Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 188 of 325
Found at i:59440560 original size:27 final size:27
Alignment explanation
Indices: 59440530--59440733 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
59440520 ATATTGAGTC
* * *
59440530 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
59440557 CGCACACTTAGTGCTACGTAATC-AAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
59440583 CGCACACTTAGTGCTACATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAA-AT
* ** *
59440611 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
** **
59440638 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* **
59440665 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
59440692 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
59440719 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59440734 GTACAATTTA
Statistics
Matches: 154, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
26 25 0.16
27 105 0.68
28 24 0.16
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:59445841 original size:45 final size:44
Alignment explanation
Indices: 59445684--59445857 Score: 188
Period size: 45 Copynumber: 3.8 Consensus size: 44
59445674 ATTTGGGCAT
* *
59445684 CCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * * *
59445729 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
59445777 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
59445822 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59445858 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 37 0.35
46 31 0.29
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:59451241 original size:46 final size:45
Alignment explanation
Indices: 59451188--59451361 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
59451178 TATTTGGGCA
59451188 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
59451234 TCCGAACTCTTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-TGCGAAG
* * * *
59451280 TCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
59451326 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59451362 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
43 2 0.02
44 3 0.03
45 16 0.16
46 72 0.71
47 4 0.04
48 3 0.03
49 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:59451341 original size:92 final size:91
Alignment explanation
Indices: 59451184--59451353 Score: 259
Period size: 92 Copynumber: 1.9 Consensus size: 91
59451174 AGGATATTTG
* * * *
59451184 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCTTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAG
59451249 TTGAGTCCGAGTTCGAGAGATGTAACT
66 TTGAGT-CGAGTTCGAGAGATGTAACT
* * * *
59451276 GGCATCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAG
59451341 TTGAGTCGAGTTC
66 TTGAGTCGAGTTC
59451354 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 7 0.10
92 63 0.90
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (91 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCGAGTTCGAGAGATGTAACT
Found at i:59466162 original size:48 final size:49
Alignment explanation
Indices: 59466107--59466572 Score: 430
Period size: 48 Copynumber: 9.7 Consensus size: 49
59466097 TGATATGTGT
* * *
59466107 GCCAGTGTAAGACTATGTTTGGGACATGGCATCGGCCACGATT-TGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGATTGTGAGA
**
59466155 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTGATG-TTGTGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGATTGTGAGA
* * * *
59466203 GCCAATGTAAGACCATGTTTGGAACATGGCATAGGCGATG-TTGTAAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGATTGTGAGA
* *
59466251 GCCAATGTAAGACCATGTTTGGAACATGGCATCGGCAATG-TTGTGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGATTGTGAGA
* *
59466299 GCCAGTGGAAGACCATGTTTGGAACATGGCATCGGCGATG-TTGTGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGATTGTGAGA
* ** * * *
59466347 GCCAATGTGGGACCATGTCTGGGACATGGCATC-G--AT-ATTGAT-ATGC
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGATTG-TGA-GA
* * * * * *
59466393 GCTAGTGTAAGACCATGTATGGGACATGGCATCGACCA-CATTATGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGATTGTGAGA
* * *
59466441 GCCAGTGTAAGACCATGTTTGGTACATGGCATCGG-TATTGA--GACGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCA-TGATTG-TGAGA
* * * **
59466489 GCTAGTGTAAGACCATGTCTGTG-ACATGGCATTGGCC-TCGACAGGTGA-A
1 GCCAGTGTAAGACCATGTTTG-GAACATGGCATCGGCCAT-GA-TTGTGAGA
59466538 -CCAGTGT-AGAACCATGTTTGGAACATGGCATCGGC
1 GCCAGTGTAAG-ACCATGTTTGGAACATGGCATCGGC
59466573 AATTCACCCT
Statistics
Matches: 352, Mismatches: 46, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
45 6 0.02
46 30 0.09
47 8 0.02
48 297 0.84
49 8 0.02
50 2 0.01
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (49 bp):
GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGATTGTGAGA
Found at i:59466292 original size:23 final size:23
Alignment explanation
Indices: 59466265--59466340 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
59466255 ATGTAAGACC
59466265 ATGTTTGGAACATGGCATCGGCA
1 ATGTTTGGAACATGGCATCGGCA
* * * *
59466288 ATGTTGTGAGAGCCAGTGG-A-AGACC
1 ATGTT-TG-GA-ACA-TGGCATCGGCA
*
59466313 ATGTTTGGAACATGGCATCGGCG
1 ATGTTTGGAACATGGCATCGGCA
59466336 ATGTT
1 ATGTT
59466341 GTGAGAGCCA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
21 3 0.08
22 3 0.08
23 14 0.36
24 4 0.10
25 9 0.23
26 3 0.08
27 3 0.08
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (23 bp):
ATGTTTGGAACATGGCATCGGCA
Found at i:59466374 original size:144 final size:141
Alignment explanation
Indices: 59466107--59466475 Score: 506
Period size: 144 Copynumber: 2.6 Consensus size: 141
59466097 TGATATGTGT
*
59466107 GCCAGTGTAAGACTATGTTTGGGACATGGCATCGGCCACGATTTGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACG-TTTGAGAGCCAGTGTAAGACCATG
* *
59466172 TTTGGAACATGGCATCGGTGATGTTGTGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATAG
65 TTTGGAACATGGCATCGGCGATGTTGTGAGAGCCAATGTAAGACCATGTCTGGAACATGGCAT--
*
59466237 GCGATGTTG-TAAGA
128 -CGATATTGATAAGA
* * * * *
59466251 GCCAATGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGTGAGAGCCAGTGGAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGTT-TGAGAGCCAGTGTAAGACCATG
** *
59466316 TTTGGAACATGGCATCGGCGATGTTGTGAGAGCCAATGTGGGACCATGTCTGGGACATGGCATCG
65 TTTGGAACATGGCATCGGCGATGTTGTGAGAGCCAATGTAAGACCATGTCTGGAACATGGCATCG
* *
59466381 ATATTGATATGC
130 ATATTGATAAGA
* * * *
59466393 GCTAGTGTAAGACCATGTATGGGACATGGCATCGACCACATTATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGTT-TGAGAGCCAGTGTAAGACCATG
*
59466458 TTTGGTACATGGCATCGG
65 TTTGGAACATGGCATCGG
59466476 TATTGAGACG
Statistics
Matches: 198, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
141 7 0.04
142 75 0.38
143 2 0.01
144 114 0.58
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (141 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGTTTGAGAGCCAGTGTAAGACCATGT
TTGGAACATGGCATCGGCGATGTTGTGAGAGCCAATGTAAGACCATGTCTGGAACATGGCATCGA
TATTGATAAGA
Found at i:59473928 original size:48 final size:48
Alignment explanation
Indices: 59473866--59474195 Score: 285
Period size: 48 Copynumber: 6.9 Consensus size: 48
59473856 GACATTTAAG
* * *
59473866 TGATATGTGTGCCAGTGTAAGACTATGTCTGGGACATGGCATCGGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * *
59473914 CGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCGA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * *
59473962 T-ATTGTGAGAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGCGA
1 TGA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * * *
59474010 TGTTGTGAGAGCCAATGTAAGACCATGTCTGAGACATGGCATCAG-TA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * * *
59474057 TTGATAT--GCGCTAGTGTAAGACCATGTCTAGGACATGACAAC-GACA
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * **
59474103 TTGAGATGAGAGCTAGTGTAGGACCATGTCTGGGACATGGCATCAACC-
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * *
59474151 TCGACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 T-GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
59474196 ACAAGTCACC
Statistics
Matches: 231, Mismatches: 43, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
45 1 0.00
46 35 0.15
47 3 0.01
48 191 0.83
49 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
Found at i:59481560 original size:22 final size:23
Alignment explanation
Indices: 59481480--59481555 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
59481470 ATAGCACGTA
*
59481480 AGAGCTTACTGTTTCAGCTC-AT
1 AGAGCTTACTGATTCAGCTCAAT
* *
59481502 TGTAGCTTACCGATTCAGCTCGAA-
1 AG-AGCTTACTGATTCAGCTC-AAT
*
59481526 AGAGTTTACTG-TTCAGCTCAAT
1 AGAGCTTACTGATTCAGCTCAAT
59481548 AGAGCTTA
1 AGAGCTTA
59481556 ATGTTTATCA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.05
22 16 0.37
23 23 0.53
24 1 0.02
25 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (23 bp):
AGAGCTTACTGATTCAGCTCAAT
Found at i:59483163 original size:48 final size:46
Alignment explanation
Indices: 59483060--59483372 Score: 205
Period size: 46 Copynumber: 6.7 Consensus size: 46
59483050 GATATTGTGT
** *
59483060 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGTTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGAGA
* * * *
59483106 GCCAGTGTAAGACCATGTTTGGGACATCGCATTGG-CATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGACGAGA
* *
59483154 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAAGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACG-AGA
* * * * * * * *
59483200 GCCAGTGTAAAACATATCTAGGACATGCATCAGCTACGAGA--TGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGAGA
* * * *
59483244 GTTAGTGTAAGACTATGTCTGGGACATGCATCAGCTAC-A-A-GATGT
1 GCTAGTGTAAGAC-ATGTCTGGGACATGCATCGGCCACGAGACGA-GA
* * * * *
59483289 GTTAGTGTAAGACCATGTCTGGGATATGGTATTGG-CACGTGTA-GAG-
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAG-ACGAGA
59483335 GTCTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 G-CT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
59483373 ACGTATAAAG
Statistics
Matches: 212, Mismatches: 38, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.00
44 11 0.05
45 50 0.24
46 63 0.30
47 32 0.15
48 55 0.26
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGAGA
Found at i:59483276 original size:45 final size:44
Alignment explanation
Indices: 59483156--59483312 Score: 190
Period size: 45 Copynumber: 3.5 Consensus size: 44
59483146 AGACGAGAGC
* * *
59483156 TAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGAAGTAAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGATGT--GT
* * * *
59483202 CAGTGTAAAACATATCTAGGACATGCATCAGCTACGAGATGTGT
