Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 286 of 332
Found at i:95389054 original size:25 final size:25
Alignment explanation
Indices: 95388995--95389090 Score: 149
Period size: 25 Copynumber: 3.9 Consensus size: 25
95388985 GCGAGTTGTT
*
95388995 TATCAGGAAGCTCATAAAAGCT-GA
1 TATCAGGAAGCTCATAAGAGCTAGA
*
95389019 AATCAGGAAGCTCATAAGAGCTAGA
1 TATCAGGAAGCTCATAAGAGCTAGA
*
95389044 TATCAGGAAGCTCATAATAGCTAGA
1 TATCAGGAAGCTCATAAGAGCTAGA
*
95389069 TATCAGGAAGCTCATGAGAGCT
1 TATCAGGAAGCTCATAAGAGCT
95389091 GTGGTGTGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
24 20 0.31
25 45 0.69
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.21
Consensus pattern (25 bp):
TATCAGGAAGCTCATAAGAGCTAGA
Found at i:95401009 original size:27 final size:28
Alignment explanation
Indices: 95400979--95401035 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 28
95400969 TTTCCGCTGC
95400979 AGTCAAGTCTTTG-CTCTTTTTGTCACT
1 AGTCAAGTCTTTGTCTCTTTTTGTCACT
95401006 AGTCAAGTCTTTGCTTCTCTTTTTGTCACT
1 AGTCAAGTCTTTG--TCTCTTTTTGTCACT
95401036 CGCCGGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 13 0.48
30 14 0.52
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (28 bp):
AGTCAAGTCTTTGTCTCTTTTTGTCACT
Found at i:95402622 original size:11 final size:11
Alignment explanation
Indices: 95402582--95402622 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
95402572 AAAAGCAGCC
*
95402582 AAAGCAGCT-A
1 AAAGAAGCTGA
95402592 AAAG-AGCTGA
1 AAAGAAGCTGA
95402602 AAAGGAAGCTGA
1 AAA-GAAGCTGA
95402614 AAAGAAGCT
1 AAAGAAGCT
95402623 CAAGGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 4 0.14
10 8 0.29
11 7 0.25
12 9 0.32
ACGTcount: A:0.51, C:0.12, G:0.27, T:0.10
Consensus pattern (11 bp):
AAAGAAGCTGA
Found at i:95410107 original size:49 final size:47
Alignment explanation
Indices: 95410049--95410203 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 47
95410039 GAATTCAATC
95410049 AATATCAAGTTACGATATACTATCGGAAATCAAGAAAATATTTATACA
1 AATATCAAGTTAC-ATATACTATCGGAAATCAAGAAAATATTTATACA
* **
95410097 AATATACAAGTTAC--ATA--ATCTGAACAGTCAA-ATGA-ATTTA-ATC-
1 AATAT-CAAGTTACATATACTATCGGAA-A-TCAAGAAAATATTTATA-CA
* * *
95410140 AGTAT-AAGTTACTATATACTATCGAAAATCAAGCAAATATTTATACA
1 AATATCAAGTTAC-ATATACTATCGGAAATCAAGAAAATATTTATACA
*
95410187 AATATACAAGTTGCATA
1 AATAT-CAAGTTACATA
95410204 ATCTTCTCAA
Statistics
Matches: 81, Mismatches: 11, Indels: 30
0.66 0.09 0.25
Matches are distributed among these distances:
41 7 0.09
43 5 0.06
44 19 0.23
45 5 0.06
46 18 0.22
47 5 0.06
48 8 0.10
49 14 0.17
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (47 bp):
AATATCAAGTTACATATACTATCGGAAATCAAGAAAATATTTATACA
Found at i:95410180 original size:90 final size:90
Alignment explanation
Indices: 95410037--95410277 Score: 329
Period size: 90 Copynumber: 2.7 Consensus size: 90
95410027 ACTCAATCAT
*
95410037 ATGAATTCAATCAATATCAAGTTACGATATACTATCGGAAATCAAGAAAATATTTATACAAATAT
1 ATGAATTCAATCAGTAT-AAGTTACGATATACTATCGGAAATCAAGAAAATATTTATACAAATAT
**
95410102 ACAAGTTACATAATCTGAACAGTCAA
65 ACAAGTTACATAATCTGAACAACCAA
* * * *
95410128 ATGAATTTAATCAGTATAAGTTACTATATACTATCGAAAATCAAGCAAATATTTATACAAATATA
1 ATGAATTCAATCAGTATAAGTTACGATATACTATCGGAAATCAAGAAAATATTTATACAAATATA
* ***
95410193 CAAGTTGCATAATCTTCTCAACCAA
66 CAAGTTACATAATCTGAACAACCAA
** * * *
95410218 ACAAATTCAATTAGTATAAGTTACGATACACTACCGGAAATCAAGAAAATATTTATACAA
1 ATGAATTCAATCAGTATAAGTTACGATATACTATCGGAAATCAAGAAAATATTTATACAA
95410278 TTCAATATGC
Statistics
Matches: 130, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
90 115 0.88
91 15 0.12
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.29
Consensus pattern (90 bp):
ATGAATTCAATCAGTATAAGTTACGATATACTATCGGAAATCAAGAAAATATTTATACAAATATA
CAAGTTACATAATCTGAACAACCAA
Found at i:95414217 original size:87 final size:86
Alignment explanation
Indices: 95414063--95414226 Score: 222
Period size: 87 Copynumber: 1.9 Consensus size: 86
95414053 TACATGCATA
* *
95414063 AGGTTGATTTCTTACTCTTAATGAATTCATATCCCAAGGTTTGGATAGTCCTACTGAGATGAACT
1 AGGTTGATTTCTTAATCTTAATGAATTCATATCCCAAGGTTTGGATAGTCCTACTGAGACGAACT
95414128 TGATGAATTCACCGACATGTG
66 TGATGAATTCACCGACATGTG
* * * * * **
95414149 AGGTTGAGTTTCTTAATCTTAATGAGTTCATATCTC-AGAGTTTGGGTGGTCCTATTGAGACGGG
1 AGGTTGA-TTTCTTAATCTTAATGAATTCATATCCCAAG-GTTTGGATAGTCCTACTGAGACGAA
95414213 CTTGATGAATTCAC
64 CTTGATGAATTCAC
95414227 TGAATTTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
86 9 0.13
87 58 0.87
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (86 bp):
AGGTTGATTTCTTAATCTTAATGAATTCATATCCCAAGGTTTGGATAGTCCTACTGAGACGAACT
TGATGAATTCACCGACATGTG
Found at i:95416158 original size:27 final size:27
Alignment explanation
Indices: 95416094--95416160 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
95416084 CTACCCAGTG
* * **
95416094 TTTAATGTCCCGTTGGGTTATCCTGTA
1 TTTAACGTCCTGTTGGACTATCCTGTA
95416121 TTTAACGTCCTGTTGGACTATCCTGTA
1 TTTAACGTCCTGTTGGACTATCCTGTA
95416148 TTTAACGTCCTGT
1 TTTAACGTCCTGT
95416161 CAGATTATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.43
Consensus pattern (27 bp):
TTTAACGTCCTGTTGGACTATCCTGTA
Found at i:95416169 original size:27 final size:27
Alignment explanation
Indices: 95416111--95416183 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
95416101 TCCCGTTGGG
**
95416111 TTATCCTGTATTTAACGTCCTGTTGGA
1 TTATCCTGTATTTAACGTCCTGTCAGA
*
95416138 CTATCCTGTATTTAACGTCCTGTCAGA
1 TTATCCTGTATTTAACGTCCTGTCAGA
*
95416165 TTAT-CTCGTGTTTAACGTC
1 TTATCCT-GTATTTAACGTC
95416184 ACGTAGGACT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.42
Consensus pattern (27 bp):
TTATCCTGTATTTAACGTCCTGTCAGA
Found at i:95424046 original size:56 final size:55
Alignment explanation
Indices: 95423960--95424067 Score: 189
Period size: 56 Copynumber: 1.9 Consensus size: 55
95423950 GTATCTATTG
* *
95423960 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATTAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATT-AATTTGTAA
95424016 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
95424068 CAATCTATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 6 0.12
56 44 0.88
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTAA
Found at i:95441666 original size:18 final size:18
Alignment explanation
Indices: 95441645--95441680 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
95441635 GAACTTTACG
95441645 TATTCTCTTAACTAAGAA
1 TATTCTCTTAACTAAGAA
95441663 TATTCTCTTAACTAAGAA
1 TATTCTCTTAACTAAGAA
95441681 CTGCATGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
TATTCTCTTAACTAAGAA
Found at i:95446940 original size:19 final size:19
Alignment explanation
Indices: 95446917--95446954 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
95446907 TTTTATTAAC
95446917 TTTTTATATATATTTAAATA
1 TTTTTATA-ATATTTAAATA
*
95446937 TTTTTATAATTTTTAAAT
1 TTTTTATAATATTTAAAT
95446955 TACTTGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTATAATATTTAAATA
Found at i:95450591 original size:28 final size:28
Alignment explanation
Indices: 95450560--95450620 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
95450550 ACTGAAAGTG
* *
95450560 TTTTACAAAAAT-AACCTATTTACATAA
1 TTTTTCAAAAATCAACCTATTCACATAA
* *
95450587 TTTTTCTAAAATCAACCTATTCACGTAA
1 TTTTTCAAAAATCAACCTATTCACATAA
95450615 TTTTTC
1 TTTTTC
95450621 TCTTGGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.43
Consensus pattern (28 bp):
TTTTTCAAAAATCAACCTATTCACATAA
Found at i:95450621 original size:28 final size:27
Alignment explanation
Indices: 95450567--95450621 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
95450557 GTGTTTTACA
*
95450567 AAAATAACCTATTTACATAATTTTTCT
1 AAAATAACCTATTCACATAATTTTTCT
*
95450594 AAAATCAACCTATTCACGTAATTTTTCT
1 AAAAT-AACCTATTCACATAATTTTTCT
95450622 CTTGGTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (27 bp):
AAAATAACCTATTCACATAATTTTTCT
Found at i:95453063 original size:54 final size:54
Alignment explanation
Indices: 95452981--95453106 Score: 227
Period size: 54 Copynumber: 2.3 Consensus size: 54
95452971 TGCTGTAGGA
95452981 GGCTTTGCAATAGGACCAAGAGCCAGAGCAGGAACCGGAGATGATCCTGTGGGT
1 GGCTTTGCAATAGGACCAAGAGCCAGAGCAGGAACCGGAGATGATCCTGTGGGT
*
95453035 GGCTTTGCAATAGGACCAGGAGCCAGAGCAGGAACCGGAGATGATCCTGTGGGT
1 GGCTTTGCAATAGGACCAAGAGCCAGAGCAGGAACCGGAGATGATCCTGTGGGT
95453089 GGCTTTGCAACT-GGACCA
1 GGCTTTGCAA-TAGGACCA
95453107 TGGTGATAAG
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
54 69 0.99
55 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.35, T:0.17
Consensus pattern (54 bp):
GGCTTTGCAATAGGACCAAGAGCCAGAGCAGGAACCGGAGATGATCCTGTGGGT
Found at i:95457627 original size:33 final size:34
Alignment explanation
Indices: 95457579--95457646 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
95457569 TCGATTTTGT
*
95457579 TTAAATTCAATTTAAATATTAAAAAAAT-TAAAA
1 TTAAATTCAAATTAAATATTAAAAAAATATAAAA
* * *
95457612 TTAAATTTAAATTAAATTTTAAAAATATATAAAA
1 TTAAATTCAAATTAAATATTAAAAAAATATAAAA
95457646 T
1 T
95457647 ATCAATAGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (34 bp):
TTAAATTCAAATTAAATATTAAAAAAATATAAAA
Found at i:95457628 original size:22 final size:23
Alignment explanation
Indices: 95457579--95457629 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
95457569 TCGATTTTGT
* *
95457579 TTAAATTCAATTTAAATATTAAA
1 TTAAATTAAAATTAAATATTAAA
*
95457602 -AAAATTAAAATTAAAT-TTAAA
