Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 68 of 211
Found at i:20895380 original size:29 final size:30
Alignment explanation
Indices: 20895323--20895381 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
20895313 GATCATCTCG
*
20895323 TATAGATATCAAAATTATAATATAATATAA
1 TATAGATATCAAAATTATAATACAATATAA
20895353 TATA-ATAT-AAATATTATAA-ACAATTATAA
1 TATAGATATCAAA-ATTATAATACAA-TATAA
20895382 AACATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 6 0.23
29 16 0.62
30 4 0.15
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (30 bp):
TATAGATATCAAAATTATAATACAATATAA
Found at i:20897620 original size:17 final size:18
Alignment explanation
Indices: 20897591--20897625 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20897581 AAATCACACC
*
20897591 ATTAATGTCACAAGTGAA
1 ATTAATGTCACAAATGAA
20897609 ATTAAT-TCACAAATGAA
1 ATTAATGTCACAAATGAA
20897626 TTTCTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
ATTAATGTCACAAATGAA
Found at i:20903969 original size:4 final size:4
Alignment explanation
Indices: 20903960--20903993 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
20903950 AAGTTTTATT
20903960 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
20903994 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:20904001 original size:22 final size:22
Alignment explanation
Indices: 20903943--20904002 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
20903933 AAGTGGCCCA
*
20903943 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
20903967 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
20903988 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
20904003 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:20921098 original size:38 final size:38
Alignment explanation
Indices: 20921002--20921098 Score: 140
Period size: 38 Copynumber: 2.6 Consensus size: 38
20920992 CAGACCCATT
* * *
20921002 TCACAGCTCGTGTGAGCATTGACGGTTACATGATATAG
1 TCACAACTCGTGTGAGCATTTACGGTTACATGATAAAG
* *
20921040 TCACAACTTGTGTAAGCATTTACGGTTACATGATAAAG
1 TCACAACTCGTGTGAGCATTTACGGTTACATGATAAAG
*
20921078 TCACAACTCATGTGAGCATTT
1 TCACAACTCGTGTGAGCATTT
20921099 CCCGAGTATC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (38 bp):
TCACAACTCGTGTGAGCATTTACGGTTACATGATAAAG
Found at i:20922889 original size:31 final size:31
Alignment explanation
Indices: 20922853--20923072 Score: 107
Period size: 31 Copynumber: 7.3 Consensus size: 31
20922843 TTAAGGTAAA
20922853 GCCTTTGTGGCGAGTACTGGATGTAAAGGAT
1 GCCTTTGTGGCGAGTACTGGATGTAAAGGAT
* * ** * * *
20922884 GCCTTTATGGCAAAAAGTTGGA--T-AAGAAA
1 GCCTTTGTGGCGAGTA-CTGGATGTAAAGGAT
* * * *
20922913 GCCTTTGTGGGGAGTACTGGA---CAAGAAA
1 GCCTTTGTGGCGAGTACTGGATGTAAAGGAT
* * *
20922941 GCTTTTGTTGCGAGTACTGGATGTAAAGGTT
1 GCCTTTGTGGCGAGTACTGGATGTAAAGGAT
* ** * * * *
20922972 GCCTTTGTGG-TAAAAAT--TTGAAAAGGAAA
1 GCCTTTGTGGCGAGTACTGGATGTAAAGG-AT
** * * *
20923001 GCCTTTGTGGAAACTACTAGATGTAAAGGTT
1 GCCTTTGTGGCGAGTACTGGATGTAAAGGAT
* *
20923032 GCCTTTGTGTCGAGTATTGGATGTAAAGGAT
1 GCCTTTGTGGCGAGTACTGGATGTAAAGGAT
20923063 GCCTTTGTGG
1 GCCTTTGTGG
20923073 AAAAACTCAG
Statistics
Matches: 134, Mismatches: 46, Indels: 18
0.68 0.23 0.09
Matches are distributed among these distances:
28 35 0.26
29 25 0.19
30 7 0.05
31 56 0.42
32 11 0.08
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.30
Consensus pattern (31 bp):
GCCTTTGTGGCGAGTACTGGATGTAAAGGAT
Found at i:20922938 original size:28 final size:28
Alignment explanation
Indices: 20922902--20922961 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
20922892 GGCAAAAAGT
* *
20922902 TGGATAAGAAAGCCTTTGTGGGGAGTAC
1 TGGACAAGAAAGCCTTTGTGGCGAGTAC
* *
20922930 TGGACAAGAAAGCTTTTGTTGCGAGTAC
1 TGGACAAGAAAGCCTTTGTGGCGAGTAC
20922958 TGGA
1 TGGA
20922962 TGTAAAGGTT
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:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (28 bp):
TGGACAAGAAAGCCTTTGTGGCGAGTAC
Found at i:20923001 original size:88 final size:88
Alignment explanation
Indices: 20922850--20923101 Score: 249
Period size: 88 Copynumber: 2.8 Consensus size: 88
20922840 ATCTTAAGGT
*
20922850 AAAGCCTTTGTGGCGAGTACTGGATGTAAAGGATGCCTTTATGGCAAAAAGTTGGATAAGAAAGC
1 AAAGCCTTTGTGGCGAGTACTGGATGTAAAGGATGCCTTTATGGCAAAAAGTTGGAAAAGAAAGC
20922915 CTTTGTGGGGAGTACTGGACAAG
66 CTTTGTGGGGAGTACTGGACAAG
* * * * * *
20922938 AAAGCTTTTGTTGCGAGTACTGGATGTAAAGGTTGCCTTTGTGGTAAAAA-TTTGAAAAGGAAAG
1 AAAGCCTTTGTGGCGAGTACTGGATGTAAAGGATGCCTTTATGGCAAAAAGTTGGAAAA-GAAAG
** *
20923002 CCTTTGTGGAAACTACTAGATGTA-AAG
65 CCTTTGTGGGGAGTACT-G--G-ACAAG
*** * * * * * * *
20923029 GTTGCCTTTGTGTCGAGTATTGGATGTAAAGGATGCCTTTGTGG-AAAAACTCAGGAAAGGTAAG
1 AAAGCCTTTGTGGCGAGTACTGGATGTAAAGGATGCCTTTATGGCAAAAAGT-TGGAAAAGAAAG
20923093 CCTTTGTGG
65 CCTTTGTGG
20923102 CAACCTCTGT
Statistics
Matches: 135, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
87 6 0.04
88 64 0.47
89 1 0.01
90 5 0.04
91 54 0.40
92 5 0.04
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.29
Consensus pattern (88 bp):
AAAGCCTTTGTGGCGAGTACTGGATGTAAAGGATGCCTTTATGGCAAAAAGTTGGAAAAGAAAGC
CTTTGTGGGGAGTACTGGACAAG
Found at i:20923097 original size:29 final size:28
Alignment explanation
Indices: 20923063--20923152 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 28
20923053 TGTAAAGGAT
20923063 GCCTTTGTGGAAAAACTCAGGAAAGGTAA
1 GCCTTTGTGG-AAAACTCAGGAAAGGTAA
* * * **
20923092 GCCTTTGTGGCAACCTCTGTTTAA-G-AA
1 GCCTTTGTGGAAAACTCAG-GAAAGGTAA
20923119 CGCCTTTGTGGCAAAACTCAGGAAAGGTAA
1 -GCCTTTGTGG-AAAACTCAGGAAAGGTAA
20923149 GCCT
1 GCCT
20923153 ATATGGTGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
27 2 0.04
28 19 0.41
29 23 0.50
30 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (28 bp):
GCCTTTGTGGAAAACTCAGGAAAGGTAA
Found at i:20928804 original size:3 final size:3
Alignment explanation
Indices: 20928796--20928834 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
20928786 ATATGTAGGT
20928796 ATA ATA ATA ATA TATA AT- ATA ATA ATA A-A ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20928835 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 26 0.79
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20928823 original size:11 final size:11
Alignment explanation
Indices: 20928796--20928834 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
20928786 ATATGTAGGT
20928796 ATAATAATAATA
1 ATAAT-ATAATA
20928808 TATAATATAATA
1 -ATAATATAATA
*
20928820 ATAAAATAATA
1 ATAATATAATA
20928831 ATAA
1 ATAA
20928835 CAAAATTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 6 0.24
13 5 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAATATAATA
Found at i:20929095 original size:20 final size:22
Alignment explanation
Indices: 20929056--20929096 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
20929046 CCTTTTTTAA
*
20929056 AATCGTAAATAAGTAAAAAAAT
1 AATCGTAAATAAGAAAAAAAAT
20929078 AATCG-AAA-AAGAAAAAAAA
1 AATCGTAAATAAGAAAAAAAA