1 TAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGTGT
*
59483246 TAGTGTAAGACTATGTCTGGGACATGCATCAGCTACAAGATGTGT
1 TAGTGTAAGAC-ATGTCTGGGACATGCATCAGCTACGAGATGTGT
59483291 TAGTGTAAGACCATGTCTGGGA
1 TAGTGTAAGA-CATGTCTGGGA
59483313 TATGGTATTG
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
44 10 0.10
45 52 0.54
46 34 0.35
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (44 bp):
TAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGTGT
Found at i:59483374 original size:48 final size:47
Alignment explanation
Indices: 59483063--59483471 Score: 201
Period size: 48 Copynumber: 8.7 Consensus size: 47
59483053 ATTGTGTGCT
59483063 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCACGT-TATGAGAG-C-C
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CACGTGTA-GAG-GTCTC
* * * *
59483109 AGTGTAAGACCATGTTTGGGACATCGCATTGGCA-TTG-AGACGAGAGCT-
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGTGTAGA-G-G-TCTC
* * * *
59483157 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGAAGTAAG-C-C
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CACGTGTAG-AGGTCTC
* * * * * * *
59483203 AGTGTAA-AACATATCTAGGACATGCATCAGCTAC--G-AGATGTGTT
1 AGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGTGTAGAGGTCTC
* * * * * *
59483247 AGTGTAAGACTATGTCTGGGACATGCATCAGCTAC---AAGATGTGTT
1 AGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGTGTAGAGGTCTC
* * *
59483292 AGTGTAAGACCATGTCTGGGATATGGTATTGGCACGTGTAGAGGTCTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGTGTAGAGGTCTC
* * *
59483340 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAAAGGTGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGTGTAGAGGTCTC
* ** * *
59483388 AGTGTAAGACCATGTTTAAGACATGGCATCGACATG-GATATGTAAGAG-CT-
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGTG-TA-G--AG-GTCTC
*
59483438 AGTGTAAGACCATGTTTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCA
59483472 TTATACCCTA
Statistics
Matches: 290, Mismatches: 46, Indels: 50
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 8 0.03
45 60 0.21
46 52 0.18
47 29 0.10
48 99 0.34
49 2 0.01
50 32 0.11
51 3 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCACGTGTAGAGGTCTC
Found at i:59484942 original size:55 final size:54
Alignment explanation
Indices: 59484837--59484977 Score: 167
Period size: 55 Copynumber: 2.6 Consensus size: 54
59484827 AGGGTTTAAG
* * * *
59484837 GATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGGCATGG-CATTGATAAGGTTTATAAGGAAAA
* * *
59484892 GATATCATGTAAGACCATGTCAAGACATGGCATTGATAA-GTTACTATAAGGAAAA
1 GATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGGTT--TATAAGGAAAA
* *
59484947 GGTCCCATGTAAGACCATGCCAAGGCATGGC
1 GATACCATGTAAGACCATGCCAAGGCATGGC
59484978 TGTAACAGCC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
53 3 0.04
54 7 0.10
55 62 0.86
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGGTTTATAAGGAAAA
Found at i:59486668 original size:27 final size:27
Alignment explanation
Indices: 59486634--59486810 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
59486624 TAAATTGTAC
*
59486634 AGCACTAAGTGTGC-AATTTGACTATGT
1 AGCACTAAGTGTGCGAA-TTGATTATGT
* * **
59486661 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGAATTGATTATGT
**
59486687 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGATTATGT
*
59486715 GGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGATTATGT
* *
59486743 AGCACTAAGTGTGCG-ATTAATTACGT
1 AGCACTAAGTGTGCGAATTGATTATGT
* *
59486769 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGATTATGT
*
59486796 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59486811 GACTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 24 0.19
27 77 0.61
28 25 0.20
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGATTATGT
Found at i:59494633 original size:27 final size:26
Alignment explanation
Indices: 59494598--59494743 Score: 109
Period size: 27 Copynumber: 5.5 Consensus size: 26
59494588 AAATTGTACA
59494598 GCAC-AAGTGTGCAATTTGACTATGTT
1 GCACTAAGTGTGCAA-TTGACTATGTT
* ** *
59494624 GCACTAAGTGTGCGAAATGAAAATGAT
1 GCACTAAGTGTGC-AATTGACTATGTT
*
59494651 GCACTAAGTGTGCGAATTGACCA-GTGT
1 GCACTAAGTGTGC-AATTGACTATGT-T
* *
59494678 GCACTAAGTGTGCGAGA-TGATTATGTA
1 GCACTAAGTGTGC-A-ATTGACTATGTT
* * * * *
59494705 GCACTAAGTGTGCGATTAATTACGTA
1 GCACTAAGTGTGCAATTGACTATGTT
59494731 GCACTAAGTGTGC
1 GCACTAAGTGTGC
59494744 GAGTTGATTA
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
25 1 0.01
26 26 0.26
27 68 0.68
28 5 0.05
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCAATTGACTATGTT
Found at i:59494662 original size:54 final size:52
Alignment explanation
Indices: 59494597--59494745 Score: 158
Period size: 54 Copynumber: 2.8 Consensus size: 52
59494587 TAAATTGTAC
59494597 AGCAC-AAGTGTGCAATTTGACTATGTTGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCAA-TTGACTA-GTTGCACTAAGTGTGCGAAATGAAAATGT
* * **
59494649 ATGCACTAAGTGTGCGAATTGACCAGTGTGCACTAAGTGTGCGAGATGATTATGT
1 A-GCACTAAGTGTGC-AATTGACTAGT-TGCACTAAGTGTGCGAAATGAAAATGT
* * * *
59494704 AGCACTAAGTGTGCGATTAATTACGTAGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCAATTGACTA-GTTGCACTAAGTGTGCGA
59494746 GTTGATTATA
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
52 1 0.01
53 26 0.32
54 52 0.63
55 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCAATTGACTAGTTGCACTAAGTGTGCGAAATGAAAATGT
Found at i:59494733 original size:26 final size:27
Alignment explanation
Indices: 59494678--59494746 Score: 104
Period size: 26 Copynumber: 2.6 Consensus size: 27
59494668 TGACCAGTGT
* *
59494678 GCACTAAGTGTGCGAGATGATTATGTA
1 GCACTAAGTGTGCGAGATAATTACGTA
*
59494705 GCACTAAGTGTGCGA-TTAATTACGTA
1 GCACTAAGTGTGCGAGATAATTACGTA
59494731 GCACTAAGTGTGCGAG
1 GCACTAAGTGTGCGAG
59494747 TTGATTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 23 0.61
27 15 0.39
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGATAATTACGTA
Found at i:59503839 original size:53 final size:53
Alignment explanation
Indices: 59503772--59503885 Score: 140
Period size: 53 Copynumber: 2.1 Consensus size: 53
59503762 ATGACATTGA
* * *
59503772 TAAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGG
1 TAAGTT-C-ATAAGGC-AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGG
* * *
59503827 TGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGG
1 TAAGTTCATAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGG
59503880 TAAGTT
1 TAAGTT
59503886 TTAAAAGGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
52 4 0.08
53 41 0.80
54 1 0.02
55 5 0.10
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (53 bp):
TAAGTTCATAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGG
Found at i:59506371 original size:21 final size:21
Alignment explanation
Indices: 59506345--59506399 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
59506335 TTATAATGAA
59506345 CACACGGGCGTGTTACCCTTC
1 CACACGGGCGTGTTACCCTTC
59506366 CACACGGGCGTGTTACCCTTC
1 CACACGGGCGTGTTACCCTTC
59506387 CACACGGGCGTGT
1 CACACGGGCGTGT
59506400 GCCCTGTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.15, C:0.36, G:0.27, T:0.22
Consensus pattern (21 bp):
CACACGGGCGTGTTACCCTTC
Found at i:59514688 original size:40 final size:40
Alignment explanation
Indices: 59514651--59514765 Score: 169
Period size: 40 Copynumber: 2.9 Consensus size: 40
59514641 ATACCAGCTC
* *
59514651 GTAGCCTGCAGATCTTTAAGCCTGGATAACATTCCAGCAT
1 GTAGCCTGCGGGTCTTTAAGCCTGGATAACATTCCAGCAT
* *
59514691 ATAGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCAT
1 GTAGCCTGCGGGTCTTTAAGCCTGGATAAC-ATTCCAGCAT
*
59514731 GAAGCCTGCGGGTCTTTAAGCCTGGATAACATTCC
1 GTAGCCTGCGGGTCTTTAAGCCTGGATAACATTCC
59514766 TCAAGTATCA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.03
40 62 0.94
41 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GTAGCCTGCGGGTCTTTAAGCCTGGATAACATTCCAGCAT
Found at i:59518447 original size:48 final size:47
Alignment explanation
Indices: 59518357--59518521 Score: 137
Period size: 46 Copynumber: 3.5 Consensus size: 47
59518347 CATTCAGAAT
* *
59518357 TGTAAGACATGTCTAGG-ACATGCATCGGCCA-C-ATTAT-GAGAGCCAG
1 TGTAAGACATGTCT-GGAACATGCATCGG-CATCGA-GATCAAGAGCCAG
* *
59518403 TGTAAGACCATGTCTGGAACATGGCATCGGCATTGAGA-CAAGAGCTAG
1 TGTAAGA-CATGTCTGGAACAT-GCATCGGCATCGAGATCAAGAGCCAG
* * * * **
59518451 TGTAAGATATGTCTGGGATATGCATCGGCCTCGAGATGTA-AGCCAG
1 TGTAAGACATGTCTGGAACATGCATCGGCATCGAGATCAAGAGCCAG
59518497 TGTAAGACATGTCT-GAGACATGCAT
1 TGTAAGACATGTCTGGA-ACATGCAT
59518522 TGATTATGAG
Statistics
Matches: 96, Mismatches: 15, Indels: 16
0.76 0.12 0.13
Matches are distributed among these distances:
45 1 0.01
46 47 0.49
47 25 0.26
48 22 0.23
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACATGTCTGGAACATGCATCGGCATCGAGATCAAGAGCCAG
Found at i:59519716 original size:28 final size:29
Alignment explanation
Indices: 59519684--59519738 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
59519674 CACGAGCTAG
*
59519684 GACACGGGCGT-T-TCATGGCCATGTGAGA
1 GACACGAGCGTGTGTCA-GGCCATGTGAGA
59519712 GACACGAGCGTGTGTCAGGCCATGTGA
1 GACACGAGCGTGTGTCAGGCCATGTGA
59519739 AAACCCCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 10 0.42
29 11 0.46
30 3 0.12
ACGTcount: A:0.22, C:0.22, G:0.36, T:0.20
Consensus pattern (29 bp):
GACACGAGCGTGTGTCAGGCCATGTGAGA
Found at i:59525568 original size:23 final size:25
Alignment explanation
Indices: 59525542--59525588 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
59525532 TATCATTCAT
*
59525542 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
59525565 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
59525589 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:59525909 original size:46 final size:46
Alignment explanation
Indices: 59525849--59526113 Score: 332
Period size: 46 Copynumber: 5.9 Consensus size: 46
59525839 TTTGACGTGA
* * * * * *
59525849 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
59525895 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
59525941 TGTCATGGTATCTTTCAACCATCGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
59525987 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
59526033 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
59526071 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
59526114 AAGAGCACAC
Statistics
Matches: 193, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 146 0.76
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:59526079 original size:38 final size:38
Alignment explanation
Indices: 59526028--59526103 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