1 TTAAATTAAAATTAAATATTAAA
95457623 TTAAATT
1 TTAAATT
95457630 TTAAAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TTAAATTAAAATTAAATATTAAA
Found at i:95457630 original size:11 final size:11
Alignment explanation
Indices: 95457579--95457630 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
95457569 TCGATTTTGT
* *
95457579 TTAAATTCAAT
1 TTAAATTTAAA
95457590 TTAAATATTAAA
1 TTAAAT-TTAAA
* *
95457602 -AAAATTAAAA
1 TTAAATTTAAA
95457612 TTAAATTTAAA
1 TTAAATTTAAA
95457623 TTAAATTT
1 TTAAATTT
95457631 TAAAAATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 4 0.12
11 26 0.79
12 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:95471959 original size:17 final size:17
Alignment explanation
Indices: 95471927--95471960 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95471917 TAGTAAAATA
*
95471927 TTAAAAAAATAAATATC
1 TTAAAAAAAGAAATATC
*
95471944 TTAAAAAAAGAGATATC
1 TTAAAAAAAGAAATATC
95471961 AGTTTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (17 bp):
TTAAAAAAAGAAATATC
Found at i:95476454 original size:47 final size:46
Alignment explanation
Indices: 95476403--95476571 Score: 166
Period size: 44 Copynumber: 3.6 Consensus size: 46
95476393 GAGTGCCAAA
95476403 GTAAGACATGTCTGGGACATGCATCGGCCTCGACAAAGATAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGG-CTCGACAAAGATAGCTAGT
* * ** *
95476450 GTAAGACGTGTCTGGGACACGCATCGGCT--A-GGAGTTATGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCTCGACAAAGATA-GCTAGT
* * * *
95476494 GTAAGACATGTCTGGGACATGCATCAGCACG-CATATATGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCTCGACA-A-A-GATAGCTAGT
95476542 GTAAGACCATGTCTGGGACATGACATCGGC
1 GTAAGA-CATGTCTGGGACATG-CATCGGC
95476572 AATGTATCCC
Statistics
Matches: 98, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
43 4 0.04
44 32 0.33
46 2 0.02
47 25 0.26
48 12 0.12
49 17 0.17
50 6 0.06
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCTCGACAAAGATAGCTAGT
Found at i:95476507 original size:44 final size:46
Alignment explanation
Indices: 95476306--95476571 Score: 164
Period size: 47 Copynumber: 5.7 Consensus size: 46
95476296 TTTGTGCGCC
* * * ** * * *
95476306 AGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCACAAAGATAGCT
* * * * * *
95476352 AGCGTAAGACCATGTCAGGGACATGGCATCGGCAT-AGAGATGAGT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCACA-AAGA-TAGCT
**
95476400 AAAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAAAGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-ACAAAGATAGCT
* * ** *
95476447 AGTGTAAGACGTGTCTGGGACACGCATCGG-CT-A-GGAGTTATGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCACAAAGATA-GCT
* * * * * *
95476491 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CTCACA-AAGATAGCT
95476539 AGTGTAAGACCATGTCTGGGACATGACATCGGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC
95476572 AATGTATCCC
Statistics
Matches: 171, Mismatches: 34, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.02
44 31 0.18
46 21 0.12
47 59 0.35
48 33 0.19
49 17 0.10
50 6 0.04
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCACAAAGATAGCT
Found at i:95486874 original size:22 final size:22
Alignment explanation
Indices: 95486834--95486875 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
95486824 TATTACTATT
*
95486834 ATTAGTCTTAGTATCTATTTTA
1 ATTAGTCTTAGTATATATTTTA
95486856 ATTAGTACTTA-TATATATTT
1 ATTAGT-CTTAGTATATATTT
95486876 GTACGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (22 bp):
ATTAGTCTTAGTATATATTTTA
Found at i:95486981 original size:17 final size:16
Alignment explanation
Indices: 95486958--95487001 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
95486948 TCTTACTATT
95486958 GTATGTATATATTATTA
1 GTATGTATATATT-TTA
*
95486975 TTATGTATAT-TTTTA
1 GTATGTATATATTTTA
95486990 GTATGTATATAT
1 GTATGTATATAT
95487002 ATATATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 3 0.12
17 9 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:95486985 original size:15 final size:15
Alignment explanation
Indices: 95486965--95487023 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
95486955 ATTGTATGTA
95486965 TATATTATTATTATG
1 TATATTATTATTATG
* *
95486980 TATATTTTTAGTATG
1 TATATTATTATTATG
95486995 TATATATATATATTTATG
1 TATAT-TAT-TA-TTATG
*
95487013 AAGTATTATTA
1 TA-TATTATTA
95487024 ATAGTTGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 18 0.51
16 2 0.06
17 4 0.11
18 8 0.23
19 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
TATATTATTATTATG
Found at i:95487150 original size:27 final size:27
Alignment explanation
Indices: 95487120--95487171 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
95487110 CTATGTATAC
* * *
95487120 ATACTTTTAATATTATATTTTATATGT
1 ATACTCTTAACATCATATTTTATATGT
95487147 ATACTCTTAACATCATATTTTATAT
1 ATACTCTTAACATCATATTTTATAT
95487172 ATATTATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.54
Consensus pattern (27 bp):
ATACTCTTAACATCATATTTTATATGT
Found at i:95490385 original size:34 final size:35
Alignment explanation
Indices: 95490338--95490404 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
95490328 GATTTTTGTG
*
95490338 ACTGCATATCTGTTACTAAGATGGGCTAAGGCCCC
1 ACTGCATATCTGTTACTAAGATGAGCTAAGGCCCC
* *
95490373 ACTGCTTA-CTGTTACTGAGATGAGCTAAGGCC
1 ACTGCATATCTGTTACTAAGATGAGCTAAGGCC
95490405 AAATTGATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 22 0.76
35 7 0.24
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (35 bp):
ACTGCATATCTGTTACTAAGATGAGCTAAGGCCCC
Found at i:95491328 original size:21 final size:21
Alignment explanation
Indices: 95491302--95491343 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
95491292 TTTTCCTAAC
*
95491302 ATGTGAAATGGATTGAATTGA
1 ATGTGAAATGGATTAAATTGA
* *
95491323 ATGTGAATTGTATTAAATTGA
1 ATGTGAAATGGATTAAATTGA
95491344 TATTAAATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (21 bp):
ATGTGAAATGGATTAAATTGA
Found at i:95492388 original size:40 final size:40
Alignment explanation
Indices: 95492344--95492471 Score: 186
Period size: 40 Copynumber: 3.1 Consensus size: 40
95492334 TTAAGTCCGG
* *
95492344 ATATAGTACCAGCACTAAGCCTGCGGGATTTAACCTGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGG--AT
95492386 ATATATTACCAGCACGAAGCCTGCGGGATTTAA-CTAGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCT-GGAT
* *
95492426 ATATATTACCAGAACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGAT
95492466 ATATAT
1 ATATAT
95492472 ATTATATTGA
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
40 44 0.55
41 3 0.04
42 33 0.41
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (40 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGAT
Found at i:95492398 original size:42 final size:42
Alignment explanation
Indices: 95492344--95492475 Score: 198
Period size: 42 Copynumber: 3.2 Consensus size: 42
95492334 TTAAGTCCGG
* *
95492344 ATATAGTACCAGCACTAAGCCTGCGGGATTTAACCTGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATAT
95492386 ATATATTACCAGCACGAAGCCTGCGGGATTTAA-CTAGG--AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCT-GGATAT
* *
95492426 ATATATTACCAGAACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATAT
95492468 ATATATTA
1 ATATATTA
95492476 TATTGAGAGC
Statistics
Matches: 82, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
40 36 0.44
41 3 0.04
42 43 0.52
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATAT
Found at i:95500019 original size:40 final size:39
Alignment explanation
Indices: 95499972--95500123 Score: 198
Period size: 40 Copynumber: 3.7 Consensus size: 39
95499962 TACTAGCTCA
* * * *
95499972 AAGCCTGCGGAACTTTAATTCCGG-ATATAGTACCAGCACT
1 AAGCCTGCGGGA-TTTAA-CCCGGAATATATTACCAGCACG
95500012 AAGCCTGCGGGATTTAACCCGGATATATATATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGG--A-ATATATTACCAGCACG
95500054 AAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGA-ATATATTACCAGCACG
95500094 AAGCCTGCGGGATTTAACCCGGATATATAT
1 AAGCCTGCGGGATTTAACCCGGA-ATATAT
95500124 ATTATATCGA
Statistics
Matches: 104, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
38 4 0.04
39 5 0.05
40 59 0.57
42 36 0.35
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (39 bp):
AAGCCTGCGGGATTTAACCCGGAATATATTACCAGCACG
Found at i:95500058 original size:42 final size:42
Alignment explanation
Indices: 95499996--95500127 Score: 232
Period size: 42 Copynumber: 3.2 Consensus size: 42
95499986 TTAATTCCGG
* *
95499996 ATATAGTACCAGCACTAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
95500038 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG--AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
95500078 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
95500120 ATATATTA
1 ATATATTA
95500128 TATCGAGAGC
Statistics
Matches: 86, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
40 40 0.47
42 46 0.53
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:95511879 original size:5 final size:5
Alignment explanation
Indices: 95511869--95511897 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
95511859 AATTAGTAAT
95511869 AATTA AATTA AATTA AATTA AATTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATT
95511898 GTAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTA
Found at i:95526037 original size:27 final size:25
Alignment explanation
Indices: 95525995--95526048 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
