Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 117 of 427
Found at i:30913840 original size:17 final size:16
Alignment explanation
Indices: 30913801--30913831 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30913791 TTAAGATAAT
30913801 TTTTTTATTCAATGAA
1 TTTTTTATTCAATGAA
30913817 TTTTTTATTC-ATGAA
1 TTTTTTATTCAATGAA
30913832 GCTTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTTTTATTCAATGAA
Found at i:30916043 original size:21 final size:22
Alignment explanation
Indices: 30916005--30916056 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
30915995 TAGACATTAC
*
30916005 ATATATTTTACGTATATTATGT
1 ATATATTTTACATATATTATGT
30916027 ATATATTTTA-ATATATTATGT
1 ATATATTTTACATATATTATGT
*
30916048 GTATATTTT
1 ATATATTTT
30916057 GTTTTGTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
ATATATTTTACATATATTATGT
Found at i:30916366 original size:22 final size:22
Alignment explanation
Indices: 30916340--30916389 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
30916330 CTACTACTAG
30916340 TATTACTATTATT-TCTTTATTT
1 TATTACTATTATTAT-TTTATTT
30916362 TATTACTATTATTATTTTATTT
1 TATTACTATTATTATTTTATTT
30916384 TATTAC
1 TATTAC
30916390 GCTGCCCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTACTATTATTATTTTATTT
Found at i:30916616 original size:24 final size:25
Alignment explanation
Indices: 30916558--30916616 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
30916548 TCCTTTTTAC
* * *
30916558 TTATTCTTCTTATTCTTATTTACTT
1 TTATTCATCTTATTATTATTTACTA
30916583 TTA-TCATCTTATTATT-TTTACCTA
1 TTATTCATCTTATTATTATTTA-CTA
30916607 TTATTC-TCTT
1 TTATTCATCTT
30916617 CTTCAATTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 20 0.69
25 5 0.17
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTCATCTTATTATTATTTACTA
Found at i:30928473 original size:88 final size:86
Alignment explanation
Indices: 30928316--30928489 Score: 251
Period size: 88 Copynumber: 2.0 Consensus size: 86
30928306 CTAGAATCAG
* * * *
30928316 TGAATTCACAGATCTTACCCCATAAGCAGTAGGGGAATAGATCGAAGGCAACGAGCTTTAACCCC
1 TGAATTCACAGATCTTACCCCATAAACAGTAGGGAAACAGATCGAAGACAACGAGCTTTAACCCC
30928381 CTAAGCAGTAGGGTAACAAGC
66 CTAAGCAGTAGGGTAACAAGC
* * *
30928402 TGAAGTTCATAGATCTTATCACCC-TAAACAGTAGGGAAACAGATCGAAGATAATGAGCTTTAAC
1 TGAA-TTCACAGATCTTA-C-CCCATAAACAGTAGGGAAACAGATCGAAGACAACGAGCTTTAAC
30928466 CCCCTAAGCAGTAGGGTAACAAGC
63 CCCCTAAGCAGTAGGGTAACAAGC
30928490 CAAATTTACA
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
86 4 0.05
87 12 0.15
88 59 0.76
89 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (86 bp):
TGAATTCACAGATCTTACCCCATAAACAGTAGGGAAACAGATCGAAGACAACGAGCTTTAACCCC
CTAAGCAGTAGGGTAACAAGC
Found at i:30928516 original size:43 final size:42
Alignment explanation
Indices: 30928373--30928527 Score: 134
Period size: 44 Copynumber: 3.6 Consensus size: 42
30928363 GCAACGAGCT
* * *
30928373 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGC-GAAATTTA-AGACC
* * * * * *
30928417 TTATCACCCTAAACAGTAGGGAAACAGATCGAAGA--TAATGAGCT
1 TTAACCCCCTAAGCAGTAGGGTAACA-AGCGAA-ATTTAA-GA-CC
*
30928461 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCGAAATTTA-AGACC
*
30928504 TTAACCCCCTAAGTAGTAGGGTAA
1 TTAACCCCCTAAGCAGTAGGGTAA
30928528 TAGGCTGAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 31 0.36
44 51 0.59
45 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCGAAATTTAAGACC
Found at i:30928709 original size:44 final size:43
Alignment explanation
Indices: 30928618--30929019 Score: 318
Period size: 44 Copynumber: 9.2 Consensus size: 43
30928608 TGCAGTGAAG
* * * *
30928618 CAGATTGAAGATTTACAGGTCTCAACCCCCTAAGCAGTAGGGAAA
1 CAGATTGAAGATATA-A-GTCTTAAACCCCTAAGCAGTAGGGTAA
30928663 CAGATTGAAGATGATAAGTCTTAAACCCCTAAGCAGTAGGGTAA
1 CAGATTGAAGAT-ATAAGTCTTAAACCCCTAAGCAGTAGGGTAA
** * * * *
30928707 CAGGCT-AA-ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAA
1 CAGATTGAAGATATA-AG-TCTTAAACCCCTAAGCAGTAGGGTAA
*
30928750 CAGATTGAAGATGATGAGTCTTAAACCCCTAAGCAGTAGGGTAA
1 CAGATTGAAGAT-ATAAGTCTTAAACCCCTAAGCAGTAGGGTAA
* * * *
30928794 TAGGA-T-AA-ATTTACAGGTC-TCAACCCCTAAGCAGTAGGGAAA
1 CA-GATTGAAGATATA-A-GTCTTAAACCCCTAAGCAGTAGGGTAA
30928836 CAGATTGAAGATGATAAGTCTTAAACCCCTAAGCAGTAGGGTAA
1 CAGATTGAAGAT-ATAAGTCTTAAACCCCTAAGCAGTAGGGTAA
** * *
30928880 CAGGCT-AA-ATTTACAGATCTTAACCCCCTAAGCAGTAGGGTAA
1 CAGATTGAAGATATA-AG-TCTTAAACCCCTAAGCAGTAGGGTAA
* *** * * *
30928923 CAGACTGATTTTACAAGATCTTATACCCCTAAGCAGTAGGGAAA
1 CAGATTGAAGATATAAG-TCTTAAACCCCTAAGCAGTAGGGTAA
* * * * *
30928967 CAGA-TCAATGATGACAAGCCTTAACCCCCTAAGTAGTAGGGTAA
1 CAGATTGAA-GAT-ATAAGTCTTAAACCCCTAAGCAGTAGGGTAA
*
30929011 CAGGTTGAA
1 CAGATTGAA
30929020 AATCAAATGT
Statistics
Matches: 287, Mismatches: 49, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
41 7 0.02
42 34 0.12
43 73 0.25
44 139 0.48
45 31 0.11
46 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (43 bp):
CAGATTGAAGATATAAGTCTTAAACCCCTAAGCAGTAGGGTAA
Found at i:30928866 original size:86 final size:87
Alignment explanation
Indices: 30928628--30928969 Score: 535
Period size: 87 Copynumber: 3.9 Consensus size: 87
30928618 CAGATTGAAG
*
30928628 ATTTACAGGTCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAGTCTTAAACCCCT
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAGTCTTAAACCCCT
30928693 AAGCAGTAGGGTAACAGGCTAA
66 AAGCAGTAGGGTAACAGGCTAA
*
30928715 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATGAGTCTTAAACCCCT
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAGTCTTAAACCCCT
* *
30928780 AAGCAGTAGGGTAATAGGATAA
66 AAGCAGTAGGGTAACAGGCTAA
*
30928802 ATTTACAGGTCTCAA-CCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAGTCTTAAACCCCT
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAGTCTTAAACCCCT
30928866 AAGCAGTAGGGTAACAGGCTAA
66 AAGCAGTAGGGTAACAGGCTAA
* * * ** * * *
30928888 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACTG-ATTTTACAAGATCTTATACCCC
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAG-TCTTAAACCCC
*
30928952 TAAGCAGTAGGGAAACAG
65 TAAGCAGTAGGGTAACAG
30928970 ATCAATGATG
Statistics
Matches: 235, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
86 87 0.37
87 148 0.63
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (87 bp):
ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAGTCTTAAACCCCT
AAGCAGTAGGGTAACAGGCTAA
Found at i:30928953 original size:173 final size:174
Alignment explanation
Indices: 30928628--30928963 Score: 568
Period size: 173 Copynumber: 1.9 Consensus size: 174
30928618 CAGATTGAAG
30928628 ATTTACAGGTCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAGTCTTAAACCCCT
1 ATTTACAGGTCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAGTCTTAAACCCCT
*
30928693 AAGCAGTAGGGTAACAGGCTAAATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTGA
66 AAGCAGTAGGGTAACAGGCTAAATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGACTGA
* *
30928758 AGATGATGAGTCTTAAACCCCTAAGCAGTAGGGTAATAGGATAA
131 AGATCAAGAGTCTTAAACCCCTAAGCAGTAGGGTAATAGGATAA
30928802 ATTTACAGGTCTCAA-CCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAGTCTTAAACCCCT
1 ATTTACAGGTCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAGTCTTAAACCCCT
* *
30928866 AAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACTGA
66 AAGCAGTAGGGTAACAGGCTAAATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGACTGA
*** *
30928931 TTTTACAAGA-TCTTATACCCCTAAGCAGTAGGG
131 AGAT-CAAGAGTCTTAAACCCCTAAGCAGTAGGG
30928964 AAACAGATCA
Statistics
Matches: 152, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
173 134 0.88
174 18 0.12
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (174 bp):
ATTTACAGGTCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATAAGTCTTAAACCCCT
AAGCAGTAGGGTAACAGGCTAAATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGACTGA
AGATCAAGAGTCTTAAACCCCTAAGCAGTAGGGTAATAGGATAA
Found at i:30930758 original size:21 final size:22
Alignment explanation
Indices: 30930720--30930771 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
30930710 TAGACATTAC
*
30930720 ATATATTTTACGTATATTATGT
1 ATATATTTTACATATATTATGT
30930742 ATATATTTTA-ATATATTATGT
1 ATATATTTTACATATATTATGT
*
30930763 GTATATTTT
1 ATATATTTT
30930772 GTTTTGTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
ATATATTTTACATATATTATGT
Found at i:30931081 original size:22 final size:22
Alignment explanation
Indices: 30931055--30931104 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
30931045 CTACTACTAG
30931055 TATTACTATTATT-TCTTTATTT
1 TATTACTATTATTAT-TTTATTT
30931077 TATTACTATTATTATTTTATTT
1 TATTACTATTATTATTTTATTT
30931099 TATTAC
1 TATTAC
30931105 GCTGCCCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTACTATTATTATTTTATTT
Found at i:30931331 original size:24 final size:25
Alignment explanation
Indices: 30931273--30931331 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
30931263 TCCTTTTTAC
* * *
30931273 TTATTCTTCTTATTCTTATTTACTT
1 TTATTCATCTTATTATTATTTACTA
30931298 TTA-TCATCTTATTATT-TTTACCTA
1 TTATTCATCTTATTATTATTTA-CTA
30931322 TTATTC-TCTT
1 TTATTCATCTT
30931332 CTTCAATTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 20 0.69
25 5 0.17
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTCATCTTATTATTATTTACTA
Found at i:30932268 original size:16 final size:15
Alignment explanation
Indices: 30932247--30932276 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30932237 CGACAATTTT
30932247 TATATGATATAAAATC
1 TATATGATA-AAAATC
30932263 TATATGATAAAAAT
1 TATATGATAAAAAT
30932277 TTAATTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (15 bp):
TATATGATAAAAATC
Found at i:30933368 original size:23 final size:22
Alignment explanation
Indices: 30933333--30933376 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
30933323 CCTCTTTTCA
30933333 TTTTCATAAAAATCTTCATCTTC
1 TTTTCATAAAAAT-TTCATCTTC
* * *
30933356 TTTTCCTAGAAATTTTATCTT
1 TTTTCATAAAAATTTCATCTT
30933377 GATCCCGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.27, C:0.18, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTTCATAAAAATTTCATCTTC
Found at i:30935636 original size:13 final size:13
Alignment explanation
Indices: 30935618--30935642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30935608 CGGGATTGCA
30935618 AGTCCACATGGGT
1 AGTCCACATGGGT
30935631 AGTCCACATGGG
1 AGTCCACATGGG
30935643 CGTGTGAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (13 bp):
AGTCCACATGGGT
Found at i:30938749 original size:16 final size:15
Alignment explanation
Indices: 30938700--30938761 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 15
30938690 ATGCCTCCAC
30938700 TTTCATTTT-TTT-T
1 TTTCATTTTATTTAT
*
30938713 CTTTC-TTTTATTATAC
1 -TTTCATTTTATT-TAT
*
30938729 ATTCATTTTAATTTAT
1 TTTCATTTT-ATTTAT
30938745 TTTCATTTTATTTAT
1 TTTCATTTTATTTAT
30938760 TT
1 TT
30938762 ATTTATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 4 0.10
14 6 0.15
15 12 0.31
16 14 0.36
17 3 0.08
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTCATTTTATTTAT
Found at i:30941231 original size:93 final size:93
Alignment explanation
Indices: 30941124--30941389 Score: 451
Period size: 93 Copynumber: 2.9 Consensus size: 93
30941114 CGCCCATAAG
* * *