20929097 AAGAAAACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (22 bp):
AATCGTAAATAAGAAAAAAAAT
Found at i:20929301 original size:23 final size:22
Alignment explanation
Indices: 20929257--20929315 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
20929247 TAAAGGGTAT
* *
20929257 TTACAAATTAAATC-TCTAAGA
1 TTACAAATCATATCTTCTAAGA
20929278 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
*
20929301 TTACATATCATATCT
1 TTACAAATCATATCT
20929316 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
23 11 0.33
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:20929318 original size:19 final size:19
Alignment explanation
Indices: 20929271--20929368 Score: 97
Period size: 19 Copynumber: 4.8 Consensus size: 19
20929261 AAATTAAATC
*
20929271 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
20929291 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
20929313 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
20929334 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
20929353 TCTAATATTGCATATC
1 TCTAAGATTACATATC
20929369 CTCGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
19 32 0.47
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:20929331 original size:21 final size:21
Alignment explanation
Indices: 20929305--20929367 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
20929295 CTAAGATTAC
20929305 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
20929326 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
20929345 ATATCATATCTAATATTGCAT
1 ATATCATATCTAAGATTGCAT
20929366 AT
1 AT
20929368 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:20930512 original size:5 final size:5
Alignment explanation
Indices: 20930502--20930530 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
20930492 TCTGTCATTG
20930502 GTTTT GTTTT GTTTT GTTTT GTTTT GTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTT
20930531 CTCATGCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (5 bp):
GTTTT
Found at i:20933400 original size:31 final size:31
Alignment explanation
Indices: 20933363--20933423 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
20933353 AAATATTATG
20933363 TTAGTAAGGTTTGGTGTACTCTTCTTTAATA
1 TTAGTAAGGTTTGGTGTACTCTTCTTTAATA
20933394 TTAGTAAGGTTTGGTGTACTCTTCTTTAAT
1 TTAGTAAGGTTTGGTGTACTCTTCTTTAAT
20933424 GGGGGAAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.49
Consensus pattern (31 bp):
TTAGTAAGGTTTGGTGTACTCTTCTTTAATA
Found at i:20941466 original size:22 final size:22
Alignment explanation
Indices: 20941441--20941482 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20941431 ATCCAAATAT
20941441 TAATAACAAAATAGTAGCAACA
1 TAATAACAAAATAGTAGCAACA
***
20941463 TAATAGTGAAATAGTAGCAA
1 TAATAACAAAATAGTAGCAA
20941483 AACAGTGACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (22 bp):
TAATAACAAAATAGTAGCAACA
Found at i:20942256 original size:21 final size:20
Alignment explanation
Indices: 20942204--20942256 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
20942194 TAGCTCTCAC
20942204 GAGCTTCTGTTTCACTCATAT
1 GAGCTTCTG-TTCACTCATAT
* *
20942225 GAGTTTTTGTTCAGCTC-TATT
1 GAGCTTCTGTTCA-CTCATA-T
20942246 GAGCTTCTGTT
1 GAGCTTCTGTT
20942257 TAACCTTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (20 bp):
GAGCTTCTGTTCACTCATAT
Found at i:20942283 original size:42 final size:42
Alignment explanation
Indices: 20942237--20942347 Score: 100
Period size: 42 Copynumber: 2.6 Consensus size: 42
20942227 GTTTTTGTTC
* *
20942237 AGCTCTATTGAGCTTCTGTTTAACCTTTACGGGTTTCCGTTT
1 AGCTCTATTGAGCTTCTGTTCAACCTTTACGGGTTTCCATTT
* * * * * *
20942279 AGCTCT-TACGAGCTTCCGTTGAACCCTTATGGGTTTCTATTT
1 AGCTCTAT-TGAGCTTCTGTTCAACCTTTACGGGTTTCCATTT
* *
20942321 AGCTC-ACATGAGCTTTTGTTCAACCTT
1 AGCTCTA-TTGAGCTTCTGTTCAACCTT
20942348 CGGGCTTCTG
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
41 1 0.02
42 52 0.98
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.41
Consensus pattern (42 bp):
AGCTCTATTGAGCTTCTGTTCAACCTTTACGGGTTTCCATTT
Found at i:20942287 original size:21 final size:21
Alignment explanation
Indices: 20942263--20942325 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
20942253 TGTTTAACCT
20942263 TTACGGGTTTCCGTTTAGCTC
1 TTACGGGTTTCCGTTTAGCTC
* * * * *
20942284 TTACGAGCTTCCGTTGAACCC
1 TTACGGGTTTCCGTTTAGCTC
* **
20942305 TTATGGGTTTCTATTTAGCTC
1 TTACGGGTTTCCGTTTAGCTC
20942326 ACATGAGCTT
Statistics
Matches: 29, Mismatches: 13, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (21 bp):
TTACGGGTTTCCGTTTAGCTC
Found at i:20945289 original size:45 final size:45
Alignment explanation
Indices: 20945225--20945442 Score: 262
Period size: 45 Copynumber: 4.9 Consensus size: 45
20945215 TACAGAGTAT
* **
20945225 CATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAC
* *
20945270 CATTGGTTATAAAGGTGGTTGCTATGTGCTGATTCCACCCG-GTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCA-CCGAATAC
* * * *
20945315 CATTGATTATAAAGGTGGTTGCTATGTGCTGACTCCATCGAAAAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAC
** * * *
20945360 CATTGAAAATAAAGGTGGTTGCTATATGCTGATTCCACCAAATAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAC
* *
20945405 AATTGATTATAAGGGTGG-TGCTATGTGCTGA-TCCACCG
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
20945443 TGTAACGGTT
Statistics
Matches: 150, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
43 6 0.04
44 14 0.09
45 127 0.85
46 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAC
Found at i:20948795 original size:29 final size:28
Alignment explanation
Indices: 20948750--20948808 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
20948740 GAAAAAATAT
*
20948750 ATATATTTTTTAGAAAGAATGATATA-GAG
1 ATATATTTTTGAGAAAG-A-GATATACGAG
20948779 ATATATTTATTGA-AAAGAGATATACGAG
1 ATATATTT-TTGAGAAAGAGATATACGAG
20948807 AT
1 AT
20948809 TAAATTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 6 0.22
28 6 0.22
29 12 0.44
30 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.36
Consensus pattern (28 bp):
ATATATTTTTGAGAAAGAGATATACGAG
Found at i:20950165 original size:45 final size:45
Alignment explanation
Indices: 20950068--20950237 Score: 155
Period size: 45 Copynumber: 3.8 Consensus size: 45
20950058 GTGTATTGAG
* * *
20950068 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCCG-G
1 TATCATTGATTATAAAGGTGGTTGCTATGTACTGATT-CAACCGAA
* * **
20950113 TACCATTGATTATAAAGGTGGTTGCTATGTACTGACTCAAATGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTACTGATTCAACCGAA
* ** * * * ** *
20950158 AATCATTGAAAATAAAGGTCGTAGCTATATGTTGATTCCACCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTACTGATTCAACCGAA
* *
20950203 TATAATTGATTATAAGGGTGG-TGCTATGTACTGAT
1 TATCATTGATTATAAAGGTGGTTGCTATGTACTGAT
20950238 CCACCGTGTA
Statistics
Matches: 94, Mismatches: 30, Indels: 3
0.74 0.24 0.02
Matches are distributed among these distances:
44 13 0.14
45 81 0.86
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (45 bp):