59526018 CATTTCATAT
59526028 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
59526066 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
59526104 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:59529459 original size:46 final size:46
Alignment explanation
Indices: 59529392--59529531 Score: 192
Period size: 46 Copynumber: 3.0 Consensus size: 46
59529382 GTGGGCTCTC
* *
59529392 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
59529438 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
59529484 TGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
59529530 TG
1 TG
59529532 TCAAAGATAA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 82 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:59534320 original size:39 final size:39
Alignment explanation
Indices: 59534277--59534397 Score: 188
Period size: 39 Copynumber: 3.1 Consensus size: 39
59534267 ATGCAAGATA
59534277 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
59534316 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * * * *
59534355 CAGGAAATGTATCCCGGCTAAAGTCCCACAAGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
59534394 CTGG
1 CTGG
59534398 TAATATAATT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:59567428 original size:27 final size:27
Alignment explanation
Indices: 59567391--59567593 Score: 257
Period size: 27 Copynumber: 7.6 Consensus size: 27
59567381 TAAATTGTAC
59567391 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
59567418 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59567445 TGCACTAAGTGTGCGAAATGA-AATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
59567470 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
59567498 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
59567525 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59567552 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59567579 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59567594 GACTCAATAT
Statistics
Matches: 155, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
26 22 0.14
27 133 0.86
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59567530 original size:80 final size:80
Alignment explanation
Indices: 59567392--59567593 Score: 253
Period size: 80 Copynumber: 2.5 Consensus size: 80
59567382 AAATTGTACA
* * * *
59567392 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGT
59567457 GCGAAATGAAATGAT
66 GCGAAATGAAATGAT
*
59567472 GCACTAAGTGTGCGAATTGACCATGTGGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGT
1 GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGT
** * *
59567537 GCGATTTGATTACG-T
66 GCGAAATGA-AATGAT
* ** * *
59567552 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCG
59567594 GACTCAATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
80 68 0.65
81 37 0.35
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (80 bp):
GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGT
GCGAAATGAAATGAT
Found at i:59575363 original size:27 final size:27
Alignment explanation
Indices: 59575326--59575529 Score: 232
Period size: 27 Copynumber: 7.6 Consensus size: 27
59575316 TAAATTGTAC
*
59575326 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
59575353 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * **
59575380 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
59575406 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
59575434 GGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
59575462 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
59575488 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
59575515 AGCATTGAGTGTGCG
1 AGCACTAAGTGTGCG
59575530 GACTCAATAT
Statistics
Matches: 154, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
26 25 0.16
27 106 0.69
28 23 0.15
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:59581473 original size:3 final size:3
Alignment explanation
Indices: 59581465--59581519 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
59581455 TTTAATTTAG
59581465 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
59581513 ATT ATT A
1 ATT ATT A
59581520 AATAAGTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:59581842 original size:24 final size:24
Alignment explanation
Indices: 59581810--59581866 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
59581800 TGAATCTATG
* *
59581810 ACAATTGTATGGTATTGATATTGT
1 ACAAATGTATGGTATTAATATTGT
59581834 ACAAATGTATGGTATTAATATTGT
1 ACAAATGTATGGTATTAATATTGT
*
59581858 TCAAATGTA
1 ACAAATGTA
59581867 CAAAAATAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (24 bp):
ACAAATGTATGGTATTAATATTGT
Found at i:59582354 original size:2 final size:2
Alignment explanation
Indices: 59582347--59582392 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
59582337 TATTAATTAG
* * *
59582347 TA TA TA TA TA CA TA TA TA TA CA TA TA TA TA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59582389 TA TA
1 TA TA
59582393 AAAGAAACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:59582364 original size:12 final size:12
Alignment explanation
Indices: 59582347--59582390 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
59582337 TATTAATTAG
59582347 TATATATATAC-
1 TATATATATACA
59582358 -ATATATATACA
1 TATATATATACA
59582369 TATATATATACA
1 TATATATATACA
59582381 TATATATATA
1 TATATATATA
59582391 TAAAAGAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.32
12 21 0.68
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATATATACA
Found at i:59583844 original size:17 final size:18
Alignment explanation
Indices: 59583803--59583850 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
59583793 AGCGACTAAC
59583803 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
** *
59583821 TACTACTGAA-AATTGAT
1 TGTTACTGAATAACTGAT
59583838 TGTTACTGAATAA
1 TGTTACTGAATAA
59583851 TATTGATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:59586174 original size:18 final size:18
Alignment explanation
Indices: 59586146--59586191 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
59586136 TGGTTGGGAA
*
59586146 ATATTTTTTTGATGT-TT
1 ATATATTTTTGATGTATT
*
59586163 TTAGTATTTTTGATGTATT
1 ATA-TATTTTTGATGTATT
59586182 ATATATTTTT
1 ATATATTTTT
59586192 TAAATTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.08
18 18 0.75
19 4 0.17
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (18 bp):
ATATATTTTTGATGTATT
Found at i:59596016 original size:62 final size:61
Alignment explanation
Indices: 59595897--59596017 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 61
59595887 CCTAACCTTG
* ** *
59595897 ATTTTTTTTTCTAATTTGGTACCTAAGCTTTTTTAGGTCCAATTTGGTATTTGAACTTAAA
1 ATTTCTTTTTCTAATTTGGTACCTAAGCTTTTTTAGGTCCAATTTGGTACCTAAACTTAAA
* *
59595958 ATTTCTTTTTCTAATTTGGTATCTAAGCTTTTTTTAGGTTCAATTTGGTACCTAAACTTA
1 ATTTCTTTTTCTAATTTGGTACCTAAGC-TTTTTTAGGTCCAATTTGGTACCTAAACTTA
59596018 TTAAATGTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
61 26 0.49
62 27 0.51
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.51
Consensus pattern (61 bp):
ATTTCTTTTTCTAATTTGGTACCTAAGCTTTTTTAGGTCCAATTTGGTACCTAAACTTAAA
Found at i:59596589 original size:32 final size:31
Alignment explanation
Indices: 59596516--59596621 Score: 99
Period size: 32 Copynumber: 3.4 Consensus size: 31
59596506 AAAAAAGATT
* *
59596516 AAGTACCAAATTAAGAAAAAGT-TTCAACTTC
1 AAGTACCAAATT-AGAAAAAATGTTCAAGTTC
* *
59596547 ATGTATCAAATTAGGGAAAAAATGTT-AAGTTC
1 AAGTACCAAATTA--GAAAAAATGTTCAAGTTC
* *
59596579 AAGTACCAAATTAGAAAAAACGTATGAAGTTC
1 AAGTACCAAATTAGAAAAAATGT-TCAAGTTC
*
59596611 AGGTACCAAAT
1 AAGTACCAAAT
59596622 AAAATATTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
30 10 0.16
31 11 0.18
32 39 0.63
33 2 0.03
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.25
Consensus pattern (31 bp):
AAGTACCAAATTAGAAAAAATGTTCAAGTTC
Found at i:59607498 original size:3 final size:3
Alignment explanation
Indices: 59607205--59607481 Score: 95
Period size: 3 Copynumber: 92.7 Consensus size: 3
59607195 TTAATTGATT
* * * *
59607205 TAA TAA TAA TAA TGTA TAA GTAA AAA CAA -AA AAA T-A TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * * * *
59607250 TAA TAA TAA TAG TAG TAG TAG TAG TAG T-T TAA AAA AAA TAG TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
59607297 TAA TTA CAA AAA TGA TAA TAG TAA TAA -AA TAA -GA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
59607343 TAT TAA TAA TAA TAA -AA GTAAA TAA AAA TAG TAA TAA TAG TAA AAA
1 TAA TAA TAA TAA TAA TAA -T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
59607389 TAA TAA TAG CAA TAA TAA GAA TAT TAA TAA TAG TAA TGA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
59607437 T-A TAAA TAA TATA TATA TGAA AAA TAA TAA TAG TAA -AA -AA TAA TA
1 TAA T-AA TAA TA-A TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA
59607482 GAAGTAGTAA
Statistics
Matches: 206, Mismatches: 53, Indels: 30
0.71 0.18 0.10
Matches are distributed among these distances:
2 16 0.08
3 172 0.83
4 15 0.07
5 3 0.01
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:59608253 original size:17 final size:16
Alignment explanation
Indices: 59608217--59608255 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
59608207 GTAAGTAGAT
* *
59608217 AAAAAAGAAAATAAAT
1 AAAAAAGAAAACAAAG
59608233 AAAAAAGAAAGACAAAG
1 AAAAAAGAAA-ACAAAG
59608250 AAAAAA
1 AAAAAA
59608256 AGTACCCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (16 bp):
AAAAAAGAAAACAAAG
Found at i:59615285 original size:39 final size:39
Alignment explanation
Indices: 59615242--59615324 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
59615232 AATTTTTTAT
* *
59615242 TATATAAATAATT-ATACTTTTAGCTATAAATAAAACAAA
1 TATATAAA-AATTCAAACTTTCAGCTATAAATAAAACAAA
* *
59615281 TATATAAAATTTCAAACTTTCAGCTATAAATAAAACATA
1 TATATAAAAATTCAAACTTTCAGCTATAAATAAAACAAA
59615320 TATAT
1 TATAT
59615325 TATTTTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 3 0.08
39 36 0.92
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (39 bp):
TATATAAAAATTCAAACTTTCAGCTATAAATAAAACAAA
Found at i:59635325 original size:47 final size:47
Alignment explanation
Indices: 59635120--59635337 Score: 267
Period size: 47 Copynumber: 4.6 Consensus size: 47
59635110 TACAAAATAT
* * * *
59635120 GCCACAAAGGCAATATACAGAATACGCCACAAAGGCTATCAGAGTAC
1 GCCACAAAGGCAACATACAAAATATGCCACTAAGGCTATCAGAGTAC
* * ***
59635167 GCTACAAAAGCAACATATTGAATATGCCACTAAGGCTATCAGAGTAC
1 GCCACAAAGGCAACATACAAAATATGCCACTAAGGCTATCAGAGTAC
* * * * * *
59635214 GCCACAAAGGAAATATACATAATACG-TAGCTAAGGCTATCAGAGTAT