95525985 AAATGCTCAT
* *
95525995 GAAAAAAAAAAGAAGAACAAGAAAA
1 GAAAAAAAAAAAAAGAACAACAAAA
95526020 GAAAAGAAAAGAAAAAGAACAACAAAA
1 GAAAA-AAAA-AAAAAGAACAACAAAA
95526047 GA
1 GA
95526049 GAGCATATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.20
26 4 0.16
27 16 0.64
ACGTcount: A:0.78, C:0.06, G:0.17, T:0.00
Consensus pattern (25 bp):
GAAAAAAAAAAAAAGAACAACAAAA
Found at i:95527344 original size:25 final size:25
Alignment explanation
Indices: 95527314--95527376 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
95527304 ACCTTTCTCA
95527314 TCTCTTCACTTCTC-TCTCATTTTTC
1 TCTCTTCACTTCTCTTCT-ATTTTTC
*
95527339 TCTCTTCA-TTCCCTTCTATTTTTC
1 TCTCTTCACTTCTCTTCTATTTTTC
*
95527363 T-TCATTCTCTTCTC
1 TCTC-TTCACTTCTC
95527377 CTATTCCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 2 0.06
24 15 0.47
25 15 0.47
ACGTcount: A:0.08, C:0.35, G:0.00, T:0.57
Consensus pattern (25 bp):
TCTCTTCACTTCTCTTCTATTTTTC
Found at i:95529060 original size:16 final size:16
Alignment explanation
Indices: 95529039--95529073 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
95529029 GTTTGATACA
* *
95529039 GGCTGGGTTGGGCTTG
1 GGCTGGGTTAGGCTCG
95529055 GGCTGGGTTAGGCTCG
1 GGCTGGGTTAGGCTCG
95529071 GGC
1 GGC
95529074 GTAGCTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.17, G:0.54, T:0.26
Consensus pattern (16 bp):
GGCTGGGTTAGGCTCG
Found at i:95531313 original size:80 final size:81
Alignment explanation
Indices: 95531121--95531349 Score: 235
Period size: 80 Copynumber: 2.7 Consensus size: 81
95531111 GCATTTTTTT
* ** * *
95531121 ACTCAATTAGATACTTGAACTTTCAAAATGCAATAAAAAGGCCCTCAAATTTTTTCAAAAAAAGC
1 ACTCAATTAGGTACTTGAACTGCCAAAATGC-ATAAAAAGACCCTCAAA---CTT-AAAAAAA--
* * * *
95531186 AATTAAGCCACTATTTTTTTTGC
59 AATTAAACCACTACTTTTTTGGA
* * *
95531209 ACTCAATTGGGTACTTAAACTGCCAAAATGCATAAAAAGACCCTTAAACTTAAAAAAAAATTAAA
1 ACTCAATTAGGTACTTGAACTGCCAAAATGCATAAAAAGACCCTCAAACTTAAAAAAAAATTAAA
*
95531274 CC-CTGCTTTTTTGGA
66 CCACTACTTTTTTGGA
* * *
95531289 ACTCAATTAGGTACTTGAACTGCCAAAATACATAAAAAAAGCCCCCAAACTTAAAAAAAAA
1 ACTCAATTAGGTACTTGAACTGCCAAAATGCATAAAAAGA-CCCTCAAACTTAAAAAAAAA
95531350 AACAAAAAAA
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
80 45 0.37
81 26 0.21
83 7 0.06
84 2 0.02
87 15 0.12
88 26 0.21
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (81 bp):
ACTCAATTAGGTACTTGAACTGCCAAAATGCATAAAAAGACCCTCAAACTTAAAAAAAAATTAAA
CCACTACTTTTTTGGA
Found at i:95531778 original size:34 final size:34
Alignment explanation
Indices: 95531740--95531811 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
95531730 CATCTTCTTT
* * *
95531740 CTCTCTTTCTTTCTTTCTCAGGCAAATCTCATTC
1 CTCTCTTTCTCTCTTTCCCAGACAAATCTCATTC
95531774 CTCTCTTTCTCTCTTTCCCAGACAAATCTCATTC
1 CTCTCTTTCTCTCTTTCCCAGACAAATCTCATTC
95531808 CTCT
1 CTCT
95531812 TCATAGGGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.15, C:0.36, G:0.04, T:0.44
Consensus pattern (34 bp):
CTCTCTTTCTCTCTTTCCCAGACAAATCTCATTC
Found at i:95535088 original size:20 final size:19
Alignment explanation
Indices: 95535044--95535090 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
95535034 TATCCAAACA
95535044 CTAGAAAAGTAAATCATTT
1 CTAGAAAAGTAAATCATTT
*
95535063 CCAGAAAAGTAAATCATTTT
1 CTAGAAAAGTAAATCA-TTT
95535083 CTAGAAAA
1 CTAGAAAA
95535091 TATTTTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.28
Consensus pattern (19 bp):
CTAGAAAAGTAAATCATTT
Found at i:95535385 original size:20 final size:20
Alignment explanation
Indices: 95535356--95535399 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
95535346 CCTTTGGCCT
95535356 TTAACCTTAACAATTGACTA
1 TTAACCTTAACAATTGACTA
*
95535376 TTAACTTTAACAATTGACTA
1 TTAACCTTAACAATTGACTA
95535396 TTAA
1 TTAA
95535400 AGTTAACGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.39
Consensus pattern (20 bp):
TTAACCTTAACAATTGACTA
Found at i:95535405 original size:20 final size:20
Alignment explanation
Indices: 95535362--95535406 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
95535352 GCCTTTAACC
**
95535362 TTAACAATTGACTATTAACT
1 TTAACAATTGACTATTAAAG
95535382 TTAACAATTGACTATTAAAG
1 TTAACAATTGACTATTAAAG
95535402 TTAAC
1 TTAAC
95535407 GGCCTAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (20 bp):
TTAACAATTGACTATTAAAG
Found at i:95536587 original size:55 final size:55
Alignment explanation
Indices: 95536503--95536613 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
95536493 AGGAATTAGT
*
95536503 TATAATCACCAAAGCGAGCTAATCACCGATGTCTAGATTTGATTAATTTTATAAA
1 TATAATCACCAAAGCGAGCTAATCACCGATGTCTAGATTTGATTAATTTTACAAA
*
95536558 TATAATCACCAAAGCGAGCTAATCACCGATGTCTAGATTTGTTTAATTTTACAAA
1 TATAATCACCAAAGCGAGCTAATCACCGATGTCTAGATTTGATTAATTTTACAAA
95536613 T
1 T
95536614 TAAGTGTTCC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (55 bp):
TATAATCACCAAAGCGAGCTAATCACCGATGTCTAGATTTGATTAATTTTACAAA
Found at i:95536995 original size:8 final size:9
Alignment explanation
Indices: 95536981--95537063 Score: 67
Period size: 10 Copynumber: 8.7 Consensus size: 9
95536971 GATAAAACAA
95536981 ATAAAAATT
1 ATAAAAATT
95536990 ATAAAAATT
1 ATAAAAATT
**
95536999 ATTAAATTTT
1 A-TAAAAATT
*
95537009 AATAAAAATC
1 -ATAAAAATT
* *
95537019 GTATAAATT
1 ATAAAAATT
95537028 ATTAAAAATT
1 A-TAAAAATT
*
95537038 GTAAAAATT
1 ATAAAAATT
95537047 ATAAAAAATT
1 AT-AAAAATT
95537057 GATAAAA
1 -ATAAAA
95537064 TATATAGAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
9 25 0.44
10 29 0.51
11 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:95537004 original size:19 final size:19
Alignment explanation
Indices: 95536981--95537063 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
95536971 GATAAAACAA
95536981 ATAAAAATTA-TAAAAATT
1 ATAAAAATTATTAAAAATT
** * *
95536999 ATTAAATTTTAATAAAAATC
1 A-TAAAAATTATTAAAAATT
* *
95537019 GTATAAATTATTAAAAATT
1 ATAAAAATTATTAAAAATT
* *
95537038 GTAAAAATTATAAAAAATT
1 ATAAAAATTATTAAAAATT
95537057 GATAAAA
1 -ATAAAA
95537064 TATATAGAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
18 1 0.02
19 37 0.74
20 12 0.24
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (19 bp):
ATAAAAATTATTAAAAATT
Found at i:95537056 original size:29 final size:29
Alignment explanation
Indices: 95536980--95537053 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
95536970 AGATAAAACA
**
95536980 AATAAAAATTATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAAATTATTAAAAATT
** *
95537009 AATAAAAATCGTATAAATTATTAAAAATT
1 AATAAAAATTATAAAAATTATTAAAAATT
*
95537038 -GTAAAAATTATAAAAA
1 AATAAAAATTATAAAAA
95537054 ATTGATAAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 12 0.33
29 24 0.67
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (29 bp):
AATAAAAATTATAAAAATTATTAAAAATT
Found at i:95538060 original size:24 final size:24
Alignment explanation
Indices: 95538007--95538060 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
95537997 TTAGTAATAT
* *
95538007 TTTTTTCTCTGTCTTTTGACACGC
1 TTTTCTCTCTGTCTTTTAACACGC
* *
95538031 TCTTCTCTCTGTCTTTTAACAGGC
1 TTTTCTCTCTGTCTTTTAACACGC
95538055 TTTTCT
1 TTTTCT
95538061 GCTTGTTAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.09, C:0.26, G:0.11, T:0.54
Consensus pattern (24 bp):
TTTTCTCTCTGTCTTTTAACACGC
Found at i:95541715 original size:57 final size:57
Alignment explanation
Indices: 95541627--95541742 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
95541617 AAATTATAAG
95541627 ATGCCTATTAAAGAACCATCGCATCCCATCCATCACTAGCTTCAAATCAATCATATA
1 ATGCCTATTAAAGAACCATCGCATCCCATCCATCACTAGCTTCAAATCAATCATATA
95541684 ATGCCTATTAAAGAACCATCGCATCCCATCCATCACTAGCTTCAAATCAATCATATA
1 ATGCCTATTAAAGAACCATCGCATCCCATCCATCACTAGCTTCAAATCAATCATATA
95541741 AT
1 AT
95541743 AGAATTAGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (57 bp):
ATGCCTATTAAAGAACCATCGCATCCCATCCATCACTAGCTTCAAATCAATCATATA
Found at i:95547749 original size:14 final size:15
Alignment explanation
Indices: 95547717--95547751 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
95547707 ATTTATATTT
*
95547717 ATATTATTTTTAATC
1 ATATTATTTTTAATA
95547732 ATATTATTTTTAA-A
1 ATATTATTTTTAATA
95547746 ATATTA
1 ATATTA
95547752 GAAGTCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATTATTTTTAATA
Found at i:95549830 original size:132 final size:131
Alignment explanation
Indices: 95549656--95549955 Score: 302
Period size: 131 Copynumber: 2.3 Consensus size: 131
95549646 CGTTCGATCG
* ** * * * * *
95549656 TTTTGAGCAAACAAGAAATCACAACCCAGCACGATGGGGCATGATTCT-CAAATTG-TCAAACGC
1 TTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGCGCATGATTCTGCAAATTGCT-AAACAC
* * * * * *
95549719 CAAATATTGCCTTCGTTTTAAATTATTTTTAGAAGATATGAAAG-GAAATTTTGAAGGGATACTC
65 CAAATATCGCCTTCGTTTTAAA-GAATATTAAAAGACATG--AGTGAAATTTTGAAGGGATACTC
95549783 GATTA
127 GATTA
* * * *
95549788 TTTTGAGCAAACGTGAAATTGCAACCCAACACGTTAGCGCATGATTCTGCGAATTGCTAAATATC
1 TTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGCGCATGATTCTGCAAATTGCTAAACACC
* * * * * *
95549853 GAATCTCGTCTTCGTTTTGAAGAATATTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATT
66 AAATATCGCCTTCGTTTTAAAGAATATTAAAAGACATGAGTGAAATTTTGAAGGGATACTCGATT
95549918 A
131 A
*
95549919 TTTTGAGCAAACGCA-AAATTGCAACCCAACACATTAG
1 TTTTGAGCAAACG-AGAAATTGCAACCCAACACGTTAG
95549956 GGCACTATTT
Statistics
Matches: 138, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
130 2 0.01
131 57 0.41
132 52 0.38