TATCATTGATTATAAAGGTGGTTGCTATGTACTGATTCAACCGAA
Found at i:20958138 original size:21 final size:22
Alignment explanation
Indices: 20958098--20958145 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
20958088 TGGTTGCATG
* *
20958098 CACACCATTTGAGTGGTTTATC
1 CACACCATTGGAGTGATTTATC
*
20958120 TACACCA-TGGAGTGATTTATC
1 CACACCATTGGAGTGATTTATC
20958141 CACAC
1 CACAC
20958146 TGTATTAGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (22 bp):
CACACCATTGGAGTGATTTATC
Found at i:20958210 original size:45 final size:45
Alignment explanation
Indices: 20958114--20958235 Score: 127
Period size: 45 Copynumber: 2.7 Consensus size: 45
20958104 ATTTGAGTGG
* * *
20958114 TTTATCTACACCATGGAGTGATTTATCCACACTGTATTAGCAACT
1 TTTATCTACACTATTGAGTGGTTTATCCACACTGTATTAGCAACT
* * * **
20958159 TGTATCTACACTATTGAGTGGTTTATCCACATTGTATTAGTATTT
1 TTTATCTACACTATTGAGTGGTTTATCCACACTGTATTAGCAACT
** * * *
20958204 TTTATCTGTAATAATGAGTGGTTCATCCACAC
1 TTTATCTACACTATTGAGTGGTTTATCCACAC
20958236 CATACTAGCA
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (45 bp):
TTTATCTACACTATTGAGTGGTTTATCCACACTGTATTAGCAACT
Found at i:20969886 original size:12 final size:12
Alignment explanation
Indices: 20969869--20969897 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
20969859 CAGATTAAAC
20969869 ATTTCGAAACAA
1 ATTTCGAAACAA
20969881 ATTTCGAAACAA
1 ATTTCGAAACAA
20969893 ATTTC
1 ATTTC
20969898 AAAATATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (12 bp):
ATTTCGAAACAA
Found at i:20989126 original size:22 final size:19
Alignment explanation
Indices: 20989101--20989141 Score: 55
Period size: 22 Copynumber: 2.0 Consensus size: 19
20989091 GGTTAATTTC
20989101 ATCTAAAATTAATTAAACAATA
1 ATCTAAAA--AATTAAA-AATA
20989123 ATCTAAAAAATTAAAAATA
1 ATCTAAAAAATTAAAAATA
20989142 TATATTTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (19 bp):
ATCTAAAAAATTAAAAATA
Found at i:20993684 original size:17 final size:17
Alignment explanation
Indices: 20993664--20993702 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
20993654 GTTAGGTTAC
20993664 AATTATCAAATTTGCAA
1 AATTATCAAATTTGCAA
20993681 AATTATCAAATTTGCAA
1 AATTATCAAATTTGCAA
20993698 AATTA
1 AATTA
20993703 AGATAGTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (17 bp):
AATTATCAAATTTGCAA
Found at i:21002176 original size:50 final size:50
Alignment explanation
Indices: 21002060--21002402 Score: 524
Period size: 50 Copynumber: 6.8 Consensus size: 50
21002050 GATAATAACA
* * ** *
21002060 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
21002111 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
21002161 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
21002211 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
21002261 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTATCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
21002311 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
21002361 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
21002403 TTACCCAAAT
Statistics
Matches: 269, Mismatches: 23, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
50 236 0.88
51 33 0.12
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:21003448 original size:17 final size:17
Alignment explanation
Indices: 21003426--21003466 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
21003416 TCAACTTTTT
21003426 CCCTTTTTACAATTTAG
1 CCCTTTTTACAATTTAG
21003443 CCCTTTTTACAATTTAG
1 CCCTTTTTACAATTTAG
*
21003460 TCCTTTT
1 CCCTTTT
21003467 GACTAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.05, T:0.51
Consensus pattern (17 bp):
CCCTTTTTACAATTTAG
Found at i:21009244 original size:52 final size:51
Alignment explanation
Indices: 21009138--21009309 Score: 176
Period size: 50 Copynumber: 3.4 Consensus size: 51
21009128 ATGATACTTA
* * *
21009138 AATGCATGATTTAA-TTAA-GATGCAAAC-TAAATGAACA-AATGAGTTACT-T
1 AATGCATGACTTAATTTAATGATGCAAACTTAACT-AACATGA-GAGTTA-TAT
* *
21009187 AATGCATGACTTAATTTAATGATGCAGACTTAAACTAACATGGGAGTTATAT
1 AATGCATGACTTAATTTAATGATGCAAACTT-AACTAACATGAGAGTTATAT
* * *
21009239 AATGCATGTCATAATTTAA-GATGCAAACTTAACTAACATGAGAGTTACAT
1 AATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAGAGTTATAT
* *
21009289 AATGCATGACTTTATTAAATG
1 AATGCATGACTTAATTTAATG
21009310 CATAATACAT
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
49 13 0.13
50 37 0.36
51 20 0.20
52 29 0.28
53 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (51 bp):
AATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAGAGTTATAT
Found at i:21011875 original size:11 final size:11
Alignment explanation
Indices: 21011861--21011888 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
21011851 TTCACGAATT
21011861 TTTTTTTGAAA
1 TTTTTTTGAAA
21011872 TTTTTTTGAAA
1 TTTTTTTGAAA
21011883 TTTTTT
1 TTTTTT
21011889 CGAATACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (11 bp):
TTTTTTTGAAA
Found at i:21019646 original size:21 final size:21
Alignment explanation
Indices: 21019619--21019670 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
21019609 CATTCAATGT
* *
21019619 AAACTCATAAGGGTTAAACGA
1 AAACTCATAAAGGTGAAACGA
* *
21019640 AAGCTCAATAAAGGTGAAATGA
1 AAACTC-ATAAAGGTGAAACGA
21019662 AAACTCATA
1 AAACTCATA
21019671 TGAGTTAAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (21 bp):
AAACTCATAAAGGTGAAACGA
Found at i:21025591 original size:16 final size:16
Alignment explanation
Indices: 21025570--21025605 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
21025560 TGGTTCGCTT
*
21025570 TAATGGAATAGATGCG
1 TAATGGAATACATGCG
21025586 TAATGGAATACATGCG
1 TAATGGAATACATGCG
21025602 TAAT
1 TAAT
21025606 AGATAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (16 bp):
TAATGGAATACATGCG
Found at i:21025676 original size:44 final size:46
Alignment explanation
Indices: 21025587--21025679 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 46
21025577 ATAGATGCGT
* * *
21025587 AATGGAATACATGCGTAATAGATAATTCTTTTGTTTGGTTTAATGG
1 AATGGAATACAGGCGTAATAGATAATTCTTGTGTTTGGTTGAATGG
* *
21025633 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATACAGGCGTAATAGATAATTCTTGTGTTTGGTTGAATGG
21025677 AAT
1 AAT
21025680 AGAGGTGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 23 0.55
45 2 0.05
46 17 0.40
ACGTcount: A:0.29, C:0.05, G:0.27, T:0.39
Consensus pattern (46 bp):
AATGGAATACAGGCGTAATAGATAATTCTTGTGTTTGGTTGAATGG
Found at i:21026033 original size:122 final size:120
Alignment explanation
Indices: 21025818--21026171 Score: 654
Period size: 122 Copynumber: 2.9 Consensus size: 120
21025808 TTAATCATAT
21025818 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
21025883 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
21025938 TTTAACATAATTATTATTAAATATAATTTAATAAAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATAATTTAAT--AAAAATATATAATTTAATAAAATTCTTAATA
* *
21026003 TTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAA
64 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
21026060 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
21026125 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATA
21026172 TAACATAGAT
Statistics
Matches: 227, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
120 111 0.49
122 116 0.51
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:21026135 original size:120 final size:120
Alignment explanation
Indices: 21025809--21026174 Score: 660
Period size: 120 Copynumber: 3.0 Consensus size: 120
21025799 ATAAATAATT
*
21025809 TAATCATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
1 TAAT-ATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
*
21025874 CTTAATATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATA
65 CTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATA
*
21025930 AAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAAAATATATAATTTAATAAAAT
1 TAATATAATTTAACATAATTATTATTAAATATAATTTAAT--AAAAATATATAATTTAATAAAAT
*
21025995 TCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATA
64 TCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATA
*
21026052 TAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
1 TAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
21026117 TTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATA
66 TTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATA
21026172 TAA
1 TAA
21026175 CATAGATTAA
Statistics
Matches: 236, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
120 117 0.50
121 3 0.01
122 116 0.49
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
TAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
TTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATA
Found at i:21028806 original size:260 final size:260
Alignment explanation
Indices: 21028345--21028864 Score: 1013
Period size: 260 Copynumber: 2.0 Consensus size: 260
21028335 AAACTTCTCG
*
21028345 GATCAACCGAAATTCCAAAACTAAACTTTGGGTTTTCTTTCTCAATCCCAAAAAATCAAACCTGT
1 GATCAACCGAAATTCCAAAACTAAACTTTAGGTTTTCTTTCTCAATCCCAAAAAATCAAACCTGT
21028410 GATAATATGATTGGCCCTCCTTGTGAAGCATATAGTTTCTCTGATTTCATCATGTTTACCACTTT
66 GATAATATGATTGGCCCTCCTTGTGAAGCATATAGTTTCTCTGATTTCATCATGTTTACCACTTT
*
21028475 TCTCACCCATTTTTGCATATGAAACTGTTATTAAAGAGACAAAATTTGTCATTTTTGTTAGGTTG
131 TCTCACCCATTTTTGCATATGAAACTGTTATTAAAGAGACAAAATTTATCATTTTTGTTAGGTTG
21028540 CTTTAATCTTTTAAATTATTTGTATCTCAAGTTTGGTTTGCACTTTTACCTTGAATGGTCCATTA
196 CTTTAATCTTTTAAATTATTTGTATCTCAAGTTTGGTTTGCACTTTTACCTTGAATGGTCCATTA
*
21028605 GATCAACCGAAATTCCAAAACTAAACTTTAGGTTTTTTTTCTCAATCCCAAAAAATCAAACCTGT
1 GATCAACCGAAATTCCAAAACTAAACTTTAGGTTTTCTTTCTCAATCCCAAAAAATCAAACCTGT
21028670 GATAATATGATTGGCCCTCCTTGTGAAGCATATAGTTTCTCTGATTTCATCATGTTTACCACTTT
66 GATAATATGATTGGCCCTCCTTGTGAAGCATATAGTTTCTCTGATTTCATCATGTTTACCACTTT
21028735 TCTCACCCATTTTTGCATATGAAACTGTTATTAAAGAGACAAAATTTATCATTTTTGTTAGGTTG
131 TCTCACCCATTTTTGCATATGAAACTGTTATTAAAGAGACAAAATTTATCATTTTTGTTAGGTTG
21028800 CTTTAATCTTTTAAATTATTTGTATCTCAAGTTTGGTTTGCACTTTTACCTTGAATGGTCCATTA
196 CTTTAATCTTTTAAATTATTTGTATCTCAAGTTTGGTTTGCACTTTTACCTTGAATGGTCCATTA
21028865 CCGGATCTAA
Statistics
Matches: 257, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
260 257 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (260 bp):
GATCAACCGAAATTCCAAAACTAAACTTTAGGTTTTCTTTCTCAATCCCAAAAAATCAAACCTGT
GATAATATGATTGGCCCTCCTTGTGAAGCATATAGTTTCTCTGATTTCATCATGTTTACCACTTT
TCTCACCCATTTTTGCATATGAAACTGTTATTAAAGAGACAAAATTTATCATTTTTGTTAGGTTG
CTTTAATCTTTTAAATTATTTGTATCTCAAGTTTGGTTTGCACTTTTACCTTGAATGGTCCATTA
Found at i:21033129 original size:18 final size:18
Alignment explanation
Indices: 21033102--21033137 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21033092 TAGGGGCATT
*
21033102 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
21033120 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
21033138 CCATTTTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:21033598 original size:25 final size:26
Alignment explanation
Indices: 21033570--21033622 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
21033560 TATTTTGATA
21033570 TTATTTGATGTAATAAAATAG-AATT
1 TTATTTGATGTAATAAAATAGAAATT
21033595 TTATTTGATGTAATAAAATAGAAATT
1 TTATTTGATGTAATAAAATAGAAATT
21033621 TT
1 TT
21033623 TGATATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.45
Consensus pattern (26 bp):
TTATTTGATGTAATAAAATAGAAATT
Found at i:21033693 original size:23 final size:22
Alignment explanation
Indices: 21033663--21034218 Score: 444
Period size: 23 Copynumber: 25.1 Consensus size: 22
21033653 AATACCCTTA
21033663 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA-TT
*
21033686 AATTAAAAACCTTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
* ***
21033708 ACTTAAAAACCCTAACCCCCTT
1 AATTAAAAACCCTAACCTAATT
*
21033730 AACTTAAAAACCTTAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
21033753 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAA-TT
21033777 AATTAAAAACCCTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
* *
21033799 ACTTAAAAACTCTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
*
21033821 ACTTAAAAACCCTAACCTAATT
1 AATTAAAAACCCTAACCTAATT
21033843 AAATTAAAAACCCTAACCTAATT
1 -AATTAAAAACCCTAACCTAATT
21033866 AACTTAAAAACCCTAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
21033889 AAATTAAAAACCCTAAACCCTAA--
1 -AATTAAAAACCCT-AA-CCTAATT
* ***
21033912 ACTTAAAAACCCTAACCCCTTT
1 AATTAAAAACCCTAACCTAATT
21033934 AACTTAAAAACCCTAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
*
21033957 AACTTAAAAAGCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAA-TT
21033981 AATTAAAAACCCTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
*
21034003 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA-TT
*
21034026 AATTAAAAACCTTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
* **
21034048 ACTTAAAAACCCTAACCCCATT
1 AATTAAAAACCCTAACCTAATT
* *
21034070 AACTTAAAAGCCATAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
21034093 AACTTAAAAACCCTAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
*
21034116 AAATTAATAA--C---CCTAA--
1 -AATTAAAAACCCTAACCTAATT
* *
21034132 ACTTAAAAACCCTAAAC-----
1 AATTAAAAACCCTAACCTAATT
21034149 --TTAAAAACCCTAACCTAATT
1 AATTAAAAACCCTAACCTAATT
21034169 AAATTAAAAACCCTAACCTAATTT
1 -AATTAAAAACCCTAACCTAA-TT
*
21034193 AATTAAAAACCCTAAACTAAATT
1 AATTAAAAACCCTAACCT-AATT
21034216 AAT
1 AAT
21034219 AATTTTACTT
Statistics
Matches: 442, Mismatches: 46, Indels: 90
0.76 0.08 0.16
Matches are distributed among these distances:
15 21 0.05
17 1 0.00
18 5 0.01
20 18 0.04
21 11 0.02
22 83 0.19
23 252 0.57
24 26 0.06
25 25 0.06
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (22 bp):
AATTAAAAACCCTAACCTAATT
Found at i:21033900 original size:136 final size:137
Alignment explanation
Indices: 21033705--21034209 Score: 561
Period size: 136 Copynumber: 3.6 Consensus size: 137
21033695 CCTTAAACCC
