Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 96 of 444
Found at i:23280156 original size:28 final size:28
Alignment explanation
Indices: 23280116--23280178 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
23280106 GTCATTATCA
23280116 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
23280144 ACCCCATAAGTTATGAGATTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
23280172 ACCCCAT
1 ACCCCAT
23280179 TAATATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:23285568 original size:28 final size:28
Alignment explanation
Indices: 23285528--23285590 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
23285518 GTCATTATCA
23285528 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
23285556 ACCCCATAAGTTATGAGATTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
23285584 ACCCCAT
1 ACCCCAT
23285591 TAATATGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:23285750 original size:14 final size:14
Alignment explanation
Indices: 23285710--23285750 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
23285700 AAAAAGAAGA
23285710 TACACTCTCTCTTC
1 TACACTCTCTCTTC
23285724 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
23285735 TACACTCTTTCTTC
1 TACACTCTCTCTTC
23285749 TA
1 TA
23285751 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:23291327 original size:18 final size:18
Alignment explanation
Indices: 23291310--23291359 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
23291300 TTAATGATAT
23291310 TTTTATTAA-TAATAATA
1 TTTTATTAAGTAATAATA
*
23291327 TTTTAATAAGTAATAATA
1 TTTTATTAAGTAATAATA
*
23291345 TTTTATTAATTAATA
1 TTTTATTAAGTAATA
23291360 TTATAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTTATTAAGTAATAATA
Found at i:23296650 original size:25 final size:25
Alignment explanation
Indices: 23296616--23296665 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23296606 ATCAGTAAAC
23296616 TCATTAACAACTGGTAGTTGATCTA
1 TCATTAACAACTGGTAGTTGATCTA
23296641 TCATTAACAACTGGTAGTTGATCTA
1 TCATTAACAACTGGTAGTTGATCTA
23296666 ACTTAAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (25 bp):
TCATTAACAACTGGTAGTTGATCTA
Found at i:23299806 original size:40 final size:40
Alignment explanation
Indices: 23299752--23299860 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
23299742 AGAGATATTG
* * *
23299752 AAGTACAAATAGGGGCACTTATGTGCATTTAAAAGTACCA
1 AAGTCCAAACAGGGGCACGTATGTGCATTTAAAAGTACCA
* * **
23299792 AAGTCTAAGCAGGGGCACGTATGTGCATTTAAGGGTACCA
1 AAGTCCAAACAGGGGCACGTATGTGCATTTAAAAGTACCA
23299832 AAGTCCAAACAGGGGCACGTATGTGCATT
1 AAGTCCAAACAGGGGCACGTATGTGCATT
23299861 CAAGGTCATT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (40 bp):
AAGTCCAAACAGGGGCACGTATGTGCATTTAAAAGTACCA
Found at i:23308443 original size:19 final size:22
Alignment explanation
Indices: 23308404--23308443 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23308394 AGAAACCCAA
23308404 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
23308426 CCAT-TCCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
23308444 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 7 0.39
22 4 0.22
ACGTcount: A:0.30, C:0.47, G:0.03, T:0.20
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:23308534 original size:26 final size:27
Alignment explanation
Indices: 23308505--23308645 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
23308495 AGCATGGCTG
* *
23308505 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
23308531 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
23308559 CCA-AACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
23308585 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
23308612 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
23308639 CCAGAAC
1 CCAGAAC
23308646 GCTTCCTCCA
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 27 0.26
27 65 0.62
28 13 0.12
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:23310299 original size:26 final size:26
Alignment explanation
Indices: 23310263--23310372 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
23310253 CATGAAATTC
23310263 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23310289 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23310315 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
23310341 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23310367 TTATCA
1 TTATCA
23310373 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23310919 original size:2 final size:2
Alignment explanation
Indices: 23310876--23310907 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23310866 GGCTTAGCAA
23310876 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23310908 CAAGAGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23311846 original size:107 final size:107
Alignment explanation
Indices: 23311660--23311873 Score: 340
Period size: 107 Copynumber: 2.0 Consensus size: 107
23311650 ACAATAACCC
* * *
23311660 GTATCATTGTTTAAATCAAAGTATTTAACTTAAGAAGAGTTGTTTTAAGTACATATTAACTTTGT
1 GTATCATTGTTTAAATCAAAGTATTTAACATAAGAAGAGTTGTTTTAAGTACATATTAACTTAGC
*
23311725 CTTTTTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
66 CTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
* * *
23311767 GTATCATTGTTTAAATCAAAGTATTTAGCATAGGGAA-AGTTGTTTTAAGTACATATTAAGTTAG
1 GTATCATTGTTTAAATCAAAGTATTTAACATA-AGAAGAGTTGTTTTAAGTACATATTAACTTAG
*
23311831 CCTTTCTATATATCTCTCTTTTTCCTTCCCTTTTGCATGCATT
65 CCTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
23311874 TCAACAGATA
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
107 95 0.97
108 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (107 bp):
GTATCATTGTTTAAATCAAAGTATTTAACATAAGAAGAGTTGTTTTAAGTACATATTAACTTAGC
CTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
Found at i:23318446 original size:234 final size:234
Alignment explanation
Indices: 23318031--23318493 Score: 908
Period size: 234 Copynumber: 2.0 Consensus size: 234
23318021 CTGTTTGAAG
23318031 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACGAAACGGTGGTTCTTT
1 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACGAAACGGTGGTTCTTT
23318096 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
66 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
23318161 AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
131 AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
23318226 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
196 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
*
23318265 AGTATTAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACGAAACGGTGGTTCTTT
1 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACGAAACGGTGGTTCTTT
23318330 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
66 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
*
23318395 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
131 AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
23318460 TTAGTCGAATCCAACAGGATGAAGTATTAGAAAT
196 TTAGTCGAATCCAACAGGATGAAGTATTAGAAAT
23318494 GACCATCATA
Statistics
Matches: 227, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
234 227 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (234 bp):
AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACGAAACGGTGGTTCTTT
ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
Found at i:23320618 original size:14 final size:14
Alignment explanation
Indices: 23320578--23320618 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
23320568 AAAAAGAAGA
23320578 TACACTCTCTCTTC
1 TACACTCTCTCTTC
23320592 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
23320603 TACACTCTTTCTTC
1 TACACTCTCTCTTC
23320617 TA
1 TA
23320619 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:23323729 original size:46 final size:46
Alignment explanation
Indices: 23323676--23323851 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
23323666 TATTTGGGCA
23323676 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
23323722 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
23323769 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
23323815 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23323852 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.59
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:23323831 original size:93 final size:93
Alignment explanation
Indices: 23323672--23323843 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
23323662 GGGATATTTG
* * *
23323672 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
23323737 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
23323765 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
23323830 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
23323844 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:23328614 original size:28 final size:28
Alignment explanation
Indices: 23328574--23328636 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
23328564 GTCATTATCA
23328574 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
23328602 ACCCCATAAGTTATGAGATTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
23328630 ACCCCAT
1 ACCCCAT
23328637 TAATATGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:23328796 original size:14 final size:14
Alignment explanation
Indices: 23328756--23328796 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
23328746 AAAAAGAAGA
23328756 TACACTCTCTCTTC
1 TACACTCTCTCTTC
23328770 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
23328781 TACACTCTTTCTTC
1 TACACTCTCTCTTC
23328795 TA
1 TA
23328797 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:23329357 original size:20 final size:22
Alignment explanation
Indices: 23329332--23329377 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
23329322 TATCATTTTT
23329332 TAAAATTA-TAA-AAATATATA
1 TAAAATTACTAATAAATATATA
*
23329352 TAAAATTACTAATAAATATGTA
1 TAAAATTACTAATAAATATATA
23329374 TAAA
1 TAAA
23329378 TGAATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 3 0.13
22 12 0.52
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAAATTACTAATAAATATATA
Found at i:23334896 original size:42 final size:43
Alignment explanation
Indices: 23334849--23334960 Score: 149
Period size: 41 Copynumber: 2.7 Consensus size: 43
23334839 TAACAGTGAT
* *
23334849 ATATCAGGCTTATTGCCTAGTAGGCTTTGATGCCGGTGTA-TG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCAGTGTATTG
* *
23334891 ATATCAAGCTTATTGCCTAGCAGGCTTT-ATGCTAGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCAGTGTATTG
* *
23334933 A-ATCAGGTTTATTACCTAGCAGGCTTTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTG
23334961 TGCGATGTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
41 32 0.52
