TTAATTAAACTAACTAAA
51967477 CCTAATGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAATTAAACTAACTAAA
Found at i:51979714 original size:6 final size:6
Alignment explanation
Indices: 51979700--51979733 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
51979690 AAAAAAATCT
*
51979700 AAATCTA AAAATA AAATTA AAATTA AAATTA AAA
1 AAAT-TA AAATTA AAATTA AAATTA AAATTA AAA
51979734 AACATATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 22 0.88
7 3 0.12
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (6 bp):
AAATTA
Found at i:51979774 original size:9 final size:9
Alignment explanation
Indices: 51979762--51979812 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
51979752 AATAATTTGA
51979762 TTAATTCGG
1 TTAATTCGG
*
51979771 TTAATTTGG
1 TTAATTCGG
* *
51979780 GTAATTCGA
1 TTAATTCGG
*
51979789 TTAATTCGA
1 TTAATTCGG
*
51979798 TTAATTCAG
1 TTAATTCGG
51979807 TTAATT
1 TTAATT
51979813 TTATACTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (9 bp):
TTAATTCGG
Found at i:51979777 original size:18 final size:18
Alignment explanation
Indices: 51979754--51979813 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
51979744 TTTATACAAA
51979754 TAATTTGATTAATTCGGT
1 TAATTTGATTAATTCGGT
** *
51979772 TAATTTGGGTAATTCGAT
1 TAATTTGATTAATTCGGT
* *
51979790 TAATTCGATTAATTCAGT
1 TAATTTGATTAATTCGGT
51979808 TAATTT
1 TAATTT
51979814 TATACTTATT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (18 bp):
TAATTTGATTAATTCGGT
Found at i:51979811 original size:27 final size:27
Alignment explanation
Indices: 51979754--51979812 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
51979744 TTTATACAAA
* * **
51979754 TAATTTGATTAATTCGGTTAATTTGGG
1 TAATTCGATTAATTCGATTAATTCAGG
*
51979781 TAATTCGATTAATTCGATTAATTCAGT
1 TAATTCGATTAATTCGATTAATTCAGG
51979808 TAATT
1 TAATT
51979813 TTATACTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (27 bp):
TAATTCGATTAATTCGATTAATTCAGG
Found at i:51987968 original size:21 final size:23
Alignment explanation
Indices: 51987921--51987978 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
51987911 GTTTCCTCAT
*
51987921 TATTTATTTCATATTTCAAATTTC
1 TATTTATTT-ATATTTCAAATTAC
*
51987945 TATTTATTT-TA-TTCTAATTAC
1 TATTTATTTATATTTCAAATTAC
51987966 TA-TTATTTA-ATTT
1 TATTTATTTATATTT
51987979 TGTTTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 2 0.07
24 9 0.30
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTTATTTATATTTCAAATTAC
Found at i:51991747 original size:21 final size:21
Alignment explanation
Indices: 51991712--51991761 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
51991702 CGGTAGACAA
* * *
51991712 ACCGTGTGGCTAAGGGACATG
1 ACCGTGTGGCCAAGGCACACG
*
51991733 ACCGTGTGTCCAAGGCACACG
1 ACCGTGTGGCCAAGGCACACG
*
51991754 CCCGTGTG
1 ACCGTGTG
51991762 AAAATCGACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (21 bp):
ACCGTGTGGCCAAGGCACACG
Found at i:51993378 original size:18 final size:18
Alignment explanation
Indices: 51993358--51993421 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
51993348 TAATAACCAT
**
51993358 TTATTCAGTAGCAGTCGT
1 TTATTCAGTAGCAGTCAA
* * *
51993376 TTATTCAGTAACGGTTAA
1 TTATTCAGTAGCAGTCAA
51993394 TTATTCAGTAGCAGTCAA
1 TTATTCAGTAGCAGTCAA
51993412 TTATTCAGTA
1 TTATTCAGTA
51993422 CCTTTATTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (18 bp):
TTATTCAGTAGCAGTCAA
Found at i:51994602 original size:19 final size:18
Alignment explanation