30941124 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAGCTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
30941189 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
30941217 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAAATCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
30941282 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
30941310 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
30941375 ACGAGTTCAGATGCC
66 ACGAGCTCGGATGCC
30941390 CAAATATCCG
Statistics
Matches: 161, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 161 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:30941382 original size:46 final size:46
Alignment explanation
Indices: 30941117--30941379 Score: 250
Period size: 46 Copynumber: 5.7 Consensus size: 46
30941107 TGTAACCCGC
30941117 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * * * * *
30941163 CCATAAGTGAACTCGAACTCAGCTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* * * * *
30941209 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
30941256 CCATAAGTGAAATCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* *
30941306 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
30941349 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
30941380 TTCAGATGCC
Statistics
Matches: 171, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 2 0.01
45 4 0.02
46 90 0.53
47 58 0.34
48 4 0.02
49 2 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:30945067 original size:48 final size:47
Alignment explanation
Indices: 30944996--30945092 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 47
30944986 AGAATACGAA
30944996 TAATGTATCTACTAGCACGAATCGAACCAAAACTAGACAACCCGCTCT
1 TAATGTATCTACTAGCACGAATCGAACC-AAACTAGACAACCCGCTCT
30945044 TAATGTATCTACTAGCACGAATCGAACCAAACTAGACAACCCGCTCT
1 TAATGTATCTACTAGCACGAATCGAACCAAACTAGACAACCCGCTCT
30945091 TA
1 TA
30945093 CTTATGTCGT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 21 0.43
48 28 0.57
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (47 bp):
TAATGTATCTACTAGCACGAATCGAACCAAACTAGACAACCCGCTCT
Found at i:30948852 original size:25 final size:25
Alignment explanation
Indices: 30948805--30948852 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
30948795 AAAATAAAAA
* **
30948805 TCGATTGATTTAATTAATTTTGAGC
1 TCGATTGAATTAATTAACGTTGAGC
*
30948830 TCGATTGAATTAATTCACGTTGA
1 TCGATTGAATTAATTAACGTTGA
30948853 TTCTTTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (25 bp):
TCGATTGAATTAATTAACGTTGAGC
Found at i:30953993 original size:23 final size:21
Alignment explanation
Indices: 30953951--30953991 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
30953941 ATAACTTATT
30953951 GTTTTTTCTTCACTCTCACAA
1 GTTTTTTCTTCACTCTCACAA
30953972 GTTTTTTCTTCACTCTCACA
1 GTTTTTTCTTCACTCTCACA
30953992 CACTGGAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.29, G:0.05, T:0.49
Consensus pattern (21 bp):
GTTTTTTCTTCACTCTCACAA
Found at i:30955527 original size:44 final size:44
Alignment explanation
Indices: 30955450--30955540 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
30955440 AATTATATTT
30955450 TTAGTTTCCCACTTAAACTCTGATCAGTATAGGTTATTTTAAAA
1 TTAGTTTCCCACTTAAACTCTGATCAGTATAGGTTATTTTAAAA
* * * * *
30955494 TTAGTTTCCCACTTAAGCTTTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTGATCAGTATAGGTTATTTTAAAA
30955538 TTA
1 TTA
30955541 TTTGACATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTGATCAGTATAGGTTATTTTAAAA
Found at i:30963370 original size:25 final size:24
Alignment explanation
Indices: 30963337--30963388 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
30963327 ATTTTCTGAA
*
30963337 TTTGGTTGATGATTTTTTTATATTT
1 TTTGGTTGAT-AATTTTTTATATTT
* *
30963362 TTTGTTTGATAATTTTTTATGTTT
1 TTTGGTTGATAATTTTTTATATTT
30963386 TTT
1 TTT
30963389 ATTTTCTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.71
Consensus pattern (24 bp):
TTTGGTTGATAATTTTTTATATTT
Found at i:30964286 original size:2 final size:2
Alignment explanation
Indices: 30964279--30964337 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
30964269 ATTCTATTTA
30964279 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
30964321 AT TT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
30964338 ATGGTGCAGC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:30965071 original size:10 final size:10
Alignment explanation
Indices: 30965058--30965112 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
30965048 AAAAATACAA
30965058 AAAAATTATT
1 AAAAATTATT
30965068 AAAAA-T-TT
1 AAAAATTATT
30965076 AAAAA-TATT
1 AAAAATTATT
*
30965085 AAAATATTCTT
1 AAAA-ATTATT
*
30965096 AAAGAATTATA
1 AAA-AATTATT
30965107 AAAAAT
1 AAAAAT
30965113 ATTTTTAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 8 0.21
9 7 0.18
10 9 0.24
11 13 0.34
12 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAAATTATT
Found at i:30965088 original size:28 final size:30
Alignment explanation
Indices: 30965045--30965115 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 30
30965035 ATTTTCTATA
**
30965045 TATAAAAATACAAAAAAATTATTAAA-AAT
1 TATAAAAATATTAAAAAATTATTAAAGAAT
* *
30965074 T-TAAAAATATTAAAATATTCTTAAAGAAT
1 TATAAAAATATTAAAAAATTATTAAAGAAT
30965103 TATAAAAAATATT
1 TAT-AAAAATATT
30965116 TTTAAAGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 20 0.57
29 5 0.14
30 1 0.03
31 9 0.26
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (30 bp):
TATAAAAATATTAAAAAATTATTAAAGAAT
Found at i:30965279 original size:7 final size:7
Alignment explanation
Indices: 30965267--30965302 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
30965257 GGTTCCTAAT
30965267 CAACGGG
1 CAACGGG
30965274 CAACGGG
1 CAACGGG
30965281 CAACGGG
1 CAACGGG
30965288 CAACGGG
1 CAACGGG
30965295 CAACGGG
1 CAACGGG
30965302 C
1 C
30965303 TGTTTCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.31, G:0.42, T:0.00
Consensus pattern (7 bp):
CAACGGG
Found at i:30971422 original size:35 final size:35
Alignment explanation
Indices: 30971383--30971461 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
30971373 GATGTTATTG
* *
30971383 ATTTATTATTTTATTATATTTTAAGTTGATTAAAC
1 ATTTAGTAATTTATTATATTTTAAGTTGATTAAAC
30971418 ATTTAGTAATTTATTATATTTTAAGTTGATTAAAC
1 ATTTAGTAATTTATTATATTTTAAGTTGATTAAAC
*
30971453 AGTTAGTAA
1 ATTTAGTAA
30971462 GTTGACGAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.52
Consensus pattern (35 bp):
ATTTAGTAATTTATTATATTTTAAGTTGATTAAAC
Found at i:30976978 original size:26 final size:26
Alignment explanation
Indices: 30976940--30976996 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
30976930 TCTCATCCCT
30976940 ATTTTACCACTAGCAAAATTTT-GACG
1 ATTTTACCACTAGCAAAATTTTGGA-G
* *
30976966 ATTTTACCTCTAGTAAAATTTTGGAG
1 ATTTTACCACTAGCAAAATTTTGGAG
30976992 ATTTT
1 ATTTT
30976997 GCCCATGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (26 bp):
ATTTTACCACTAGCAAAATTTTGGAG
Found at i:30982890 original size:16 final size:16
Alignment explanation
Indices: 30982866--30982896 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30982856 TTCTGGAACT
*
30982866 ATTTTCGTAGGGTTTC
1 ATTTCCGTAGGGTTTC
30982882 ATTTCCGTAGGGTTT
1 ATTTCCGTAGGGTTT
30982897 TGTATATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.26, T:0.48
Consensus pattern (16 bp):
ATTTCCGTAGGGTTTC
Found at i:30985557 original size:40 final size:40
Alignment explanation
Indices: 30985460--30985645 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
30985450 TCGAATGATG
* * * * *
30985460 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
30985500 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
30985540 TTCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30985580 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
30985621 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
30985646 AATGAGTAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30985600 original size:80 final size:81
Alignment explanation
Indices: 30985461--30985645 Score: 243
Period size: 80 Copynumber: 2.3 Consensus size: 81
30985451 CGAATGATGT
*
30985461 CCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
30985525 GTGCGAGTTACTA-AA
66 GTGCGAGTTACTATAA
* * * * * **
30985540 TTCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -CCGGGCTAAGTCCTGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
30985603 TTGTGCGAGTTACTATAA
64 TTGTGCGAGTTACTATAA
*
30985621 CCGGGCTATGTCCTGAAGGCATTTG
1 CCGGGCTAAGTCCTGAAGGCATTTG
30985646 AATGAGTAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 1 0.01
80 81 0.90
81 8 0.09
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (81 bp):
CCGGGCTAAGTCCTGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATAA
Found at i:30985652 original size:80 final size:80
Alignment explanation
Indices: 30985460--30985678 Score: 234
Period size: 80 Copynumber: 2.8 Consensus size: 80
30985450 TCGAATGATG
** * * **
30985460 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCTGAAGGCATTTG-AATGAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
30985524 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* * * ** *
30985540 TTCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCTGAAGGCATTTGAATGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATT
30985604 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
*
30985621 -CCGGGCTATGTCCTGAAGGCATTTGAATGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCTGAAGGCATTTGAATGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
30985679 TACGTGATTC
Statistics
Matches: 116, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
79 16 0.14
80 94 0.81
81 6 0.05
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (80 bp):
TCCGGGCTAAGTCCTGAAGGCATTTGAATGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:30989732 original size:43 final size:43
Alignment explanation
Indices: 30989671--30989831 Score: 243
Period size: 43 Copynumber: 3.7 Consensus size: 43
30989661 TTCAACGAAC
30989671 TCGCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTA
* *
30989714 TCGCACACTTAGTGCCAATTAATTAGCCGAAGTTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTA
* * *
30989757 TCGTACACTTAGTGCCAATTAGTTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTA
*
30989800 TCGTACACTTAGTGCC-ATTATATTAAACCGAA
1 TCGCACACTTAGTGCCAATTA-ATT-AACCGAA
30989832 CTTATATCGG
Statistics
Matches: 109, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
42 4 0.04
43 99 0.91
44 6 0.06
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTA
Found at i:30994608 original size:40 final size:40
Alignment explanation
Indices: 30994559--30994726 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
30994549 TCTTCGGAAT
* * * *
30994559 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGTTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
30994598 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
30994638 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
30994678 TTAGCCTGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
30994718 TTAGCCCGG
1 TTAGCCCGG
30994727 GTATCATTCA
Statistics
Matches: 104, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 3 0.03
40 100 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:31002716 original size:40 final size:39