42 29 0.48
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (43 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCAGTGTATTG
Found at i:23339542 original size:2 final size:2
Alignment explanation
Indices: 23339498--23339530 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23339488 CGCTTAGCAA
23339498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23339531 CAAGAGTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23340469 original size:107 final size:107
Alignment explanation
Indices: 23340283--23340496 Score: 358
Period size: 107 Copynumber: 2.0 Consensus size: 107
23340273 GCAATAACCC
* *
23340283 GTATCATTGTTTAAATCAAAGTATTTAGCTTAAGAAGAGTTGTTTTAAGTACATATTAACTTAGT
1 GTATCATTGTTTAAATCAAAGTATTTAGCATAAGAAGAGTTGTTTTAAGTACATATTAACTTAGC
*
23340348 CTTTTTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
66 CTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
* *
23340390 GTATCATTGTTTAAATCAAAGTATTTAGCATAGGGAA-AGTTGTTTTAAGTACATATTAAGTTAG
1 GTATCATTGTTTAAATCAAAGTATTTAGCATA-AGAAGAGTTGTTTTAAGTACATATTAACTTAG
*
23340454 CCTTTCTATATATCTCTCTTTTTCCTTCCCTTTTGCATGCATT
65 CCTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
23340497 TCAACAGATA
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
107 97 0.97
108 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (107 bp):
GTATCATTGTTTAAATCAAAGTATTTAGCATAAGAAGAGTTGTTTTAAGTACATATTAACTTAGC
CTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
Found at i:23342006 original size:21 final size:21
Alignment explanation
Indices: 23341980--23342021 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23341970 AGGAACAATC
23341980 TCTTAACCTAATGATAAAAGT
1 TCTTAACCTAATGATAAAAGT
23342001 TCTTAACCTAATGATAAAAGT
1 TCTTAACCTAATGATAAAAGT
23342022 ATTATGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (21 bp):
TCTTAACCTAATGATAAAAGT
Found at i:23347068 original size:234 final size:234
Alignment explanation
Indices: 23346659--23347123 Score: 903
Period size: 234 Copynumber: 2.0 Consensus size: 234
23346649 CTGTTTGAAG
23346659 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
1 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
23346724 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
66 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
23346789 AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
131 AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
23346854 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
196 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
*
23346893 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACGAAACGGTGGTTCTTT
1 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
*
23346958 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAGCAAAATCATTCCATTTGCTAG
66 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
*
23347023 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
131 AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
23347088 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTC
196 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTC
23347124 CAAGTACTCA
Statistics
Matches: 228, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
234 228 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (234 bp):
AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
Found at i:23349174 original size:28 final size:28
Alignment explanation
Indices: 23349134--23349193 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
23349124 GTCATTATCA
23349134 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
23349162 ACCCCATAAGTTATGAGATTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
23349190 ACCC
1 ACCC
23349194 ATTAATATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:23349351 original size:14 final size:14
Alignment explanation
Indices: 23349311--23349351 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
23349301 AAAAAGAAGA
23349311 TACACTCTCTCTTC
1 TACACTCTCTCTTC
23349325 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
23349336 TACACTCTTTCTTC
1 TACACTCTCTCTTC
23349350 TA
1 TA
23349352 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:23354569 original size:28 final size:28
Alignment explanation
Indices: 23354529--23354591 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
23354519 GTCATTATCA
23354529 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
23354557 ACCCCATAAGTTATGAGATTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
23354585 ACCCCAT
1 ACCCCAT
23354592 TAATATGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:23354751 original size:14 final size:14
Alignment explanation
Indices: 23354711--23354751 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
23354701 AAAAAGAAGA
23354711 TACACTCTCTCTTC
1 TACACTCTCTCTTC
23354725 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
23354736 TACACTCTTTCTTC
1 TACACTCTCTCTTC
23354750 TA
1 TA
23354752 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:23360242 original size:132 final size:132
Alignment explanation
Indices: 23360005--23360268 Score: 370
Period size: 132 Copynumber: 2.0 Consensus size: 132
23359995 TCTCGCTTTG
* * * * *
23360005 GAAAACGTGAATGAAATTCCAAAGGAATATTCGATTATTTTGCACAAACGAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGGAACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
* * * * *
23360070 GCACGATAGGGCACGATTCCCCGAATTGCCGAACGTCGAACAT-TTCCTTCGTTTTAAAGATTTT
66 GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGT-CTCCGTTTTAAAGAATTT
23360134 TTA
130 TTA
* **
23360137 GAAAACATGAACGAAATTCTAAA-GAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCC
1 GAAAACATGAACGAAATTCCAAAGGA-ACATCCGATTATTTTGCACAAACAAGAAATTGCAACCC
*
23360201 AGCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACATCGTCTCCGTTTTAAAGAATTT
65 AGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGTCTCCGTTTTAAAGAATTT
23360266 TTA
130 TTA
23360269 AACGAATAAT
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
131 2 0.02
132 113 0.97
133 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (132 bp):
GAAAACATGAACGAAATTCCAAAGGAACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGTCTCCGTTTTAAAGAATTTT
TA
Found at i:23360559 original size:3 final size:3
Alignment explanation
Indices: 23360546--23360613 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
23360536 ACAAACAATG
*
23360546 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23360594 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
23360614 GCAATGATAG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23361259 original size:3 final size:3
Alignment explanation
Indices: 23361251--23361290 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
23361241 ATATATTAGG
23361251 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23361291 GTAAAATCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23362242 original size:26 final size:26
Alignment explanation
Indices: 23362197--23362268 Score: 117
Period size: 26 Copynumber: 2.7 Consensus size: 26
23362187 ACCAAAAAAA
23362197 AACTTTCCTTTTTTTTATTCCATTACC
1 AACTTTCC-TTTTTTTATTCCATTACC
23362224 AACTTTCCTTTTTTTATTCCATTACC
1 AACTTTCCTTTTTTTATTCCATTACC
*
23362250 AACTTTCCCCTTTTTTATT
1 AACTTT-CCTTTTTTTATT
23362269 TTTTATTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
26 24 0.56
27 19 0.44
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (26 bp):
AACTTTCCTTTTTTTATTCCATTACC
Found at i:23363594 original size:89 final size:89
Alignment explanation
Indices: 23363479--23363653 Score: 291
Period size: 89 Copynumber: 2.0 Consensus size: 89
23363469 AAGACTAGTG
* *
23363479 ATTTTCAGCCTATTACCCTATCGCTTAGGGGGTTAAGGCTTGGTGGCTTGAATCTGCTTCACTGC
1 ATTTTCAGCCTATTACCCTATCGCTTAGGGGATTAAGGCTTGGTGGCTTGAATCTACTTCACTGC
23363544 AACTTCA-AGAAGGCAAGATTTGTA
66 AACTTCAGA-AAGGCAAGATTTGTA
*
23363568 ATTTTCAGCCTATTACCCTAAT-GCTTAGGGGATTAAGGCTTGGTGGCTTGAATCTATTTCACTG
1 ATTTTCAGCCTATTACCCT-ATCGCTTAGGGGATTAAGGCTTGGTGGCTTGAATCTACTTCACTG
23363632 CAACTTCAGAAAGGCAAGATTT
65 CAACTTCAGAAAGGCAAGATTT
23363654 ACCGTTTTCG
Statistics
Matches: 81, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
89 78 0.96
90 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (89 bp):
ATTTTCAGCCTATTACCCTATCGCTTAGGGGATTAAGGCTTGGTGGCTTGAATCTACTTCACTGC
AACTTCAGAAAGGCAAGATTTGTA
Found at i:23363740 original size:41 final size:42
Alignment explanation
Indices: 23363657--23363741 Score: 100
Period size: 41 Copynumber: 2.0 Consensus size: 42
23363647 AAGATTTACC
* * *
23363657 GTTTTCGATCTGTTCCACTGCAACTTTAGGGAGACAAAATCT
1 GTTTTCGATCTGCTCCACTGCAACTTCAGAGAGACAAAATCT
* * * *
23363699 GTTTT-GATCTGCTCTACTGCAACTTCAGATAGATAAGATCT
1 GTTTTCGATCTGCTCCACTGCAACTTCAGAGAGACAAAATCT
23363740 GT
1 GT
23363742 AATTTAGCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 31 0.86
42 5 0.14
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (42 bp):
GTTTTCGATCTGCTCCACTGCAACTTCAGAGAGACAAAATCT
Found at i:23363766 original size:90 final size:89
Alignment explanation
Indices: 23363664--23364046 Score: 289
Period size: 90 Copynumber: 4.3 Consensus size: 89
23363654 ACCGTTTTCG
*
23363664 ATCTGTTCCACTGCAACTTTAGGGAGACAAAAT-CTGTTTTGATCTGCTCTACTGCAACTTCAGA
1 ATCTGTTCCACTGCAACTTCAGGGAGACAAAATGCTGTTTTGATCTGCTCTACTGCAACTTCAGA
* *
23363728 TAGATAAGATCTGTAATTTAGCTTCA
66 GAGACAAGATCTGTAATTT--CTTCA
* * * * *
23363754 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCTGCTCCACTGCAA-TAT
1 ATCTGTTCCACTGCAACTTCAGGGAGACAA-A-ATGCTGT-TTTGATCTGCTCTACTGCAACT-T
* * **
23363818 CAGGGAAACAAGATCTACAA--TCTTCA
62 CAGAGAGACAAGATCTGTAATTTCTTCA
** ** * * ** ** * * ** * *
23363844 GCCTACTCCACTACAACTTTAGGGAGTTAGGATGGTGGCTTAAATCTACT-TCACTGCAACTTTA
1 ATCTGTTCCACTGCAACTTCAGGGAGACAAAATGCT-GTTTTGATCTGCTCT-ACTGCAACTTCA
* ***
23363908 G-GAAGGCAAGAT-T-TACCGTCTTCA
64 GAG-AGACAAGATCTGTAATTTCTTCA
* *
23363932 ATCAGTTCCACTGCAACTTCAGGGAGACAAGAT-CTGTTTTGATCTGCTCTACTGCAACTTCAGA
1 ATCTGTTCCACTGCAACTTCAGGGAGACAAAATGCTGTTTTGATCTGCTCTACTGCAACTTCAGA
*
23363996 GAGATAAGATCTGTAATTTAGCTTCA
66 GAGACAAGATCTGTAATTT--CTTCA
23364022 ATCTGTTCCACTGCAACTTCAGGGA
1 ATCTGTTCCACTGCAACTTCAGGGA
23364047 AATAAGATTT
Statistics
Matches: 219, Mismatches: 57, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
86 29 0.13
87 6 0.03
88 60 0.27
89 1 0.00
90 82 0.37
91 1 0.00
92 2 0.01
93 4 0.02
94 34 0.16
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (89 bp):
ATCTGTTCCACTGCAACTTCAGGGAGACAAAATGCTGTTTTGATCTGCTCTACTGCAACTTCAGA
GAGACAAGATCTGTAATTTCTTCA
Found at i:23363925 original size:268 final size:268
Alignment explanation
Indices: 23363608--23364236 Score: 1044
Period size: 268 Copynumber: 2.3 Consensus size: 268