133 26 0.19
134 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (131 bp):
TTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGCGCATGATTCTGCAAATTGCTAAACACC
AAATATCGCCTTCGTTTTAAAGAATATTAAAAGACATGAGTGAAATTTTGAAGGGATACTCGATT
A
Found at i:95549931 original size:131 final size:131
Alignment explanation
Indices: 95549763--95550008 Score: 361
Period size: 131 Copynumber: 1.9 Consensus size: 131
95549753 GATATGAAAG
** *
95549763 GAAATTTTGAAGGGATACTCGATTATTTTGAGCAAACGTGAAATTGCAACCCAACACGTTAGCGC
1 GAAATTTTGAAGGGATACTCGATTATTTTGAGCAAACGCAAAATTGCAACCCAACACATTAGCGC
* * * *
95549828 A-TGA-TTCTGCGAATTGCTAAATATCGAATCTCGTCTTCGTTTTGAAGAATATTAAAAGACATG
66 ACT-ATTTC-GCGAATTGCTAAAGATCGAATCTCATCTTCATTTTAAAGAATATTAAAAGACATG
95549891 AGT
129 AGT
* * *
95549894 GAAATTTTGAAGTGATATTCGATTATTTTGAGCAAACGCAAAATTGCAACCCAACACATTAGGGC
1 GAAATTTTGAAGGGATACTCGATTATTTTGAGCAAACGCAAAATTGCAACCCAACACATTAGCGC
*
95549959 ACTATTTCGTGAATTGCTAAAGATCGAATCTCATCTTCATTTTAAAGAAT
66 ACTATTTCGCGAATTGCTAAAGATCGAATCTCATCTTCATTTTAAAGAAT
95550009 TCTTAACCGA
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
131 98 0.96
132 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (131 bp):
GAAATTTTGAAGGGATACTCGATTATTTTGAGCAAACGCAAAATTGCAACCCAACACATTAGCGC
ACTATTTCGCGAATTGCTAAAGATCGAATCTCATCTTCATTTTAAAGAATATTAAAAGACATGAG
T
Found at i:95553240 original size:17 final size:15
Alignment explanation
Indices: 95553217--95553256 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
95553207 TTTAAAATTG
*
95553217 ATATAAACTTATTAAA
1 ATATAAAATTA-TAAA
95553233 ACTATAAAATTATAAA
1 A-TATAAAATTATAAA
95553249 ATATAAAA
1 ATATAAAA
95553257 AATCTAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 9 0.41
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAAAATTATAAA
Found at i:95553690 original size:19 final size:18
Alignment explanation
Indices: 95553653--95553691 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
95553643 CGTTTAGTTC
*
95553653 AATTAAACAAAACATTAA
1 AATTAAAAAAAACATTAA
*
95553671 AATTAAAAAAATATATTAA
1 AATTAAAAAAA-ACATTAA
95553690 AA
1 AA
95553692 AAAATTGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AATTAAAAAAAACATTAA
Found at i:95557804 original size:19 final size:19
Alignment explanation
Indices: 95557782--95557832 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
95557772 TTGATATCAA
95557782 TTTTAATACTTTTTTAT-AT
1 TTTTAATA-TTTTTTATGAT
* *
95557801 TTTTTATAATTTTTATGAT
1 TTTTAATATTTTTTATGAT
*
95557820 TTTAAATATTTTT
1 TTTTAATATTTTT
95557833 ATACAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTAATATTTTTTATGAT
Found at i:95557832 original size:29 final size:28
Alignment explanation
Indices: 95557815--95557872 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
95557805 TATAATTTTT
*
95557815 ATGATTTTAAATATTTTTATACAATTTTA
1 ATGATTTTAAATATTTTT-TATAATTTTA
* *
95557844 ATTATTTTAAATATGTTTTATTAATTTTA
1 ATGATTTTAAATATTTTTTA-TAATTTTA
95557873 TAATTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (28 bp):
ATGATTTTAAATATTTTTTATAATTTTA
Found at i:95557850 original size:9 final size:9
Alignment explanation
Indices: 95557838--95557918 Score: 56
Period size: 9 Copynumber: 8.6 Consensus size: 9
95557828 TTTTTATACA
95557838 ATTTTAATT
1 ATTTTAATT
*
95557847 ATTTTAAAT
1 ATTTTAATT
*
95557856 ATGTTTTATT
1 AT-TTTAATT
95557866 AATTTTATAATTT
1 -A-TTT-TAA-TT
**
95557879 ATTAGAATT
1 ATTTTAATT
*
95557888 ATTATAATT
1 ATTTTAATT
*
95557897 ATTATAA-T
1 ATTTTAATT
95557905 ATTTTAATT
1 ATTTTAATT
95557914 ATTTT
1 ATTTT
95557919 TATAAGTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
8 7 0.12
9 33 0.57
10 7 0.12
11 5 0.09
12 4 0.07
13 2 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTTTAATT
Found at i:95557923 original size:20 final size:20
Alignment explanation
Indices: 95557818--95557923 Score: 58
Period size: 20 Copynumber: 5.0 Consensus size: 20
95557808 AATTTTTATG
*
95557818 ATTTTAAATATTTTTATACA-
1 ATTTTAATTATTTTTATA-AT
95557838 ATTTTAATTA-TTTTA-AAT
1 ATTTTAATTATTTTTATAAT
* *
95557856 ATGTTTTATTAATTTTATAAT
1 AT-TTTAATTATTTTTATAAT
95557877 -TTATTAGAATTATTATAATTATTATAAT
1 ATT-TT---A--ATTAT--TT-TTATAAT
95557905 ATTTTAATTATTTTTATAA
1 ATTTTAATTATTTTTATAA
95557924 GTTTATATCA
Statistics
Matches: 68, Mismatches: 4, Indels: 28
0.68 0.04 0.28
Matches are distributed among these distances:
17 1 0.01
18 3 0.04
19 13 0.19
20 23 0.34
21 5 0.07
23 5 0.07
25 5 0.07
27 2 0.03
28 9 0.13
29 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTAATTATTTTTATAAT
Found at i:95560470 original size:24 final size:24
Alignment explanation
Indices: 95560443--95560578 Score: 127
Period size: 24 Copynumber: 5.6 Consensus size: 24
95560433 GAAATGACCT
95560443 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
95560467 TGGCACTATGTGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGGATTTGA-A
*
95560491 CGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* ** *
95560515 TCGTCGA-TATGTGTATGGATTATTAA
1 T-GGC-ACTATGTGTGCGGATT-TGAA
* *
95560541 -GGCACTATGTGTGCGG-GTTAACA
1 TGGCACTATGTGTGCGGATTTGA-A
*
95560564 TGGCACTATGGGTGC
1 TGGCACTATGTGTGC
95560579 AAATTTCCTT
Statistics
Matches: 92, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
22 2 0.02
23 4 0.04
24 67 0.73
25 15 0.16
26 4 0.04
ACGTcount: A:0.21, C:0.14, G:0.32, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:95560545 original size:49 final size:48
Alignment explanation
Indices: 95560444--95560573 Score: 149
Period size: 48 Copynumber: 2.7 Consensus size: 48
95560434 AAATGACCTT
* *
95560444 GGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCGGATTTATAC
1 GGCACTATGTGTGCGGATTTGAATGGCACTATGTGTACGGATTTATAA
* *
95560492 GGCACTATGTGTGCGGATTTGAATCGTCGA-TATGTGTATGGA-TTATTAA
1 GGCACTATGTGTGCGGATTTGAAT-GGC-ACTATGTGTACGGATTTA-TAA
* *
95560541 GGCACTATGTGTGCGG-GTTAACATGGCACTATG
1 GGCACTATGTGTGCGGATTTGA-ATGGCACTATG
95560574 GGTGCAAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
47 1 0.01
48 36 0.51
49 32 0.46
50 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (48 bp):
GGCACTATGTGTGCGGATTTGAATGGCACTATGTGTACGGATTTATAA
Found at i:95565972 original size:18 final size:18
Alignment explanation
Indices: 95565909--95565962 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
95565899 ATGAAAAAAC
95565909 AATGATATTTGAAAT-AT
1 AATGATATTTGAAATAAT
** *
95565926 TTTACATATTTGAAATAAT
1 AAT-GATATTTGAAATAAT
95565945 AATGATATTTGAAATAAT
1 AATGATATTTGAAATAAT
95565963 TATTTGATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 1 0.03
18 25 0.86
19 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (18 bp):
AATGATATTTGAAATAAT
Found at i:95566046 original size:13 final size:13
Alignment explanation
Indices: 95566028--95566062 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
95566018 AATATTTGAC
*
95566028 ATATAAAAATTAT
1 ATATAAAAAATAT
95566041 ATATAAAAAATAT
1 ATATAAAAAATAT
95566054 ATATCAAAA
1 ATAT-AAAA
95566063 GTAATATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAAAATAT
Found at i:95567364 original size:91 final size:91
Alignment explanation
Indices: 95567179--95567357 Score: 218
Period size: 91 Copynumber: 2.0 Consensus size: 91
95567169 ATTTGGGGTA
* ** *
95567179 TTTTTTATAAATTTTGAAAGTTTAAGTACTCAATTGAGTGTTAAAAAAAGTAAGGGCTTAATTGT
1 TTTTTTATAAATTTTGAAAGTTTAAGTACTCAAGTGAGTGACAAAAAAAATAAGGGCTTAATTGT
* *** *
95567244 TTTTTTTTTTTAAAGTTTGAAGACTT
66 CTTTTTTTGAAAAAATTTGAAGACTT
* *
95567270 TTTTTTATACATTTTGAAAGTTTAAGTAC-CGAAGTGAGTGCAACAAAAAAAATAGGGGCTTAAT
1 TTTTTTATAAATTTTGAAAGTTTAAGTACTC-AAGTGAGTG--ACAAAAAAAATAAGGGCTTAAT
95567334 TG-CTTTTTTTGAAAAAATTTGAAG
63 TGTCTTTTTTTGAAAAAATTTGAAG
95567358 GTTTTTTACA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
90 1 0.01
91 36 0.49
92 17 0.23
93 20 0.27
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (91 bp):
TTTTTTATAAATTTTGAAAGTTTAAGTACTCAAGTGAGTGACAAAAAAAATAAGGGCTTAATTGT
CTTTTTTTGAAAAAATTTGAAGACTT
Found at i:95570882 original size:12 final size:12
Alignment explanation
Indices: 95570865--95570889 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95570855 AAGAATAATC
95570865 GAGAATTCAATT
1 GAGAATTCAATT
95570877 GAGAATTCAATT
1 GAGAATTCAATT
95570889 G
1 G
95570890 GGCACCCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (12 bp):
GAGAATTCAATT
Found at i:95574889 original size:16 final size:16
Alignment explanation
Indices: 95574868--95574902 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
95574858 TGGCTGGGGG
95574868 AATGGAATA-AGACTGT
1 AATGGAATAGAG-CTGT
95574884 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
95574900 AAT
1 AAT
95574903 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.26
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:95574977 original size:39 final size:42
Alignment explanation
Indices: 95574887--95574989 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 42
95574877 AGACTGTAAT
95574887 GGAATAGAGCTGTAATCAGTAATTCAGTTGTTTGGTTGAATAGAA
1 GGAATAGAGCTGTAAT-AGTAATTCAGTTGTTTGGTTGAAT--AA
*
95574932 TGGAATAGAGCTGTAATAGT-ATTC-TTGTGTTTGGTTGAAT-A
1 -GGAATAGAGCTGTAATAGTAATTCAGT-TGTTTGGTTGAATAA
*
95574973 -GAATAGATGATGTAATA
1 GGAATAGA-GCTGTAATA
95574990 ACATAAGAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
39 7 0.13
40 8 0.15
41 1 0.02
43 1 0.02
44 17 0.32
45 3 0.06
46 16 0.30
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (42 bp):