Alignment explanation
Indices: 31002657--31002819 Score: 173
Period size: 40 Copynumber: 4.1 Consensus size: 39
31002647 GGAATTTAGT
* ** * *
31002657 CGGATATAACCACAAGCACAATTGCCCTCGGTTCTTAACC
1 CGGATATAACAACTCGCACAA-TGCCTTCGGTTCTTAGCC
* *** * *
31002697 CGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAACAACTCGCAC-AATGCCTTCGGTTCTTAGCC
31002737 CGGATATAACAACTCGCACGAATGCCTTCGGTTCTTAGCC
1 CGGATATAACAACTCGCAC-AATGCCTTCGGTTCTTAGCC
**
31002777 CGGATATAACAACTCGCACGAATGCCTTCGGGACTTAGCC
1 CGGATATAACAACTCGCAC-AATGCCTTCGGTTCTTAGCC
31002817 CGG
1 CGG
31002820 GTATCATTCA
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 101 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
CGGATATAACAACTCGCACAATGCCTTCGGTTCTTAGCC
Found at i:31002801 original size:80 final size:80
Alignment explanation
Indices: 31002657--31002819 Score: 202
Period size: 80 Copynumber: 2.0 Consensus size: 80
31002647 GGAATTTAGT
* * *** *
31002657 CGGATATAACCACAAGCACAATTGCCCTCGGTTCTTAACCCGGATTTGGTAACTTGCACAAATGC
1 CGGATATAACAACAAGCACAATTGCCCTCGGTTCTTAACCCGGATATAACAACTCGCACAAATGC
*
31002722 CTTCGGGTCTTAGCC
66 CTTCGGGACTTAGCC
** * * *
31002737 CGGATATAACAACTCGCACGAA-TGCCTTCGGTTCTTAGCCCGGATATAACAACTCGCACGAATG
1 CGGATATAACAACAAGCAC-AATTGCCCTCGGTTCTTAACCCGGATATAACAACTCGCACAAATG
31002801 CCTTCGGGACTTAGCC
65 CCTTCGGGACTTAGCC
31002817 CGG
1 CGG
31002820 GTATCATTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
80 68 0.97
81 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CGGATATAACAACAAGCACAATTGCCCTCGGTTCTTAACCCGGATATAACAACTCGCACAAATGC
CTTCGGGACTTAGCC
Found at i:31007160 original size:41 final size:42
Alignment explanation
Indices: 31007059--31007208 Score: 223
Period size: 43 Copynumber: 3.5 Consensus size: 42
31007049 CAACGAACTC
* *
31007059 GCACACTTAGTGCTAATTAATTAACCGAAGCTATAATTGTATT
1 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA-T
* *
31007102 GCACACTTAGTGCCAATTAATTAGGCGAAGCTATAGTTGTAT
1 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTAT
31007144 -CACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTAT
1 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTAT
31007185 CGCACACTTAGTGCC-ATTATATTA
1 -GCACACTTAGTGCCAATTA-ATTA
31007209 AACCTAACTT
Statistics
Matches: 98, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
41 39 0.40
42 5 0.05
43 54 0.55
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (42 bp):
GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTAT
Found at i:31008117 original size:13 final size:13
Alignment explanation
Indices: 31008099--31008133 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
31008089 ACCACACATC
31008099 CATCAAGCAACCA
1 CATCAAGCAACCA
*
31008112 CATCAAGCAACCG
1 CATCAAGCAACCA
31008125 CATCAAGCA
1 CATCAAGCA
31008134 TAACACATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.37, G:0.11, T:0.09
Consensus pattern (13 bp):
CATCAAGCAACCA
Found at i:31010477 original size:40 final size:40
Alignment explanation
Indices: 31010432--31010598 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
31010422 CGGAATATAA
*
31010432 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
31010472 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
31010512 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
31010552 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
31010591 CCGGATAT
1 CCGGATAT
31010599 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:31017520 original size:5 final size:5
Alignment explanation
Indices: 31017510--31017561 Score: 81
Period size: 5 Copynumber: 10.6 Consensus size: 5
31017500 AATAATTAAG
31017510 TATAT TATA- T-TAT TATAT TATAT ATATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TATAT TATAT
31017559 TAT
1 TAT
31017562 TATATATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 35 0.80
6 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:31017542 original size:24 final size:26
Alignment explanation
Indices: 31017510--31017558 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
31017500 AATAATTAAG
31017510 TATATTATA-T-TATTATATTATATA
1 TATATTATATTATATTATATTATATA
31017534 TATATTATATTATATTATATTATAT
1 TATATTATATTATATTATATTATAT
31017559 TATTATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 13 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TATATTATATTATATTATATTATATA
Found at i:31017567 original size:10 final size:11
Alignment explanation
Indices: 31017517--31017568 Score: 67
Period size: 10 Copynumber: 5.0 Consensus size: 11
31017507 AAGTATATTA
31017517 TATTATTATAT
1 TATTATTATAT
31017528 TA-TATATATAT
1 TATTAT-TATAT
31017539 TA-TATTATAT
1 TATTATTATAT
31017549 TA-TATTATAT
1 TATTATTATAT
31017559 TATTA-TATAT
1 TATTATTATAT
31017569 AAAAGAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
10 25 0.64
11 14 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTATTATAT
Found at i:31018762 original size:18 final size:18
Alignment explanation
Indices: 31018731--31018765 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31018721 GTGTGTTGAA
* *
31018731 TACTATTACTGTTACTGC
1 TACTACTACCGTTACTGC
31018749 TACTACTACCGTTACTG
1 TACTACTACCGTTACTG
31018766 ATTACTGATT
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:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (18 bp):
TACTACTACCGTTACTGC
Found at i:31019393 original size:26 final size:26
Alignment explanation
Indices: 31019364--31019472 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
31019354 TGATACAAAT
31019364 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31019390 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
31019416 TGATAATGGGTTAGGTAAATGTAACA
1 TGATAATGGGTTAGGTAAATGTTCCA
31019442 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31019468 TGATA
1 TGATA
31019473 GGAATTTCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31021107 original size:27 final size:26
Alignment explanation
Indices: 31021067--31021207 Score: 142
Period size: 27 Copynumber: 5.2 Consensus size: 26
31021057 AGGAAGCGTC
*
31021067 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCA-AATTATCTGAT
*
31021094 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCAAAT-TATCTGAT
* * *
31021120 CCTGGTGGCTATGCCACAGTTATTTGAT
1 -CTGGTGGCTCTGCCA-AATTATCTGAT
* *
31021148 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCAAAT-TATCTGAT
31021175 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCA-AATTATCTG-AT
31021202 CTGGTG
1 CTGGTG
31021208 ACTTCGTCAC
Statistics
Matches: 94, Mismatches: 13, Indels: 14
0.78 0.11 0.12
Matches are distributed among these distances:
26 10 0.11
27 81 0.86
28 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCAAATTATCTGAT
Found at i:31021148 original size:54 final size:54
Alignment explanation
Indices: 31021064--31021207 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
31021054 TGGAGGAAGC
*
31021064 GTCCTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
31021118 GTCCTGGTGGCTATGCCACAGTTATTTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
31021172 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
31021208 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:31026879 original size:27 final size:27
Alignment explanation
Indices: 31026847--31026909 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
31026837 CTCGACTTGT
31026847 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
* **** *
31026874 ATAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
31026901 AAAATTACC
1 AAAATTACC
31026910 GTTTTACCCT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCCCGATTTAC
Found at i:31026918 original size:54 final size:54
Alignment explanation
Indices: 31026860--31027017 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
31026850 ATTACCAAAG
* * *
31026860 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
* * * * * * *
31026914 TACCCTCAATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
* *** * *
31026968 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACC
31027018 AAAATACCCT
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
Found at i:31026990 original size:27 final size:27
Alignment explanation
Indices: 31026860--31026990 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
31026850 ATTACCAAAG
* * *
31026860 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
31026887 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
31026914 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
31026941 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
31026968 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAAAATTACT
31026991 AAAATACCCT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:31027026 original size:54 final size:54
Alignment explanation
Indices: 31026968--31027296 Score: 213
Period size: 53 Copynumber: 6.1 Consensus size: 54
31026958 ATTACTGTTT
* *
31026968 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * * *
31027022 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TGGTCTGTAAAATTACTAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
* ** * * *
31027075 TACCC-CTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * *** * *** *
31027129 TACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTT-TTAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
** * * *
31027182 TACCC-CTGATTTACAAAATTATAAAAATACCCTTGACTTTTTAAAAATTA-TAGAAA
1 TACCCTC-GATTTACAAAATTACCAAAATACCCTTG-GTTTAT-AAAATTACCA-AAA
* * * ** * * *
31027238 -ACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
*
31027291 CACCCT
1 TACCCT
31027297 TGTAGGGTGA
Statistics
Matches: 215, Mismatches: 47, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
52 1 0.00
53 88 0.41
54 88 0.41
55 29 0.13
56 9 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
Found at i:31027026 original size:81 final size:81
Alignment explanation
Indices: 31026847--31027031 Score: 199
Period size: 81 Copynumber: 2.3 Consensus size: 81
31026837 CTCGACTTGT
* * * **
31026847 AAAATTACCAAAGTACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAAAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAA
** *
31026912 TTTACCCTCAATTTAT
66 AATACCCTCAATTTAC
* * *** * * *
31026928 AGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAA
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAA
***
31026993 AATACCCTTGGTTTAC
66 AATACCCTCAATTTAC
31027009 AAAATTACCAAAATACCCTCGAT
1 AAAATTACCAAAATACCCTCGAT
31027032 CAGTAAAATT
Statistics
Matches: 80, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAA
AATACCCTCAATTTAC
Found at i:31027086 original size:80 final size:81
Alignment explanation
Indices: 31026982--31027160 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
31026972 CTCGATTTAC
*
31026982 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
31027046 AAATACC-CTGGTCTGT
65 AAATACCACTGGTCTGT
** * **
31027062 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
* *
31027127 AATACCATTGGTTTGT
66 AATACCACTGGTCTGT
* **
31027143 GAAATTACCGAAATACCC
1 AAAATTACTAAAATACCC
31027161 TCAATTTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 2 0.02
80 62 0.72
81 22 0.26
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTCTGT
Found at i:31027174 original size:107 final size:107
Alignment explanation
Indices: 31026970--31027213 Score: 265
Period size: 107 Copynumber: 2.3 Consensus size: 107
31026960 TACTGTTTTA
* * * *
31026970 CCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAG
1 CCCT-GATTTACAAAATTACAAAAATACCCCTAGTTTACAAAATTACCAAAATACCATCGATCAG
** *
31027035 TAAAATTACCAAAATACCCTGGTCTGTAAAATTACTAAAATAC
65 TAAAATTACCAAAATACCCTAATCTGTAAAATTACCAAAATAC
* ** * ** * * **
31027078 CCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTGT
1 CCCTGATTTACAAAATTACAAAAATACCCCTAGTTTACAAAATTACCAAAATACCATCGATCAGT
* * * *
31027143 GAAATTACCGAAATACCCTCAAT-TTTTAAATTACCAAAATAC
66 AAAATTACCAAAATACCCT-AATCTGTAAAATTACCAAAATAC
*
31027185 CCCTGATTTACAAAATTATAAAAATACCC
1 CCCTGATTTACAAAATTACAAAAATACCC
31027214 TTGACTTTTT
Statistics
Matches: 110, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
107 105 0.95
108 5 0.05
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (107 bp):
CCCTGATTTACAAAATTACAAAAATACCCCTAGTTTACAAAATTACCAAAATACCATCGATCAGT
AAAATTACCAAAATACCCTAATCTGTAAAATTACCAAAATAC
Found at i:31027200 original size:80 final size:80
Alignment explanation
Indices: 31026982--31027214 Score: 215
Period size: 80 Copynumber: 2.9 Consensus size: 80
31026972 CTCGATTTAC
* * ** ** *
31026982 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGA-TCAGTAAAATTACC
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCT-GATTTA-TAAAATTACC
31027045 AAAATACCCTGGTCTGT
64 AAAATACCCTGGTCTGT
* ** *
31027062 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGA-TTTATAAAATTACCA
* *
31027126 AAATACCATTGGTTTGT
65 AAATACC-CTGGTCTGT
* * * * **
31027143 GAAATTACCGAAATA-CCCTCAATTT-TTAAATTACCAAAATACCCCTGATTTACAAAATTATAA
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACCA
31027206 AAATACCCT
65 AAATACCCT
31027215 TGACTTTTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
79 2 0.02
80 99 0.77
81 28 0.22
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACCAA
AATACCCTGGTCTGT
Found at i:31027263 original size:26 final size:26
Alignment explanation
Indices: 31027221--31027275 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
31027211 CCCTTGACTT
31027221 TTTAAAAATTATAGAAA-ACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
31027246 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
31027273 TTT
1 TTT
31027276 GTAGATTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 4 0.15
26 11 0.42
27 11 0.42
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:31027272 original size:27 final size:27
Alignment explanation
Indices: 31026968--31027298 Score: 231
Period size: 27 Copynumber: 12.3 Consensus size: 27
31026958 ATTACTGTTT
* * * *
31026968 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
31026995 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
31027022 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-TAAAATTACCAAAA
* * *
31027049 TACCC-TGGTCTGTAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
31027075 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
31027102 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
31027129 TACCATTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*** *
31027156 TACCCTCAATTT-TTAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * **
31027182 TACCCCTGATTTACAAAATTATAAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
31027209 TACCCTTGACTTTTTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAT-AAAATTACCA-AAA
* * **
31027238 -ACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
31027264 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
31027291 CACCCTTG
1 TACCCTTG
31027299 TAGGGTGAAA
Statistics
Matches: 244, Mismatches: 52, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
26 53 0.22
27 171 0.70
28 10 0.04
29 10 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:31027359 original size:27 final size:27
Alignment explanation
Indices: 31027329--31027419 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
31027319 ACCCCTATTA
*
31027329 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
31027356 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
31027383 GGTAAAATGACCGTAAAG-CCCTATAT
1 GGTAAAATGACCGTAAAGCCCCTGTAG
31027409 GGTAAAATGAC
1 GGTAAAATGAC
31027420 GAATATGCCC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
26 17 0.29
27 42 0.71
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:31028151 original size:20 final size:20
Alignment explanation
Indices: 31028126--31028212 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
31028116 GATATGATAT
*
31028126 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
31028146 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
31028166 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
31028186 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
31028206 ACATGAT
1 ACATGAT
31028213 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:31028340 original size:52 final size:51
Alignment explanation
Indices: 31028262--31028397 Score: 233
Period size: 52 Copynumber: 2.7 Consensus size: 51
31028252 GAGGAAGTGC
31028262 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
31028314 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
31028365 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
31028398 AGGCCTCCAG
Statistics
Matches: 83, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 25 0.30
52 36 0.43
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:31028359 original size:25 final size:26
Alignment explanation
Indices: 31028262--31028397 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
31028252 GAGGAAGTGC
31028262 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
31028288 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
31028314 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
31028340 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
31028365 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
31028388 AAAAGAGGCT
1 AAAAG-GGCT
31028398 AGGCCTCCAG
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 31 0.31
26 58 0.57
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:31028589 original size:42 final size:42
Alignment explanation
Indices: 31028530--31028624 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
31028520 TAGTCTCCCC
* ** *
31028530 AAATGGGCCTACATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCCTACATACATCCATTGACATTACATATGATATTG
* * *
31028572 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCCTACATACATCCATTGACATTACATATGATATTG
31028614 AAATGGGCCTA
1 AAATGGGCCTA
31028625 TGGGCCATAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCCTACATACATCCATTGACATTACATATGATATTG
Found at i:31028683 original size:31 final size:31
Alignment explanation
Indices: 31028645--31028754 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
31028635 CGTTTACAAT
* *
31028645 AAAGGCTTCGACCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
31028676 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
31028707 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
31028738 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
31028755 AACCGTTAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:31032378 original size:45 final size:45
Alignment explanation
Indices: 31032269--31032379 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 45
31032259 AGCAGTAGCA
* ** * *
31032269 GTAACAGTAACAGTAACAGCATTCAACACACAAAGTGCTAAATCT
1 GTAACAGTAACGGTAACAATATTCAACACAAAAAGTGCTAAATCG
* *
31032314 GTAACAGTAACGGTAACAATATTCGACACAAAAAGTG-TCGAATCG
1 GTAACAGTAACGGTAACAATATTCAACACAAAAAGTGCT-AAATCG
*
31032359 GTAACCGTAACGGTAACAATA
1 GTAACAGTAACGGTAACAATA
31032380 ACAGTAGTCG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 1 0.02
45 56 0.98
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAATATTCAACACAAAAAGTGCTAAATCG
Found at i:31032799 original size:22 final size:22
Alignment explanation
Indices: 31032774--31032843 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
31032764 ACATTCATAT
31032774 TAAATTAAACACATATTAATTA
1 TAAATTAAACACATATTAATTA
* * *
31032796 TAAAGCT-ACCACATATTCA-TA
1 TAAA-TTAAACACATATTAATTA
31032817 TTAAATTAAACACATATTAATTA
1 -TAAATTAAACACATATTAATTA
31032840 TAAA
1 TAAA
31032844 GCTTGAGTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
21 3 0.08
22 32 0.84
23 3 0.08
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.34
Consensus pattern (22 bp):
TAAATTAAACACATATTAATTA
Found at i:31032807 original size:44 final size:44
Alignment explanation
Indices: 31032758--31032846 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
31032748 GTAAAATACT
31032758 TACCACACATTCATATTAAATTAAACACATATTAATTATAAAGC
1 TACCACACATTCATATTAAATTAAACACATATTAATTATAAAGC
*
31032802 TACCACATATTCATATTAAATTAAACACATATTAATTATAAAGC
1 TACCACACATTCATATTAAATTAAACACATATTAATTATAAAGC
31032846 T
1 T
31032847 TGAGTTATAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (44 bp):
TACCACACATTCATATTAAATTAAACACATATTAATTATAAAGC
Found at i:31033506 original size:5 final size:5
Alignment explanation
Indices: 31033496--31033766 Score: 524
Period size: 5 Copynumber: 54.2 Consensus size: 5
31033486 TTCTTTCTTT
31033496 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
*
31033546 TATAA TATAA TATAA TATAA TATAG TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
31033596 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
31033646 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
31033696 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
*
31033746 TATAC TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA T
31033767 TATTAAACAA
Statistics
Matches: 262, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 262 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:31038420 original size:40 final size:40
Alignment explanation
Indices: 31038258--31038406 Score: 219
Period size: 40 Copynumber: 3.7 Consensus size: 40
31038248 TATTCGGATG
* * *
31038258 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
31038298 A-ATTCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
31038338 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
31038378 ATAACCGGGCCAAGTTCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
31038407 AGCAAGTAGC
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 96 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:31038420 original size:80 final size:80
Alignment explanation
Indices: 31038258--31038439 Score: 217
Period size: 80 Copynumber: 2.3 Consensus size: 80
31038248 TATTCGGATG
* * *
31038258 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCAATTCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAATACCGGGCCAAGTCCCGAAGGCA
* *
31038323 ATTGTGCGAGTTACT
66 ATTGAGCAAGTTACT
* * *
31038338 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCCAAGTTCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAT-ACCGGGCCAAGTCCCGAAGGC
*
31038402 ATTTGAGCAAG-TAGCT
65 AATTGAGCAAGTTA-CT
* * *
31038418 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
31038440 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 19 0.22
80 69 0.78