23363598 GATTAAGGCT
* * * *
23363608 TGGTGGCTTGAATCTATTTCACTGCAACTTCAGAAAGGCAAGATTTACCGTTTTCGATCTGTTCC
1 TGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
* *
23363673 ACTGCAACTTTAGGGAGACAAAATCTGTTTTGATCTGCTCTACTGCAACTTCAGATAGATAAGAT
66 ACTGCAACTTCAGGGAGACAAAATCTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
23363738 CTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCT
131 CTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCT
23363803 GCTCCACTGCAATATCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
196 GCTCCACTGCAATATCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
*
23363868 AGTTAGGA
261 AGCTAGGA
* * *
23363876 TGGTGGCTTAAATCTACTTCACTGCAACTTTAGGAAGGCAAGATTTACCGTCTTCAATCAGTTCC
1 TGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
*
23363941 ACTGCAACTTCAGGGAGACAAGATCTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
66 ACTGCAACTTCAGGGAGACAAAATCTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
23364006 CTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCT
131 CTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCT
* *
23364071 GCTCCACTGTAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
196 GCTCCACTGCAATATCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
23364136 AGCTAGGA
261 AGCTAGGA
* * * * ** *
23364144 TGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCTCC
1 TGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
* *
23364209 ACTGCAA-TCTCAGGGAAACAAGATCTGT
66 ACTGCAACT-TCAGGGAGACAAAATCTGT
23364237 AGAATTGATC
Statistics
Matches: 336, Mismatches: 24, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
267 1 0.00
268 335 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (268 bp):
TGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
ACTGCAACTTCAGGGAGACAAAATCTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
CTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCT
GCTCCACTGCAATATCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
AGCTAGGA
Found at i:23363943 original size:133 final size:132
Alignment explanation
Indices: 23363748--23364234 Score: 439
Period size: 133 Copynumber: 3.6 Consensus size: 132
23363738 CTGTAATTTA
* * * ** * *
23363748 GCTTCAATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTTGCTATATTTGATCTGCTCCACTG
1 GCTTAAATCTCTT-CACTGCAACTTCA-GGAAGACAAGATTTGCCGTCTTCGATCTGCTCCACTG
* *
23363812 CAATATCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGTTAGGAT
64 CAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGAT
23363877 GGTG
129 GGTG
* * * * * *
23363881 GCTTAAATCTACTTCACTGCAACTTTAGGAAGGCAAGATTTACCGTCTTCAATCAGTTCCACTGC
1 GCTTAAATCT-CTTCACTGCAACTTCAGGAAGACAAGATTTGCCGTCTTCGATCTGCTCCACTGC
* * * * * * * * * * *
23363946 AA-CTTCAGGGAGACAAGATCT---GTTTTGA-TCTGCTCTACTGCAACTTCAGAGAGATAAGAT
65 AATC-TCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGA-
* *
23364006 CTGTAATTTA
128 -TG----GTG
* * * ** * *
23364016 GCTTCAATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTTGCTATATTTGATCTGCTCCACTG
1 GCTTAAATCTCTT-CACTGCAACTTCA-GGAAGACAAGATTTGCCGTCTTCGATCTGCTCCACTG
* *
23364080 TAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGAT
64 CAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGAT
23364145 GGTG
129 GGTG
* * * *
23364149 GCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCTCCACTGC
1 GCTTAAATCT-CTTCACTGCAACTTCAGGAAGACAAGATTTGCCGTCTTCGATCTGCTCCACTGC
23364214 AATCTCAGGGAAACAAGATCT
65 AATCTCAGGGAAACAAGATCT
23364235 GTAGAATTGA
Statistics
Matches: 268, Mismatches: 68, Indels: 36
0.72 0.18 0.10
Matches are distributed among these distances:
129 23 0.09
130 4 0.01
131 2 0.01
132 8 0.03
133 129 0.48
134 6 0.02
135 62 0.23
136 5 0.02
137 2 0.01
138 4 0.01
139 23 0.09
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
GCTTAAATCTCTTCACTGCAACTTCAGGAAGACAAGATTTGCCGTCTTCGATCTGCTCCACTGCA
ATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGG
TG
Found at i:23364111 original size:90 final size:90
Alignment explanation
Indices: 23363749--23364111 Score: 307
Period size: 90 Copynumber: 4.1 Consensus size: 90
23363739 TGTAATTTAG
23363749 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCTGCTCCACTGCA
23363814 A-TATCAGGGAAACAAGATCTACAAT
66 ACT-TCAGGGAAACAAGATCTACAAT
** ** * * ** * * * * *
23363839 CTTCAGCCTACTCCACTACAACTTTAGGGAGTTAGGATGGTGGCT-TA---AATCTACTTCACTG
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGAT--TTGCTATATTTGATCTGCTCCACTG
* * * **
23363900 CAACTTTA-GGAAGGCAAGATTTACCGT
64 CAACTTCAGGGAA-ACAAGATCTACAAT
* * * * *
23363927 CTTCAATCAGTTCCACTGCAACTTCAGGGAGACAAGA--T-CTGT-TTTGATCTGCTCTACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCTGCTCCACTGCA
* * * **
23363988 ACTTCAGAGAGATAAGATCTGTAATTT
66 ACTTCAGGGAAACAAGATCTACAA--T
23364015 AGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCTGCTCCACTG
1 --CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCTGCTCCACTG
*
23364080 TAA-TCTCAGGGAAACAAGATCTACAAT
64 CAACT-TCAGGGAAACAAGATCTACAAT
23364107 CTTCA
1 CTTCA
23364112 GCCTACTCCA
Statistics
Matches: 201, Mismatches: 54, Indels: 36
0.69 0.19 0.12
Matches are distributed among these distances:
83 2 0.01
84 1 0.00
86 23 0.11
87 6 0.03
88 54 0.27
89 1 0.00
90 68 0.34
91 2 0.01
92 6 0.03
93 4 0.02
94 34 0.17
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (90 bp):
CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCTGCTCCACTGCA
ACTTCAGGGAAACAAGATCTACAAT
Found at i:23375509 original size:3 final size:3
Alignment explanation
Indices: 23375495--23375550 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
23375485 ACAAACAATG
*
23375495 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23375543 ATA ATA AT
1 ATA ATA AT
23375551 GCAATGATAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23376196 original size:3 final size:3
Alignment explanation
Indices: 23376188--23376260 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
23376178 ATATATTAGG
23376188 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23376236 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
23376261 GTAAAATCGA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23377213 original size:26 final size:26
Alignment explanation
Indices: 23377177--23377244 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
23377167 AAAAAAAACT
*
23377177 TTTCTTTTTTTTATTCCATTACCAAC
1 TTTCCTTTTTTTATTCCATTACCAAC
23377203 TTTCCTTTTTTTATTCCATTACCAAC
1 TTTCCTTTTTTTATTCCATTACCAAC
*
23377229 TTTCCACTTTTTTATT
1 TTTCC-TTTTTTTATT
23377245 TTTTATTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 30 0.77
27 9 0.23
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.59
Consensus pattern (26 bp):
TTTCCTTTTTTTATTCCATTACCAAC
Found at i:23384343 original size:42 final size:42
Alignment explanation
Indices: 23384280--23384382 Score: 170
Period size: 42 Copynumber: 2.5 Consensus size: 42
23384270 TGTGGATACT
* * * *
23384280 CCACAGCTTGTGTGAGTAGTATCGTATAGCTTACATTCCGAC
1 CCACAGCTCGTGTGAGCAGTATCATATAGCTTACATTCCAAC
23384322 CCACAGCTCGTGTGAGCAGTATCATATAGCTTACATTCCAAC
1 CCACAGCTCGTGTGAGCAGTATCATATAGCTTACATTCCAAC
23384364 CCACAGCTCGTGTGAGCAG
1 CCACAGCTCGTGTGAGCAG
23384383 GCCCATTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (42 bp):
CCACAGCTCGTGTGAGCAGTATCATATAGCTTACATTCCAAC
Found at i:23386583 original size:16 final size:16
Alignment explanation
Indices: 23386562--23386596 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23386552 AAACAATTGA
*
23386562 ATTATAGCTCTATTTC
1 ATTATAGCTCTATTCC
*
23386578 ATTATATCTCTATTCC
1 ATTATAGCTCTATTCC
23386594 ATT
1 ATT
23386597 TGCTCCAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:23392805 original size:18 final size:18
Alignment explanation
Indices: 23392779--23392836 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
23392769 GATTGTTTTT
*
23392779 TAATGATATTTTTATTAA
1 TAATAATATTTTTATTAA
*
23392797 TAATAATA-TTTTAATAA
1 TAATAATATTTTTATTAA
23392814 GTAATAATATTTATTAATTAA
1 -TAATAATATTT-TT-ATTAA
23392835 TA
1 TA
23392837 TTATAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 8 0.24
18 15 0.45
19 2 0.06
20 4 0.12
21 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TAATAATATTTTTATTAA
Found at i:23392835 original size:17 final size:17
Alignment explanation
Indices: 23392788--23392836 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
23392778 TTAATGATAT
23392788 TTTTATTAATAATAATA
1 TTTTATTAATAATAATA
*
23392805 TTTTAATAAGTAATAATA
1 TTTTATTAA-TAATAATA
23392823 -TTTATTAATTAATA
1 TTTTATTAA-TAATA
23392837 TTATAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 20 0.71
18 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTTATTAATAATAATA
Found at i:23397729 original size:28 final size:28
Alignment explanation
Indices: 23397692--23397751 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
23397682 CCATATTAAT
23397692 GGGTATAGGAAAAATCTCATAACTTATG
1 GGGTATAGGAAAAATCTCATAACTTATG
* * * *
23397720 GGGTATAGGAAGAGTTTTATAACTTATG
1 GGGTATAGGAAAAATCTCATAACTTATG
23397748 GGGT
1 GGGT
23397752 TGATAATGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (28 bp):
GGGTATAGGAAAAATCTCATAACTTATG
Found at i:23400169 original size:233 final size:234
Alignment explanation
Indices: 23399762--23400225 Score: 894
Period size: 233 Copynumber: 2.0 Consensus size: 234
23399752 TGAGTACTTG
23399762 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
23399827 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
23399892 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
23399957 ATTCCTCGTATGTAGAATTGACAACA-TTTTATACTGTT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
23399995 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
* *
23400060 TACTTATTTGTATGTAATGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGTTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
*
23400125 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTTGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
23400190 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
23400226 CTTCAAACAG
Statistics
Matches: 227, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
233 218 0.96
234 9 0.04
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (234 bp):
GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
Found at i:23404646 original size:13 final size:13
Alignment explanation
Indices: 23404628--23404652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23404618 CTCACTATTA
23404628 AACTCAATAAATG
1 AACTCAATAAATG
23404641 AACTCAATAAAT
1 AACTCAATAAAT
23404653 CAATTAACTA
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:0.56, C:0.16, G:0.04, T:0.24
Consensus pattern (13 bp):
AACTCAATAAATG