GGAATAGAGCTGTAATAGTAATTCAGTTGTTTGGTTGAATAA
Found at i:95575170 original size:29 final size:28
Alignment explanation
Indices: 95575137--95575204 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
95575127 ATATTTTAAC
*
95575137 ATAATTATTA-TGAAATACAATTTAATAAA
1 ATAATTATTATTGAAA-A-AAATTAATAAA
* * *
95575166 ATAATATATAATTTAAAAAAATTAATATA
1 ATAAT-TATTATTGAAAAAAATTAATAAA
95575195 ATAATTATTA
1 ATAATTATTA
95575205 AAATATGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 4 0.12
29 19 0.59
30 5 0.16
31 4 0.12
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (28 bp):
ATAATTATTATTGAAAAAAATTAATAAA
Found at i:95575193 original size:21 final size:21
Alignment explanation
Indices: 95575155--95575200 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
95575145 TATGAAATAC
*
95575155 AATTTAATAAAATAATAT-AT
1 AATTTAAAAAAATAATATAAT
95575175 AATTTAAAAAAATTAATATAAT
1 AATTTAAAAAAA-TAATATAAT
95575197 AATT
1 AATT
95575201 ATTAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.48
21 6 0.26
22 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTTAAAAAAATAATATAAT
Found at i:95575207 original size:21 final size:21
Alignment explanation
Indices: 95575155--95575208 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
95575145 TATGAAATAC
95575155 AATTTAATAAAA-TAATATAT
1 AATTTAATAAAATTAATATAT
*
95575175 AATTTAAAAAAATTAATATAAT
1 AATTTAATAAAATTAATAT-AT
*
95575197 AA-TTATTAAAAT
1 AATTTAATAAAAT
95575209 ATGAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.38
21 14 0.48
22 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTTAATAAAATTAATATAT
Found at i:95575224 original size:57 final size:56
Alignment explanation
Indices: 95575078--95575256 Score: 145
Period size: 57 Copynumber: 3.1 Consensus size: 56
95575068 AATTTTGATA
* ** * *
95575078 ATAAT-ATTATT-AAATATAATTTAATAAAAAAATAATAAATAATTTAATCATATTTT
1 ATAATAATTATTAAAATATAATTTAAT--AAAAATAATATATAATTTAAAAAAATTAT
*
95575134 A-ACATAATTATTATGAAATACAATTTAAT-AAAATAATATATAATTTAAAAAAATTAAT
1 ATA-ATAATTATTA--AAATATAATTTAATAAAAATAATATATAATTTAAAAAAATT-AT
95575192 ATAATAATTATTAAAATATGAA-TTAATAAAAATCATAATATATAATGTTAGAAAATAA-TAT
1 ATAATAATTATTAAAATAT-AATTTAAT-AAAA--ATAATATATAAT-TTA-AAAA-AATTAT
95575253 ATAA
1 ATAA
95575257 CCCTACTTTA
Statistics
Matches: 101, Mismatches: 7, Indels: 25
0.76 0.05 0.19
Matches are distributed among these distances:
55 1 0.01
56 13 0.13
57 30 0.30
58 15 0.15
59 1 0.01
60 25 0.25
61 9 0.09
62 5 0.05
63 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (56 bp):
ATAATAATTATTAAAATATAATTTAATAAAAATAATATATAATTTAAAAAAATTAT
Found at i:95577110 original size:20 final size:20
Alignment explanation
Indices: 95577085--95577124 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
95577075 ATTTAAGTAT
95577085 TAAAAGATATTTATTAATTA
1 TAAAAGATATTTATTAATTA
95577105 TAAAAGATATTTATTAATTA
1 TAAAAGATATTTATTAATTA
95577125 AATAATTATA
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:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAAAGATATTTATTAATTA
Found at i:95577356 original size:12 final size:11
Alignment explanation
Indices: 95577339--95577378 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
95577329 GAAAAGCAGG
95577339 GAAAGAAAGAAA
1 GAAAGAAAG-AA
*
95577351 GAAAGAAAGGA
1 GAAAGAAAGAA
95577362 GAAAAGAAAGAA
1 G-AAAGAAAGAA
95577374 GAAAG
1 GAAAG
95577379 GGAAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
GAAAGAAAGAA
Found at i:95577369 original size:20 final size:18
Alignment explanation
Indices: 95577344--95577384 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
95577334 GCAGGGAAAG
95577344 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAG-AAGAAAGG-GA
95577364 AAAGAAAGAAGAAAGGGA
1 AAAGAAAGAAGAAAGGGA
95577382 AAA
1 AAA
95577385 TTGAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAGAAAGGGA
Found at i:95581799 original size:46 final size:46
Alignment explanation
Indices: 95581730--95581837 Score: 162
Period size: 46 Copynumber: 2.3 Consensus size: 46
95581720 TTATGCATTT
* * * * *
95581730 CAGTATGAAAATCAGTTCGGTAACAATAACAAAATTAGTTTGGTAA
1 CAGTATCAAAATCAGTACAGTAACAATAACAAAAATAATTTGGTAA
*
95581776 CAGTATCAAAATCAGTACAGTAACAATATCAAAAATAATTTGGTAA
1 CAGTATCAAAATCAGTACAGTAACAATAACAAAAATAATTTGGTAA
95581822 CAGTATCAAAATCAGT
1 CAGTATCAAAATCAGT
95581838 TTGATAACAG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (46 bp):
CAGTATCAAAATCAGTACAGTAACAATAACAAAAATAATTTGGTAA
Found at i:95581840 original size:23 final size:23
Alignment explanation
Indices: 95581730--95581850 Score: 127
Period size: 23 Copynumber: 5.3 Consensus size: 23
95581720 TTATGCATTT
* *
95581730 CAGTATGAAAATCAGTTCGGTAA
1 CAGTATCAAAATCAGTTTGGTAA
* * *
95581753 CAATAACAAAATTAGTTTGGTAA
1 CAGTATCAAAATCAGTTTGGTAA
***
95581776 CAGTATCAAAATCAGTACAGTAA
1 CAGTATCAAAATCAGTTTGGTAA
* *
95581799 CAATATCAAAAAT-AATTTGGTAA
1 CAGTATC-AAAATCAGTTTGGTAA
*
95581822 CAGTATCAAAATCAGTTTGATAA
1 CAGTATCAAAATCAGTTTGGTAA
95581845 CAGTAT
1 CAGTAT
95581851 TAGCATATAT
Statistics
Matches: 77, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
22 5 0.06
23 67 0.87
24 5 0.06
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.28
Consensus pattern (23 bp):
CAGTATCAAAATCAGTTTGGTAA
Found at i:95587457 original size:20 final size:18
Alignment explanation
Indices: 95587424--95587472 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
95587414 TTTTAAAAAC
95587424 ATAAATTTTTAATTTTTT
1 ATAAATTTTTAATTTTTT
95587442 ATAAATATTTTGAATTTTTT
1 ATAAAT-TTTT-AATTTTTT
* *
95587462 TTTAATTTTTA
1 ATAAATTTTTA
95587473 TTAAGAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.26
19 8 0.30
20 12 0.44
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
ATAAATTTTTAATTTTTT
Found at i:95589550 original size:100 final size:100
Alignment explanation
Indices: 95589377--95589576 Score: 382
Period size: 100 Copynumber: 2.0 Consensus size: 100
95589367 GTTTTAAGTT
95589377 AGAATCGATCATTTCAAAATGTAAATATGAATTGTCGAACATAATCCAAACCTGATAATACGCCT
1 AGAATCGATCATTTCAAAATGTAAATATGAATTGTCGAACATAATCCAAACCTGATAATACGCCT
*
95589442 TGTATGGCATCAATCACTATAGGAACAATGAGCAA
66 TGTATGGCATCAATCACTATAGAAACAATGAGCAA
95589477 AGAATCGATCATTTCAAAATGTAAATATGAATTGTCGAACATAATCCAAACCTGATAATACGCCT
1 AGAATCGATCATTTCAAAATGTAAATATGAATTGTCGAACATAATCCAAACCTGATAATACGCCT
*
95589542 TGTATGGCATCAATCACTATAGAAACGATGAGCAA
66 TGTATGGCATCAATCACTATAGAAACAATGAGCAA
95589577 CGGTGTCAAC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (100 bp):
AGAATCGATCATTTCAAAATGTAAATATGAATTGTCGAACATAATCCAAACCTGATAATACGCCT
TGTATGGCATCAATCACTATAGAAACAATGAGCAA
Found at i:95593793 original size:9 final size:9
Alignment explanation
Indices: 95593776--95593837 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 9
95593766 TTTTTATAGT
95593776 TTTTAATAAA
1 TTTT-ATAAA
*
95593786 TTTTATAAT
1 TTTTATAAA
95593795 TATTTATAAA
1 T-TTTATAAA
*
95593805 TTTCTAATAATTC
1 TTT-T-ATAA--A
95593818 TTTTATAAA
1 TTTTATAAA
95593827 TTTTATAAA
1 TTTTATAAA
95593836 TT
1 TT
95593838 ATATTTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
9 18 0.42
10 13 0.30
11 8 0.19
12 1 0.02
13 3 0.07
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTATAAA
Found at i:95593852 original size:9 final size:10
Alignment explanation
Indices: 95593764--95593863 Score: 55
Period size: 10 Copynumber: 9.6 Consensus size: 10
95593754 ATTTTTCTAT
*
95593764 ATTTTTTATA
1 ATTTTTAATA
*
95593774 GTTTTTAATA
1 ATTTTTAATA
*
95593784 AATTTT-ATA
1 ATTTTTAATA
95593793 ATTATTT-ATAA
1 ATT-TTTAAT-A
*
95593804 ATTTCTAATA
1 ATTTTTAATA
*
95593814 ATTCTTTTATAA
1 ATT-TTTAAT-A
95593826 ATTTTATAAATTA
1 ATTTT-T-AA-TA
95593839 TATTTTTAA-A
1 -ATTTTTAATA
95593849 A-TTTTAATA
1 ATTTTTAATA
95593858 ATTTTT
1 ATTTTT
95593864 TATTTAAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
8 6 0.09
9 8 0.11
10 28 0.40
11 12 0.17
12 7 0.10
13 3 0.04
14 6 0.09
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:95593860 original size:23 final size:21
Alignment explanation
Indices: 95593781--95593860 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 21
95593771 ATAGTTTTTA
95593781 ATAAATTTTATAA-T-TATTT
1 ATAAATTTTATAATTATATTT
*
95593800 ATAAATTTCTAATAATTCT-TTT
1 ATAAATTT-T-ATAATTATATTT
95593822 ATAAATTTTATAAATTATATTT
1 ATAAATTTTAT-AATTATATTT
*
95593844 TTAAAATTTTAATAATT
1 AT-AAATTTT-ATAATT
95593861 TTTTATTTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
19 8 0.16
20 3 0.06
21 10 0.20
22 16 0.31
23 12 0.24
24 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
ATAAATTTTATAATTATATTT
Found at i:95593869 original size:23 final size:24
Alignment explanation
Indices: 95593794--95593871 Score: 69
Period size: 23 Copynumber: 3.4 Consensus size: 24
95593784 AATTTTATAA
*
95593794 TTATTTATAAATTTCTAATAATTCTT
1 TTATTTA-AAATTT-TAATAATTATT
*
95593820 TTA--T-AAATTTT-ATAAATTATA
1 TTATTTAAAATTTTAAT-AATTATT
95593841 TT-TTTAAAATTTTAATAATT-TT
1 TTATTTAAAATTTTAATAATTATT
95593863 TTATTTAAA
1 TTATTTAAA
95593872 TAATCAATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
20 2 0.05
21 8 0.19
22 10 0.23
23 17 0.40
24 3 0.07
26 3 0.07
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (24 bp):
TTATTTAAAATTTTAATAATTATT
Found at i:95594512 original size:8 final size:9
Alignment explanation
Indices: 95594493--95594579 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 9
95594483 TATTTGTAGT
95594493 TTTTTAATA