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAATACCGGGCCAAGTCCCGAAGGCA
ATTGAGCAAGTTACT
Found at i:31043290 original size:37 final size:37
Alignment explanation
Indices: 31043249--31043339 Score: 155
Period size: 37 Copynumber: 2.5 Consensus size: 37
31043239 ACACGTAATT
*
31043249 ATCGGGTCTTACCCGGACAAAATCTCCACACATAGTC
1 ATCGGGTCTTACCCGGACAAAATCTCCACACATACTC
* *
31043286 ATCGGGTCTTACCCGGACATAATCTCCACACGTACTC
1 ATCGGGTCTTACCCGGACAAAATCTCCACACATACTC
31043323 ATCGGGTCTTACCCGGA
1 ATCGGGTCTTACCCGGA
31043340 ATATATTTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
ATCGGGTCTTACCCGGACAAAATCTCCACACATACTC
Found at i:31043538 original size:48 final size:48
Alignment explanation
Indices: 31043480--31044299 Score: 1407
Period size: 48 Copynumber: 17.0 Consensus size: 48
31043470 ATATACACAC
*
31043480 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31043528 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
31043576 ATCTCATTCATATTTCACACGAGCCATTCGGCTTTACCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTA-C--C---A---CATATACAT
*
31043633 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31043681 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31043729 ATCTCATACATATTTCACACTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31043777 ATCTCATACATATTTCACACTAGCCATTCGG-TTTACCACATATA-AT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31043823 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31043871 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31043919 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31043967 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31044015 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
31044063 ATCTCATTCATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31044111 ATCTCATACATATTTCACACTAGCCATTCGGC-TTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31044158 ATCTCATACATATTTCACACTAGCCATTCGGC-TTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31044205 ATCTCATACATATTTCACACTAGCCATTCGGC-TTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31044252 ATCTTATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31044300 TTATCTTGTA
Statistics
Matches: 748, Mismatches: 12, Indels: 24
0.95 0.02 0.03
Matches are distributed among these distances:
46 32 0.04
47 166 0.22
48 500 0.67
49 1 0.00
51 2 0.00
54 2 0.00
56 1 0.00
57 44 0.06
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:31043910 original size:238 final size:239
Alignment explanation
Indices: 31043480--31044299 Score: 1423
Period size: 238 Copynumber: 3.4 Consensus size: 239
31043470 ATATACACAC
* *
31043480 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATCTCATACATATTTCA
*
31043545 CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACGAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
* *
31043610 TACCGGCTTTACCGCATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACAT
131 TA-C--C---A---CATATACATATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACAT
31043675 ATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
187 ATACATATCTCATACATATTTCACACTAGCCATTCGGC-TTACCACATATACAT
**
31043729 ATCTCATACATATTTCACACTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATCTCATACATATTTCA
31043794 CACTAGCCATTCGG-TTTACCACATATA-ATATCTCATTCATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
31043857 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATC
131 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATC
31043922 TCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
196 TCATACATATTTCACACTAGCCATTCGG-CTTACCACATATACAT
31043967 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATCTCATACATATTTCA
* *
31044032 CACTAGCCATTCGGCCTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCCT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
31044097 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG-CTTACCACATATACATATC
131 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATC
31044161 TCATACATATTTCACACTAGCCATTCGGCTTACCACATATACAT
196 TCATACATATTTCACACTAGCCATTCGGCTTACCACATATACAT
*
31044205 ATCTCATACATATTTCACACTAGCCATTCGG-CTTACCACATATACATATCTTATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATCTCATACATATTTCA
31044269 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
31044300 TTATCTTGTA
Statistics
Matches: 557, Mismatches: 11, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
237 62 0.11
238 225 0.40
239 60 0.11
240 80 0.14
241 1 0.00
244 1 0.00
246 1 0.00
247 37 0.07
248 13 0.02
249 77 0.14
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (239 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATC
TCATACATATTTCACACTAGCCATTCGGCTTACCACATATACAT
Found at i:31047206 original size:45 final size:45
Alignment explanation
Indices: 31047156--31047266 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
31047146 AACGGTAGCA
* *
31047156 GTAACAGTAATAGTAACAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAATGGTAACAGTATTCAACACACAAAGTGTC-GAATCG
* *
31047201 GTAACAGTAATGGTAACAATATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAATGGTAACAGTATTCAACACACAAAGTGTCGAATCG
*
31047246 GTAACAGTAACGGTAACAGTA
1 GTAACAGTAATGGTAACAGTA
31047267 ACAGTAGTCG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 58 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (45 bp):
GTAACAGTAATGGTAACAGTATTCAACACACAAAGTGTCGAATCG
Found at i:31047261 original size:12 final size:12
Alignment explanation
Indices: 31047244--31047268 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31047234 AGTGTCGAAT
31047244 CGGTAACAGTAA
1 CGGTAACAGTAA
31047256 CGGTAACAGTAA
1 CGGTAACAGTAA
31047268 C
1 C
31047269 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:31048346 original size:5 final size:5
Alignment explanation
Indices: 31048336--31048385 Score: 86
Period size: 5 Copynumber: 10.4 Consensus size: 5
31048326 TTTCTTTCTT
31048336 TATAA TATAA TATAA TATAA TAT-A -ATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
31048384 TA
1 TA
31048386 ATATACTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 39 0.91
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:31048365 original size:18 final size:18
Alignment explanation
Indices: 31048342--31048390 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
31048332 TCTTTATAAT
31048342 ATAATATAATATAATATA
1 ATAATATAATATAATATA
31048360 ATAATATAATATAATATA
1 ATAATATAATATAATATA
31048378 AT-ATAATAATATA
1 ATAAT-ATAATATA
31048391 CTTAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 2 0.07
18 28 0.93
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATATAATATAATATA
Found at i:31048366 original size:23 final size:23
Alignment explanation
Indices: 31048337--31048390 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
31048327 TTCTTTCTTT
31048337 ATAATATAATATAATATAATATA
1 ATAATATAATATAATATAATATA
31048360 ATAATATAATATAATATAATATA
1 ATAATATAATATAATATAATATA
31048383 ATAATATA
1 ATAATATA
31048391 CTTAATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAATATAATATAATATAATATA
Found at i:31052953 original size:40 final size:40
Alignment explanation
Indices: 31052884--31053071 Score: 254
Period size: 40 Copynumber: 4.7 Consensus size: 40
31052874 TATTCGGATG
* * *
31052884 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** *
31052923 A-ATTTCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
31052963 ATAACCGGACTAAGTCCTGAAGGCAGTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
31053003 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
31053043 ATAACCGAGCTAAGTCCCAAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
31053072 AGCAAGTAGC
Statistics
Matches: 130, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.01
39 11 0.08
40 117 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:31053085 original size:40 final size:39
Alignment explanation
Indices: 31052884--31053104 Score: 239
Period size: 40 Copynumber: 5.6 Consensus size: 39
31052874 TATTCGGATG
* * *
31052884 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACCA
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
** * *
31052924 ATTTCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
31052963 ATAACCGGACTAAGTCCTGAAGGCAGTTGTGCGAGTTACT
1 ATAACCGG-CTAAGTCCCGAAGGCATTTGTGCGAGTTACT
31053003 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
31053043 ATAACCGAGCTAAGTCCCAAAGGCATTTGAGCAAG-TAGCT
1 ATAACCG-GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* * *
31053083 ATATCCGGCTAAATTCCGAAGG
1 ATAACCGGCTAAGTCCCGAAGG
31053105 TACTTGGTTT
Statistics
Matches: 155, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 29 0.19
40 124 0.80
41 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
ATAACCGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:31055821 original size:40 final size:40
Alignment explanation
Indices: 31055760--31055948 Score: 238
Period size: 40 Copynumber: 4.7 Consensus size: 40
31055750 TATTCGGATG
* *
31055760 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* * * *
31055800 A-ATTCTGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* * *
31055840 ATAACCGGACTAAATCCCGAAGGCATTTGAG-TGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACT
*
31055880 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* *
31055920 ATAACCGAGCTAAGTCCCAAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
31055949 AGCAAGTAGC
Statistics
Matches: 126, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 124 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
Found at i:31055962 original size:40 final size:39
Alignment explanation
Indices: 31055760--31055981 Score: 223
Period size: 40 Copynumber: 5.6 Consensus size: 39
31055750 TATTCGGATG
* * * *
31055760 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
* * * *
31055800 A-ATTCTGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATA-AC-CGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
* *
31055840 ATAACCGGACTAAATCCCGAAGGCATTTGAGTGAGTTACT
1 ATAACCGG-CTAAGTCCCGAAGGCATTTGAGCGAGTTACT
*
31055880 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
* *
31055920 ATAACCGAGCTAAGTCCCAAAGGCATTTGAGCAAG-TAGCT
1 ATAACCG-GCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CT
* * *
31055960 ATATCCGGCTAAATTCCGAAGG
1 ATAACCGGCTAAGTCCCGAAGG
31055982 TACTTGGTTT
Statistics
Matches: 153, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 18 0.12
40 132 0.86
41 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (39 bp):
ATAACCGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
Found at i:31055962 original size:80 final size:78
Alignment explanation
Indices: 31055760--31055981 Score: 259
Period size: 80 Copynumber: 2.8 Consensus size: 78
31055750 TATTCGGATG
* * * *
31055760 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCA-ATTCTGGGCTAAGTCCCGAAGGC
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGAGCAAGT-ACTATA-TCCGGGCTAAGTCCCGAAGGC
31055824 AATTGTGCGAGTTACT
63 AATTGTGCGAGTTACT
* ** *
31055840 ATAACCGGACTAAATCCCGAAGGCATTTGAGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGG-CTAAGTCCCGAAGGCATTTGAGCAAG-TACTATATCCGGGCTAAGTCCCGAAGGCA
*
31055905 TTTGTGCGAGTTACT