Found at i:23404845 original size:21 final size:21
Alignment explanation
Indices: 23404819--23404860 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23404809 ATAACATAAT
23404819 ACTTTTATCATTAGGTTAAGA
1 ACTTTTATCATTAGGTTAAGA
23404840 ACTTTTATCATTAGGTTAAGA
1 ACTTTTATCATTAGGTTAAGA
23404861 GATTGTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (21 bp):
ACTTTTATCATTAGGTTAAGA
Found at i:23406541 original size:107 final size:107
Alignment explanation
Indices: 23406352--23406565 Score: 358
Period size: 107 Copynumber: 2.0 Consensus size: 107
23406342 TATCTGTTGA
* *
23406352 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAGAAAGGCTAACTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACTAACTTAATATGTACTTAAAA
*
23406417 CAACTTTCCCTATGCTAAATACTTTGATTTAAACAATGATAC
66 CAACTTTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
* *
23406459 AATGCATGCAAAAGGGAAGGGAAAAGAGAGATATATAAAAAGACTAAGTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACTAACTTAATATGTACTTAAAA
*
23406524 CAACTCTT-CTTAAGCTAAATACTTTGATTTAAACAATGATAC
66 CAACT-TTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
23406566 GGGTTATTGC
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
107 98 0.98
108 2 0.02
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (107 bp):
AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACTAACTTAATATGTACTTAAAA
CAACTTTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
Found at i:23407322 original size:2 final size:2
Alignment explanation
Indices: 23407317--23407350 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
23407307 TATACTCTTG
23407317 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23407351 TTGCTAAGCG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23411987 original size:42 final size:43
Alignment explanation
Indices: 23411886--23412002 Score: 152
Period size: 41 Copynumber: 2.8 Consensus size: 43
23411876 TATAAAACAT
* *
23411886 CGGCA-CAAAGCCTGCTAGGTAATAAACCTGAT-TCAATACAC
1 CGGCATCAAAGCCTGCTAGGCAATAAGCCTGATATCAATACAC
** *
23411927 TAGCAT-AAAGCCTGCTAGGCAATAAGCTTGATATC-ATACAC
1 CGGCATCAAAGCCTGCTAGGCAATAAGCCTGATATCAATACAC
*
23411968 CGGCATCAAAGCCTACTAGGCAATAAGCCTGATAT
1 CGGCATCAAAGCCTGCTAGGCAATAAGCCTGATAT
23412003 ATCACTGTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 36 0.56
42 28 0.44
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (43 bp):
CGGCATCAAAGCCTGCTAGGCAATAAGCCTGATATCAATACAC
Found at i:23415809 original size:23 final size:23
Alignment explanation
Indices: 23415783--23415833 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
23415773 GTATTGATGA
*
23415783 TGAAT-CGAAATGAGATTATGAAT
1 TGAATGCGAAATGACA-TATGAAT
* *
23415806 TGAATGTGAAATTACATATGAAT
1 TGAATGCGAAATGACATATGAAT
23415829 TGAAT
1 TGAAT
23415834 ATAGTTGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (23 bp):
TGAATGCGAAATGACATATGAAT
Found at i:23418114 original size:22 final size:21
Alignment explanation
Indices: 23418074--23418115 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
23418064 GTAAAAATCA
23418074 AAATAAAAAAATGAAGAAGAG
1 AAATAAAAAAATGAAGAAGAG
23418095 AAATAGAAGAAAA-GAAGAAGA
1 AAATA-AA-AAAATGAAGAAGA
23418116 AAAAAGGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (21 bp):
AAATAAAAAAATGAAGAAGAG
Found at i:23423201 original size:46 final size:46
Alignment explanation
Indices: 23423151--23423323 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
23423141 TGGTTGAGCA
*
23423151 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
23423197 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
23423244 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
23423290 CCCGAGCTCATTGAGTTTAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
23423324 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.56
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:23423312 original size:93 final size:93
Alignment explanation
Indices: 23423148--23423318 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
23423138 GGATGGTTGA
* * *
23423148 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
23423213 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
23423241 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
*
23423306 TTAGTCCGAGTTC
66 TGAGTCCGAGTTC
23423319 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23423585 original size:19 final size:20
Alignment explanation
Indices: 23423548--23423585 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23423538 ATAAGGTGGT
23423548 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
23423568 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
23423586 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:23428223 original size:40 final size:40
Alignment explanation
Indices: 23428159--23428272 Score: 138
Period size: 40 Copynumber: 2.9 Consensus size: 40
23428149 AAGAAAATGA
* *
23428159 CCTTGAATGCACATACGTGACCCTGTTTGGACTTTGGTAC
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
* *
23428199 CCTTAAATGCACATACGTGCCCCTGCTTAGACTTTGGTAC
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
** * * * *
23428239 TTTTAAATGTACATAAGTGCCCCTATTTGTACTT
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTT
23428273 CAGTATCTCT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (40 bp):
CCTTAAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
Found at i:23433322 original size:26 final size:26
Alignment explanation
Indices: 23433286--23433341 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
23433276 TGATATAAAT
23433286 TGATAACGGGTTAGGTAAATGTTCCA
1 TGATAACGGGTTAGGTAAATGTTCCA
*
23433312 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAACGGGTTAGGTAAATGTTCCA
23433338 TGAT
1 TGAT
23433342 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (26 bp):
TGATAACGGGTTAGGTAAATGTTCCA
Found at i:23434938 original size:27 final size:27
Alignment explanation
Indices: 23434899--23434984 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
23434889 GGAAGCGTCT
*
23434899 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
*
23434926 TGGTGGCTCTGCCAC-ATATATCTGTTC
1 TGGTGGCTCTGCCACAAT-TATCTGATC
* *
23434953 TGGTGGCTCCGCTACAA-TATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
23434980 TGGTG
1 TGGTG
23434985 ACTTCGTCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
26 8 0.16
27 42 0.82
28 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:23434996 original size:27 final size:26
Alignment explanation
Indices: 23434911--23435002 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 26
23434901 GTGGCTATGC
23434911 CACAATTATCTG-ATCTGGTGGC-TCTG
1 CACAA-TATCTGTATCTGGTGGCTTC-G
*
23434937 CCACATATATCTGT-TCTGGTGGCTCCG
1 -CACA-ATATCTGTATCTGGTGGCTTCG
*
23434964 CTACAATATCTGTATCTGGTGACTTCG
1 C-ACAATATCTGTATCTGGTGGCTTCG
23434991 TCACAATATCTG
1 -CACAATATCTG
23435003 GCAGCCTCGC
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
26 9 0.16
27 44 0.79
28 3 0.05
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
CACAATATCTGTATCTGGTGGCTTCG
Found at i:23440274 original size:26 final size:26
Alignment explanation
Indices: 23440245--23440352 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
23440235 TGATACAAAT
23440245 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
23440271 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23440297 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23440323 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23440349 TGAT
1 TGAT
23440353 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:23442003 original size:27 final size:25
Alignment explanation
Indices: 23441937--23442093 Score: 149
Period size: 27 Copynumber: 6.0 Consensus size: 25
23441927 AGGAAGCGTC
23441937 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAA-TATCTG-T
*
23441964 -TGGTGGCTCTGCCACATATATCTGT
1 CTGGTGGCTATGCCACA-ATATCTGT
23441989 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAA-TATCTG-T
*
23442017 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACA-ATATCTG-T
*
23442044 CTGGTGGCT-CGCCACAATATCTGCAT
1 CTGGTGGCTATGCCACAATATCTG--T
* *
23442070 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTAT-GCCACAATATCTG
23442094 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
25 8 0.07
26 37 0.33
27 66 0.58
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (25 bp):
CTGGTGGCTATGCCACAATATCTGT
Found at i:23442048 original size:54 final size:54
Alignment explanation
Indices: 23441934--23442075 Score: 236
Period size: 53 Copynumber: 2.7 Consensus size: 54
23441924 TGGAGGAAGC
23441934 GTCCTGGTGGCTATGCCACAATTATCTGAT-TGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
23441987 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
23442041 GTTCTGGTGGCT-CGCCACAA-TATCTGCATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
23442076 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
52 6 0.07
53 45 0.53
54 34 0.40
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:23442087 original size:80 final size:79
Alignment explanation
Indices: 23441937--23442093 Score: 189
Period size: 80 Copynumber: 2.0 Consensus size: 79
23441927 AGGAAGCGTC
*
23441937 CTGGTGGCTATGCCACAATTATCTGATTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTATG
1 CTGGTGGCTATGCCACAATTATCTGATTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATG
23442002 CCACAATTATCTGAT
66 CCACAA-TATCTGAT
* *
23442017 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTC-GCCACA-ATATCTG-CATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGAT-TGGTGGCTCTGCCACATATATCTGTC--CTGGTGAC
*
23442078 T-TCGTCACAATATCTG
62 TAT-GCCACAATATCTG
23442094 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
78 1 0.01
79 16 0.24
80 42 0.62
81 9 0.13
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (79 bp):
CTGGTGGCTATGCCACAATTATCTGATTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATG
CCACAATATCTGAT
Found at i:23450811 original size:35 final size:36
Alignment explanation
Indices: 23450744--23450911 Score: 180
Period size: 35 Copynumber: 4.6 Consensus size: 36
23450734 TCCTCATTGA
*** *
23450744 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTATGGGAT
* **
23450780 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT
*
23450820 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
23450855 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* *
23450890 GATACCATACCTACGTTTCACA
1 AATACCATACCTACATTTCACA
23450912 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
35 73 0.62
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAT
Found at i:23450870 original size:75 final size:73
Alignment explanation