1 TTTTTAATA
95594502 TTTTTAA-A
1 TTTTTAATA
*
95594510 TTTTTTATA
1 TTTTTAATA
* *
95594519 TTTTCATTA
1 TTTTTAATA
* *
95594528 TAATTTAAAA
1 T-TTTTAATA
95594538 TTTTTAATTA
1 TTTTTAA-TA
* * *
95594548 TGCTTCAATT
1 T-TTTTAATA
95594558 TTTTATAATA
1 TTTT-TAATA
95594568 -TTTTAATA
1 TTTTTAATA
95594576 TTTT
1 TTTT
95594580 AAAAAATTTT
Statistics
Matches: 56, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
8 12 0.21
9 28 0.50
10 12 0.21
11 4 0.07
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTTAATA
Found at i:95594579 original size:18 final size:18
Alignment explanation
Indices: 95594494--95594591 Score: 58
Period size: 18 Copynumber: 5.3 Consensus size: 18
95594484 ATTTGTAGTT
95594494 TTTTAATATTTT-TAA-A
1 TTTTAATATTTTATAATA
* *
95594510 TTTTTTATATTTTCATTATA
1 -TTTTAATATTTT-ATAATA
* *
95594530 ATTTAAAATTTT-TAATTA
1 TTTTAATATTTTATAA-TA
* *
95594548 TGCTTCAATTTTTTATAATA
1 T--TTTAATATTTTATAATA
* *
95594568 TTTTAATATTTTAAAAAA
1 TTTTAATATTTTATAATA
95594586 TTTTAA
1 TTTTAA
95594592 AATTAAATGA
Statistics
Matches: 60, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
17 13 0.22
18 21 0.35
19 11 0.18
20 12 0.20
21 3 0.05
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (18 bp):
TTTTAATATTTTATAATA
Found at i:95596382 original size:14 final size:14
Alignment explanation
Indices: 95596363--95596394 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
95596353 ATAATTATTA
*
95596363 ATATATGAAAAAAT
1 ATATATAAAAAAAT
95596377 ATATATAAAAAAAT
1 ATATATAAAAAAAT
95596391 ATAT
1 ATAT
95596395 CATGTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
ATATATAAAAAAAT
Found at i:95602219 original size:13 final size:13
Alignment explanation
Indices: 95602201--95602236 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
95602191 TGAAATATCA
95602201 AAGATTTTTAGTT
1 AAGATTTTTAGTT
95602214 AAGATTTTTAGTT
1 AAGATTTTTAGTT
95602227 AAGATTTTTA
1 AAGATTTTTA
95602237 TTATAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (13 bp):
AAGATTTTTAGTT
Found at i:95603724 original size:43 final size:43
Alignment explanation
Indices: 95603676--95603768 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
95603666 TCCTAATTGG
*
95603676 GAAAATTGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
* * *
95603719 GAAAATAGTTCCCTTATTTTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
95603763 -AAAATA
1 GAAAATA
95603769 TTTCTAGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (43 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
Found at i:95603812 original size:19 final size:18
Alignment explanation
Indices: 95603790--95603829 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
95603780 TGAATAAAAC
95603790 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
95603809 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
95603827 TTA
1 TTA
95603830 AAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:95608477 original size:43 final size:44
Alignment explanation
Indices: 95608408--95608500 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
95608398 TCCTAATTGG
95608408 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* * *
95608451 GAAAATAGTTCCCTTATTTTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
95608495 -AAAATA
1 GAAAATA
95608501 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:95608544 original size:19 final size:18
Alignment explanation
Indices: 95608522--95608561 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
95608512 TGAATAAAAC
95608522 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
95608541 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
95608559 TTA
1 TTA
95608562 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:95610928 original size:43 final size:43
Alignment explanation
Indices: 95610859--95611114 Score: 345
Period size: 43 Copynumber: 6.0 Consensus size: 43
95610849 ACATAGATGT
* *
95610859 ATATGTGATTACGTGTAAAACCACGTCTGGGATGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
*
95610902 ATATGTGATTACGTGTAAGACTACGTCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * *
95610945 ATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCA
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
** * **
95610988 ATATGTGATTACGTGTAAGACCTTGACTGGGACAATGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
*
95611031 ATATGTGATTACGTGTAAGACC-CTGTCTAGGACAG-TGGCATCG
1 ATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG
* * *
95611074 ATATGTGATTACATGTAAGACCACGTCTGGAATGTTGGCAT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
95611115 TGTACGATAT
Statistics
Matches: 190, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 188 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:95618762 original size:40 final size:38
Alignment explanation
Indices: 95618670--95618766 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 38
95618660 ATCATGTCCG
*
95618670 TCCAACCC-AGCACACCATATGGGGATAAAATTGACCCA
1 TCCAACCCTA-CACACCATATGGGGATAAAATCGACCCA
* * *
95618708 -CTCATCCCTGCACACCGTATATGGGGATATAATCGACCCA
1 TC-CAACCCTACACACC--ATATGGGGATAAAATCGACCCA
95618748 TCCAACCCTACACACCATA
1 TCCAACCCTACACACCATA
95618767 AAGTACCGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
37 1 0.02
38 14 0.29
40 32 0.67
41 1 0.02
ACGTcount: A:0.33, C:0.35, G:0.13, T:0.19
Consensus pattern (38 bp):
TCCAACCCTACACACCATATGGGGATAAAATCGACCCA
Found at i:95632540 original size:40 final size:40
Alignment explanation
Indices: 95632486--95632570 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
95632476 GTCCAATCCA
* *
95632486 ACACACC--ATATGGGGATAAAATTAACTCACCCATCCCT
1 ACACACCGTATATGGGGATAAAATCAACTCACCCAACCCT
* * * *
95632524 GCACACCGTATATGGGGATATAATCGACTCATCCAACCCT
1 ACACACCGTATATGGGGATAAAATCAACTCACCCAACCCT
95632564 ACACACC
1 ACACACC
95632571 ATAAAGTACC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 6 0.16
40 32 0.84
ACGTcount: A:0.34, C:0.33, G:0.13, T:0.20
Consensus pattern (40 bp):
ACACACCGTATATGGGGATAAAATCAACTCACCCAACCCT
Found at i:95636465 original size:43 final size:42
Alignment explanation
Indices: 95636402--95636614 Score: 277
Period size: 43 Copynumber: 5.0 Consensus size: 42
95636392 ACATGGATGT
* *
95636402 ATATGTGATTACATGTAAGACCACGTCCGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACC-CGTCTGGGACGTTGGCATCG
* *
95636445 AAATGTGATTACGTGTAAGACCGTGTCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACC-CGTCTGGGACGTTGGCATCG
95636488 ATATGTGATTACGTGTAAGACCCTGTCTGGGACAG-TGGCATCG
1 ATATGTGATTACGTGTAAGACCC-GTCTGGGAC-GTTGGCATCG
* *
95636531 ATATGTGATTACGTATAAGACCCTTTCTGGGACAG-TGGCATCG
1 ATATGTGATTACGTGTAAGACCC-GTCTGGGAC-GTTGGCATCG
* *
95636574 ATATGTGATTACATGTAAGACCACGTCTGGAACGTTGGCAT
1 ATATGTGATTACGTGTAAGACC-CGTCTGGGACGTTGGCAT
95636615 TGTATGATAT
Statistics
Matches: 153, Mismatches: 13, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.01
43 150 0.98
44 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (42 bp):
ATATGTGATTACGTGTAAGACCCGTCTGGGACGTTGGCATCG
Found at i:95636550 original size:86 final size:86
Alignment explanation
Indices: 95636402--95636614 Score: 315
Period size: 86 Copynumber: 2.5 Consensus size: 86
95636392 ACATGGATGT
* *
95636402 ATATGTGATTACATGTAAGACCACGTCCGGGACGTTGGCATCGAAATGTGATTACGTGTAAGACC
1 ATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATCGAAATGTGATTACGTATAAGACC
*
95636467 GTGTCTGGGAC-GTTGGCATCG
66 CTGTCTGGGACAG-TGGCATCG
* *
95636488 ATATGTGATTACGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTACGTATAAGA
1 ATATGTGATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAAATGTGATTACGTATAAGA
*
95636551 CCCTTTCTGGGACAGTGGCATCG
64 CCCTGTCTGGGACAGTGGCATCG
*
95636574 ATATGTGATTACATGTAAGACCACGTCTGGAACGTTGGCAT
1 ATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
95636615 TGTATGATAT
Statistics
Matches: 114, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
85 2 0.02
86 109 0.96
87 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (86 bp):
ATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATCGAAATGTGATTACGTATAAGACC
CTGTCTGGGACAGTGGCATCG
Found at i:95654086 original size:20 final size:20
Alignment explanation
Indices: 95654061--95654131 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 20
95654051 AAAGATAATT
95654061 ATATATGTACATGTCACAAA
1 ATATATGTACATGTCACAAA
* *
95654081 ATATAT-TAACATATCAAAGATAA
1 ATATATGT-ACATGTC--ACA-AA
95654104 TTATATATGTACATGTCACAAA
1 --ATATATGTACATGTCACAAA
95654126 ATATAT
1 ATATAT
95654132 TATTCTCTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
19 1 0.03
20 18 0.45
22 4 0.10
23 4 0.10
25 12 0.30
26 1 0.03
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (20 bp):
ATATATGTACATGTCACAAA
Found at i:95654088 original size:45 final size:45
Alignment explanation
Indices: 95654039--95654133 Score: 190
Period size: 45 Copynumber: 2.1 Consensus size: 45
95654029 AATTTCCTTG
95654039 TATTAACATATCAAAGATAATTATATATGTACATGTCACAAAATA
1 TATTAACATATCAAAGATAATTATATATGTACATGTCACAAAATA
95654084 TATTAACATATCAAAGATAATTATATATGTACATGTCACAAAATA
1 TATTAACATATCAAAGATAATTATATATGTACATGTCACAAAATA
95654129 TATTA
1 TATTA
95654134 TTCTCTTACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (45 bp):
TATTAACATATCAAAGATAATTATATATGTACATGTCACAAAATA
Found at i:95654117 original size:25 final size:25
Alignment explanation