*** * *
21033705 TAAACTTAAAAACCCT-AACCCCCTTAACTTAAAAACCTTAACCTAATTAACTTAAAAACCCT-A
1 TAAA-TTAAAAACCCTAAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
*
21033768 A-CCTAATTTAATTAAAAACCCTAAACCC-TAAACTTAAAAACTCTAAACCCT-A-AACTTAAAA
65 ACCCTAA---AATTAAAAACCCTAAACCCATTAACTTAAAAAC-CTAAA-CCTAATAACTTAAAA
21033829 ACCCTAACCTAAT
125 ACCCTAACCTAAT
21033842 TAAATTAAAAACCCT-AACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAA
1 TAAATTAAAAACCCTAAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAA
* * * *
21033906 CCCTAAACTTAAAAACCCTAACCCCTTTAACTTAAAAACCCT-AACCTAATTAACTTAAAAAGCC
66 CCCTAAAATTAAAAACCCTAAACCCATTAACTTAAAAA-CCTAAACCTAA-TAACTTAAAAACCC
21033970 TAACCTAAT
129 TAACCTAAT
* * *
21033979 TTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAA
1 TAAATTAAAAACCCTAAA-CCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
* * *
21034041 ACCCTAAACTTAAAAACCCTAACCCCATTAACTTAAAAGCC-ATAACCTAATTAACTTAAAAACC
65 ACCCTAAAATTAAAAACCCTAAACCCATTAACTTAAAAACCTA-AACCTAA-TAACTTAAAAACC
21034105 CTAACCTAAT
128 CTAACCTAAT
* * *
21034115 TAAATTAATAACCCTAAACTTAAAAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAAC
1 TAAATTAAAAACCCTAAACCT---AA---TTAACTTAAAAACCCTAACCTAATTAAATTAAAAAC
21034180 CCT-AA-CCTAATTTAATTAAAAACCCTAAAC
60 CCTAAACCCTAA---AATTAAAAACCCTAAAC
21034210 TAAATTAATA
Statistics
Matches: 323, Mismatches: 22, Indels: 38
0.84 0.06 0.10
Matches are distributed among these distances:
134 3 0.01
135 24 0.07
136 185 0.57
137 42 0.13
138 8 0.02
139 4 0.01
142 5 0.02
143 2 0.01
144 35 0.11
145 15 0.05
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (137 bp):
TAAATTAAAAACCCTAAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAA
CCCTAAAATTAAAAACCCTAAACCCATTAACTTAAAAACCTAAACCTAATAACTTAAAAACCCTA
ACCTAAT
Found at i:21033941 original size:91 final size:92
Alignment explanation
Indices: 21033660--21034184 Score: 567
Period size: 91 Copynumber: 5.7 Consensus size: 92
21033650 ATTAATACCC
* * *
21033660 TTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCTTAAACCCT-A--AACTTAAAAACCCT
1 TTAAATTAAAAACCCTAACCTAACTTAACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCT
* * *
21033721 AACCCCCTTAACTTAAAAACCTTAACCTAA
64 AA-ACCCTAAACTTAAAAACCCTAACCTAA
* * * *
21033751 TTAACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCCT-A--AACTTAAAAACTCT
1 TTAAATTAAAAACCCTAACCTAACTTAACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCT
21033812 AAACCCTAAACTTAAAAACCCTAACCTAA
64 AAACCCTAAACTTAAAAACCCTAACCTAA
21033841 TTAAATTAAAAACCCTAACCTAA-TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
1 TTAAATTAAAAACCCTAACCTAACTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
***
21033905 ACCCTAAACTTAAAAACCCTAACCCCT
66 ACCCTAAACTTAAAAACCCTAACCTAA
* * *
21033932 TTAACTTAAAAACCCTAACCTAA-TTAACTTAAAAAGCCTAACCTAATTTAATTAAAAACCCTAA
1 TTAAATTAAAAACCCTAACCTAACTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
21033996 ACCCTAAACTTAAAAACCCTAACCTAA
66 ACCCTAAACTTAAAAACCCTAACCTAA
* * * ** * * *
21034023 TTTAATTAAAAACCTTAAACC---CTAAACTTAAAAACCCTAACCCCATTAACTTAAAAGCCAT-
1 TTAAATTAAAAACCCT-AACCTAACTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
21034084 AA-CCTAATTAACTTAAAAACCCTAACCTAA
65 AACCCT-A--AACTTAAAAACCCTAACCTAA
* * *
21034114 TTAAATTAATAACCCTAAACTTAAAAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAA
1 TTAAATTAAAAACCCT-AACCT---AA--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAA
21034179 CCCTAA
60 CCCTAA
21034185 CCTAATTTAA
Statistics
Matches: 378, Mismatches: 38, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
88 6 0.02
89 10 0.03
90 88 0.23
91 234 0.62
92 4 0.01
99 35 0.09
100 1 0.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (92 bp):
TTAAATTAAAAACCCTAACCTAACTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
ACCCTAAACTTAAAAACCCTAACCTAA
Found at i:21034142 original size:15 final size:15
Alignment explanation
Indices: 21034115--21034161 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
21034105 CTAACCTAAT
*
21034115 TAAA-TTAATAACCC
1 TAAACTTAAAAACCC
21034129 TAAACTTAAAAACCC
1 TAAACTTAAAAACCC
21034144 TAAACTTAAAAACCC
1 TAAACTTAAAAACCC
21034159 TAA
1 TAA
21034162 CCTAATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 4 0.13
15 27 0.87
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAACTTAAAAACCC
Found at i:21034152 original size:76 final size:76
Alignment explanation
Indices: 21034070--21034210 Score: 237
Period size: 76 Copynumber: 1.9 Consensus size: 76
21034060 TAACCCCATT
* * *
21034070 AACTTAAAAGCCATAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAATAACCCTAAACT
1 AACTTAAAAACCATAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACT
21034135 TAAAAACCCTA
66 TAAAAACCCTA
* *
21034146 AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACT
1 AACTTAAAAACCATAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACT
21034211 AAATTAATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.50, C:0.23, G:0.01, T:0.26
Consensus pattern (76 bp):
AACTTAAAAACCATAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACT
TAAAAACCCTA
Found at i:21037758 original size:125 final size:125
Alignment explanation
Indices: 21037458--21037833 Score: 578
Period size: 125 Copynumber: 3.0 Consensus size: 125
21037448 CCCAAACATG
* * *
21037458 CTACTGTAGCAAAAGCACGTCCACGAGAGCGCGATTTTCATAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTG
21037523 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTC--AAAAAAA-TATTTCTTCCATGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
* * *
21037581 CGACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
21037646 TAGAAGCGGTTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
* *
21037706 CTACTGTAGCAAAAGCGCTTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *** *
21037771 TAGAAACGATTTTATACTATTTGATCATAAACGTCAACTCAAAATTATTTCTTCCAAGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
21037831 CTA
1 CTA
21037834 ATAACCTTAA
Statistics
Matches: 230, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
122 63 0.27
123 30 0.13
124 7 0.03
125 130 0.57
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
Found at i:21038273 original size:15 final size:17
Alignment explanation
Indices: 21038240--21038273 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
21038230 TAAAGTTTCT
21038240 TTTTCTTAAAATATTTA
1 TTTTCTTAAAATATTTA
21038257 TTTT-TTAAAAT-TTTA
1 TTTTCTTAAAATATTTA
21038272 TT
1 TT
21038274 ATAATTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTCTTAAAATATTTA
Found at i:21048383 original size:12 final size:11
Alignment explanation
Indices: 21048366--21048409 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
21048356 AGAGTTCGAG
*
21048366 AGAAAATGAACA
1 AGAAAA-GAAAA
21048378 AGAAAAGAAAA
1 AGAAAAGAAAA
21048389 ATGAAAAAGAAAA
1 A-G-AAAAGAAAA
21048402 AGAAAAGA
1 AGAAAAGA
21048410 GTTCAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 11 0.38
12 8 0.28
13 10 0.34