Indices: 23450739--23450911 Score: 201
Period size: 75 Copynumber: 2.4 Consensus size: 73
23450729 GGTTTTCCTC
*** * * **
23450739 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
23450804 TCAGTATGG
65 TCAGTATGG
*
23450813 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
23450877 ACTCAGTATGG
63 ACTCAGTATGG
*
23450888 A-TG--ATACCATACCTACGTTTCACA
1 ATTGAAATACCATACCTACATTTCACA
23450912 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
70 20 0.23
73 2 0.02
74 4 0.05
75 46 0.53
76 15 0.17
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:23455741 original size:63 final size:63
Alignment explanation
Indices: 23455674--23455835 Score: 218
Period size: 63 Copynumber: 2.6 Consensus size: 63
23455664 GTCTAAACTA
* * * * * * * *
23455674 TGTAACGCATTGTTTGGGAACTAGGGTCACATAGGCTGGAGACATGGG-TATGTGTCTAGGCCG
1 TGTAACTCACTGTTTGTGAATTAGGGTCACACAGGCTAGAGACAGGGGCT-TGTGTCTAAGCCG
*
23455737 TGTAACTCACTGTTTGTGAATTAGGGTCACACAGGCTAGAGACAGGGGCTTGTGTCTAAGCTG
1 TGTAACTCACTGTTTGTGAATTAGGGTCACACAGGCTAGAGACAGGGGCTTGTGTCTAAGCCG
*
23455800 TGTAACTTACTGTTTGTGAATTAGGGTCACACAGGC
1 TGTAACTCACTGTTTGTGAATTAGGGTCACACAGGC
23455836 CACAGATACA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 87 0.99
64 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (63 bp):
TGTAACTCACTGTTTGTGAATTAGGGTCACACAGGCTAGAGACAGGGGCTTGTGTCTAAGCCG
Found at i:23455854 original size:63 final size:63
Alignment explanation
Indices: 23455724--23455877 Score: 209
Period size: 63 Copynumber: 2.4 Consensus size: 63
23455714 GACATGGGTA
* * * ** *
23455724 TGTGTCTAGGCCGTGTAACTCACTGTTTGTGAATTAGGGTCACACAGGCTAGAGACAGGGGCT
1 TGTGTCTAGGCCGTGTAACTTACTGTTTGTGAATTAGGGTCACACAGGCCACAGACACAGGCG
* * *
23455787 TGTGTCTAAGCTGTGTAACTTACTGTTTGTGAATTAGGGTCACACAGGCCACAGATACAGGCG
1 TGTGTCTAGGCCGTGTAACTTACTGTTTGTGAATTAGGGTCACACAGGCCACAGACACAGGCG
* *
23455850 TGTGTCTAGGCCGTATAACTTATTGTTT
1 TGTGTCTAGGCCGTGTAACTTACTGTTT
23455878 TGGGAATTTG
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 78 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (63 bp):
TGTGTCTAGGCCGTGTAACTTACTGTTTGTGAATTAGGGTCACACAGGCCACAGACACAGGCG
Found at i:23457760 original size:14 final size:15
Alignment explanation
Indices: 23457741--23457770 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23457731 CCTTCTAAAT
23457741 CAAGTT-TGTGGAGG
1 CAAGTTATGTGGAGG
23457755 CAAGTTATGTGGAGG
1 CAAGTTATGTGGAGG
23457770 C
1 C
23457771 TTATAGACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.23, C:0.10, G:0.40, T:0.27
Consensus pattern (15 bp):
CAAGTTATGTGGAGG
Found at i:23462631 original size:63 final size:63
Alignment explanation
Indices: 23462513--23462684 Score: 202
Period size: 63 Copynumber: 2.7 Consensus size: 63
23462503 GTGGCAAGTT
* * * * *
23462513 GTGTAACTTACTGTTTTAGATTTAGGGTTACACATGCTAGGGACACTAGCATGTGTCCAAACC
1 GTGTAACTTACTGTTTGAGAATTAGGGTCACACAAGCTAGAGACACTAGCATGTGTCCAAACC
* * * * *
23462576 GTGTAACTTACTGTTTGAGAATTAGGGTCACACAAGCTAGAGACA-TGGGCGTGTGTCTAGACT
1 GTGTAACTTACTGTTTGAGAATTAGGGTCACACAAGCTAGAGACACT-AGCATGTGTCCAAACC
* * * *
23462639 GTGTAACTCACTGTTTGAAAATTAAGGTCACACAAGCTAGAAACAC
1 GTGTAACTTACTGTTTGAGAATTAGGGTCACACAAGCTAGAGACAC
23462685 GAACGTGCCT
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
62 1 0.01
63 92 0.99
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (63 bp):
GTGTAACTTACTGTTTGAGAATTAGGGTCACACAAGCTAGAGACACTAGCATGTGTCCAAACC
Found at i:23462725 original size:62 final size:62
Alignment explanation
Indices: 23462576--23462796 Score: 226
Period size: 63 Copynumber: 3.5 Consensus size: 62
23462566 TGTCCAAACC
* * ** *
23462576 GTGTAACTTACTGTTTGAGAATTAGGGTCACACAAGCTAGAGACATGGGCGTGTGTCTAGACT
1 GTGTAACTCACTGTTTGAGAATTAAGGTCACACAAGCTAGAGACATGAACGTGTGTC-AGGCT
* * * ** *
23462639 GTGTAACTCACTGTTTGAAAATTAAGGTCACACAAGCTAGAAACACGAACGTGCCTCAGGCC
1 GTGTAACTCACTGTTTGAGAATTAAGGTCACACAAGCTAGAGACATGAACGTGTGTCAGGCT
* * * * ***
23462701 ATGTAACTCATTGTTTGTGAATTAAGGTTACATGGGCTAGAGACATGAACGTGTGTCCAGGCT
1 GTGTAACTCACTGTTTGAGAATTAAGGTCACACAAGCTAGAGACATGAACGTGTGT-CAGGCT
* ** *
23462764 GTGTATCTCACTGTTTTTGAATTAGGGTCACAC
1 GTGTAACTCACTGTTTGAGAATTAAGGTCACAC
23462797 GGGCGTGTGT
Statistics
Matches: 126, Mismatches: 31, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
62 47 0.37
63 79 0.63
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (62 bp):
GTGTAACTCACTGTTTGAGAATTAAGGTCACACAAGCTAGAGACATGAACGTGTGTCAGGCT
Found at i:23470802 original size:19 final size:21
Alignment explanation
Indices: 23470760--23470803 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
23470750 TTACCCCAAA
* *
23470760 CTCCTAAACCTCTTTACTTTC
1 CTCCTAAAACTCTTTACTTCC
23470781 CTCCTAAAACT-TTTAC-TCC
1 CTCCTAAAACTCTTTACTTCC
23470800 CTCC
1 CTCC
23470804 CACTTTCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 5 0.24
21 10 0.48
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (21 bp):
CTCCTAAAACTCTTTACTTCC
Found at i:23470809 original size:30 final size:31
Alignment explanation
Indices: 23470775--23470836 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
23470765 AAACCTCTTT
* *
23470775 ACTTTCCTCCTAAAACTTTTACTC-CCTCCC
1 ACTTTCCCCCCAAAACTTTTACTCTCCTCCC
* *
23470805 ACTTTCCCCCCATAACTTTTGCTCTCCTCCC
1 ACTTTCCCCCCAAAACTTTTACTCTCCTCCC
23470836 A
1 A
23470837 TCCTACCCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.18, C:0.45, G:0.02, T:0.35
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCTCCTCCC
Found at i:23472548 original size:23 final size:23
Alignment explanation
Indices: 23472516--23472567 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
23472506 TATGTTGTGT
23472516 CGTGACAAGGAACCCCCTCACCG
1 CGTGACAAGGAACCCCCTCACCG
* *
23472539 CGTGATAAGGAACCCCCTCATCG
1 CGTGACAAGGAACCCCCTCACCG
23472562 CGTGAC
1 CGTGAC
23472568 GTCAACCCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.38, G:0.23, T:0.13
Consensus pattern (23 bp):
CGTGACAAGGAACCCCCTCACCG
Found at i:23475936 original size:13 final size:13
Alignment explanation
Indices: 23475918--23475945 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23475908 AAAAAAGAAA
23475918 ACCATATCAATTC
1 ACCATATCAATTC
23475931 ACCATATCAATTC
1 ACCATATCAATTC
23475944 AC
1 AC
23475946 TAGTTGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (13 bp):
ACCATATCAATTC
Found at i:23476881 original size:16 final size:15
Alignment explanation
Indices: 23476860--23476889 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23476850 TTATTTAATG
23476860 GAGAGAAAGGAAGAGA
1 GAGAGAAA-GAAGAGA
23476876 GAGAGAAAGAAGAG
1 GAGAGAAAGAAGAG
23476890 TTCGGACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (15 bp):
GAGAGAAAGAAGAGA
Found at i:23479565 original size:18 final size:18
Alignment explanation
Indices: 23479509--23479568 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
23479499 TAAAATTTTC
*
23479509 TAATTATTTTTAAATATA
1 TAATTATTTATAAATATA
* **
23479527 T-ATCACCTATTAAAT-TA
1 TAATTATTTA-TAAATATA
23479544 TAATTATTTATAAATATA
1 TAATTATTTATAAATATA
23479562 TAATTAT
1 TAATTAT
23479569 CATAACTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
17 12 0.38
18 20 0.62
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTATTTATAAATATA
Found at i:23479708 original size:24 final size:24
Alignment explanation
Indices: 23479678--23479731 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
23479668 AACCCATCAG
23479678 ACCCACTTA-AACCCAAACACCAAA
1 ACCCAC-TAGAACCCAAACACCAAA
* *
23479702 ACCCACTAGTAGCCCAAACACTAAA
1 ACCCACTAG-AACCCAAACACCAAA
23479727 ACCCA
1 ACCCA
23479732 AAATCAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 2 0.08
24 6 0.23
25 18 0.69
ACGTcount: A:0.46, C:0.41, G:0.04, T:0.09
Consensus pattern (24 bp):
ACCCACTAGAACCCAAACACCAAA
Found at i:23480176 original size:19 final size:19
Alignment explanation
Indices: 23480152--23480190 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23480142 TACGGATACA
23480152 TAGATTTTTCTTTTATTGT
1 TAGATTTTTCTTTTATTGT
23480171 TAGATTTTTCTTTTATTGT
1 TAGATTTTTCTTTTATTGT
23480190 T
1 T
23480191 CTTTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.69
Consensus pattern (19 bp):
TAGATTTTTCTTTTATTGT
Found at i:23480209 original size:11 final size:11
Alignment explanation
Indices: 23480195--23480229 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
23480185 ATTGTTCTTT
*
23480195 AAAAATACATA
1 AAAAATACAAA
23480206 AAAAATACAAA
1 AAAAATACAAA
23480217 AAAAATA-AAA
1 AAAAATACAAA
23480227 AAA
1 AAA
23480230 TACACCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 6 0.26
11 17 0.74
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAAATACAAA
Found at i:23480863 original size:24 final size:25
Alignment explanation
Indices: 23480836--23480890 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
23480826 TTTATTATCA
23480836 ATATTTTGTTAT-TATTAT-TATATT
1 ATATTTTGTTATATA-TATGTATATT
*
23480860 ATATTTAGTTATATATATGTATATT
1 ATATTTTGTTATATATATGTATATT
23480885 -TATTTT
1 ATATTTT
23480891 AAAATGTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (25 bp):
ATATTTTGTTATATATATGTATATT
Found at i:23480884 original size:20 final size:18
Alignment explanation
Indices: 23480850--23480886 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
23480840 TTTGTTATTA
23480850 TTATTATATTATATTTAG
1 TTATTATATTATATTTAG
23480868 TTATATATATGTATATTTA
1 TTAT-TATAT-TATATTTA
23480887 TTTTAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTATTATATTATATTTAG
Found at i:23480955 original size:15 final size:14
Alignment explanation
Indices: 23480932--23480961 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
23480922 ATATGTATGT
23480932 TTTTATTATTATTA
1 TTTTATTATTATTA
23480946 TTTTATTTATTATTA
1 TTTTA-TTATTATTA
23480961 T
1 T
23480962 ACTATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:23481350 original size:31 final size:31
Alignment explanation
Indices: 23481263--23481353 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
23481253 TGATCTATGT
*
23481263 AAATTA-A-ATTAAATAAAAATTTCATGTATA
1 AAATTACACATTAAATAAAAA-TTCATATATA
* * *
23481293 AAATTACACA--AAATTAAAATTTATATATG
1 AAATTACACATTAAATAAAAATTCATATATA
* *
23481322 ACATTACACATTAAATCAAAATTCATATATA
1 AAATTACACATTAAATAAAAATTCATATATA
23481353 A
1 A
23481354 TTTTAATATT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
29 16 0.33
30 14 0.29
31 18 0.37
32 1 0.02
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (31 bp):
AAATTACACATTAAATAAAAATTCATATATA
Found at i:23485132 original size:13 final size:13
Alignment explanation
Indices: 23485114--23485138 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23485104 TTTTTTATCT
23485114 AATTTGATACTTA
1 AATTTGATACTTA
23485127 AATTTGATACTT
1 AATTTGATACTT