1 GCCACAAAGGCAACATACAAAATATGCCA-CTAAGGCTATCAGAGTAC
*
59635261 ACCACAAAGGCAACATACAAAATATGCCACTAAGGCTATCAGAGTAC
1 GCCACAAAGGCAACATACAAAATATGCCACTAAGGCTATCAGAGTAC
*
59635308 GCCATAAAGGCAACATACAAAATATGCCAC
1 GCCACAAAGGCAACATACAAAATATGCCAC
59635338 AAAGCCAATA
Statistics
Matches: 143, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
46 1 0.01
47 141 0.99
48 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (47 bp):
GCCACAAAGGCAACATACAAAATATGCCACTAAGGCTATCAGAGTAC
Found at i:59636221 original size:22 final size:23
Alignment explanation
Indices: 59636178--59636221 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
59636168 AAAATCAATT
59636178 ATTCCAATTATTTTGATTTAAAA
1 ATTCCAATTATTTTGATTTAAAA
59636201 ATTCCAATT-TTATT-ATTTAAA
1 ATTCCAATTATT-TTGATTTAAA
59636222 TTATAAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTCCAATTATTTTGATTTAAAA
Found at i:59653293 original size:17 final size:19
Alignment explanation
Indices: 59653273--59653329 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
59653263 AATTGCAAAC
59653273 TATTAAA-AAT-AAAAAAT
1 TATTAAATAATAAAAAAAT
*
59653290 TATTTAAATTATAAAAAAAT
1 TA-TTAAATAATAAAAAAAT
*
59653310 TATATAAAT-TTAAAAAAAT
1 TAT-TAAATAATAAAAAAAT
59653329 T
1 T
59653330 TAAAATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.06
18 5 0.15
19 13 0.38
20 14 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TATTAAATAATAAAAAAAT
Found at i:59653308 original size:20 final size:19
Alignment explanation
Indices: 59653283--59653337 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
59653273 TATTAAAAAT
*
59653283 AAAAAATTATTTAAATTATA
1 AAAAAATTATATAAATT-TA
59653303 AAAAAATTATATAAATTTA
1 AAAAAATTATATAAATTTA
59653322 AAAAAATT-TA-AAATTT
1 AAAAAATTATATAAATTT
59653338 TTAAAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 6 0.18
18 2 0.06
19 10 0.29
20 16 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAAATTATATAAATTTA
Found at i:59653360 original size:39 final size:40
Alignment explanation
Indices: 59653317--59653394 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
59653307 AATTATATAA
* *
59653317 ATTTAAAAAA-ATTTAAAATTTTTAAAAATA-TAGAAAATT
1 ATTTAAAAAATA-ATAAAATTTTAAAAAATACTAGAAAATT
*
59653356 ATTTAAAAAATAATAAAATTTTAAAAAATACTATAAAAT
1 ATTTAAAAAATAATAAAATTTTAAAAAATACTAGAAAAT
59653395 GTTATAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 26 0.76
40 8 0.24
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (40 bp):
ATTTAAAAAATAATAAAATTTTAAAAAATACTAGAAAATT
Found at i:59653391 original size:20 final size:19
Alignment explanation
Indices: 59653303--59653405 Score: 97
Period size: 18 Copynumber: 5.4 Consensus size: 19
59653293 TTAAATTATA
59653303 AAAAAAT-TATATAAA-TTT
1 AAAAAATATATA-AAATTTT
*
59653321 AAAAAA-ATTTAAAATTTT
1 AAAAAATATATAAAATTTT
* *
59653339 TAAAAATATAGAAAATTATTT
1 AAAAAATATATAAAA-T-TTT
59653360 AAAAAATA-ATAAAATTTT
1 AAAAAATATATAAAATTTT
*
59653378 AAAAAATACTATAAAATGTT
1 AAAAAATA-TATAAAATTTT
59653398 ATAAAAAT
1 A-AAAAAT
59653406 CATAAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
17 3 0.04
18 28 0.40
19 7 0.10
20 16 0.23
21 16 0.23
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAAATATATAAAATTTT
Found at i:59653400 original size:10 final size:10
Alignment explanation
Indices: 59653297--59653422 Score: 50
Period size: 10 Copynumber: 12.9 Consensus size: 10
59653287 AATTATTTAA
*
59653297 ATTATAAAAAA
1 ATTAT-AAAAT
59653308 ATTATATAAAT
1 ATTATA-AAAT
*
59653319 -TTA-AAAAA
1 ATTATAAAAT
59653327 ATT-TAAAAT
1 ATTATAAAAT
*
59653336 -TTTTAAAA-
1 ATTATAAAAT
*
59653344 ATATAGAAAATT
1 AT-TATAAAA-T
*
59653356 ATT-TAAAAA
1 ATTATAAAAT
*
59653365 ATAATAAAAT
1 ATTATAAAAT
* *
59653375 TTTAAAAAAT
1 ATTATAAAAT
*
59653385 ACTATAAAAT
1 ATTATAAAAT
*
59653395 GTTATAAAA-
1 ATTATAAAAT
* *
59653404 ATCATAAAAA
1 ATTATAAAAT
*
59653414 AATATAAAA
1 ATTATAAAA
59653423 CAATTAGAAA
Statistics
Matches: 84, Mismatches: 21, Indels: 21
0.67 0.17 0.17
Matches are distributed among these distances:
8 5 0.06
9 22 0.26
10 46 0.55
11 9 0.11
12 2 0.02
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:59653404 original size:39 final size:36
Alignment explanation
Indices: 59653303--59653412 Score: 105
Period size: 39 Copynumber: 2.9 Consensus size: 36
59653293 TTAAATTATA
* *
59653303 AAAAAAT-TATATAAATTTAAAAAAATTTAAAATTTT
1 AAAAAATATATA-AAATTTATAAAAATATAAAATTTT
* * *
59653339 TAAAAATATAGAAAATTATTTAAAAAATAATAAAATTTT
1 AAAAAATATATAAAATT-TAT-AAAAAT-ATAAAATTTT
59653378 AAAAAATACTATAAAATGTTATAAAAATCATAAAA
1 AAAAAATA-TATAAAAT-TTATAAAAAT-ATAAAA
59653413 AAATATAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
36 11 0.19
37 4 0.07
38 6 0.10
39 28 0.47
40 9 0.15
41 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (36 bp):
AAAAAATATATAAAATTTATAAAAATATAAAATTTT
Found at i:59653712 original size:5 final size:5
Alignment explanation
Indices: 59653702--59653726 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
59653692 TTATAATGTG
59653702 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
59653727 GAAGAACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:59659648 original size:19 final size:18
Alignment explanation
Indices: 59659624--59659664 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
59659614 TGATTAAATT
59659624 TTAATTAAATAAGGTTTAA
1 TTAATTAAATAAGG-TTAA
*
59659643 TTAATTAATTAAGGTTAA
1 TTAATTAAATAAGGTTAA
59659661 TTAA
1 TTAA
59659665 GGTTCAATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (18 bp):
TTAATTAAATAAGGTTAA
Found at i:59659662 original size:10 final size:10
Alignment explanation
Indices: 59659628--59659668 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
59659618 TAAATTTTAA
*
59659628 TTAAATAAGG
1 TTAATTAAGG
59659638 TTTAATTAA--
1 -TTAATTAAGG
59659647 TTAATTAAGG
1 TTAATTAAGG
59659657 TTAATTAAGG
1 TTAATTAAGG
59659667 TT
1 TT
59659669 CAATCCAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
8 8 0.30
10 12 0.44
11 7 0.26
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (10 bp):
TTAATTAAGG
Found at i:59659898 original size:54 final size:54
Alignment explanation
Indices: 59659834--59659943 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
59659824 TTTTTATGTT
*
59659834 TTTGAGGTCATGAGAGCTTGATTAAGCTAGCTCATGTACCAATTTGAAAAATTG
1 TTTGAGGTCATGAGAGCTTGATTAAGCTAGCCCATGTACCAATTTGAAAAATTG
* *
59659888 TTTGAGGTCATGAGAGCTTGATTAAGTTAGCCCATGTACCAATTTGCAAAATTG
1 TTTGAGGTCATGAGAGCTTGATTAAGCTAGCCCATGTACCAATTTGAAAAATTG
59659942 TT
1 TT
59659944 AAACTTTTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (54 bp):
TTTGAGGTCATGAGAGCTTGATTAAGCTAGCCCATGTACCAATTTGAAAAATTG
Found at i:59661888 original size:26 final size:26
Alignment explanation
Indices: 59661854--59661913 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
59661844 GAATGTGGAA
59661854 ATAAATAATTAGTCATTTTGGATATG
1 ATAAATAATTAGTCATTTTGGATATG
59661880 ATAAATAATTAGTCATTTTGGATATG
1 ATAAATAATTAGTCATTTTGGATATG
*
59661906 CTAAATAA
1 ATAAATAA
59661914 GGAAATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (26 bp):
ATAAATAATTAGTCATTTTGGATATG
Found at i:59662065 original size:21 final size:21
Alignment explanation
Indices: 59662041--59662091 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
59662031 AATTGATTAA
* *
59662041 ATAAATTATATTTTGGGTAAT
1 ATAAATTATATATTGGGTAAG
* * *
59662062 ATAAAATAAATATTGGGTTAG
1 ATAAATTATATATTGGGTAAG
59662083 ATAAATTAT
1 ATAAATTAT
59662092 GAGTGTTGGA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
ATAAATTATATATTGGGTAAG
Found at i:59670616 original size:38 final size:38
Alignment explanation
Indices: 59670566--59670661 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 38
59670556 CCATCTCCGT
* *
59670566 CCAACCCAACACACCATGTAAT-GATAAAATCAACCCAC
1 CCAACCCTACACACCATAT-ATGGATAAAATCAACCCAC
* * *
59670604 CCATCCCTACACACCAAATATGGGGATAAAATCAACCCAT
1 CCAACCCTACACACCATATAT--GGATAAAATCAACCCAC
59670644 CCAACCCTACACACCATA
1 CCAACCCTACACACCATA
59670662 GAGTACTGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 2 0.04
38 15 0.31
40 31 0.65
ACGTcount: A:0.42, C:0.38, G:0.06, T:0.15
Consensus pattern (38 bp):
CCAACCCTACACACCATATATGGATAAAATCAACCCAC
Found at i:59676980 original size:34 final size:34
Alignment explanation
Indices: 59676937--59677004 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
59676927 TATATTCTAA
59676937 GCATGCTTTAAAACAATTCTAAACAGAGTTTCAG
1 GCATGCTTTAAAACAATTCTAAACAGAGTTTCAG
59676971 GCATGCTTTAAAACAATTCTAAACAGAGTTTCAG
1 GCATGCTTTAAAACAATTCTAAACAGAGTTTCAG
59677005 AAACTTACAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (34 bp):
GCATGCTTTAAAACAATTCTAAACAGAGTTTCAG
Found at i:59679918 original size:5 final size:5
Alignment explanation
Indices: 59679908--59679938 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
59679898 TTATGTTTTA
59679908 ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
59679939 AAACTAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:59680281 original size:15 final size:15
Alignment explanation
Indices: 59680261--59680317 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
59680251 CGATGAATTT
*
59680261 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
59680276 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
59680291 ATTGAAATTATATTG
1 ATTGAAATTATATTG
59680306 ATTG-AATTATAT
1 ATTGAAATTATAT
59680318 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:59680792 original size:21 final size:21
Alignment explanation
Indices: 59680689--59680785 Score: 113
Period size: 21 Copynumber: 4.5 Consensus size: 21
59680679 GGCTTTATCG
** *
59680689 ATCAGGCACTTTATGTGTTGT
1 ATCAGGCACTTCGTGTGTCGT
59680710 ATTTCAGGCACTTCGTGTGTCGT
1 A--TCAGGCACTTCGTGTGTCGT
*
59680733 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
*
59680754 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
* *
59680775 TTTAGGCACTT
1 ATCAGGCACTT
59680786 TATGTGTTGT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
21 49 0.73
23 18 0.27
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
ATCAGGCACTTCGTGTGTCGT
Found at i:59680792 original size:42 final size:42
Alignment explanation
Indices: 59680689--59680797 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
59680679 GGCTTTATCG
*
59680689 ATCAGGCACTTTATGTGTTGTATTTCAGGCACTTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTTGTA--TCAGGCACCTCGTGTGTCGT
* ** *
59680733 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTTGTATCAGGCACCTCGTGTGTCGT
* *
59680775 TTTAGGCACTTTATGTGTTGTAT
1 ATCAGGCACTTTATGTGTTGTAT