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:21048391 original size:18 final size:19
Alignment explanation
Indices: 21048368--21048407 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
21048358 AGTTCGAGAG
*
21048368 AAAATGAACAAG-AAAAGA
1 AAAATGAAAAAGAAAAAGA
21048386 AAAATGAAAAAGAAAAAGA
1 AAAATGAAAAAGAAAAAGA
21048405 AAA
1 AAA
21048408 GAGTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAATGAAAAAGAAAAAGA
Found at i:21048398 original size:13 final size:12
Alignment explanation
Indices: 21048366--21048407 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
21048356 AGAGTTCGAG
* *
21048366 AGAAAATGAACA
1 AGAAAAAGAAAA
21048378 AG-AAAAGAAAA
1 AGAAAAAGAAAA
21048389 ATGAAAAAGAAAA
1 A-GAAAAAGAAAA
21048402 AGAAAA
1 AGAAAA
21048408 GAGTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 8 0.31
12 8 0.31
13 10 0.38
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (12 bp):
AGAAAAAGAAAA
Found at i:21048420 original size:25 final size:24
Alignment explanation
Indices: 21048392--21048482 Score: 60
Period size: 25 Copynumber: 3.5 Consensus size: 24
21048382 AAGAAAAATG
21048392 AAAAAGAAAAAGAAAAGAGTTCAAA
1 AAAAAGAAAAAGAAAAGAGTT-AAA
**
21048417 AAAAAGCGGAAAG-AAAGAGTTGAAA
1 AAAAAG-AAAAAGAAAAGAGTT-AAA
* *
21048442 ACAAGTGAGGAAAAAGAAAACGAGTT-AC
1 A-AA---AAGAAAAAGAAAA-GAGTTAAA
21048470 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
21048483 GAGAAAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
24 9 0.18
25 18 0.35
26 6 0.12
27 2 0.04
28 6 0.12
29 5 0.10
30 5 0.10
ACGTcount: A:0.65, C:0.05, G:0.22, T:0.08
Consensus pattern (24 bp):
AAAAAGAAAAAGAAAAGAGTTAAA
Found at i:21050395 original size:33 final size:33
Alignment explanation
Indices: 21050353--21050417 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
21050343 CACGGTTTGC
21050353 ATAAACCCTTACCTATTCCTAAAACTCCTTGGT
1 ATAAACCCTTACCTATTCCTAAAACTCCTTGGT
* *
21050386 ATAAACCCTTATCTATTCCTGAAACTCCTTGG
1 ATAAACCCTTACCTATTCCTAAAACTCCTTGG
21050418 ACTAACATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (33 bp):
ATAAACCCTTACCTATTCCTAAAACTCCTTGGT
Found at i:21056470 original size:21 final size:21
Alignment explanation
Indices: 21056446--21056494 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 21
21056436 GAATTTTACT
*
21056446 GCATGTACTACAATTTTTAGA
1 GCATATACTACAATTTTTAGA
21056467 GCATTATATACTACAATTTTTAGA
1 GC---ATATACTACAATTTTTAGA
21056491 GCAT
1 GCAT
21056495 TTCATACTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 4 0.17
24 20 0.83
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (21 bp):
GCATATACTACAATTTTTAGA
Found at i:21066002 original size:6 final size:6
Alignment explanation
Indices: 21065993--21066032 Score: 71
Period size: 6 Copynumber: 6.5 Consensus size: 6
21065983 AATGAACAAG
21065993 AAAAGA AAAATGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAA-GA AAAAGA AAAAGA AAAAGA AAAAGA AAA
21066033 GAGTTCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:21066005 original size:18 final size:18
Alignment explanation
Indices: 21065982--21066034 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
21065972 GTGCAAGAGC
*
21065982 AAATGAACAAGAAAAGAA
1 AAATGAAAAAGAAAAGAA
21066000 AAATGAAAAAGAAAAAGAA
1 AAATGAAAAAG-AAAAGAA
21066019 AAA-GAAAAAGAAAAGA
1 AAATGAAAAAGAAAAGA
21066035 GTTCAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 6 0.18
18 17 0.52
19 10 0.30
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (18 bp):
AAATGAAAAAGAAAAGAA
Found at i:21066115 original size:16 final size:17
Alignment explanation
Indices: 21066077--21066118 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
21066067 AACAGGTGAC
*
21066077 GAAAAAGAAAATGAGTTA
1 GAAAAAGAAAAAGAG-TA
21066095 GAAAAAGAAAAAGAG-A
1 GAAAAAGAAAAAGAGTA
21066111 GAAAAAGA
1 GAAAAAGA
21066119 GATAGTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.39
18 14 0.61
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (17 bp):
GAAAAAGAAAAAGAGTA
Found at i:21073324 original size:50 final size:49
Alignment explanation
Indices: 21073257--21073454 Score: 207
Period size: 50 Copynumber: 4.0 Consensus size: 49
21073247 AAAGTGATGG
* * * *
21073257 TCACGTGTGTAGCACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAGA
* * * * * *
21073307 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT-G-ATAGA
* * * * *
21073358 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGAACCAGAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAGA
* *
21073408 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATA
21073455 ATAGTTAAAT
Statistics
Matches: 120, Mismatches: 25, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
49 9 0.08
50 73 0.61
51 35 0.29
52 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAGA
Found at i:21073434 original size:101 final size:101
Alignment explanation
Indices: 21073257--21073438 Score: 247
Period size: 101 Copynumber: 1.8 Consensus size: 101
21073247 AAAGTGATGG
* * * * * * *
21073257 TCACGTGTGTAGCACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGCACTATGTGCAGGCTACTACATGAACCAGAAAGAAAGATCACATGTGTAGTAC
*
21073322 TATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
66 TATGTGAAGGCTACTATGCGTACCGAATAGCTTCGA
* *** *
21073358 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGAACCAGAAAGTTTGATCACGTGTGTAGTAC
1 TCACGTGTGTAGCACTATGTGCAGGCTACTACATGAACCAGAAAGAAAGATCACATGTGTAGTAC
21073423 TATGTGAAGGCTACTA
66 TATGTGAAGGCTACTA
21073439 CGTGTATCGA
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 68 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGCACTATGTGCAGGCTACTACATGAACCAGAAAGAAAGATCACATGTGTAGTAC
TATGTGAAGGCTACTATGCGTACCGAATAGCTTCGA
Found at i:21077276 original size:14 final size:14
Alignment explanation
Indices: 21077254--21077286 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
21077244 ACATCTTCGA
*
21077254 TTAATAATCATGAT
1 TTAAAAATCATGAT
21077268 TTAAAAATCATGAT
1 TTAAAAATCATGAT
21077282 TTAAA
1 TTAAA
21077287 CTCTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (14 bp):
TTAAAAATCATGAT
Found at i:21080873 original size:22 final size:22
Alignment explanation
Indices: 21080826--21080880 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
21080816 ACAAGATACA
*
21080826 AGATACAGTTGCAGAACATAAT
1 AGATACAGATGCAGAACATAAT
* *
21080848 AGATATAGATGCAGAACA-GAT
1 AGATACAGATGCAGAACATAAT
21080869 CAGATACAGATG
1 -AGATACAGATG
21080881 TAGATTCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (22 bp):
AGATACAGATGCAGAACATAAT
Found at i:21081545 original size:63 final size:63
Alignment explanation
Indices: 21081471--21081593 Score: 185
Period size: 63 Copynumber: 2.0 Consensus size: 63
21081461 TCTCTCACAC
*
21081471 GGCTTGGATACA-GACCCGTGTCTCTAGCCCGTTTGACTCTAATTCCAAAACAATGAGTTATAT
1 GGCTTGGATACACG-CCCGTGTCTCTAGCCCGTGTGACTCTAATTCCAAAACAATGAGTTATAT
* * * *
21081534 GGCTTGGATACACGCCGGTGTCTTTAGCCCGTGTGACTCTAATTTCAAAACAGTGAGTTA