23485139 TTTTTAATTT
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:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
AATTTGATACTTA
Found at i:23485587 original size:28 final size:29
Alignment explanation
Indices: 23485543--23485601 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
23485533 ATGGATATTG
23485543 AATAAAAAATATGAATT-T-TAAAACTTAA
1 AATAAAAAATATGAATTATGTAAAA-TTAA
*
23485571 AATAAAAGAA-ATTAATTATGTAAAATTAA
1 AATAAAA-AATATGAATTATGTAAAATTAA
23485600 AA
1 AA
23485602 AATTTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 13 0.48
29 9 0.33
30 5 0.19
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (29 bp):
AATAAAAAATATGAATTATGTAAAATTAA
Found at i:23488138 original size:15 final size:15
Alignment explanation
Indices: 23488118--23488171 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
23488108 ATACTACAGA
23488118 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
23488133 ATATTTATAATTTTAAT
1 ATATTTAT--TATTAAT
*
23488150 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
23488167 ATATT
1 ATATT
23488172 AATATTGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 13 0.41
17 11 0.34
19 8 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:23488169 original size:19 final size:17
Alignment explanation
Indices: 23488117--23488165 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
23488107 TATACTACAG
23488117 AATATTTATTATTAAT-
1 AATATTTATTATTAATA
*
23488133 -ATATTTATAATTTTAATA
1 AATATTTAT--TATTAATA
23488151 AATATTTATTATTAA
1 AATATTTATTATTAA
23488166 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 8 0.30
17 11 0.41
19 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATATTTATTATTAATA
Found at i:23488391 original size:17 final size:18
Alignment explanation
Indices: 23488356--23488395 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
23488346 ATTTTATATT
23488356 AATATTTTAATAAATTTA
1 AATATTTTAATAAATTTA
*
23488374 AATATTTTTAA-AAATTAA
1 AATA-TTTTAATAAATTTA
23488392 AATA
1 AATA
23488396 AATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATATTTTAATAAATTTA
Found at i:23490461 original size:20 final size:21
Alignment explanation
Indices: 23490419--23490461 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
23490409 CAAACTTTCG
* *
23490419 TTTTAAATTCAATTTGGTCCT
1 TTTTAAATTCAATTTGCTACT
*
23490440 TTTTAAATT-ATTTTGCTACT
1 TTTTAAATTCAATTTGCTACT
23490460 TT
1 TT
23490462 ATCATTTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTTAAATTCAATTTGCTACT
Found at i:23490597 original size:28 final size:25
Alignment explanation
Indices: 23490519--23490583 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 25
23490509 TTATTATTGT
23490519 ATTCATTATTATTATATGTTACTATTAC
1 ATTCATT-TT-TT-TATGTTACTATTAC
23490547 ATTCATTTTTTTATGTTACTATTAC
1 ATTCATTTTTTTATGTTACTATTAC
23490572 ATTCATTTTTTT
1 ATTCATTTTTTT
23490584 TTACTTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
25 26 0.70
26 2 0.05
27 2 0.05
28 7 0.19
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.60
Consensus pattern (25 bp):
ATTCATTTTTTTATGTTACTATTAC
Found at i:23490728 original size:3 final size:3
Alignment explanation
Indices: 23490657--23490708 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
23490647 CCCTTTTCCC
23490657 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23490705 TAT T
1 TAT T
23490709 TTCTATTTCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23502937 original size:177 final size:177
Alignment explanation
Indices: 23502638--23503298 Score: 991
Period size: 177 Copynumber: 3.7 Consensus size: 177
23502628 ATGGATTGAA
* * * * *
23502638 AAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAACAGATCGAAAACGGCGAATCTTATCTT
1 AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTC
* * * *
23502703 CATGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTTTCTCCCTGAAGTTGCAGTGGAGCTG
66 CATGTATCGGCAATGGAGCAGATTTAAGCCACCAACCTTGTCTCCCTAAAGTTGCAGTGGAGCAG
*
23502768 GTTCAAGATACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCCGACT
131 GTTCAAGATACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT
* * * *
23502815 AAAAATTGCATATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGCGAATCTTATCTT
1 AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTC
* *
23502880 CATGTATCAGCAATGGAGCAGATTTAAGCCACCAACCTTGTCTCCCTAAAATTGCAGTGGAGCAG
66 CATGTATCGGCAATGGAGCAGATTTAAGCCACCAACCTTGTCTCCCTAAAGTTGCAGTGGAGCAG
*
23502945 GTTCAAGATACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAAACT
131 GTTCAAGATACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT
* * * *
23502992 AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGACGAATTTTATCTC
1 AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTC
*
23503057 CATGTATCGGCAATGGAGCAGATTTAAGCCACCAACCTTGTCTCCCTAAAGTTGTAGTGGAGCAG
66 CATGTATCGGCAATGGAGCAGATTTAAGCCACCAACCTTGTCTCCCTAAAGTTGCAGTGGAGCAG
*
23503122 GTTCAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
131 GTTCAAGATACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT
* * * *
23503169 AATAATTGTATATTTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCGAATCTTATCTC
1 AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTC
* * * * * * * *
23503234 CATGTAGCGGCAATGAAACAGATTTAAGCCA-CAAGTCTTATTTCCCTGAAGTTGCAATGGAGCA
66 CATGTATCGGCAATGGAGCAGATTTAAGCCACCAA-CCTTGTCTCCCTAAAGTTGCAGTGGAGCA
23503298 G
130 G
23503299 AATGAAGATA
Statistics
Matches: 438, Mismatches: 45, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
176 3 0.01
177 435 0.99
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (177 bp):
AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTC
CATGTATCGGCAATGGAGCAGATTTAAGCCACCAACCTTGTCTCCCTAAAGTTGCAGTGGAGCAG
GTTCAAGATACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT
Found at i:23503074 original size:89 final size:88
Alignment explanation
Indices: 23502638--23503248 Score: 276
Period size: 88 Copynumber: 6.9 Consensus size: 88
23502628 ATGGATTGAA
* * * * * * *
23502638 AAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAACAGATCGAAAACGGCGAATCTTATCTT
1 AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGATGACGAATCTTATCTC
*
23502703 CATGTATCGGCAATGGAGCAGATT
65 CATGTATCGGCAATGGAGCAGACT
* ****** ** * ** * * *
23502727 TAAGCCACCA-GCCTTTTCTCCCTGAAGTTGCAGTGGAGCTGGTTCAAGAT-AC-AAGTCTTATC
1 AAAAATTGTATATCTTATCTCCCT-AAGCAGTAGTGGAGC-AGATCAAGATGACGAA-TCTTATC
* * * * *
23502789 TCCTTGAAGT-TGCAGTGGAGCCGACT
63 TCCATGTA-TCGGCAATGGAGCAGACT
* * * * * *
23502815 AAAAATTGCATATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGCGAATCTTATCTT
1 AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGATGACGAATCTTATCTC
* *
23502880 CATGTATCAGCAATGGAGCAGATT
65 CATGTATCGGCAATGGAGCAGACT
* ****** * * * * *
23502904 TAAGCCACCA-ACCTTGTCTCCCTAA-AATTGCAGTGGAGCAGGTTCAAGAT-AC-AAGTCTTAT
1 AAAAATTGTATATCTTATCTCCCTAAGCA--GTAGTGGAGCA-GATCAAGATGACGAA-TCTTAT
* * * * *
23502965 CTCCTTGAAGT-TGCAGTGGAGCAAACT
62 CTCCATGTA-TCGGCAATGGAGCAGACT
* *
23502992 AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGACGAATTTTATCTC
1 AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGATGACGAATCTTATCTC
*
23503057 CATGTATCGGCAATGGAGCAGATT
65 CATGTATCGGCAATGGAGCAGACT
* ****** * * ** *
23503081 TAAGCCACCA-ACCTTGTCTCCCTAAAGTTGTAGTGGAGCAGGTTCAAGAT-AC-AAGTCTTATC
1 AAAAATTGTATATCTTATCTCCCT-AAGCAGTAGTGGAGCA-GATCAAGATGACGAA-TCTTATC
* * * *
23503143 TCCCTGAAGT-TGCAGTGGAGCAGACT
63 TCCATGTA-TCGGCAATGGAGCAGACT
* * * * *
23503169 AATAATTGTATATTTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCGAATCTTATCTC
1 AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGATGACGAATCTTATCTC
*
23503234 CATGTAGCGGCAATG
65 CATGTATCGGCAATG
23503249 AAACAGATTT
Statistics
Matches: 358, Mismatches: 135, Indels: 58
0.65 0.25 0.11
Matches are distributed among these distances:
87 16 0.04
88 167 0.47
89 159 0.44
90 16 0.04
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (88 bp):
AAAAATTGTATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGATGACGAATCTTATCTCC
ATGTATCGGCAATGGAGCAGACT
Found at i:23503118 original size:44 final size:44
Alignment explanation
Indices: 23503070--23503166 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
23503060 GTATCGGCAA
* * * *
23503070 TGGAGCAGATTTAAGCCACCAA-CCTTGTCTCCCTAAAGTTGTAG
1 TGGAGCAGATTCAAGACA-CAAGCCTTATCTCCCTAAAGTTGCAG
* * * *
23503114 TGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATTCAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
23503158 TGGAGCAGA
1 TGGAGCAGA
23503167 CTAATAATTG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (44 bp):
TGGAGCAGATTCAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
Found at i:23504713 original size:15 final size:15
Alignment explanation
Indices: 23504693--23504732 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
23504683 TTTATTATTC
23504693 TTTTTATTAAAATTA
1 TTTTTATTAAAATTA
* *
23504708 TTTTTACTATAATTA
1 TTTTTATTAAAATTA
*
23504723 TTCTTATTAA
1 TTTTTATTAA
23504733 TATTTTTTCC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTATTAAAATTA
Found at i:23504819 original size:3 final size:3
Alignment explanation
Indices: 23504753--23504799 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
23504743 CCTTTTCCCC
23504753 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
23504800 CCGTATTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:23507505 original size:13 final size:14
Alignment explanation
Indices: 23507481--23507509 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23507471 TTTCTAATCT
23507481 TTATATTTTTTTAA
1 TTATATTTTTTTAA
23507495 TTATA-TTTTTTAA
1 TTATATTTTTTTAA
23507508 TT
1 TT
23507510 TTGAAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATATTTTTTTAA
Found at i:23516338 original size:2 final size:2
Alignment explanation
Indices: 23516331--23516355 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23516321 CCAACATGCA
23516331 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
23516356 TTAAAGCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23521372 original size:50 final size:50
Alignment explanation
Indices: 23521313--23521415 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
23521303 TACAAATATA
23521313 AATCATAGATAAATAAGACACTACAATTTATGTATAAATATTATTTTTGT
1 AATCATAGATAAATAAGACACTACAATTTATGTATAAATATTATTTTTGT
23521363 AATCATAGATAAATAAGACACTACAATTTATGTATAAATATTATTTTTGT
1 AATCATAGATAAATAAGACACTACAATTTATGTATAAATATTATTTTTGT
23521413 AAT
1 AAT
23521416 AAAATTAATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (50 bp):
AATCATAGATAAATAAGACACTACAATTTATGTATAAATATTATTTTTGT
Found at i:23521549 original size:27 final size:27
Alignment explanation