59680798 ACTGATCAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.67
44 18 0.33
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.39
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTTGTATCAGGCACCTCGTGTGTCGT
Found at i:59688798 original size:40 final size:40
Alignment explanation
Indices: 59688546--59688791 Score: 424
Period size: 40 Copynumber: 6.2 Consensus size: 40
59688536 AACCCAAGTA
* * *
59688546 CCTTCGGGATTTA-ACCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
59688585 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59688625 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59688665 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59688705 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59688745 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59688785 CCTTCGG
1 CCTTCGG
59688792 ATCTTAGTCC
Statistics
Matches: 198, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
39 12 0.06
40 185 0.93
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59690180 original size:13 final size:13
Alignment explanation
Indices: 59690162--59690187 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59690152 ATTTTTATTT
59690162 TTAACATAAAATA
1 TTAACATAAAATA
59690175 TTAACATAAAATA
1 TTAACATAAAATA
59690188 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:59703101 original size:38 final size:38
Alignment explanation
Indices: 59703059--59703132 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
59703049 TTGATAAACC
*
59703059 AAAATTTGTGAGATAAACATGTGAAAAACAGATAAAAG
1 AAAATTTGTGAGATAAACATGTAAAAAACAGATAAAAG
*
59703097 AAAATTTGTGGGATAAACATGTAAAAAACAGATAAA
1 AAAATTTGTGAGATAAACATGTAAAAAACAGATAAA
59703133 GTTTGTAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.22
Consensus pattern (38 bp):
AAAATTTGTGAGATAAACATGTAAAAAACAGATAAAAG
Found at i:59703796 original size:20 final size:21
Alignment explanation
Indices: 59703766--59703809 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
59703756 ATTAATCATA
*
59703766 TAGGCAATTTT-GGTTTATTAT
1 TAGGCAATTTTAGATTT-TTAT
59703787 TAGG-AATTTTAGATTTTTAT
1 TAGGCAATTTTAGATTTTTAT
59703807 TAG
1 TAG
59703810 ATAACGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.52
Consensus pattern (21 bp):
TAGGCAATTTTAGATTTTTAT
Found at i:59704962 original size:16 final size:14
Alignment explanation
Indices: 59704941--59704974 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
59704931 TATAAAGTTT
59704941 TTATAAATGTTATATA
1 TTATAAAT-TTA-ATA
59704957 TTATAAATTTAATA
1 TTATAAATTTAATA
59704971 TTAT
1 TTAT
59704975 TTTAAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 3 0.17
16 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TTATAAATTTAATA
Found at i:59714359 original size:26 final size:26
Alignment explanation
Indices: 59714323--59714377 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
59714313 ATAACGTCTA
59714323 GCCGGGTTTAGGATGTTACAACTAAG
1 GCCGGGTTTAGGATGTTACAACTAAG
*
59714349 GCCGGGTTTAGGGTGTTACAACTAAG
1 GCCGGGTTTAGGATGTTACAACTAAG
59714375 GCC
1 GCC
59714378 CGGGATAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (26 bp):
GCCGGGTTTAGGATGTTACAACTAAG
Found at i:59714750 original size:28 final size:29
Alignment explanation
Indices: 59714709--59714777 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
59714699 CCAAATTAAA
59714709 CACCCCACTAAACCGA-CCACTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
59714738 CACCCTAC-AAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
59714766 CACCCCCACTAA
1 CA-CCCCACTAA
59714778 CTCTTTCACC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 1 0.03
28 19 0.56
29 12 0.35
30 2 0.06
ACGTcount: A:0.33, C:0.51, G:0.01, T:0.14
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:59715204 original size:19 final size:18
Alignment explanation
Indices: 59715180--59715217 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
59715170 GTTATGTTTC
59715180 TTATTATTATATTATTTAT
1 TTATTATTATA-TATTTAT
59715199 TTATTATTATATATTTAT
1 TTATTATTATATATTTAT
59715217 T
1 T
59715218 ATGTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTATTATATATTTAT
Found at i:59715206 original size:63 final size:63
Alignment explanation
Indices: 59715066--59715208 Score: 168
Period size: 63 Copynumber: 2.3 Consensus size: 63
59715056 TTTAACCCCT
* * *
59715066 TTTTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATA
* *
59715130 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTC-TTATTATTATA
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATA
59715191 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
59715209 ATATTTATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
61 18 0.26
62 7 0.10
63 27 0.39
64 15 0.22
65 2 0.03
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATA
Found at i:59715216 original size:11 final size:12
Alignment explanation
Indices: 59715180--59715219 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
59715170 GTTATGTTTC
59715180 TTATTAT-TATA
1 TTATTATATATA
*
59715191 TTATT-TATTTA
1 TTATTATATATA
59715202 TTATTATATAT-
1 TTATTATATATA
59715213 TTATTAT
1 TTATTAT
59715220 GTAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 1 0.04
11 20 0.80
12 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATATATA
Found at i:59715229 original size:17 final size:14
Alignment explanation
Indices: 59715189--59715219 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
59715179 CTTATTATTA
*
59715189 TATTATTTATTTAT
1 TATTATATATTTAT
59715203 TATTATATATTTAT
1 TATTATATATTTAT
59715217 TAT
1 TAT
59715220 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:59721980 original size:38 final size:39
Alignment explanation
Indices: 59721928--59722050 Score: 140
Period size: 44 Copynumber: 3.0 Consensus size: 39
59721918 CTTTCAAAAA
*
59721928 AAAAAAGAAGAGAAAAAGGAAAGAGAAAAAAGGAAAAGG
1 AAAAAAGAAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGG
59721967 AAAAAGAAGAGAAAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGG
1 --AAA-AA-AG-AAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGG
* *
59722011 -AAAAAGAAGAGAAAAACAAAAAAGAGAAAGAAAAGAAAAG
1 AAAAAAGAAGAG-AAAA-AAGAAAGAGAAA-AAAGGAAAAG
59722051 CAAAGGAGAG
Statistics
Matches: 73, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
38 5 0.07
39 6 0.08
40 13 0.18
41 14 0.19
42 2 0.03
43 2 0.03
44 31 0.42
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (39 bp):
AAAAAAGAAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGG
Found at i:59721986 original size:44 final size:44
Alignment explanation
Indices: 59721935--59722044 Score: 177
Period size: 44 Copynumber: 2.5 Consensus size: 44
59721925 AAAAAAAAAG
*
59721935 AAGAGAAAAAGGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
1 AAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
59721979 AAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
1 AAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
* *
59722023 AAAACAAAAAAGAGAA-AGAAAA
1 AAGAGAAAAAAGA-AAGAGAAAA
59722045 GAAAAGCAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
44 60 0.97
45 2 0.03
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (44 bp):
AAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
Found at i:59722033 original size:25 final size:24
Alignment explanation
Indices: 59721938--59722054 Score: 82
Period size: 24 Copynumber: 4.9 Consensus size: 24
59721928 AAAAAAGAAG
59721938 AGAAAAAGGAAAGAGAAAAA-AGGAAAA
1 AGAAAAA-G-AAGAGAAAAACA--AAAA
* * *
59721965 GGAAAAAGAAGAGAAAGAGAAAAA
1 AGAAAAAGAAGAGAAAAACAAAAA
**
59721989 AG--AAAG-AGA-AAAAAGGAAAA
1 AGAAAAAGAAGAGAAAAACAAAAA
*
59722009 GGAAAAAGAAGAGAAAAACAAAAA
1 AGAAAAAGAAGAGAAAAACAAAAA
* * *
59722033 AGAGAAAGAAAAGAAAAGCAAA
1 AGAAAAAGAAGAGAAAAACAAA
59722055 GGAGAGGCCA
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
20 10 0.14
21 3 0.04
22 8 0.11
23 3 0.04
24 32 0.44
25 9 0.12
26 2 0.03
27 6 0.08
ACGTcount: A:0.74, C:0.02, G:0.25, T:0.00
Consensus pattern (24 bp):
AGAAAAAGAAGAGAAAAACAAAAA
Found at i:59722040 original size:6 final size:5
Alignment explanation
Indices: 59721925--59722055 Score: 54
Period size: 5 Copynumber: 25.0 Consensus size: 5
59721915 TCACTTTCAA
* * * *
59721925 AAAAA AAAAG AAGAG AAAAAG GAAAG AGAAA- AAAGG AAAAGG AAAAAG
1 AAAAG AAAAG AAAAG -AAAAG AAAAG A-AAAG AAAAG AAAA-G -AAAAG
* * * *
59721973 AAGAG AAAGAG AAAAA AGAAAG AGAAA- AAAGG AAAAGG AAAAAG AAGAG
1 AAAAG AAA-AG AAAAG A-AAAG A-AAAG AAAAG AAAA-G -AAAAG AAAAG
* *
59722022 AAAA- ACAA- AAAAG AGAAAG AAAAG AAAAG CAAAG
1 AAAAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAAAG
59722056 GAGAGGCCAA
Statistics
Matches: 96, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
4 10 0.10
5 49 0.51
6 29 0.30
7 8 0.08
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:59723735 original size:135 final size:135
Alignment explanation
Indices: 59723394--59724146 Score: 996
Period size: 135 Copynumber: 5.6 Consensus size: 135
59723384 AAATTTTGAT
* * * * *
59723394 AGATCTTATCTTCGCTGAGCAGGAGCGGAGTAGATCAAATTTTGGCGAATCTTATCTCCACGTAC
1 AGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTAC
* * * *
59723459 CGGCGATGGAGTAGATTCCAATCATCAGCCTTATCTTCACTAAGTAGGAGTGGAGCACGCT-AA-
66 CGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
59723522 ATACC
131 ATACC
* * * * * *
59723527 AGATCTTATCTTCACTGAGCAAGAGTGAATCAGATCGAATTTTAGAGAATATTATCTTCACGTAC
1 AGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTAC
*
59723592 CGGCGATGGAGCAGATTCCAATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
66 CGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
59723657 ATACC
131 ATACC
* * *
59723662 AGATCTTATCTTCATTGAGTAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCAACGTAC
1 AGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTAC
* * *
59723727 CGGCGATGGAGAAGATTCTAATCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
66 CGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
59723792 ATACC
131 ATACC
* * * * * * * *
59723797 AGGTCTTATCTTC-GTGAGCAGGAGCGGAGCAGATAAAATTTTGGTGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTAC
* * * ** *
59723861 CGGCAATGGAGCAGGTTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA-
66 CGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
* *
59723925 CT-CT
131 ATACC
* * *
59723929 AGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAATTTT-GACAAATCTTATCTCCACGTA
1 AGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGA-GAATCTTATCTCCACGTA
* * *
59723993 CCAGCGATGGAGCAGATTCCAATCATTAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