64 ATTGTGCGAGTTACT
* * *
31055920 ATAACCGAGCTAAGTCCCAAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAAATTCCGAAGG
1 ATAACCG-GCTAAGTCCCGAAGGCATTTGAGCAAGTA-CTATATCCGGGCTAAGTCCCGAAGG
31055982 TACTTGGTTT
Statistics
Matches: 122, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
79 18 0.15
80 101 0.83
81 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (78 bp):
ATAACCGGCTAAGTCCCGAAGGCATTTGAGCAAGTACTATATCCGGGCTAAGTCCCGAAGGCAAT
TGTGCGAGTTACT
Found at i:31060738 original size:37 final size:37
Alignment explanation
Indices: 31060697--31060787 Score: 155
Period size: 37 Copynumber: 2.5 Consensus size: 37
31060687 ACACGTAATT
*
31060697 ATCGGGTCTTACCCGGACAAAATCTCCACACATAGTC
1 ATCGGGTCTTACCCGGACAAAATCTCCACACATACTC
* *
31060734 ATCGGGTCTTACCCGGACATAATCTCCACACGTACTC
1 ATCGGGTCTTACCCGGACAAAATCTCCACACATACTC
31060771 ATCGGGTCTTACCCGGA
1 ATCGGGTCTTACCCGGA
31060788 ATATATTTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
ATCGGGTCTTACCCGGACAAAATCTCCACACATACTC
Found at i:31060986 original size:48 final size:48
Alignment explanation
Indices: 31060928--31061791 Score: 1494
Period size: 48 Copynumber: 18.0 Consensus size: 48
31060918 ATATACACAC
*
31060928 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31060976 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
31061024 ATCTCATTCATATTTCACACGAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
31061072 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
31061120 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
31061168 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31061216 ATCTCATACATATTTCACACTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31061264 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
31061312 ATCTCATTCATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31061360 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31061408 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31061456 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31061504 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
31061552 ATCTCATACATATTTCACACTAGCCATTTGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31061600 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
31061648 ATCTCATACATATTTCAAATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
31061696 ATCTCATACATATTTCAAATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31061744 ATCTTATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31061792 TTATCTTGTA
Statistics
Matches: 794, Mismatches: 22, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 794 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:31064658 original size:6 final size:6
Alignment explanation
Indices: 31064628--31064675 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
31064618 AGTACCTAAT
* * *
31064628 CAGTAA TCAATAA CGGTAG CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
31064676 TTCAACACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (6 bp):
CAGTAA
Found at i:31064705 original size:45 final size:45
Alignment explanation
Indices: 31064655--31064765 Score: 177
Period size: 45 Copynumber: 2.5 Consensus size: 45
31064645 AGCAGTAACA
* * *
31064655 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCG
* *
31064700 GTAACAGTAACGGTAACAATATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCG
31064745 GTAACAGTAACGGTAACAGTA
1 GTAACAGTAACGGTAACAGTA
31064766 ACAGTAGTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCG
Found at i:31064760 original size:12 final size:12
Alignment explanation
Indices: 31064743--31064767 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31064733 AGTGTCGAAT
31064743 CGGTAACAGTAA
1 CGGTAACAGTAA
31064755 CGGTAACAGTAA
1 CGGTAACAGTAA
31064767 C
1 C
31064768 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:31065052 original size:40 final size:40
Alignment explanation
Indices: 31064976--31065056 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
31064966 CTTCATTAGA
* ** *
31064976 AATTTTACAGTTCAATGCAATATACGTAACATTATTCAGT
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGT
* * *
31065016 AATTTCACAGTTCAATTCAGTATTCAAAACAATATTCAGT
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGT
31065056 A
1 A
31065057 TCCCATAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (40 bp):
AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGT
Found at i:31070839 original size:14 final size:16
Alignment explanation
Indices: 31070815--31070846 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
31070805 GAAATGGTAT
31070815 GTTGAATTATAT-TTG
1 GTTGAATTATATCTTG
31070830 GTTG-ATTATATCTTG
1 GTTGAATTATATCTTG
31070845 GT
1 GT
31070847 ATGTGAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.53
Consensus pattern (16 bp):
GTTGAATTATATCTTG
Found at i:31080343 original size:46 final size:47
Alignment explanation
Indices: 31080276--31080452 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 47
31080266 TGTAACCCGC
*
31080276 CCATAAGCGAACTCGGACTCAACTCAACGAGATCGAG-CGTTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGATCGAGACGTTCTCAT
* *
31080322 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATC-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGATC-GA-GAC--GTT-C-TCAT
* * * *
31080374 CACGAACTCGGATTGAACTCGGACTCAACTCAACGAGTTCG-GACGTTCGCAT
1 C-C--A-T--AAGTGAACTCGGACTCAACTCAACGAGATCGAGACGTTCTCAT
31080426 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
31080453 TGAGTTCGGA
Statistics
Matches: 108, Mismatches: 9, Indels: 28
0.74 0.06 0.19
Matches are distributed among these distances:
46 53 0.49
47 2 0.02
48 2 0.02
49 2 0.02
51 5 0.05
52 6 0.06
53 6 0.06
55 3 0.03
56 1 0.01
57 1 0.01
58 27 0.25
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGATCGAGACGTTCTCAT
Found at i:31084680 original size:19 final size:19
Alignment explanation
Indices: 31084656--31084765 Score: 181
Period size: 19 Copynumber: 5.9 Consensus size: 19
31084646 ATAATCTTTA
*
31084656 ATGATATGCAATCCTAGAT
1 ATGATATGCAATCTTAGAT
31084675 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
31084694 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
31084713 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
31084730 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
31084748 ATGATATGCAATTTTAGA
1 ATGATATGCAATCTTAGA
31084766 AGATATGATT
Statistics
Matches: 86, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 54 0.63
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:31084791 original size:22 final size:22
Alignment explanation
Indices: 31084656--31084788 Score: 95
Period size: 19 Copynumber: 6.8 Consensus size: 22
31084646 ATAATCTTTA
*
31084656 ATGATATGCAATCCT---AGAT
1 ATGATATGCAATCTTAGAAGAT
31084675 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
31084694 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
31084713 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
31084730 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
31084748 ATGATATGCAATTTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
31084770 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
31084789 GATTTAATTT
Statistics
Matches: 102, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.16
18 16 0.16
19 51 0.50
22 8 0.08
23 11 0.11
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:31087201 original size:19 final size:19
Alignment explanation
Indices: 31087153--31087201 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
31087143 TAGACATGCC
* *
31087153 GAGGAGAGATAACATTTCA
1 GAGGAGAGGTGACATTTCA
31087172 GAGGAGAGGTGACATTTCA
1 GAGGAGAGGTGACATTTCA
*
31087191 GAGGAGTGGTG
1 GAGGAGAGGTG
31087202 GATAGACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.39, T:0.20
Consensus pattern (19 bp):
GAGGAGAGGTGACATTTCA
Found at i:31093190 original size:40 final size:40
Alignment explanation
Indices: 31093145--31093311 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
31093135 CGGAATATAA
31093145 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
31093185 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
31093225 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
31093265 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
31093304 CCGGATAT
1 CCGGATAT
31093312 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:31101636 original size:40 final size:39
Alignment explanation
Indices: 31101592--31101717 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
31101582 GGGACTCAAC
*
31101592 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
31101632 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
31101672 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
31101712 CCGGAT
1 CCGGAT
31101718 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:31101676 original size:80 final size:80
Alignment explanation
Indices: 31101531--31101717 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
31101521 GCTACACATT
* * *
31101531 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
31101595 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
31101611 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
31101674 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
31101692 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
31101718 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:31105830 original size:22 final size:21
Alignment explanation
Indices: 31105795--31105852 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
31105785 AAAAGGTATC
* * *
31105795 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAAAT
31105816 TACAAAATCATATCTTCTAAAAT
1 TAC-AAATCATATC-TCTAAAAT
* *
31105839 TGCATATCATATCT
1 TACAAATCATATCT
31105853 AAGATTGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:31105859 original size:19 final size:19
Alignment explanation
Indices: 31105831--31105919 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
31105821 AATCATATCT
*
31105831 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
31105850 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
31105868 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
31105885 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
31105904 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
31105920 TTTGAAGATT
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31105882 original size:35 final size:36
Alignment explanation
Indices: 31105843--31105913 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
31105833 TAAAATTGCA
31105843 TATCATATCTAAGATTGCA-ATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
31105878 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
31105914 CATATCTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 19 0.54
36 16 0.46
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:31106367 original size:44 final size:45
Alignment explanation
Indices: 31106273--31106450 Score: 241
Period size: 45 Copynumber: 4.0 Consensus size: 45
31106263 TTGATCTATT
** *
31106273 CCCGTCTAATACAGAGACACCAAATCTGTTATCTTCAATCAGCTC
1 CCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCAATCTGCTC
* **
31106318 CCCGTCTAATACAGACATGCCAAATCTACT-TCTTCAATCTGCTC