Indices: 51994567--51994602 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
51994557 TCCTAGTTCT
*
51994567 CCCTTTTCTTTTTCTTTC
1 CCCTTTTCTTCTTCTTTC
51994585 CCCTTTTCTTCCTTCTTT
1 CCCTTTTCTT-CTTCTTT
51994603 TCCCGTTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CCCTTTTCTTCTTCTTTC
Found at i:51999198 original size:17 final size:17
Alignment explanation
Indices: 51999173--51999229 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
51999163 ATTATCATAT
*
51999173 AGTAACAACCAATATTC
1 AGTATCAACCAATATTC
*
51999190 AGTATCAACCAGACATTC
1 AGTATCAACCA-ATATTC
*
51999208 AGTAGT-AGTCCAATATTC
1 AGTA-TCA-ACCAATATTC
51999226 AGTA
1 AGTA
51999230 ACAATCAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 10 0.30
18 19 0.58
19 4 0.12
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (17 bp):
AGTATCAACCAATATTC
Found at i:51999209 original size:18 final size:17
Alignment explanation
Indices: 51999173--51999211 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
51999163 ATTATCATAT
*
51999173 AGTAACAACCAATATTC
1 AGTAACAACCAACATTC
*
51999190 AGTATCAACCAGACATTC
1 AGTAACAACCA-ACATTC
51999208 AGTA
1 AGTA
51999212 GTAGTCCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (17 bp):
AGTAACAACCAACATTC
Found at i:51999340 original size:18 final size:18
Alignment explanation
Indices: 51999301--51999364 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
51999291 TAATAACCAT
* *
51999301 TTATGCAGTAACA-GTCAT
1 TTATTCAGTAACAGGT-AA
51999319 TTATTCAGTAACAGGTAA
1 TTATTCAGTAACAGGTAA
* **
51999337 TTATTCAGTAGCAGACAA
1 TTATTCAGTAACAGGTAA
51999355 TTATTCAGTA
1 TTATTCAGTA
51999365 CCTTTATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 38 0.95
19 2 0.05
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGGTAA
Found at i:52000582 original size:15 final size:16
Alignment explanation
Indices: 52000564--52000593 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52000554 CCATTTGCTA
52000564 TTTTGTTT-CTTTCTC
1 TTTTGTTTCCTTTCTC
52000579 TTTTGTTTCCTTTCT
1 TTTTGTTTCCTTTCT
52000594 TTCTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTTGTTTCCTTTCTC
Found at i:52000645 original size:11 final size:12
Alignment explanation
Indices: 52000626--52000659 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
52000616 TATATATATA
52000626 TATATAATAACT
1 TATATAATAACT
52000638 TA-ATAATATACT
1 TATATAATA-ACT
52000650 TATATAATAA
1 TATATAATAA
52000660 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:52005462 original size:47 final size:48
Alignment explanation
Indices: 52005393--52005607 Score: 158
Period size: 47 Copynumber: 4.6 Consensus size: 48
52005383 GGTGCCAATG
** *
52005393 CCATGTCTTAGACACGGTCTTACACTGGCTCAT-ATCTCAAGTCGATA
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGATA
* *
52005440 CCATGTCCCAGACATGGTCTTACACTGACT-ATCATTTCATAGTCGAT-
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCA-AGTCGATA
* * * * * * * *
52005487 GCATGTCCTAGACAT-GTCTTACATTGGCTTA-CGTCTCGAGGCCA-A
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGATA
* * * * * * *
52005532 TGCATGTCCCAGACAT-GTCTGACACTAGC-CATCGTTTCAATGCCGATG
1 -CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA-GTCGATA
*
52005580 CCATGTCCCAGACATGGTCTAACACTGG
1 CCATGTCCCAGACATGGTCTTACACTGG
52005608 TTCACACACG
Statistics
Matches: 132, Mismatches: 27, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
45 5 0.04
46 48 0.36
47 62 0.47
48 17 0.13
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGATA
Done.