65 CCGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
59724058 TATACC
130 TATACC
* ** * *
59724064 AGATCTTATCTTCATTGAGCAGGAGTGAAGCAGATTGAATTTTGGAGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTAC
* *
59724129 CGGCAATGGAGCAAATTC
66 CGGCGATGGAGCAGATTC
59724147 AAACCACCAG
Statistics
Matches: 533, Mismatches: 80, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
132 14 0.03
133 208 0.39
134 100 0.19
135 209 0.39
136 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (135 bp):
AGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTAC
CGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
ATACC
Found at i:59723851 original size:90 final size:88
Alignment explanation
Indices: 59723757--59724120 Score: 237
Period size: 90 Copynumber: 4.1 Consensus size: 88
59723747 ATCATCAGCT
*
59723757 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGGTCTTATCTTC-GTGAGCAGGAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAGTGAGCAGGAG
* *
59723821 CGGAGCAGATAAAATTTTGGTGAATC
66 TGGAGCAGAT-AAATTTT--AGAATC
* * * * ** *** * *
59723847 TTATCTCCA-TGTATC-GGCAATGGAGCAGGTTTCAGCCACCAG-CCTTATCTTCACTGAGCAGG
1 TTATCTTCACTG-AGCAGG-AGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAGTGAGCAGG
* * *
59723909 AGTGGAGCAGGCTAAACTCTAG-ATC
64 AGTGGAGCA-GATAAATTTTAGAATC
* * * * * *
59723934 TTATCTTCGCTGAGCAGGAGTGGAGCA-GATCAAATTTTGA-CAAATCTTATCTCCACGT-ACCA
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-TAT-ACCAGATCTTATCTTCA-GTGAGCA
* * *
59723996 GCGA-TGGAGCAGATTCCAATCATT--AACC
62 G-GAGTGGAGCAGA-T-AAAT-TTTAGAATC
*
59724024 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCATTGAGCAGGAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAGTGAGCAGGAG
* *
59724089 TGAAGCAGATTGAATTTTGGAGAATC
66 TGGAGCAGA-TAAATTTT--AGAATC
59724115 TTATCT
1 TTATCT
59724121 CCATGTATCG
Statistics
Matches: 202, Mismatches: 48, Indels: 47
0.68 0.16 0.16
Matches are distributed among these distances:
86 2 0.01
87 23 0.11
88 15 0.07
89 64 0.32
90 84 0.42
91 14 0.07
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (88 bp):
TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAGTGAGCAGGAG
TGGAGCAGATAAATTTTAGAATC
Found at i:59724250 original size:87 final size:86
Alignment explanation
Indices: 59724158--59724549 Score: 387
Period size: 87 Copynumber: 4.5 Consensus size: 86
59724148 AACCACCAGT
* * *
59724158 CTTAACCCCCTAAACAGTA-GGTAACAGGCTAAAAACTACAGATCTTGTCTCCTTAAGCGGTAGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCC-TAAGCAGTAGT
*
59724222 GGAGCAGATCAAAGATACACGAT
65 GGAGCAGATCAAAGATACACG-C
* * * * * * * * *
59724245 TTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTATAGATCTTATCTCCCTAAGAAGTAGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCT-CCTAAGCAGTAGT
59724310 GGAGCAGATCAAAGATACACGC
65 GGAGCAGATCAAAGATACACGC
* * * * ** *
59724332 CTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTC-CTAAGCAGTAGT
59724397 GGAGCAGATCAAAGATACACGC
65 GGAGCAGATCAAAGATACACGC
* * * * * * ** * *
59724419 CTTAACCCCCGAAGTAGTAGGCTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTC-CTAAGCAGTAGT
* * * *
59724484 AGAGCAGGTCGAAG--ACTCGC
65 GGAGCAGATCAAAGATACACGC
* *
59724504 CTTAACCACCTAAGCAGTAGGGTAACAGGCT-AAAATTGCAGATCTT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTT
59724550 ATCTTCGTTG
Statistics
Matches: 257, Mismatches: 45, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
84 12 0.05
85 32 0.12
86 1 0.00
87 155 0.60
88 55 0.21
89 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (86 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCTAAGCAGTAGTG
GAGCAGATCAAAGATACACGC
Found at i:59724325 original size:44 final size:44
Alignment explanation
Indices: 59724194--59724325 Score: 110
Period size: 44 Copynumber: 3.0 Consensus size: 44
59724184 GGCTAAAAAC
* * **
59724194 TACAGATCTTGTCTCCTTAAGCGGTAGTGGAGCAGATCAAAGA-
1 TACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCAAAGAT
* * * * *
59724237 TACACGATTTTAACTCCCTAAGCAA-TAG-GGTAACA-AGCTGAAGAT
1 TACA-GATCTTATCTCCCTAAG-AAGTAGTGG-AGCAGATC-AAAGAT
*
59724282 TATAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCAAAGAT
1 TACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCAAAGAT
59724326 ACACGCCTTA
Statistics
Matches: 66, Mismatches: 15, Indels: 15
0.69 0.16 0.16
Matches are distributed among these distances:
43 10 0.15
44 49 0.74
45 7 0.11
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (44 bp):
TACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCAAAGAT
Found at i:59724808 original size:29 final size:29
Alignment explanation
Indices: 59724775--59724838 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
59724765 CCAAATTAAA
59724775 CACCCCACTAAACCGA-CCACTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
59724804 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
59724833 CACCCC
1 CACCCC
59724839 TACACCCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.31, C:0.52, G:0.02, T:0.16
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:59724851 original size:37 final size:37
Alignment explanation
Indices: 59724804--59724875 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
59724794 CTAACTCCAT
59724804 CACCCTACTAAACCATCCACTACCTCCATCACCCCTA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCTA
59724841 CACCCTACTAAACCATCCACTACCTCCATCACCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCC
59724876 CAGTAACTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.18
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCTA
Found at i:59725272 original size:64 final size:64
Alignment explanation
Indices: 59725181--59725310 Score: 160
Period size: 64 Copynumber: 2.0 Consensus size: 64
59725171 TATTTTTGTA
* *
59725181 ATTTTACTGTTAAATTAATTAATTTGAGCTTTAT-TCTCATTATTTTTATATT-TGTTA-TTATT
1 ATTTTACTATTAAATTAATTAATTTGAG--TTATGTCTCA-TATTATTATATTAT-TTATTTATT
59725243 ATT
62 ATT
* *
59725246 ATTTT-CTATTAATTTAATTAATTTGAGTTATGTTTCATATTATTATATTATTTATTTATTATT
1 ATTTTACTATTAAATTAATTAATTTGAGTTATGTCTCATATTATTATATTATTTATTTATTATT
59725309 AT
1 AT
59725311 ATATTTATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
62 18 0.31
63 15 0.26
64 20 0.34
65 5 0.09
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (64 bp):
ATTTTACTATTAAATTAATTAATTTGAGTTATGTCTCATATTATTATATTATTTATTTATTATT
Found at i:59725307 original size:19 final size:18
Alignment explanation
Indices: 59725283--59725319 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
59725273 TTATGTTTCA
59725283 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
59725302 TATTATTATATATTTATT
1 TATTATTATATATTTATT
59725320 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:59725331 original size:17 final size:14
Alignment explanation
Indices: 59725291--59725321 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
59725281 CATATTATTA
*
59725291 TATTATTTATTTAT
1 TATTATATATTTAT
59725305 TATTATATATTTAT
1 TATTATATATTTAT
59725319 TAT
1 TAT
59725322 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:59727249 original size:36 final size:36
Alignment explanation
Indices: 59727198--59727268 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
59727188 AAGTGTTGGA
59727198 GAAATCTTGGCTTCAAACCTAGGCTTTAGCAAAAAT
1 GAAATCTTGGCTTCAAACCTAGGCTTTAGCAAAAAT
* *
59727234 GAAATCTTGGGTTCAAACCTGGGCTTTAGCAAAAA
1 GAAATCTTGGCTTCAAACCTAGGCTTTAGCAAAAA
59727269 ATTTGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (36 bp):
GAAATCTTGGCTTCAAACCTAGGCTTTAGCAAAAAT
Found at i:59728066 original size:27 final size:26
Alignment explanation
Indices: 59728027--59728130 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 26
59728017 CTCATATCTG
* *
59728027 TAGGCTAGTATTACTGAAATACCCTA
1 TAGGGTAGAATTACTGAAATACCCTA
*
59728053 GTAGGGTAGAATTACTGAAATGCCCCTA
1 -TAGGGTAGAATTACTGAAAT-ACCCTA
*
59728081 TAGGATAGAATTACTGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATA-CCCTA
*
59728108 TAAGGTAGAATTACTG-AATACCC
1 TAGGGTAGAATTACTGAAATACCC
59728131 CTGGTTTGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
25 3 0.04
26 4 0.06
27 56 0.82
28 5 0.07
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (26 bp):
TAGGGTAGAATTACTGAAATACCCTA
Found at i:59728158 original size:27 final size:27
Alignment explanation
Indices: 59728124--59728454 Score: 224
Period size: 27 Copynumber: 12.3 Consensus size: 27
59728114 AGAATTACTG
*
59728124 AATACCCCTGGTTTGTAAAATTACCAA
1 AATACCCCTGATTTGTAAAATTACCAA
* * * *
59728151 AATACCCCTAATTTATGAAATTACTAA
1 AATACCCCTGATTTGTAAAATTACCAA
* ** * *
59728178 AATA-CCCTCAACCTATAAAATTACCGA
1 AATACCCCT-GATTTGTAAAATTACCAA
* * *
59728205 AATA-CCCTCGACTTGTAAGATTATCAA
1 AATACCCCT-GATTTGTAAAATTACCAA
59728232 AATA-CCCTCGATTTGTAAAATTACCAA
1 AATACCCCT-GATTTGTAAAATTACCAA
* * *
59728259 AATACCCCTGATTTGTGAAATTATCGA
1 AATACCCCTGATTTGTAAAATTACCAA
** * *
59728286 AATA-CCCTCGACCTGTAAAGTTATCAA
1 AATACCCCT-GATTTGTAAAATTACCAA
* * * * *
59728313 AATACCCTTGACTCGGAAAATTATCAA
1 AATACCCCTGATTTGTAAAATTACCAA
* *
59728340 AATA-CTCTCGATTTGTAAAATTAGCAA
1 AATACCCCT-GATTTGTAAAATTACCAA
* * *
59728367 AATACCCCTAATTTGGAAAATTACCGA
1 AATACCCCTGATTTGTAAAATTACCAA
* * ***
59728394 AATACCCTTGATTTGAAAAATTATGGA
1 AATACCCCTGATTTGTAAAATTACCAA
* **
59728421 AATACCCCTGTTTTACAAAATTA-CAGA
1 AATACCCCTGATTTGTAAAATTACCA-A
59728448 AATACCC
1 AATACCC
59728455 TTAAGTTTTA
Statistics
Matches: 243, Mismatches: 54, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
26 10 0.04
27 223 0.92
28 10 0.04
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AATACCCCTGATTTGTAAAATTACCAA
Found at i:59728381 original size:108 final size:107
Alignment explanation
Indices: 59728135--59728401 Score: 365
Period size: 108 Copynumber: 2.5 Consensus size: 107
59728125 ATACCCCTGG
* *
59728135 TTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACTAAAATACCCTCAACCTATAAAATT
1 TTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTAC-GAAATACCCTCAACCTATAAAATT
* * * *
59728200 ACCGAAATACCCTCGACTTGTAAGATTATCAAAATACCCTCGA
65 ACCAAAATACCCTCGACTCGGAAAATTATCAAAATACCCTCGA
* * * *
59728243 TTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATCGAAATACCCTCGACCTGTAAAGTT
1 TTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTA-CGAAATACCCTCAACCTATAAAATT
* * *
59728308 ATCAAAATACCCTTGACTCGGAAAATTATCAAAATACTCTCGA
65 ACCAAAATACCCTCGACTCGGAAAATTATCAAAATACCCTCGA
*
59728351 TTTGTAAAATTAGCAAAATACCCCTAATTTG-GAAAATTACCGAAATACCCT
1 TTTGTAAAATTACCAAAATACCCCTAATTTGTG-AAATTA-CGAAATACCCT
59728402 TGATTTGAAA
Statistics
Matches: 141, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