1 CCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCAATCTGCTC
* * *
31106362 CCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTC
1 CCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCAATCTGCTC
* **
31106407 CCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGCT
1 CCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCAATCTGCT
31106451 TCGATGTAAA
Statistics
Matches: 116, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 40 0.34
45 76 0.66
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.29
Consensus pattern (45 bp):
CCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCAATCTGCTC
Found at i:31106593 original size:78 final size:78
Alignment explanation
Indices: 31106464--31106758 Score: 409
Period size: 78 Copynumber: 3.8 Consensus size: 78
31106454 ATGTAAACAC
* *
31106464 ATGAAGGTCAGATCTGCTATGTTTTTGATCTGCTCGC-CGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTC-CTCGTCTAATATAGAGATGCCAAATCATC
31106528 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
31106542 ATGAAGGTCCAG-TTTGTTATGTCTTCGATCTGCTCCTCGTCTAATATAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTTGATCTGCTCCTCGTCTAATATAGAGATGCCAAATCATC
* *
31106606 TTGGATCTGATCCA
65 TTGGATCTGCTTCA
* * * *
31106620 ATGAAGGTCAAATCTGTTGTGTCTTTGATCTGCTCCCCGTCTAATACTA-AGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCTCGTCTAATA-TAGAGATGCCAAATCATC
31106684 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
31106698 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCT-CTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCT-CGTCTAATATAGAGATGCCAAATC
31106759 TGTTTCTTCG
Statistics
Matches: 191, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
77 5 0.03
78 181 0.95
79 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCTCGTCTAATATAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:31106750 original size:156 final size:156
Alignment explanation
Indices: 31106464--31106758 Score: 452
Period size: 156 Copynumber: 1.9 Consensus size: 156
31106454 ATGTAAACAC
* * *
31106464 ATGAAGGTCAGATCTGCTATGTTTTTGATCTGCTCGCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAAATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * *
31106529 TGGATCTGCTTCAATGAAGGTCCAGTTTGTTATGTCTTCGATCTGCTCCTCGTCTAATATAGAGA
66 TGGATCTGCTTCAATGAAGGTCCAGTCTGCTATGTCTTCGATCTGCTCCTCGTCGAATATAGAGA
31106594 TGCCAAATCATCTTGGATCTGATCCA
131 TGCCAAATCATCTTGGATCTGATCCA
* *
31106620 ATGAAGGTCAAATCTGTTGTGTCTTTGATCTGCTCCCCGTCTAATACTA-AGATGCCAAATCATC
1 ATGAAGGTCAAATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATAC-AGAGATGCCAAATCATC
* *
31106684 TTGGATCTGCTTCAATGAAGGT-CAGATCTGCTATGTCTTTGATCTGCT-CTCCGTCGAATATGG
65 TTGGATCTGCTTCAATGAAGGTCCAG-TCTGCTATGTCTTCGATCTGCTCCT-CGTCGAATATAG
31106747 AGATGCCAAATC
128 AGATGCCAAATC
31106759 TGTTTCTTCG
Statistics
Matches: 126, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
155 5 0.04
156 120 0.95
157 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (156 bp):
ATGAAGGTCAAATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCCAGTCTGCTATGTCTTCGATCTGCTCCTCGTCGAATATAGAGA
TGCCAAATCATCTTGGATCTGATCCA
Found at i:31106968 original size:78 final size:77
Alignment explanation
Indices: 31106839--31107201 Score: 548
Period size: 78 Copynumber: 4.7 Consensus size: 77
31106829 GTGAAAGCCA
*
31106839 AATCTGCTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
31106904 TCAATGAAGGTCC
66 TCAATGAAGGT-C
* *
31106917 AATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTG-T
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
31106981 GTCAATGAAGGTTA
66 -TCAATGAAGG-TC
* *
31106995 AATCTGCTATGTCTCCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTACT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
31107060 TCAATGAAGGTC
66 TCAATGAAGGTC
* *
31107072 AGATCTCCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGC
1 A-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGC
*
31107137 TTCGATGAAGGTC
65 TTCAATGAAGGTC
* * * **
31107150 AGATCTGCCATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 A-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
31107202 TGTTTCTTCG
Statistics
Matches: 260, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
77 3 0.01
78 255 0.98
79 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (77 bp):
AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
TCAATGAAGGTC
Found at i:31107117 original size:365 final size:364
Alignment explanation
Indices: 31106348--31107488 Score: 1317
Period size: 365 Copynumber: 3.1 Consensus size: 364
31106338 CAAATCTACT
* * * *
31106348 TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGTC
1 TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTT-TCTTCGATTTGTTCCCTGAC
* * * * * * * *
31106413 TAATACAGAGATGCCAAATCTGTCATCTTGGATCTGCTTCGATGTAAACACATGAAGGTCAGATC
65 -AGTACAGAGATGCCAAA----TCATCTTAGATCTGCTTTG-CGTAAACACGTGAAAGCCAAATC
* * * *
31106478 TGCTATGTTTTTGATCTGCTCGCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAA
124 TGCTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAA
* * *
31106543 TGAAGGTCCAGTTTGTTATGTCTTCGATCTGCT-CCTCGTCTAATATAGAGATGCCAAATCATCT
189 TGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCT-GTCTAATACAGAGATGCCAAATCATCT
* * *
31106607 TGGATCTGATCCAATGAAGGTCAAATCTGTTGTGTCTTTGATCTGCTCCCCGTCTAATACTA-AG
253 TGGATCTGATTCAATGAAGGTCAAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATAC-AGAG
31106671 ATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
317 ATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
** * * ** *
31106719 TCTTTGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
1 TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCCCTGACA
31106784 GTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGTGAAAGCCAAATCTGCTAT
66 GTACAGAGATGCCAAATCATCTTAGATCTGCTTT-GCGTAAACACGTGAAAGCCAAATCTGCTAT
31106849 GTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGG
130 GTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGG
31106914 TCCAATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCT
195 TCCAATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCT
* * *
31106979 G-TGTCAATGAAGGTTAAATCTGCTATGTCTCCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
260 GAT-TCAATGAAGGTCAAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
31107043 ATCATCTTGGATCTACTTCAATGAAGGTCAGATCTCCTGTG
324 ATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
* * * * **
31107084 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC---ATCTTGGATCTGCTTCGATGA-
1 TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTTCTTCGATTTG-TTCCCTGAC
** * * * * * * * *
31107145 AGGT-CAGATCTGCC--AT-GTCTTCGATCTGCTCTCCGTCGAATATG-GAGATGCCAAATCTG-
65 A-GTACAGAGATGCCAAATCATCTTAGATCTGCTTTGCGT-AAACACGTGA-AAGCCAAATCTGC
* * * * * *
31107204 T-T-TCTTCGATTTGTTCTCTGAC-AGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGT
127 TATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT---C--
* * *
31107266 AAACACGTGAAAG-CCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
187 --A-A--TGAAGGTCC-AATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAA
* *
31107330 ATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAAT
246 ATCATCTTGGATCTGATTCAATGAAGGTCAAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAAT
* * * *
31107395 ACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAAGCCAGATTTGTTATG
311 ACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
* *
31107449 TCTTCAATCTGCCCCCCGTCTAATACAAAGATGCCAAATC
1 TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
31107489 ATCTTGGATC
Statistics
Matches: 672, Mismatches: 78, Indels: 46
0.84 0.10 0.06
Matches are distributed among these distances:
355 32 0.05
356 16 0.02
357 1 0.00
358 7 0.01
359 28 0.04
360 2 0.00
362 19 0.03
363 9 0.01
364 4 0.01
365 480 0.71
366 5 0.01
369 16 0.02
370 15 0.02
371 38 0.06
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (364 bp):
TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCCCTGACA
GTACAGAGATGCCAAATCATCTTAGATCTGCTTTGCGTAAACACGTGAAAGCCAAATCTGCTATG
TCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT
CCAATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
ATTCAATGAAGGTCAAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
CATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
Found at i:31107290 original size:443 final size:442
Alignment explanation
Indices: 31106380--31107644 Score: 1948
Period size: 443 Copynumber: 2.8 Consensus size: 442
31106370 ATACAGAGAT
* *
31106380 GCCAAATCTG-T-TATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTG
1 GCCAAATCTGCTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAA----TCATCTTG
* * *
31106443 GATCTGCTTCGATGTAAACACATGAAGGT-CAGATCTGCTATGTTTTTGATCTGCTCGCCGTCTA
62 GATCTG---C--T-T---CA-ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTC-CCGTCTA
* *
31106507 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAGTTTGTTATGTCTTCGATC
115 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATTTGTTATGTCTTCGATC
* * * *
31106572 TGCTCCTCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGA-TCCAATGAAGGTCAAATCTG
180 TGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCT-ACTTCAATGAAGGTCAGATCTG
*
31106636 TTGTGTCTTTGATCTGCTCCCCGTCTAATACTA-AGATGCCAAATCATCTTGGATCTGCTTCAAT
244 TTGTGTCTTCGATCTGCTCCCCGTCTAATAC-AGAGATGCCAAATCATCTTGGATCTGCTTCAAT
*
31106700 GAAGGTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
308 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
*
31106765 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACG
373 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
31106830 TGAAA
438 TGAAA
31106835 GCCAAATCTGCTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
1 GCCAAATCTGCTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
31106900 TGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAA
66 TGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCC-GTCTAATACAGAGATGCCAA
* * * *
31106965 ATCATCTTGGATCTG-TGTCAATGAAGGTTAAATCTGCTATGTCTCCGATCTGCTCCCCGTCTAA
130 ATCATCTTGGATCTGCT-TCAATGAAGGTCAAATTTGTTATGTCTTCGATCTGCTCCCCGTCTAA
**
31107029 TACAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTCCTGTGTCTTCGATCT
194 TACAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCT
* *
31107094 GCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCGATGAAGGTCAGATCTGCC
259 GCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCT
31107159 ATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTG
324 ATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTG
31107224 ACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAA
389 ACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAA
*
31107278 GCCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
1 GCCAAATCTGCTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
31107343 TGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
66 TGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAA
* * * * *
31107408 ATCATCTTGGATCTGCTTCAATGAAAGCCAGATTTGTTATGTCTTCAATCTGCCCCCCGTCTAAT
130 ATCATCTTGGATCTGCTTCAATGAAGGTCAAATTTGTTATGTCTTCGATCTGCTCCCCGTCTAAT
* * * *