Indices: 23521519--23521572 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
23521509 CATCACATTG
23521519 ATCAAACCAATAAAAATTACATTCTAA
1 ATCAAACCAATAAAAATTACATTCTAA
23521546 ATCAAACCAATAAAAATTACATTCTAA
1 ATCAAACCAATAAAAATTACATTCTAA
23521573 CCTTAGCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (27 bp):
ATCAAACCAATAAAAATTACATTCTAA
Found at i:23527479 original size:48 final size:48
Alignment explanation
Indices: 23527408--23527698 Score: 519
Period size: 48 Copynumber: 6.0 Consensus size: 48
23527398 CAAGATAAAT
23527408 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
23527456 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
23527504 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
23527552 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
23527600 ATATGTATATGTGGTAAACCCGAAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCG-AATGGCTAATGTGAAATATGTATGAG
* *
23527649 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
23527697 AT
1 AT
23527699 GTGTGTATAT
Statistics
Matches: 232, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
48 186 0.80
49 46 0.20
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:23527888 original size:37 final size:37
Alignment explanation
Indices: 23527838--23527978 Score: 264
Period size: 37 Copynumber: 3.8 Consensus size: 37
23527828 TGGAAATATA
23527838 GTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 GTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
23527875 GTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 GTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
*
23527912 GTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
1 GTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
*
23527949 GTCCGGGTAAGACCCGATAACTACGTGTGG
1 GTCCGGGTAAGACCCGATGACTACGTGTGG
23527979 GGACTATTCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (37 bp):
GTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
Found at i:23530893 original size:93 final size:93
Alignment explanation
Indices: 23530780--23530952 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
23530770 CGCCCATAAG
* * *
23530780 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACCCA
23530845 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
23530873 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACCCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACCCA
23530938 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
23530953 CAAATATCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACCCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:23530948 original size:46 final size:46
Alignment explanation
Indices: 23530773--23530948 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
23530763 TGTAACCCGC
* * *
23530773 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
23530819 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
23530869 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
23530912 CCATAAGTGAACTCGGACTCAACCCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
23530949 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:23530967 original size:46 final size:45
Alignment explanation
Indices: 23530824--23530967 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 45
23530814 CGCATCCATA
* *
23530824 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
23530872 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
23530917 AGTGAACTCGGACTCAACCCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
23530963 AGTGA
1 AGTGA
23530968 CATGTCACTT
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 36 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:23534565 original size:26 final size:25
Alignment explanation
Indices: 23534536--23534600 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
23534526 AATCTAAACT
*
23534536 TTTCAAAAGTAATTCTCAAAATCACA
1 TTTCAAAAGTAATTCTCAAAAGCA-A
* * * *
23534562 TTTCCAAAGTACTTTTTAAAAGCAA
1 TTTCAAAAGTAATTCTCAAAAGCAA
23534587 TTCTCAAAAGTAAT
1 TT-TCAAAAGTAAT
23534601 GCTAAACTAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
25 3 0.10
26 28 0.90
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (25 bp):
TTTCAAAAGTAATTCTCAAAAGCAA
Found at i:23535502 original size:12 final size:12
Alignment explanation
Indices: 23535485--23535510 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23535475 TAAAACCTAA
23535485 ATTCTTTTATTT
1 ATTCTTTTATTT
23535497 ATTCTTTTATTT
1 ATTCTTTTATTT
23535509 AT
1 AT
23535511 GTTTTGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTCTTTTATTT
Found at i:23538488 original size:11 final size:11
Alignment explanation
Indices: 23538472--23538496 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23538462 ATATCTAGAA
23538472 TTCTCTTCATT
1 TTCTCTTCATT
23538483 TTCTCTTCATT
1 TTCTCTTCATT
23538494 TTC
1 TTC
23538497 ATCAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:23548499 original size:31 final size:32
Alignment explanation
Indices: 23548411--23548500 Score: 80
Period size: 31 Copynumber: 2.8 Consensus size: 32
23548401 ATATATTTGG
23548411 TAATAATAATA--TAAAATAATAA-TATGTACA
1 TAATAATAATATCTAAAATAA-AAGTATGTACA
*
23548441 TAAATATATATATATGCATATAATAAAAGTATGTA-A
1 T-AATA-ATA-ATAT-C-TAAAATAAAAGTATGTACA
*
23548477 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
23548501 AAAATATTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
30 1 0.02
31 14 0.28
32 4 0.08
33 7 0.14
34 3 0.06
35 4 0.08
36 4 0.08
37 13 0.26
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (32 bp):
TAATAATAATATCTAAAATAAAAGTATGTACA
Found at i:23548749 original size:2 final size:2
Alignment explanation
Indices: 23548698--23548730 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23548688 TGGTATTTAA
*
23548698 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23548731 ATAGTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23548827 original size:23 final size:22
Alignment explanation
Indices: 23548668--23548839 Score: 82
Period size: 24 Copynumber: 7.4 Consensus size: 22
23548658 ATAATTTGTA
* *
23548668 ATAATAATATATACACAATATGGT
1 ATAAAAATATATACATAATA--GT
** *
23548692 ATTTAAATATATATATATATA-T
1 ATAAAAATATATACATA-ATAGT
* * * *
23548714 ATATATATGTATATATAATAGT
1 ATAAAAATATATACATAATAGT
* *
23548736 ATTTAAGAATATATACATAAGA-T
1 A--TAAAAATATATACATAATAGT
*
23548759 GATATAAAATACATACATGGAATAGT
1 -ATA-AAAATATATACAT--AATAGT
*
23548785 ATAAGAAATATATA-ACTAATGGT
1 ATAA-AAATATATACA-TAATAGT
23548808 ATTAAAAATATATACATAATA-T
1 A-TAAAAATATATACATAATAGT
23548830 ATATAAAATA
1 ATA-AAAATA
23548840 CATATAATAT
Statistics
Matches: 114, Mismatches: 20, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
21 5 0.04
22 27 0.24
23 31 0.27
24 32 0.28
25 18 0.16
26 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (22 bp):
ATAAAAATATATACATAATAGT
Found at i:23548830 original size:11 final size:11
Alignment explanation
Indices: 23548814--23548865 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
23548804 TGGTATTAAA
*
23548814 AATATATACAT
1 AATATATATAT
23548825 AATATATATA-
1 AATATATATAT
*
23548835 AA-ATACATAT
1 AATATATATAT
23548845 AATATATATAT
1 AATATATATAT
23548856 -ATATATATAT
1 AATATATATAT
23548866 GTATTAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 6 0.17
10 14 0.39
11 16 0.44
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:23548831 original size:2 final size:2
Alignment explanation
Indices: 23548815--23548865 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
23548805 GGTATTAAAA
* * *
23548815 AT AT AT AC AT A- AT AT AT AT A- AA AT AC AT AT A- 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
23548854 AT AT AT AT AT AT
1 AT AT AT AT AT AT
23548866 GTATTAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:23550790 original size:81 final size:79
Alignment explanation
Indices: 23550565--23551218 Score: 308
Period size: 81 Copynumber: 7.9 Consensus size: 79
23550555 AATAGACATT
* * *
23550565 AAAAACAGAAATTGAAAATAGCTCAGCGAGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAAATAGAAATTGAAAATACCTCAGC-AGTGAGCCAA-GCTCAACTCACCTCTCGCAATATGAG
23550630 TTG-A-TTTTTGAAAA
64 TTGAATTTTTTGAAAA
* * * * * * *
23550644 ATAGAAACTA-AAA-GGCTCAACTCACCTCTTGCAGAAATTA-ACAAGCTCAACTCACCTCTCAC
1 A-A-AAA-TAGAAATTG--AAAAT-ACCTC-AGCAG---TGAGCCAAGCTCAACTCACCTCTCGC
23550706 AATATGAGTTGAATTTTTTGAAAA
56 AATATGAGTTGAATTTTTTGAAAA
* *
23550730 AAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATACCTCAGCA-GTGAGCCAA-GCTCAACTCACCTCTCGCAATATGAG
23550795 TTG-A-TTTTTGAAAA
64 TTGAATTTTTTGAAAA
* * * *
23550809 CAAAATTTTGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAAGCTCAACTCATCTCT
1 -AAAA-----ATAGA-A-A--TTGAAAATACCTCAG-CA-GTGAGCC-AAGCTCAACTCACCTCT
* *
23550873 CGCAATATGTGTTGATTTTTTTGAAAA
53 CGCAATATGAGTTGAATTTTTTGAAAA
* * ** * * **
23550900 ATATAAATTGAAA--AAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTTACAATATG
1 A-A-AAATAGAAATTGAAAATACCTCAG-CAGTGAGC-CAAGCTCAACTCACCTCTCGCAATATG
*
23550963 AGTTGATTTTTTTG----
62 AGTTGAATTTTTTGAAAA
* * * *
23550977 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATACCTCAGC-AGTGAGCCAA-GCTCAACTCACCTCTCGCAATATGAG
* *
23551042 TCGATTTTTTTTGAAAGGCTGA
64 TTGA-ATTTTTTGAAA-----A
* * * *
23551064 AATTGAAAAACGGAAATTGAAAATACCTCAGCATGTGA-CCTGAGGCTCAACTCGCCGCTCGCAA
1 AA---AAATA--GAAATTGAAAATACCTCAGCA-GTGAGCC--AAGCTCAACTCACCTCTCGCAA
* *
23551128 TACGAGTTGATTTTTTTG----
58 TATGAGTTGAATTTTTTGAAAA
* * * * *
23551146 -ACAACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATACCTCAGCAGTGAGCC--AAGCTCAACTCACCTCTCGCAATATGAG
*
23551208 TTGATTTTTTT
64 TTGAATTTTTT
23551219 TTTGAAAGGC
Statistics
Matches: 449, Mismatches: 68, Indels: 121
0.70 0.11 0.19
Matches are distributed among these distances:
74 43 0.10
75 6 0.01
76 22 0.05
77 44 0.10
78 11 0.02
79 13 0.03
80 10 0.02
81 88 0.20
82 10 0.02
83 11 0.02
84 35 0.08
85 10 0.02
86 15 0.03
87 5 0.01
88 1 0.00
89 46 0.10
90 6 0.01
91 21 0.05
92 51 0.11
93 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (79 bp):
AAAAATAGAAATTGAAAATACCTCAGCAGTGAGCCAAGCTCAACTCACCTCTCGCAATATGAGTT
GAATTTTTTGAAAA
Found at i:23551034 original size:247 final size:241
Alignment explanation
Indices: 23550686--23551240 Score: 659
Period size: 250 Copynumber: 2.2 Consensus size: 241
23550676 AGAAATTAAC
* * *
23550686 AAGCTCAACTCACCTCTCACAATATGAGTTGAATTTTTTGAAAAAAAAATAGAAATTGAAAATAG
1 AAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTG----AAAGACAGAAATTGAAAATAG
* *
23550751 CTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAA-AC-AAA
62 CTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAGACTAAA
** * *
23550813 ATTTTGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAAGCTCAACTCATCTCTCGCA
127 A--TTGAAAAACAGAAATTGAAAATACCTCAG-CATGTGACCCGAAGCTCAACTCACCGCTCGCA
* * * * * *
23550877 ATATGTGTTGATTTTTTTGAAAAATATAAATTGAAAAAAAATACCTCAGTGTGTGATCTG
189 ATACGAGTTGATTTTTTTG-AAAACAGAAATTG----AAAATACCTCAGCGTGT--CCTG
*
23550937 AAGCTCAACTCACCTCTTACAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
* * *
23551002 GCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTGAAAGGCTGAAAT
66 GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGA--TTTTTTGAAAGACTAAAAT
* * * *
23551067 TGAAAAACGGAAATTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCGCCGCTCGCAATACG
129 TGAAAAACAGAAATTGAAAATACCTCAGCATGTGACCCGAAGCTCAACTCACCGCTCGCAATACG
* *
23551132 AGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTG
194 AGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
* * *
23551180 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGGCAGAAATTGAAAA
1 AAGCTCAACTCACCTCTCACAATATGAGTTGA---TTTTTTTGAAAGACAGAAATTGAAAA
23551241 CCGGAAATTG
Statistics
Matches: 266, Mismatches: 29, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
243 32 0.12
245 15 0.06
246 25 0.09
247 64 0.24
249 10 0.04
250 77 0.29
251 40 0.15
252 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (241 bp):
AAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAGACTAAAATTG
AAAAACAGAAATTGAAAATACCTCAGCATGTGACCCGAAGCTCAACTCACCGCTCGCAATACGAG
TTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
Found at i:23551140 original size:92 final size:92
Alignment explanation
Indices: 23550974--23551144 Score: 236
Period size: 92 Copynumber: 1.9 Consensus size: 92
23550964 GTTGATTTTT
* * * * *
23550974 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCGCTCGCAATAC
23551039 GAGTCGATTTTTTTTGAAAGGCTGAAA
66 GAGTCGATTTTTTTTGAAAGGCTGAAA
* * * *
23551066 TTGAAAAACGGAAATTGAAAATACCTCAGCATGTGA-CCTGAGGCTCAACTCGCCGCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCC-AAGGCTCAACTCACCGCTCGCAATA
*
23551130 CGAGTTGATTTTTTT
65 CGAGTCGATTTTTTT
23551145 GACAACAGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
91 2 0.03
92 66 0.97
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (92 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCGCTCGCAATAC
GAGTCGATTTTTTTTGAAAGGCTGAAA
Found at i:23551199 original size:74 final size:75
Alignment explanation
Indices: 23551076--23552001 Score: 428
Period size: 77 Copynumber: 11.9 Consensus size: 75
23551066 TTGAAAAACG
*
23551076 GAAATTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCA-GTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
23551141 TTTTGACAACA
65 TTTTGACAACA
* * * *
23551152 GAAATTGAAATTACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGA---T
23551216 TTTTTTGA-AAGGCA
63 TTTTTTGACAA--CA
** * * *
23551230 GAAATTG-AAA-ACCGGA-AATTGAAAATACCTCG-GCGTGTAACCTAAGGCTCAACTCGCCTCT
1 GAAATTGAAAATACCTCAGCAGTG-----ACCT-GAG-G-CT---C-AA--CTC-AC-CG---CT
23551291 CGCAATACGAGTTGATTTTTTTGACAACA
47 CGCAATACGAGTTGATTTTTTTGACAACA
* * * *
23551320 GAAATTGAAATTACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGA---T
23551384 TTTTTTGA-AAGGCA
63 TTTTTTGACAA--CA
*** * * * *
23551398 GAAATTGAAAA-ACGGAAATTGAAAAT-ACCTCGGCATGTGACCTGAGGCTCAACTCGCCTCTCG
1 GAAATTGAAAATAC-CTCA--G-CAGTGACCT--G-A-G-G--CTCA-ACTC-AC-CG---CTCG
* *
23551461 CAATATGAGTTGATTTTTTTTACAACA
49 CAATACGAGTTGATTTTTTTGACAACA
* * * * *
23551488 GAAATT-AAAATTACCTCAGC-GTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTT
1 GAAATTGAAAA-TACCTCAGCAGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGA--T
23551551 TTTTTTGA-AAGGCA
63 TTTTTTGACAA--CA
* * * * ** * * * *
23551565 GAAATTGAAAATACCTTAAC-GTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA--AT
1 GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
23551627 TTTGA-AACA
66 TTTGACAACA
* * * ** * *
23551636 GAAA-TAAAAATTATCTCAGC-GTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAA-TACCTCAGCAGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGA---
* *
23551699 TTTATTTTTGAAAGATA
62 -TT-TTTTTGACA-ACA
* * * * * *
23551716 GAAATTGAAATTACCTTAGC-GTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTT
1 GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
*
23551779 TTTGACAATA
66 TTTGACAACA
* * * * * * * *
23551789 GAAATTGTAATTACCTCAGCA-TGTCCCGTGGCTCAACTCACCTCTCGCAATATGAGTTGATTCT
1 GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
* *
23551853 TTTGAAAAGTA
66 TTTGACAA-CA
* * * * *
23551864 GAAATTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGA--
1 GAAATTGAAAATACCTCAG-CA-GTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATT
23551926 TTTTTGACAAACA
64 TTTTTGAC-AACA
* * * * * *
23551939 GCAATTGAAAATACCTCAGC-GTGCCCTGAGGCTCAACTCACCTCCCACAATATGAGTTGATTT
1 GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
23552002 AAAAAACAGA
Statistics
Matches: 671, Mismatches: 96, Indels: 167
0.72 0.10 0.18
Matches are distributed among these distances:
70 5 0.01
71 46 0.07
73 101 0.15
74 86 0.13
75 47 0.07
76 40 0.06
77 108 0.16
78 35 0.05
79 7 0.01
80 54 0.08
81 13 0.02
82 5 0.01
83 3 0.00
84 2 0.00
85 3 0.00
86 5 0.01
87 9 0.01
88 4 0.01
89 10 0.01
90 22 0.03
91 23 0.03
92 10 0.01
94 33 0.05
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:23551238 original size:168 final size:167
Alignment explanation
Indices: 23550914--23552105 Score: 1149
Period size: 168 Copynumber: 7.5 Consensus size: 167
23550904 AAATTGAAAA
** * * ** *
23550914 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTTACAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
* * * *
23550979 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGT
66 A-ACAGAAATTGAAATTACCTCA--GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
23551043 CGA--TTTTTTTTGAAAGGCTGAAATTGAAAAACGGAAATTG
127 TGATTTTTTTTTTGAAAGGCAGAAATTGAAAAAC-GAAATTG
* * *
23551083 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
23551148 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
23551213 TTTTTTTTTGAAAGGCAGAAATTGAAAACCGGAAATTG
131 TTTTTTTTTGAAAGGCAGAAATTGAAAAAC-GAAATTG
* * * * * *
23551251 AAAATACCTCGGCGTGTAACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
23551316 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
23551381 TTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
131 TTTTTTTTTGAAAGGCAGAAATTGAAAAAC-GAAATTG
* * *
23551419 AAAATACCTCGGCATGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTTAC
1 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
* * *
23551484 AACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGCTGA-
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
23551548 TTTTTTTTTGAAAGGCAGAAATTGAAAATAC---CTT-
131 TTTTTTTTTGAAAGGCAGAAATTGAAAA-ACGAAATTG
* * * * *
23551582 ---A-A---C-G--TGT--CTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA--ATTTTGA-
1 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
** * **
23551632 AACAGAAATAAAAATTATCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
23551697 TTTTTATTTTTG-AA---AG--A-T-----A-GAAATTG
130 TTTTT-TTTTTGAAAGGCAGAAATTGAAAAACGAAATTG
* * * *
23551723 AAATTACCTTAGC--GTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTTGAC
1 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
* * * * *
23551785 AATAGAAATTGTAATTACCTCAGCATGTCCCGTGGCTCAACTCACCTCTCGCAATATGAGTTGA-
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
23551849 --TTCTTTTGAAA---AG----T-----A-GAAATTG
131 TTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAATTG
* * *
23551871 AAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGA--TTTTTGA
1 AAAATACCTCAG-CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * * * *
23551933 CAAACAGCAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCCCACAATATGAGTTG
65 C-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* ** *
23551998 A-------TTTAAAAAACAGACA-T--AAAACAGAAATTG
129 ATTTTTTTTTTGAAAGGCAGAAATTGAAAAAC-GAAATTG
* * * *
23552028 AAAGTGA-CTCAACACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
1 AAAAT-ACCTCAGCATGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
23552091 AAAACAGAAA-TGAAA
64 ACAACAGAAATTGAAA
23552106 CATCCACATA
Statistics
Matches: 891, Mismatches: 87, Indels: 102
0.82 0.08 0.09
Matches are distributed among these distances:
138 1 0.00
140 2 0.00
144 1 0.00
145 2 0.00
146 6 0.01
147 3 0.00
148 81 0.09
149 24 0.03
150 95 0.11
151 70 0.08
152 7 0.01
153 59 0.07
155 2 0.00
156 1 0.00
157 55 0.06
158 10 0.01
159 8 0.01
160 1 0.00
164 2 0.00
165 2 0.00
166 36 0.04
167 28 0.03
168 339 0.38
169 56 0.06
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (167 bp):
AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAATTG
Found at i:23551822 original size:73 final size:73
Alignment explanation
Indices: 23551412--23552001 Score: 562
Period size: 73 Copynumber: 7.9 Consensus size: 73
23551402 TTGAAAAACG
* * * * *
23551412 GAAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAATTACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
*
23551477 TTTTTACAACA
63 TTTTGACAACA
* * * *
23551488 GAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTT
1 GAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TT
23551553 TTTTGA-AAGGCA
63 TTTTGACAA--CA
* * * ** * * * *
23551565 GAAATTGAAAATACCTTAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA-ATTT
1 GAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
23551629 TGA-AACA
66 TGACAACA
** * *
23551636 GAAATAAAAATTATCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----
* *
23551701 TATTTTTGAAAGATA
61 T-TTTTTGACA-ACA
* * *
23551716 GAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 GAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
23551781 TGACAATA
66 TGACAACA
* * *
23551789 GAAATTGTAATTACCTCAGCATGTCCCGTGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTT
1 GAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TT
* *
23551854 TTGAAAAGTA
65 TTGACAA-CA
* * * *
23551864 GAAATTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGA-T
1 GAAATTGAAATTACCTCAG-C--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
23551927 TTTTGACAAACA
63 TTTTGAC-AACA
* * * *
23551939 GCAATTGAAAATACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCCCACAATATGAGTTGATTT
1 GAAATTGAAATTACCTCAGCGTGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
23552002 AAAAAACAGA
Statistics
Matches: 432, Mismatches: 60, Indels: 46
0.80 0.11 0.09
Matches are distributed among these distances:
71 50 0.12
72 3 0.01
73 101 0.23
74 55 0.13
75 45 0.10
76 29 0.07
77 87 0.20
78 6 0.01
79 1 0.00
80 55 0.13
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (73 bp):
GAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TGACAACA
Done.