107 1 0.01
108 139 0.99
109 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (107 bp):
TTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACGAAATACCCTCAACCTATAAAATTA
CCAAAATACCCTCGACTCGGAAAATTATCAAAATACCCTCGA
Found at i:59728385 original size:54 final size:54
Alignment explanation
Indices: 59728135--59728455 Score: 283
Period size: 54 Copynumber: 5.9 Consensus size: 54
59728125 ATACCCCTGG
* * *
59728135 TTTGTAAAATTACCAAAATACCCCTAATTTATG-AAATTA-CTAAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCCCTGATTT-GGAAAATTATC-AAAATACCCTCGA
** * * * * *
59728189 CCTATAAAATTACCGAAATA-CCCTCGACTTGTAAGATTATCAAAATACCCTCGA
1 TTTGTAAAATTACCAAAATACCCCT-GATTTGGAAAATTATCAAAATACCCTCGA
*
59728243 TTTGTAAAATTACCAAAATACCCCTGATTTGTG-AAATTATCGAAATACCCTCGA
1 TTTGTAAAATTACCAAAATACCCCTGATTTG-GAAAATTATCAAAATACCCTCGA
** * * * * * *
59728297 CCTGTAAAGTTATCAAAATACCCTTGACTCGGAAAATTATCAAAATACTCTCGA
1 TTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTATCAAAATACCCTCGA
* * * * *
59728351 TTTGTAAAATTAGCAAAATACCCCTAATTTGGAAAATTACCGAAATACCCTTGA
1 TTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTATCAAAATACCCTCGA
* *** * **
59728405 TTTGAAAAATTATGGAAATACCCCTGTTTTACAAAATTA-CAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTATCA-AAATACCCT
59728456 TAAGTTTTAA
Statistics
Matches: 212, Mismatches: 48, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
53 6 0.03
54 201 0.95
55 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTATCAAAATACCCTCGA
Found at i:59728467 original size:27 final size:27
Alignment explanation
Indices: 59728089--59728481 Score: 152
Period size: 27 Copynumber: 14.6 Consensus size: 27
59728079 TATAGGATAG
* ** *
59728089 AATTACTGAAATACCCCT-ATAAGGTAG
1 AATTACAGAAATACCCCTAAT-TTGTAA
* **
59728116 AATTACTG-AATACCCCTGGTTTGTAA
1 AATTACAGAAATACCCCTAATTTGTAA
* *
59728142 AATTACCA-AAATACCCCTAATTTATGA
1 AATTA-CAGAAATACCCCTAATTTGTAA
** *
59728169 AATTACTA-AAATA-CCCTCAACCTATAA
1 AATTAC-AGAAATACCCCT-AATTTGTAA
* * *
59728196 AATTACCGAAATA-CCCTCGACTTGTAA
1 AATTACAGAAATACCCCT-AATTTGTAA
* *
59728223 GATTATCA-AAATA-CCCTCGATTTGTAA
1 AATTA-CAGAAATACCCCT-AATTTGTAA
* *
59728250 AATTACCA-AAATACCCCTGATTTGTGA
1 AATTA-CAGAAATACCCCTAATTTGTAA
* **
59728277 AATTATC-GAAATA-CCCTCGACCTGTAA
1 AATTA-CAGAAATACCCCT-AATTTGTAA
* * * * * *
59728304 AGTTATCA-AAATACCCTTGACTCGGAA
1 AATTA-CAGAAATACCCCTAATTTGTAA
* *
59728331 AATTATCA-AAATA-CTCTCGATTTGTAA
1 AATTA-CAGAAATACCCCT-AATTTGTAA
*
59728358 AATTAGCA-AAATACCCCTAATTTGGAA
1 AATTA-CAGAAATACCCCTAATTTGTAA
* * * *
59728385 AATTACCGAAATACCCTTGATTTGAAA
1 AATTACAGAAATACCCCTAATTTGTAA
** ** **
59728412 AATTATGGAAATACCCCTGTTTTACAA
1 AATTACAGAAATACCCCTAATTTGTAA
*
59728439 AATTACAGAAATACCCTTAAGTTT-TAAA
1 AATTACAGAAATACCCCTAA-TTTGT-AA
59728467 AATTACAGAAATACC
1 AATTACAGAAATACC
59728482 ATTGGTCTAT
Statistics
Matches: 292, Mismatches: 57, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
26 29 0.10
27 232 0.79
28 31 0.11
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (27 bp):
AATTACAGAAATACCCCTAATTTGTAA
Found at i:59728816 original size:41 final size:41
Alignment explanation
Indices: 59728771--59728879 Score: 164
Period size: 41 Copynumber: 2.7 Consensus size: 41
59728761 AGAGGAAGAA
*
59728771 ATTGAGGATCGCATGGTTGTTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
* *
59728812 ATTGAGGATCACATGGTTGCTTGAGGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
* * *
59728853 ATTAAGGATTGCATGGTTACTTGACGA
1 ATTGAGGATCGCATGGTTGCTTGACGA
59728880 CTATGGATCC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
Found at i:59729072 original size:22 final size:22
Alignment explanation
Indices: 59729047--59729098 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
59729037 ATTATGACTT
59729047 TGTGCCAACC-TACATATGGCTC
1 TGTGCCAACCTTA-ATATGGCTC
* *
59729069 TGTGCCAACCTTATTATGGTTC
1 TGTGCCAACCTTAATATGGCTC
59729091 TGTGCCAA
1 TGTGCCAA
59729099 AAGTATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (22 bp):
TGTGCCAACCTTAATATGGCTC
Found at i:59729105 original size:22 final size:22
Alignment explanation
Indices: 59729061--59729105 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
59729051 CCAACCTACA
***
59729061 TATGGCTCTGTGCCAACCTTAT
1 TATGGCTCTGTGCCAAAAGTAT
*
59729083 TATGGTTCTGTGCCAAAAGTAT
1 TATGGCTCTGTGCCAAAAGTAT
59729105 T
1 T
59729106 TGCCTAAGGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (22 bp):
TATGGCTCTGTGCCAAAAGTAT
Found at i:59729326 original size:22 final size:22
Alignment explanation
Indices: 59729301--59729347 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
59729291 GTTGCTGCAA
**
59729301 TGTTTACAGCTATGTGTTGTCC
1 TGTTTACAGCTATGTGCCGTCC
*
59729323 TGTTTACGGCTATGTGCCGTCC
1 TGTTTACAGCTATGTGCCGTCC
59729345 TGT
1 TGT
59729348 CTACGGCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.21, G:0.26, T:0.43
Consensus pattern (22 bp):
TGTTTACAGCTATGTGCCGTCC
Found at i:59729352 original size:22 final size:22
Alignment explanation
Indices: 59729309--59729354 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
59729299 AATGTTTACA
** *
59729309 GCTATGTGTTGTCCTGTTTACG
1 GCTATGTGCCGTCCTGTCTACG
59729331 GCTATGTGCCGTCCTGTCTACG
1 GCTATGTGCCGTCCTGTCTACG
59729353 GC
1 GC
59729355 GTTGAGCTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.26, G:0.28, T:0.37
Consensus pattern (22 bp):
GCTATGTGCCGTCCTGTCTACG
Found at i:59729366 original size:22 final size:22
Alignment explanation
Indices: 59729309--59729369 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
59729299 AATGTTTACA
* * *
59729309 GCTATGTGTTGTCCTGTTTACG
1 GCTATGAGCTGTCCTGTCTACG
* *
59729331 GCTATGTGCCGTCCTGTCTACG
1 GCTATGAGCTGTCCTGTCTACG
59729353 GCGT-TGAGCTGTCCTGT
1 GC-TATGAGCTGTCCTGT
59729370 TGACTTAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.08, C:0.25, G:0.30, T:0.38
Consensus pattern (22 bp):
GCTATGAGCTGTCCTGTCTACG
Found at i:59731591 original size:27 final size:27
Alignment explanation
Indices: 59731549--59731650 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
59731539 AATCTCATAT
* *
59731549 CTGTAGGCTAGTATTACTGAAAT-ACC
1 CTGTAGGGTAGAATTACTGAAATGACC
* *
59731575 CTAGTAGGGTAGAATTATTGAAATGCCC
1 CT-GTAGGGTAGAATTACTGAAATGACC
* *
59731603 CTGTAGGATAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATGACC
*
59731630 CTGTAAGGTAGAATTACTGAA
1 CTGTAGGGTAGAATTACTGAA
59731651 TACCTCTGGT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.03
27 60 0.91
28 4 0.06
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATGACC
Found at i:59731681 original size:27 final size:26
Alignment explanation
Indices: 59731649--59732063 Score: 203
Period size: 27 Copynumber: 15.3 Consensus size: 26
59731639 AGAATTACTG
*
59731649 AATACCTCTGGTTTGTAAAATTACCAA
1 AATACC-CTGATTTGTAAAATTACCAA
* *
59731676 AATACCACCCTTGATTTGTGAAATTACCGA
1 AAT---ACCC-TGATTTGTAAAATTACCAA
* ** * *
59731706 AATACCCTCTACCTATAAAATTACCGA
1 AATACCCT-GATTTGTAAAATTACCAA
* * * *
59731733 AATACCCTCGACTTGTAAGATTATCGA
1 AATACCCT-GATTTGTAAAATTACCAA
* *
59731760 AGTACCCTAGATTTGTAAAA-CACCAA
1 AATACCCT-GATTTGTAAAATTACCAA
* * *
59731786 AATACCACTAATTTGTGAAATTA-TAGA
1 AATACC-CTGATTTGTAAAATTACCA-A
** * *
59731813 AATACCCTTGACATGTAAAATTATCGA
1 AATACCC-TGATTTGTAAAATTACCAA
* * *
59731840 AATATCCTCGACTTGTAAAATAACCAA
1 AATACCCT-GATTTGTAAAATTACCAA
*
59731867 AATACCCTCAATTTGTAAAATTACCAA
1 AATACCCT-GATTTGTAAAATTACCAA
* * *
59731894 AATACCCATGATTTGGAAAATTATCGA
1 AATACCC-TGATTTGTAAAATTACCAA
* *
59731921 AATACCCTTAATTTGGAAAATTA-CAGA
1 AATACCC-TGATTTGTAAAATTACCA-A
* *
59731948 AATACCCCTAATTT-AAAAATTA-CAGA
1 AATA-CCCTGATTTGTAAAATTACCA-A
* **
59731974 AATACCCTTAACTTTAAAAAATTA-CAGA
1 AATACCC-TGA-TTTGTAAAATTACCA-A
* * *
59732002 AATACCATTGGTTTGTAAAATTACCGA
1 AATACC-CTGATTTGTAAAATTACCAA
* * *
59732029 AATACCCTTGGTTTGTAGATTTACCAA
1 AATACCC-TGATTTGTAAAATTACCAA
*
59732056 AACACCCT
1 AATACCCT
59732064 TGTAGGGTGA
Statistics
Matches: 309, Mismatches: 59, Indels: 41
0.76 0.14 0.10
Matches are distributed among these distances:
25 3 0.01
26 41 0.13
27 218 0.71
28 24 0.08
29 1 0.00
30 22 0.07
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (26 bp):
AATACCCTGATTTGTAAAATTACCAA
Found at i:59731995 original size:81 final size:80
Alignment explanation
Indices: 59731682--59732035 Score: 278
Period size: 81 Copynumber: 4.4 Consensus size: 80
59731672 CCAAAATACC
* * ** * *
59731682 ACCCTTGATTTGTGAAATTACCGAAATACCCTCT-ACCT-ATAAAATTACCGAAATACCCTCGAC
1 ACCCTTGATTTGTAAAATTACAGAAATACCC-CTAATTTGA-AAAATTACAGAAATACCCTTGAC
* *
59731745 TTGTAAGATTATCGAAGT
64 TT-TAAAATTATCGAAAT
* * * ** *
59731763 ACCCTAGATTTGTAAAA-CACCA-AAATACCACTAATTTGTGAAATTATAGAAATACCCTTGACA
1 ACCCTTGATTTGTAAAATTA-CAGAAATACCCCTAATTTGAAAAATTACAGAAATACCCTTGAC-
*
59731826 TGTAAAATTATCGAAAT
64 TTTAAAATTATCGAAAT
* * * * * *
59731843 ATCCTCGACTTGTAAAATAACCA-AAATA-CCCTCAATTTGTAAAATTACCA-AAATACCCATGA
1 ACCCTTGATTTGTAAAATTA-CAGAAATACCCCT-AATTTGAAAAATTA-CAGAAATACCCTTGA
59731905 -TTTGGAAAATTATCGAAAT
63 CTTT--AAAATTATCGAAAT
* * *
59731924 ACCCTTAATTTGGAAAATTACAGAAATACCCCTAATTT-AAAAATTACAGAAATACCCTTAACTT
1 ACCCTTGATTTGTAAAATTACAGAAATACCCCTAATTTGAAAAATTACAGAAATACCCTTGACTT
59731988 TAAAAAATTA-CAGAAAT
66 T--AAAATTATC-GAAAT
* * *
59732005 ACCATTGGTTTGTAAAATTACCGAAATACCC
1 ACCCTTGATTTGTAAAATTACAGAAATACCC
59732036 TTGGTTTGTA
Statistics
Matches: 219, Mismatches: 40, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
79 6 0.03
80 79 0.36
81 129 0.59
82 5 0.02
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.29
Consensus pattern (80 bp):
ACCCTTGATTTGTAAAATTACAGAAATACCCCTAATTTGAAAAATTACAGAAATACCCTTGACTT
TAAAATTATCGAAAT
Found at i:59732348 original size:41 final size:41
Alignment explanation
Indices: 59732303--59732421 Score: 184
Period size: 41 Copynumber: 2.9 Consensus size: 41
59732293 AGAGGAAGAA
* * *
59732303 ATTGAGGATCACATGGTTGTTTGACGACCGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
59732344 ATTGAGGATCGCATGGTTGCTTGAGGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
59732385 ATTAAGGATCGCTTGGTTGCTTGACGACCGTGGATCC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCC
59732422 GCTGGTGGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:59732608 original size:22 final size:22
Alignment explanation
Indices: 59732583--59732631 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
59732573 ATGACTTTGC
59732583 GCCAACCT-ACATATGGCTCTGT
1 GCCAACCTGA-ATATGGCTCTGT
* *
59732605 GCCAACCTGATTATGGCTGTGT
1 GCCAACCTGAATATGGCTCTGT
59732627 GCCAA
1 GCCAA