31107473 ACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAAGTCAGATCTGTTATGTCTTCGATCTG
195 ACAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTG
* * *
31107538 CTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGTTG
260 CTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTA
* * **
31107603 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
325 TGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
31107645 ATCTTGGATC
Statistics
Matches: 754, Mismatches: 47, Indels: 30
0.91 0.06 0.04
Matches are distributed among these distances:
442 5 0.01
443 675 0.90
444 8 0.01
447 1 0.00
448 1 0.00
450 1 0.00
453 14 0.02
455 10 0.01
456 1 0.00
457 38 0.05
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (442 bp):
GCCAAATCTGCTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
TGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCGTCTAATACAGAGATGCCAAA
TCATCTTGGATCTGCTTCAATGAAGGTCAAATTTGTTATGTCTTCGATCTGCTCCCCGTCTAATA
CAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGC
TCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTAT
GTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGAC
AGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAA
Found at i:31107411 original size:78 final size:78
Alignment explanation
Indices: 31107283--31107720 Score: 700
Period size: 78 Copynumber: 5.6 Consensus size: 78
31107273 TGAAAGCCAA
*
31107283 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
31107348 CAATGAAGGTCCA-
66 CAATGAAGGT-CAG
31107361 ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
* *
31107426 CAATGAAAGCCAG
66 CAATGAAGGTCAG
* * * *
31107439 ATTTGTTATGTCTTCAATCTGCCCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
*
31107504 CAATGAAAGTCAG
66 CAATGAAGGTCAG
*
31107517 ATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
31107582 CAATGAAGGTCAG
66 CAATGAAGGTCAG
* *
31107595 ATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTACTT
1 ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
*
31107660 CAATGAAGGTTAG
66 CAATGAAGGTCAG
* * * **
31107673 ATCTGCTATGTCTTCGAT-TGCTCTCCGTCGAATATGGAGATGCCAAAT
1 ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
31107721 ATGTTTCTTC
Statistics
Matches: 335, Mismatches: 24, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
77 28 0.08
78 307 0.92
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
CAATGAAGGTCAG
Found at i:31110076 original size:37 final size:37
Alignment explanation
Indices: 31110033--31110107 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
31110023 TGAAACCATT
31110033 AGCGTGCATCCCACAAACACCCTCATGAACTTCTTCC
1 AGCGTGCATCCCACAAACACCCTCATGAACTTCTTCC
*
31110070 AGCGTGCGTCCCACAAACACCCTCATGAACTTCTTCC
1 AGCGTGCATCCCACAAACACCCTCATGAACTTCTTCC
31110107 A
1 A
31110108 AGATTAACTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.40, G:0.12, T:0.21
Consensus pattern (37 bp):
AGCGTGCATCCCACAAACACCCTCATGAACTTCTTCC
Found at i:31119725 original size:93 final size:93
Alignment explanation
Indices: 31119598--31119863 Score: 415
Period size: 93 Copynumber: 2.9 Consensus size: 93
31119588 TGCCCATAAG
* * * * *
31119598 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCTCATCCGTAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
31119663 ACGAGCTCGGATGCCTAGTTACATCTCC
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
31119691 CTAACTCAGACTCAACTAAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
31119756 ACGAGCTCGAATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
31119784 CGAACTCGGATTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
31119849 ACGAGTTCAGATGCC
66 ACGAGCTCGGATGCC
31119864 CAAATATACG
Statistics
Matches: 156, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 156 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:31119799 original size:47 final size:46
Alignment explanation
Indices: 31119645--31119807 Score: 154
Period size: 47 Copynumber: 3.5 Consensus size: 46
31119635 ATCCGTAAGT
*
31119645 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCCC
1 GAACTCGGACTCAACTCAACGAGCTC-GATGCCTAGTTACATCTCAC
* * * * * * * *
31119692 TAACTCAGACTCAACTAAACGAGTTCG--GAC--GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGATGCCTAGTT-ACAT-C-TCA-C
31119738 GAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCG-ATGCCTAGTTACATCTCAC
*
31119785 GAACTCGGATTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
31119808 TTCGGACGTT
Statistics
Matches: 89, Mismatches: 18, Indels: 18
0.71 0.14 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 3 0.03
45 1 0.01
46 24 0.27
47 44 0.49
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGATGCCTAGTTACATCTCAC
Found at i:31119856 original size:46 final size:46
Alignment explanation
Indices: 31119591--31119853 Score: 218
Period size: 46 Copynumber: 5.7 Consensus size: 46
31119581 TGTAACCTGC
* * * *
31119591 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
*
31119637 CCGTAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCACAT
*** * * * *
31119687 -C-TCCCT-AACTCAGACTCAACTAAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
*
31119730 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG---GAC--GTTCACAT
* * * * *
31119780 -C-TCA-CGAACTCGGATTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
31119823 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
31119854 TTCAGATGCC
Statistics
Matches: 170, Mismatches: 29, Indels: 36
0.72 0.12 0.15
Matches are distributed among these distances:
42 6 0.04
43 6 0.04
44 5 0.03
45 4 0.02
46 78 0.46
47 50 0.29
48 4 0.02
49 5 0.03
50 6 0.04
51 6 0.04
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
Found at i:31121556 original size:20 final size:19
Alignment explanation
Indices: 31121523--31121561 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
31121513 TGGTTCCATG
31121523 AGCTCAACTCAGCTCCATCT
1 AGCTCAACTCAGCT-CATCT
* *
31121543 AGCTCAATTGAGCTCATCT
1 AGCTCAACTCAGCTCATCT
31121562 TTAATTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.28
Consensus pattern (19 bp):
AGCTCAACTCAGCTCATCT
Found at i:31125917 original size:14 final size:14
Alignment explanation
Indices: 31125895--31125934 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
31125885 TGAGTTGGGG
* *
31125895 CATTCGCATGCATA
1 CATTTGCATACATA
31125909 CATTTGCATACATA
1 CATTTGCATACATA
*
31125923 CATCTGCATACA
1 CATTTGCATACA
31125935 AAGATTTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.30
Consensus pattern (14 bp):
CATTTGCATACATA
Found at i:31130159 original size:45 final size:45
Alignment explanation
Indices: 31130046--31130265 Score: 213
Period size: 44 Copynumber: 5.0 Consensus size: 45
31130036 TAGGATTTTG
* **
31130046 ATATGTGTTTTCGTGTAAGACCACGTCTGGAAGGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* * *
31130091 ATAT-TTTTTTCATGTAAGACCACGTTTGGGACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* *
31130135 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATC-A-
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* * * * * *
31130178 ATATGTGGTTACGAGTAAGACCATGTCTGGGACATCGACATCG-T
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* * * *
31130222 AT-T-TG-ATTAGTGTAAGACC-CTGCCTGGGACAATGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGAT
31130264 AT
1 AT
31130266 GAGATAGCAT
Statistics
Matches: 144, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
41 25 0.17
42 5 0.03
43 35 0.24
44 41 0.28
45 38 0.26
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
Found at i:31138526 original size:40 final size:41
Alignment explanation
Indices: 31138481--31138591 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 41
31138471 CTGGAAATTA
* * *
31138481 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCG-TAC
* *
31138522 -ATCCGGGCTAAGACCTGAAGGC-ATTCGTGCGAGTCGTTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCGTAC
*
31138561 TATCTGGGCTAAGACCCGAAGGC-ATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGC
31138592 ACGTGGTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
39 5 0.08
40 56 0.92
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCGTAC
Found at i:31144572 original size:44 final size:43
Alignment explanation
Indices: 31144509--31144619 Score: 116
Period size: 44 Copynumber: 2.6 Consensus size: 43
31144499 ATAGGATTCT
* ***
31144509 GATATATGTTTTCGTGTAAGATCTTGTATGGGACGTT-GCATC
1 GATATATGTTTTCGTGTAAGACCACATATGGGACGTTGGCATC
*
31144551 GATATATGTGTTCTCGTGTAAGACCACATCTGGGACGTTGGCATC
1 GATATATGT-TT-TCGTGTAAGACCACATATGGGACGTTGGCATC
* * * *
31144596 GATATTTGGTTACGAGTAAGACCA
1 GATATATGTTTTCGTGTAAGACCA
31144620 TGTCTGAGAC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 9 0.16
43 13 0.23
44 23 0.40
45 12 0.21
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
GATATATGTTTTCGTGTAAGACCACATATGGGACGTTGGCATC
Found at i:31146395 original size:40 final size:39
Alignment explanation
Indices: 31146350--31146479 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
31146340 CGGAATATAA
31146350 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
31146390 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
31146430 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
31146470 CCGGATATAA
1 CCGGATATAA
31146480 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:31146494 original size:40 final size:40
Alignment explanation
Indices: 31146366--31146517 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
31146356 ATAACCATGT
* * *
31146366 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
31146406 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
31146446 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
31146486 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
31146518 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:31146500 original size:80 final size:80
Alignment explanation
Indices: 31146366--31146515 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
31146356 ATAACCATGT
*
31146366 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
31146430 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
31146446 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
31146509 CCCGGAT
64 CCCGGAT
31146516 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:31150149 original size:46 final size:46
Alignment explanation
Indices: 31150096--31150271 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
31150086 TATTTGGGCA
31150096 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
31150142 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
31150189 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
31150235 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31150272 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:31150251 original size:93 final size:93
Alignment explanation
Indices: 31150092--31150263 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31150082 GGGATATTTG
* *
31150092 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
31150157 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
31150185 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
31150250 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
31150264 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Done.