Indices: 95654044--95654117 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 25
95654034 CCTTGTATTA
95654044 ACATATCAAAGATAATTATATATGT
1 ACATATCAAAGATAATTATATATGT
* * *
95654069 ACATGTCACA-A-AA-TATAT-T-A
1 ACATATCAAAGATAATTATATATGT
95654089 ACATATCAAAGATAATTATATATGT
1 ACATATCAAAGATAATTATATATGT
95654114 ACAT
1 ACAT
95654118 GTCACAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 8 0.21
21 2 0.05
22 7 0.18
23 7 0.18
24 2 0.05
25 12 0.32
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.34
Consensus pattern (25 bp):
ACATATCAAAGATAATTATATATGT
Found at i:95654561 original size:46 final size:46
Alignment explanation
Indices: 95654486--95654667 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
95654476 TTATCTTCGA
* * *
95654486 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCGTTTTC-TGT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACTC-ATTTCATGT
* *
95654532 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * * *
95654578 CACGTTGACATGGTATCTTTCAACCATGGTCTTACGCATTTCATAT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
95654624 CAAGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCAT
95654668 TTCAGAGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 117 0.97
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:95654978 original size:24 final size:24
Alignment explanation
Indices: 95654951--95655072 Score: 63
Period size: 24 Copynumber: 5.2 Consensus size: 24
95654941 TTTAACGGAG
*
95654951 AGCTCATAAAGAGCCATATCGGGA
1 AGCTCACAAAGAGCCATATCGGGA
* * * *
95654975 AGCT-A-ATACGGGCTATAACGGGA
1 AGCTCACA-AAGAGCCATATCGGGA
* * * * *
95654998 AACTCA-ATAGAGCCGAAATCAGGT
1 AGCTCACAAAGAGCC-ATATCGGGA
* * * *
95655022 AGTTCACAAAGAACCGTATCGTGA
1 AGCTCACAAAGAGCCATATCGGGA
*
95655046 AGCTCACGAAGAGCC-TATCGGGA
1 AGCTCACAAAGAGCCATATCGGGA
95655069 AGCT
1 AGCT
95655073 GTGCATAGCC
Statistics
Matches: 68, Mismatches: 26, Indels: 9
0.66 0.25 0.09
Matches are distributed among these distances:
22 1 0.01
23 30 0.44
24 31 0.46
25 6 0.09
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.17
Consensus pattern (24 bp):
AGCTCACAAAGAGCCATATCGGGA
Found at i:95657294 original size:18 final size:18
Alignment explanation
Indices: 95657246--95657294 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
95657236 ATAATATAAT
95657246 TATTTAATTAATAAATATC
1 TATTTAA-TAATAAATATC
*
95657265 TTTTATAAAATAATAAATATC
1 TATT-T--AATAATAAATATC
95657286 TATTTAATA
1 TATTTAATA
95657295 TCTAATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 2 0.08
21 14 0.56
22 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAATAATAAATATC
Found at i:95659835 original size:15 final size:15
Alignment explanation
Indices: 95659800--95659854 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
95659790 GTGAAACTTT
95659800 TAAATTAAAATTAAAA
1 TAAATT-AAATTAAAA
*
95659816 TAAATTTAATTATAAA
1 TAAATTAAATTA-AAA
* *
95659832 -AAATTAAATTTAAT
1 TAAATTAAATTAAAA
95659846 TAAATTAAA
1 TAAATTAAA
95659855 ATTTTACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 2 0.06
15 22 0.67
16 9 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATTAAATTAAAA
Found at i:95659840 original size:5 final size:5
Alignment explanation
Indices: 95659799--95659854 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
95659789 TGTGAAACTT
* * * *
95659799 TTAAA TTAAAA TTAAA ATAAA TTTAA TTATAA -AAAA TTAAA TTTAA TTAAA
1 TTAAA TT-AAA TTAAA TTAAA TTAAA TTA-AA TTAAA TTAAA TTAAA TTAAA
95659850 TTAAA
1 TTAAA
95659855 ATTTTACATT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
4 2 0.05
5 31 0.77
6 7 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TTAAA
Found at i:95665582 original size:7 final size:7
Alignment explanation
Indices: 95665570--95665603 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
95665560 GATTTGCTTG
95665570 TTTTTCT
1 TTTTTCT
95665577 TTTTTCT
1 TTTTTCT
95665584 TTTTTCT
1 TTTTTCT
*
95665591 TTCTTCT
1 TTTTTCT
95665598 TCTTTT
1 T-TTTT
95665604 AGTTCTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 21 0.88
8 3 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:95669600 original size:18 final size:17
Alignment explanation
Indices: 95669573--95669610 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
95669563 TGCTTCTAAG
95669573 AAATACTTTT-AGGATAA
1 AAATACTTTTGA-GATAA
95669590 AAATCACTTTTGAGATAA
1 AAAT-ACTTTTGAGATAA
95669608 AAA
1 AAA
95669611 CATTCCTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 14 0.74
19 1 0.05
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.32
Consensus pattern (17 bp):
AAATACTTTTGAGATAA
Found at i:95677492 original size:19 final size:20
Alignment explanation
Indices: 95677462--95677501 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
95677452 GACTAAACCG
*
95677462 AAAACTTTAGAAAATTTTTC
1 AAAACTTTAGAAAACTTTTC
95677482 AAAAC-TTAGAAAACTTTTC
1 AAAACTTTAGAAAACTTTTC
95677501 A
1 A
95677502 CTAAACAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (20 bp):
AAAACTTTAGAAAACTTTTC
Found at i:95679192 original size:46 final size:46
Alignment explanation
Indices: 95678998--95679363 Score: 200
Period size: 46 Copynumber: 7.8 Consensus size: 46
95678988 GAGCAATTGT
* * * *
95678998 CGATGTCATGTCCCAGACATGGTCTTACACAAGCTCTAG-CATATCTATGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTC-T-T-AATGC
*
95679048 CGATGCCATGTCCCAGACAATGTCTTACACT-GACACATC-TCGT-A-GC
1 CGATG-CATGTCCCAGAC-ATGTCTTACACTAG-CAC-TCGTCTTAATGC
* * * * ** *
95679094 CAATACATGTCCCAAACATGTCTTACACTGGCTTA-T-GTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC--ACTCGTCTTAATGC
*
95679140 CAATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGC
* * * ** *
95679186 CGATGCAATGTCTCAGACATGGTCTTACA-TTG-GCTC-TCAAAATGTGGT
1 CGATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTTAA--T-GC
* * *
95679234 CGATACATGTCCCAGACATGTCTTACACAAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGC
* * **
95679280 CGATGCCATGTCTCAGACATGGTCTTACACT-G-GCTC-TCAAAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTTAA--T-GC
* *
95679328 CAATGCATGTCCCAGACATGTCTTACACTAGTACTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTC
95679364 AATAGCTCAT
Statistics
Matches: 249, Mismatches: 40, Indels: 56
0.72 0.12 0.16
Matches are distributed among these distances:
44 17 0.07
45 22 0.09
46 78 0.31
47 59 0.24
48 35 0.14
49 6 0.02
50 28 0.11
51 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGC
Found at i:95679211 original size:94 final size:93
Alignment explanation
Indices: 95679137--95679363 Score: 373
Period size: 94 Copynumber: 2.4 Consensus size: 93
95679127 TATGTCTCGA
95679137 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGCCGATGCAATGTCTCAG
1 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGCCGATGC-ATGTCTCAG
*
95679202 ACATGGTCTTACATTGGCTCTCAAAATGT
65 ACATGGTCTTACACTGGCTCTCAAAATGT
* * * * *
95679231 GGTCGATACATGTCCCAGACATGTCTTACACAAGCACTCGTCTCAATGCCGATGCCATGTCTCAG
1 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGCCGATG-CATGTCTCAG
95679296 ACATGGTCTTACACTGGCTCTCAAAATGT
65 ACATGGTCTTACACTGGCTCTCAAAATGT
*
95679325 GGCCAATGCATGTCCCAGACATGTCTTACACTAGTACTC
1 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTC
95679364 AATAGCTCAT
Statistics
Matches: 121, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
94 120 0.99
95 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (93 bp):
GGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGCCGATGCATGTCTCAGA
CATGGTCTTACACTGGCTCTCAAAATGT
Found at i:95679244 original size:47 final size:46
Alignment explanation
Indices: 95679184--95679354 Score: 141
Period size: 47 Copynumber: 3.6 Consensus size: 46
95679174 TCGTCTTAAT
* * *
95679184 GCCGATGCAATGTCTCAGACATGGTCTTACATTGGCTCTCAAAATGTG
1 GCCGATAC-ATGTCCCAGACAT-GTCTTACAATGGCTCTCAAAATGTG
* * * **
95679232 GTCGATACATGTCCCAGACATGTCTTACACAAGCACTCGTCTCAA--T-
1 GCCGATACATGTCCCAGACATGTCTTACA-ATG-GCTC-TCAAAATGTG
* * *
95679278 GCCGATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCAAAATGTG
1 GCCGAT-ACATGTCCCAGACAT-GTCTTACAATGGCTCTCAAAATGTG
* *
95679326 GCCAATGCATGTCCCAGACATGTCTTACA
1 GCCGATACATGTCCCAGACATGTCTTACA
95679355 CTAGTACTCA
Statistics
Matches: 96, Mismatches: 19, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
45 4 0.04
46 24 0.25
47 42 0.44
48 22 0.23
49 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATACATGTCCCAGACATGTCTTACAATGGCTCTCAAAATGTG
Found at i:95685356 original size:41 final size:42
Alignment explanation
Indices: 95685306--95685402 Score: 124
Period size: 44 Copynumber: 2.3 Consensus size: 42
95685296 TTTTTTTATG
* *
95685306 TCATATAATACA-AATGTGTGCCGCATAGAATATTAGGTGTT
1 TCATTTAATACAGAATGTGTGCCGCATAGAATATTAAGTGTT
** *
95685347 TCATTTAATACATGGCTTGTGTGCCGCATATAATATTAAGTGTT
1 TCATTTAATACA--GAATGTGTGCCGCATAGAATATTAAGTGTT
95685391 TCATTTAATACA
1 TCATTTAATACA
95685403 TAGCTTGTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 11 0.23
44 37 0.77
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (42 bp):
TCATTTAATACAGAATGTGTGCCGCATAGAATATTAAGTGTT
Found at i:95685370 original size:44 final size:44
Alignment explanation
Indices: 95685320--95685411 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
95685310 ATAATACAAA
* *
95685320 TGTGTGCCGCATAGAATATTAGGTGTTTCATTTAATACATGGCT
1 TGTGTGCCGCATAGAATATTAAGTGTTTCATTTAATACATAGCT
*
95685364 TGTGTGCCGCATATAATATTAAGTGTTTCATTTAATACATAGCT