59732632 AAGTATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (22 bp):
GCCAACCTGAATATGGCTCTGT
Found at i:59734503 original size:27 final size:27
Alignment explanation
Indices: 59734470--59734620 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
59734460 TATACACAAC
* *
59734470 TCGCACACTTAGTGCCACGTAATCAAA
1 TCGCACACTTAGTGCCACATAGTCAAA
* * *
59734497 TCGCACACTTAGTGCTACATAGTTAGAC
1 TCGCACACTTAGTGCCACATAGTCA-AA
* * *
59734525 TCGCACACTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTGCCACATAGTCAAA
* **
59734552 TCGCACACTTAGTG-CATCATATTCATT
1 TCGCACACTTAGTGCCA-CATAGTCAAA
* *
59734579 TCGCACACTTAGTGCAACATAGTCGAA
1 TCGCACACTTAGTGCCACATAGTCAAA
59734606 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
59734621 TGTACAATTT
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 78 0.76
28 23 0.23
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (27 bp):
TCGCACACTTAGTGCCACATAGTCAAA
Found at i:59734537 original size:55 final size:55
Alignment explanation
Indices: 59734446--59734621 Score: 193
Period size: 55 Copynumber: 3.3 Consensus size: 55
59734436 ATATTGAGCC
* * * *
59734446 CGCACACTCAGTGCTAT-ACA--CAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
59734498 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
59734553 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
59734607 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59734622 GTACAATTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
52 17 0.17
54 41 0.40
55 44 0.43
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:59734564 original size:82 final size:81
Alignment explanation
Indices: 59734470--59734620 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
59734460 TATACACAAC
* * *
59734470 TCGCACACTTAGTGCCA-CGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCACACT
1 TCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCACACT
59734534 TAGTGCCGCATGGTCAAT
64 TAGTGCCGCATGGTCAAT
* ** *
59734552 TCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTTA
1 TCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCACACTTA
59734617 GTGC
66 GTGC
59734621 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 20 0.33
82 41 0.67
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:59742593 original size:26 final size:26
Alignment explanation
Indices: 59742564--59742740 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 26
59742554 TATTTGAGCC
* *
59742564 CGCACACTCAGTGCTA-TACATCAACT
1 CGCACACTTAGTGCTACTA-ATCAAAT
*
59742590 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAC-TAATCAAAT
* * *
59742617 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTAC-TAATCA-AAT
** ** *
59742645 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTAC-TAATCAAAT
* **
59742672 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-C-TAATCAAAT
* * *
59742699 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTAC-TAATCAAAT
59742726 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59742741 GTACAATTTA
Statistics
Matches: 124, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
26 14 0.11
27 85 0.69
28 25 0.20
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (26 bp):
CGCACACTTAGTGCTACTAATCAAAT
Found at i:59742621 original size:27 final size:27
Alignment explanation
Indices: 59742584--59742739 Score: 161
Period size: 27 Copynumber: 5.7 Consensus size: 27
59742574 GTGCTATACA
* * *
59742584 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAAATCGCACACTTAGTGCCACATAG
*
59742611 TCAAATCGCACACTTAGTGCTACATAG
1 TCAAATCGCACACTTAGTGCCACATAG
* * * *
59742638 TTAGACTCGCACACTTAGTGCCGCATGG
1 TCA-AATCGCACACTTAGTGCCACATAG
* *
59742666 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAAATCGCACACTTAGTGCCA-CATAG
** *
59742693 TCATTTCGCACACTTAGTGCAACATAG
1 TCAAATCGCACACTTAGTGCCACATAG
*
59742720 TCGAATCGCACACTTAGTGC
1 TCAAATCGCACACTTAGTGC
59742740 TGTACAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 82 0.77
28 23 0.22
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (27 bp):
TCAAATCGCACACTTAGTGCCACATAG
Found at i:59742656 original size:55 final size:55
Alignment explanation
Indices: 59742564--59742740 Score: 202
Period size: 55 Copynumber: 3.3 Consensus size: 55
59742554 TATTTGAGCC
* * * *
59742564 CGCACACTCAGTGCTAT-ACA-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
59742617 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
59742672 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
59742726 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59742741 GTACAATTTA
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
53 17 0.17
54 41 0.40
55 45 0.44
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:59742683 original size:82 final size:81
Alignment explanation
Indices: 59742584--59742739 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
59742574 GTGCTATACA
* * *
59742584 TCAACTCGCACACTTAGTGCCA-CGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGC
59742648 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * ** *
59742666 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
59742731 ACTTAGTGC
66 ACTTAGTGC
59742740 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59746106 original size:13 final size:13
Alignment explanation
Indices: 59746088--59746116 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
59746078 AAATGTTATC
59746088 TATTAAAACATTA
1 TATTAAAACATTA
59746101 TATTAAAACATTA
1 TATTAAAACATTA
59746114 TAT
1 TAT
59746117 AAGGTAGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTAAAACATTA
Found at i:59749972 original size:18 final size:18
Alignment explanation
Indices: 59749940--59749974 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59749930 GCCGTGGACA
*
59749940 ATATTTTTCACATATTTT
1 ATATTTTTCAAATATTTT
*
59749958 ATATTTTTTAAATATTT
1 ATATTTTTCAAATATTT
59749975 AGTTGAGCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTTTTCAAATATTTT
Found at i:59754843 original size:13 final size:12
Alignment explanation
Indices: 59754820--59754872 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 12
59754810 CACCGTCCCC
59754820 CCTTCTTTCTTTT
1 CCTT-TTTCTTTT
59754833 CCATTTTTCTTTT
1 CC-TTTTTCTTTT
59754846 CCTTTATTCTTTT
1 CCTTT-TTCTTTT
*
59754859 TCTTTTTCCTTTT
1 CCTTTTT-CTTTT
59754872 C
1 C
59754873 TGTACTTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 5 0.14
13 28 0.80
14 2 0.06
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (12 bp):
CCTTTTTCTTTT
Found at i:59754857 original size:7 final size:6
Alignment explanation
Indices: 59754825--59754873 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
59754815 TCCCCCCTTC
* * *
59754825 TTTCTT TTCCATT TTTCTT TTCCTT TATTCTT TTTCTT TTTCCT TTTCT
1 TTTCTT TTTC-TT TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTCT
59754874 GTACTTTGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTCTT
Found at i:59762961 original size:23 final size:23
Alignment explanation
Indices: 59762905--59762954 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
59762895 TAGGCCATGT
59762905 GGCCACATGGGCAAGACAATTTG
1 GGCCACATGGGCAAGACAATTTG
*
59762928 GGCCACATGGGTAAGACAATTTG
1 GGCCACATGGGCAAGACAATTTG
59762951 GGCC
1 GGCC
59762955 GTGTGGGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.32, T:0.18
Consensus pattern (23 bp):
GGCCACATGGGCAAGACAATTTG
Found at i:59762962 original size:32 final size:32
Alignment explanation
Indices: 59762926--59762991 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
59762916 CAAGACAATT
* *
59762926 TGGGCCACATGGGTAAGACAATTTGGGCCGTG
1 TGGGCCACACGGGTAAGACAATTTAGGCCGTG
* *
59762958 TGGGCCACACGGGTAAGGCAATTTAGGCTGTG
1 TGGGCCACACGGGTAAGACAATTTAGGCCGTG
59762990 TG
1 TG
59762992 AGCCCAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.23
Consensus pattern (32 bp):
TGGGCCACACGGGTAAGACAATTTAGGCCGTG
Found at i:59764817 original size:93 final size:93
Alignment explanation
Indices: 59764710--59764880 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
59764700 GCCCCTAAGT
* * * *
59764710 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATAGGACTCAACTCAA
59764775 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
59764803 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAAATAGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATAGGACTCAACTCAA
59764868 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59764881 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATAGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59764877 original size:46 final size:46
Alignment explanation
Indices: 59764705--59764877 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
59764695 AACCCGCCCC
* * * *
59764705 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
59764751 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
59764799 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
59764844 TAAGTGAAATAGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59764878 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:59765334 original size:30 final size:30
Alignment explanation
Indices: 59765300--59765359 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
59765290 ATTTAATACG
*
59765300 AACTTTTGAAAAATTACACTTTTGCCCCTA
1 AACTTTTGAAAAATTACACTTTTACCCCTA
***
59765330 AACTTTTGCGTAATTACACTTTTACCCCTA
1 AACTTTTGAAAAATTACACTTTTACCCCTA
59765360 GGCTCGGGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGAAAAATTACACTTTTACCCCTA
Found at i:59776283 original size:42 final size:43
Alignment explanation
Indices: 59776175--59776287 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
59776165 AGCTCGTACA
* * * *
59776175 ATGCTAACGTCCCAGATGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
*
59776218 ATGCC-ACTGTCCCAAACAG-GGTCTTACATGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAAATATCG
*
59776260 ATGCCAACGTCCTAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
59776288 CATAAAACAT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 32 0.54
44 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
Found at i:59777945 original size:93 final size:93
Alignment explanation
Indices: 59777833--59778004 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
59777823 GCCCATAAGT
* *
59777833 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59777898 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
59777926 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
59777991 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
59778005 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Done.