1 TGTGTGCCGCATAGAATATTAAGTGTTTCATTTAATACATAGCT
95685408 TGTG
1 TGTG
95685412 AAGGTTTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (44 bp):
TGTGTGCCGCATAGAATATTAAGTGTTTCATTTAATACATAGCT
Found at i:95685486 original size:21 final size:23
Alignment explanation
Indices: 95685444--95685488 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 23
95685434 ATGACAAGTA
95685444 TTTATTTATTGATGTATTTAATT
1 TTTATTTATTGATGTATTTAATT
95685467 TTTATTT-TT-AT-TATTATAATT
1 TTTATTTATTGATGTATT-TAATT
95685488 T
1 T
95685489 ATAACACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 8 0.38
22 2 0.10
23 7 0.33
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTATTTATTGATGTATTTAATT
Found at i:95687581 original size:32 final size:32
Alignment explanation
Indices: 95687540--95687602 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
95687530 GCTCCCTCTC
95687540 TTCTGTCATCCGATGGTTCATGTCTTGTACTA
1 TTCTGTCATCCGATGGTTCATGTCTTGTACTA
95687572 TTCTGTCATCCGATGGTTCATGTCTTGTACT
1 TTCTGTCATCCGATGGTTCATGTCTTGTACT
95687603 CTGTACCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (32 bp):
TTCTGTCATCCGATGGTTCATGTCTTGTACTA
Found at i:95693711 original size:2 final size:2
Alignment explanation
Indices: 95693704--95693728 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
95693694 TTAAATACTA
95693704 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
95693729 AGTGAGTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95707495 original size:21 final size:23
Alignment explanation
Indices: 95707465--95707507 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
95707455 CCGACCCCCA
*
95707465 ACCGAATTAATT-CTGTTAATCG
1 ACCGAATTAATTACGGTTAATCG
95707487 ACCG-ATTAATTACGGTTAATC
1 ACCGAATTAATTACGGTTAATC
95707508 TATAGGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (23 bp):
ACCGAATTAATTACGGTTAATCG
Found at i:95709652 original size:34 final size:34
Alignment explanation
Indices: 95709599--95709668 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
95709589 TTAAAAAATT
** *
95709599 TTAAAGGTAGGGACGAATCCCAGAGTTAACATTG
1 TTAAAGGTAAAGACCAATCCCAGAGTTAACATTG
* *
95709633 TTAAAGGTAAAGACCAATCCTAGAGTTGACATTG
1 TTAAAGGTAAAGACCAATCCCAGAGTTAACATTG
95709667 TT
1 TT
95709669 GGGACGACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (34 bp):
TTAAAGGTAAAGACCAATCCCAGAGTTAACATTG
Found at i:95716386 original size:28 final size:26
Alignment explanation
Indices: 95716335--95716400 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
95716325 AGTCTGCCCA
*
95716335 TATTATTATTTTTATTTTAAAAATATT
1 TATT-TTATTTTAATTTTAAAAATATT
*
95716362 TATTTTATTTTAATATTTAATAAATTTT
1 TATTTTATTTTAAT-TTTAA-AAATATT
*
95716390 TATGTT-TTTTA
1 TATTTTATTTTA
95716401 CTTATCATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.26
27 14 0.41
28 11 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TATTTTATTTTAATTTTAAAAATATT
Found at i:95716388 original size:26 final size:27
Alignment explanation
Indices: 95716335--95716392 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
95716325 AGTCTGCCCA
*
95716335 TATTATTATTTTTATTTTAAAAATATT
1 TATTATTATTTTAATTTTAAAAATATT
*
95716362 TATT-TTATTTTAATATTTAATAAATTTT
1 TATTATTATTTTAAT-TTTAA-AAATATT
95716390 TAT
1 TAT
95716393 GTTTTTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 9 0.33
27 9 0.33
28 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
TATTATTATTTTAATTTTAAAAATATT
Found at i:95730615 original size:125 final size:126
Alignment explanation
Indices: 95730392--95730699 Score: 422
Period size: 125 Copynumber: 2.5 Consensus size: 126
95730382 ATTAACTATT
* * * *
95730392 AATTACGGAAAAAAGCTTTTACGTGGACGCTCTTTTACTATAGTAGTATCTGAAAAAATAATTTT
1 AATTACGGAAAAAAACTATCACGTGGACGCTCTTTTACTACAGTAGTATCTGAAAAAATAATTTT
* *
95730457 GAGAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACAGTCAGCAA
66 AACAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACAGTCAGCAA
* * * *
95730518 AATTACGGAAAAAAACTATCATGTGGAC-TTTTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
1 AATTACGGAAAAAAACTATCACGTGGACGCTCTTTTACTACAGTAGTATCTGAAAAAATAATTTT
* * * *
95730582 AACAAGATGTTTCTGAACAAATAGTGTTAAAAACGTTTCAAGAAGGATGCACTGTCAGCAA
66 AACAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACAGTCAGCAA
* * * * *
95730643 AATTACAGAAAAAAGCT-CCTACATGGACGCTCTTTTACTACAGTCGTATCTGAAAAA
1 AATTACGGAAAAAAACTATC-ACGTGGACGCTCTTTTACTACAGTAGTATCTGAAAAA
95730700 GCCTTGGACT
Statistics
Matches: 157, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
124 1 0.01
125 108 0.69
126 48 0.31
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (126 bp):
AATTACGGAAAAAAACTATCACGTGGACGCTCTTTTACTACAGTAGTATCTGAAAAAATAATTTT
AACAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACAGTCAGCAA
Found at i:95733877 original size:55 final size:55
Alignment explanation
Indices: 95733802--95734001 Score: 136
Period size: 55 Copynumber: 3.4 Consensus size: 55
95733792 TAGCTAATTT
* *
95733802 AAAAGAACATTTATTGTATTAAAATTAAAAAAAGTAAAGTTCAATTAAAATATTA
1 AAAACAACATTTATTTTATTAAAATTAAAAAAAGTAAAGTTCAATTAAAATATTA
* *
95733857 AAAACAACTTTTATTTTATTAATTATAACTATATAAAAAA-TAAA-TAT-AATAAAAATATTGAC
1 AAAACAACATTTATTTTATT-A--A-AA-T-TA-AAAAAAGTAAAGT-TCAATTAAAATA-T---
95733919 TAA
54 T-A
* * * * * *
95733922 TTTAAAAGAAAATTTATTTTAATAAAATTAAGAAAAGTGAAGTACAATTAAAATATTA
1 ---AAAACAACATTTATTTTATTAAAATTAAAAAAAGTAAAGTTCAATTAAAATATTA
*
95733980 AAAACAACTTTTATTTTATTAA
1 AAAACAACATTTATTTTATTAA
95734002 TTGAAACTAT
Statistics
Matches: 110, Mismatches: 16, Indels: 38
0.67 0.10 0.23
Matches are distributed among these distances:
55 35 0.32
56 1 0.01
58 2 0.02
59 3 0.03
60 11 0.10
61 13 0.12
62 12 0.11
63 11 0.10
64 3 0.03
65 2 0.02
67 1 0.01
68 16 0.15
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (55 bp):
AAAACAACATTTATTTTATTAAAATTAAAAAAAGTAAAGTTCAATTAAAATATTA
Found at i:95734110 original size:128 final size:125
Alignment explanation
Indices: 95733779--95734147 Score: 527
Period size: 123 Copynumber: 2.9 Consensus size: 125
95733769 ACATTTATTT
* * * * *
95733779 TAATAAAAATTATTAGCTAATTTAAAAGAACATTTATTGTATTAAAATTAAAAAAAGTAAAGTTC
1 TAATAAAAAATATT-GCTAATTTAAAAGAA-AATTATTTTAATAAAATTAAAAAAAGTAAAGTAC
*
95733844 AATTAAAATATTAAAAACAACTTTTATTTTATTAATT-ATAACTATAT---AAAAAATAAATA
64 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGA-AACTATATAAAAAAAAATAAAAA
* *
95733903 TAAT-AAAAATATTGACTAATTTAAAAGAAAATTTATTTTAATAAAATTAAGAAAAGTGAAGTAC
1 TAATAAAAAATATTG-CTAATTTAAAAGAAAA-TTATTTTAATAAAATTAAAAAAAGTAAAGTAC
95733967 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAATTAAATATAAAAA
64 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAA--AAA-ATAAAAA
95734032 TAATAAAAAATATTGCCTAATTTAAAA-AAAATTATTTTAATAAAATTAAAAAAAGTAAAGTACA
1 TAATAAAAAATATTG-CTAATTTAAAAGAAAATTATTTTAATAAAATTAAAAAAAGTAAAGTACA
95734096 ATTAAAATATTAAAAACAACTTTTATTTTATT-ATATGAAACTATATAAAAAA
65 ATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAAA
95734148 CGTTTCTACA
Statistics
Matches: 223, Mismatches: 11, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
122 2 0.01
123 94 0.42
124 5 0.02
126 3 0.01
127 2 0.01
128 82 0.37
129 14 0.06
130 21 0.09
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.36
Consensus pattern (125 bp):
TAATAAAAAATATTGCTAATTTAAAAGAAAATTATTTTAATAAAATTAAAAAAAGTAAAGTACAA
TTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAAAAATAAAAA
Found at i:95736370 original size:22 final size:23
Alignment explanation
Indices: 95736347--95736388 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
95736337 AGAGCTTTCT
95736347 TTTG-CAAAAATT-AGAGAAAGC
1 TTTGACAAAAATTGAGAGAAAGC
95736368 TTTGACAAAAATTGAGAGAAA
1 TTTGACAAAAATTGAGAGAAA
95736389 TTTGAGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 8 0.42
23 7 0.37
ACGTcount: A:0.50, C:0.07, G:0.19, T:0.24
Consensus pattern (23 bp):
TTTGACAAAAATTGAGAGAAAGC
Found at i:95736392 original size:21 final size:21
Alignment explanation
Indices: 95736347--95736393 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
95736337 AGAGCTTTCT
95736347 TTTG-CAAAAATTAGAGAAAGC
1 TTTGACAAAAATTAGAGAAA-C
95736368 TTTGACAAAAATTGAGAGAAA-
1 TTTGACAAAAATT-AGAGAAAC
95736389 TTTGA
1 TTTGA
95736394 GAGAATGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 8 0.33
23 7 0.29
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTAGAGAAAC
Found at i:95736428 original size:11 final size:10
Alignment explanation
Indices: 95736379--95736428 Score: 55
Period size: 11 Copynumber: 4.6 Consensus size: 10
95736369 TTGACAAAAA
95736379 TTGAGAGAAAT
1 TTGAGAG-AAT
95736390 TTGAGAGAAT
1 TTGAGAGAAT
*
95736400 GTGGAGAGAAT
1 -TTGAGAGAAT
95736411 TTAGAGAGAAT
1 TT-GAGAGAAT
95736422 TGTGAGA
1 T-TGAGA
95736429 AGACTAAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 4 0.12
11 29 0.85
12 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (10 bp):
TTGAGAGAAT
Found at i:95736428 original size:22 final size:21
Alignment explanation
Indices: 95736380--95736428 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 21
95736370 TGACAAAAAT
95736380 TGAGAGAAATTTGAGAGAATG
1 TGAGAGAAATTTGAGAGAATG
95736401 TG-GAGAGAATTTAGAGAGAATTG
1 TGAGAGA-AATTT-GAGAGAA-TG
95736424 TGAGA
1 TGAGA
95736429 AGACTAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.17
21 7 0.29
22 7 0.29
23 4 0.17
24 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (21 bp):
TGAGAGAAATTTGAGAGAATG
Done.