1 GGCTTGGATACACGCCCGTGTCTCTAGCCCGTGTGACTCTAATTCCAAAACAATGAGTTA
21081594 CCCGGCCTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 53 0.98
64 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (63 bp):
GGCTTGGATACACGCCCGTGTCTCTAGCCCGTGTGACTCTAATTCCAAAACAATGAGTTATAT
Found at i:21083519 original size:15 final size:14
Alignment explanation
Indices: 21083499--21083528 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
21083489 TAAGACCCTC
21083499 TCATTCCTTCATTCA
1 TCATTCCTT-ATTCA
21083514 TCATTCCTTATTCA
1 TCATTCCTTATTCA
21083528 T
1 T
21083529 TCTCATCATT
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:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (14 bp):
TCATTCCTTATTCA
Found at i:21087405 original size:25 final size:25
Alignment explanation
Indices: 21087351--21087398 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
21087341 ATGATTTTTT
*
21087351 TTTGTTTTTGGTAACATTTATGATA
1 TTTGTTTTTGGTAACATTTACGATA
21087376 TTTGTTTTTGGTAACATTTACGA
1 TTTGTTTTTGGTAACATTTACGA
21087399 ATCTTGTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.54
Consensus pattern (25 bp):
TTTGTTTTTGGTAACATTTACGATA
Found at i:21092863 original size:40 final size:40
Alignment explanation
Indices: 21092805--21093174 Score: 462
Period size: 40 Copynumber: 9.3 Consensus size: 40
21092795 ATTTGAATGA
*
21092805 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
* * * *
21092845 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTT
* *
21092885 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
*
21092925 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
* * * * * *
21092965 TATACGGGCTAAGACCCGATGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTT
* *
21093005 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
*
21093045 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
* * *
21093085 TATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTT
* * * *
21093124 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
21093164 TATCC-GGCTAA
1 TATCCGGGCTAA
21093175 ATTCTGAAGA
Statistics
Matches: 288, Mismatches: 35, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
39 44 0.15
40 240 0.83
41 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
Found at i:21093018 original size:120 final size:120
Alignment explanation
Indices: 21092805--21093170 Score: 626
Period size: 120 Copynumber: 3.1 Consensus size: 120
21092795 ATTTGAATGA
* *
21092805 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
21092870 TTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
66 TTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
* *
21092925 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATACGGGCTAAGACCCGATGGCAT
1 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
21092990 TTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
66 TTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
21093045 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGA-CCGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
* * * * * * *
21093109 TTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTA
66 TTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
21093164 TATCCGG
1 TATCCGG
21093171 CTAAATTCTG
Statistics
Matches: 233, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
119 64 0.27
120 169 0.73
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (120 bp):
TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
Found at i:21101043 original size:40 final size:39
Alignment explanation
Indices: 21100984--21101226 Score: 286
Period size: 40 Copynumber: 6.3 Consensus size: 39
21100974 CATTTGAATG
*
21100984 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TT
* * * *
21101024 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGTT
* *
21101064 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTT
21101102 -TATCCGGG-TAAGA-CCGAAGGCAATTGTGCTAGT-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTT
* * *
21101137 -TATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGTT
* *
21101175 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT-GTT
21101215 ATATCC-GGCTAA
1 ATATCCGGGCTAA
21101227 ATTCCGAAGA
Statistics
Matches: 178, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
35 29 0.16
36 27 0.15
37 8 0.04
38 2 0.01
39 23 0.13
40 87 0.49
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTT
Found at i:21101198 original size:111 final size:117
Alignment explanation
Indices: 21100985--21101216 Score: 359
Period size: 111 Copynumber: 2.0 Consensus size: 117
21100975 ATTTGAATGA
*
21100985 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGTACCGAAGGCAATTGTGCTAG-GATTTTATCCGGGCTAAGACCCGAAGGCAT
* *
21101050 TTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-GT
65 TTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGT
21101102 TATCCGGG-TAAG-ACCGAAGGCAATTGTGCTA-G-TTTTATCCGGGCTAAGA-CCGAAGGCATT
1 TATCCGGGCTAAGTACCGAAGGCAATTGTGCTAGGATTTTATCCGGGCTAAGACCCGAAGGCATT
* * *
21101162 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGT
66 TGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGT
21101214 TAT
1 TAT
21101217 ATCCGGCTAA
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
111 55 0.51
112 22 0.20
113 1 0.01
115 18 0.17
116 4 0.04
117 8 0.07
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (117 bp):
TATCCGGGCTAAGTACCGAAGGCAATTGTGCTAGGATTTTATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGT
Found at i:21106940 original size:72 final size:72
Alignment explanation
Indices: 21106823--21106968 Score: 292
Period size: 72 Copynumber: 2.0 Consensus size: 72
21106813 CTTCACAACA
21106823 TATCCTATAAAACTTGAATTACCCTTTGTGACTGACCATCTATTTGAGGATGATAAATCGCACTG
1 TATCCTATAAAACTTGAATTACCCTTTGTGACTGACCATCTATTTGAGGATGATAAATCGCACTG
21106888 AAGCCTC
66 AAGCCTC
21106895 TATCCTATAAAACTTGAATTACCCTTTGTGACTGACCATCTATTTGAGGATGATAAATCGCACTG
1 TATCCTATAAAACTTGAATTACCCTTTGTGACTGACCATCTATTTGAGGATGATAAATCGCACTG
21106960 AAGCCTC
66 AAGCCTC
21106967 TA
1 TA
21106969 GCAAACTCTT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (72 bp):
TATCCTATAAAACTTGAATTACCCTTTGTGACTGACCATCTATTTGAGGATGATAAATCGCACTG
AAGCCTC
Found at i:21114137 original size:14 final size:14
Alignment explanation
Indices: 21114118--21114157 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
21114108 TTATTTAAAT
21114118 GAAAATGACTTATG
1 GAAAATGACTTATG
* *
21114132 GAAAATGATTTCTG
1 GAAAATGACTTATG
*
21114146 GTAAATGACTTA
1 GAAAATGACTTA
21114158 CTTTTCTGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (14 bp):
GAAAATGACTTATG
Found at i:21114622 original size:23 final size:23
Alignment explanation
Indices: 21114595--21114638 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
21114585 TTATTTAAAG
21114595 AAATACTCATATTTATATAATTA
1 AAATACTCATATTTATATAATTA
* *
21114618 AAATATTCATATTTTTATAAT
1 AAATACTCATATTTATATAAT
21114639 ATGTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATACTCATATTTATATAATTA
Found at i:21115054 original size:16 final size:16
Alignment explanation
Indices: 21115035--21115065 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21115025 TTATTATTAA
21115035 AATAATTAATTATATT
1 AATAATTAATTATATT
*
21115051 AATAATTTATTATAT
1 AATAATTAATTATAT
21115066 GATTAGATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATAATTAATTATATT
Found at i:21117101 original size:9 final size:9
Alignment explanation
Indices: 21117087--21117120 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
21117077 CAAAATAAAT
21117087 ATTAATTAA
1 ATTAATTAA
21117096 ATTAATTAA
1 ATTAATTAA
*
21117105 ATTAACTAA
1 ATTAATTAA
21117114 ATTAATT
1 ATTAATT
21117121 TCTTCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTAATTAA
Found at i:21120554 original size:12 final size:12
Alignment explanation
Indices: 21120537--21120566 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
21120527 CATGTGACGC
21120537 CTACATGAGGCT
1 CTACATGAGGCT
21120549 CTACATGAGGCT
1 CTACATGAGGCT
21120561 CTACAT
1 CTACAT
21120567 CCCGATAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (12 bp):
CTACATGAGGCT
Found at i:21137811 original size:25 final size:25
Alignment explanation
Indices: 21137732--21137872 Score: 87
Period size: 25 Copynumber: 5.8 Consensus size: 25
21137722 TTACTGATTG
*
21137732 CAGCTCGTGAGAGCTTACCAAATCT
1 CAGCTCGTAAGAGCTTACCAAATCT
* * * * *
21137757 TAACTGGTATGAGCTTACC-GAT-T
1 CAGCTCGTAAGAGCTTACCAAATCT
*
21137780 GCAGCTCGTAAGATCTTACCAAATCT
1 -CAGCTCGTAAGAGCTTACCAAATCT
* **
21137806 CAGCTC-TATGAGCTTA-CTGAT-T
1 CAGCTCGTAAGAGCTTACCAAATCT
* *
21137828 ACAGCTTGTAAGAGCTTACCAATTCT
1 -CAGCTCGTAAGAGCTTACCAAATCT
* *
21137854 CA-CTTCATAGGAGCTTACC
1 CAGC-TCGTAAGAGCTTACC
21137873 GATTGACAGC
Statistics
Matches: 84, Mismatches: 24, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
22 1 0.01
23 9 0.11
24 34 0.40
25 38 0.45
26 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (25 bp):
CAGCTCGTAAGAGCTTACCAAATCT
Found at i:21137821 original size:24 final size:24
Alignment explanation
Indices: 21137742--21137822 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
21137732 CAGCTCGTGA
* * *
21137742 GAGCTTACCAAATCTTAACTGGTAT
1 GAGCTTACCAAATCTCAGCT-CTAT
* *
21137767 GAGCTTACC-GAT-TGCAGCTCGTAA
1 GAGCTTACCAAATCT-CAGCTC-TAT
*
21137791 GATCTTACCAAATCTCAGCTCTAT
1 GAGCTTACCAAATCTCAGCTCTAT
21137815 GAGCTTAC
1 GAGCTTAC
21137823 TGATTACAGC
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
23 1 0.02
24 24 0.56
25 17 0.40
26 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (24 bp):
GAGCTTACCAAATCTCAGCTCTAT
Found at i:21137839 original size:48 final size:47
Alignment explanation
Indices: 21137722--21137892 Score: 180
Period size: 49 Copynumber: 3.5 Consensus size: 47
21137712 TCATTAGGGA
* * * * *
21137722 TTACTGATTGCAGCTCGTGAGAGCTTACCAAATCTTAACTGGTATGAGC
1 TTACCGATTACAGCTCGTAAGAGCTTACCAAATC-TCACT-CTATGAGC
* *
21137771 TTACCGATTGCAGCTCGTAAGATCTTACCAAATCTCAGCTCTATGAGC
1 TTACCGATTACAGCTCGTAAGAGCTTACCAAATCTCA-CTCTATGAGC
* * * *
21137819 TTACTGATTACAGCTTGTAAGAGCTTACCAATTCTCACTTCATAGGAGC
1 TTACCGATTACAGCTCGTAAGAGCTTACCAAATCTCAC-TC-TATGAGC
*
21137868 TTACCGATTGACAGCTCGTGAGAGC
1 TTACCGATT-ACAGCTCGTAAGAGC
21137893 ATACTGATTC
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
47 1 0.01
48 43 0.41
49 47 0.45
50 13 0.12
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (47 bp):
TTACCGATTACAGCTCGTAAGAGCTTACCAAATCTCACTCTATGAGC
Found at i:21137892 original size:25 final size:24
Alignment explanation
Indices: 21137767--21137917 Score: 85
Period size: 25 Copynumber: 6.2 Consensus size: 24
21137757 TAACTGGTAT
*
21137767 GAGCTTACCGATT-GCAGCTCGTAA
1 GAGCTTACCGATTCACAGCTCGT-A
* * * *
21137791 GATCTTACCAAATCTCAGCTC-TA
1 GAGCTTACCGATTCACAGCTCGTA
* *
21137814 TGAGCTTACTGATT-ACAGCTTGTAA
1 -GAGCTTACCGATTCACAGCTCGT-A
* * *
21137839 GAGCTTACCAATTCTCA-CTTCATA
1 GAGCTTACCGATTCACAGC-TCGTA
*
21137863 GGAGCTTACCGATTGACAGCTCGTGA
1 -GAGCTTACCGATTCACAGCTCGT-A
* * *
21137889 GAGCATACTGATTCATAGCTCGTA
1 GAGCTTACCGATTCACAGCTCGTA
21137913 TGAGC
1 -GAGC
21137918 ATACATGTAT
Statistics
Matches: 94, Mismatches: 23, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
23 6 0.06
24 35 0.37
25 51 0.54
26 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (24 bp):
GAGCTTACCGATTCACAGCTCGTA
Found at i:21149917 original size:12 final size:13
Alignment explanation
Indices: 21149902--21149930 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21149892 AGAATTTTCC
21149902 TTTCAA-TTTAGT
1 TTTCAATTTTAGT
21149914 TTTCAATTTTAGT
1 TTTCAATTTTAGT
21149927 TTTC
1 TTTC
21149931 TTTTCCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (13 bp):
TTTCAATTTTAGT
Found at i:21152439 original size:28 final size:27
Alignment explanation
Indices: 21152406--21152459 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
21152396 AGCATAGTAT
* *
21152406 CAGGTGAGCCTCAGCCTATTAACAGAAC
1 CAGGTGAGCCTAAGCCCATT-ACAGAAC
*
21152434 CAGGTGGGCCTAAGCCCATTACAGAA
1 CAGGTGAGCCTAAGCCCATTACAGAA
21152460 TTAGTATCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.31, C:0.28, G:0.24, T:0.17
Consensus pattern (27 bp):
CAGGTGAGCCTAAGCCCATTACAGAAC
Found at i:21152849 original size:25 final size:25
Alignment explanation
Indices: 21152821--21152871 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
21152811 TTTCGTCAGT
21152821 TAGGGGTAAAATGGTAATTTTACCC
1 TAGGGGTAAAATGGTAATTTTACCC
*** *
21152846 TAGGGGTATTTTGGTCATTTTACCC
1 TAGGGGTAAAATGGTAATTTTACCC
21152871 T
1 T
21152872 TCGAGGGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.39
Consensus pattern (25 bp):
TAGGGGTAAAATGGTAATTTTACCC
Found at i:21152890 original size:27 final size:25
Alignment explanation
Indices: 21152837--21152892 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
21152827 TAAAATGGTA
* *
21152837 ATTTTACCCTAGGGGTATTTTGGTC
1 ATTTTACCCTAGGGGTATTTCGATC
*
21152862 ATTTTACCCTTCGAGGGTATTTCGATC
1 ATTTTACCC-TAG-GGGTATTTCGATC
21152889 ATTT
1 ATTT
21152893 AACAACCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 2 0.08
27 15 0.58
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (25 bp):
ATTTTACCCTAGGGGTATTTCGATC
Found at i:21157668 original size:20 final size:20
Alignment explanation
Indices: 21157643--21157691 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21157633 TAGAGTACGC
*
21157643 CACAAAGGCTG-ACATAATG
1 CACAAAGGCTGAACAGAATG
21157662 TCACAAAGG-TGAACAGAATG
1 -CACAAAGGCTGAACAGAATG
21157682 CAACAAAGGC
1 C-ACAAAGGC
21157692 CCAATCAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (20 bp):
CACAAAGGCTGAACAGAATG
Found at i:21159499 original size:50 final size:49
Alignment explanation
Indices: 21159389--21159567 Score: 182
Period size: 50 Copynumber: 3.6 Consensus size: 49
21159379 GGTAAAGAGA
* * * * **
21159389 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAACTAGATAAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC-ACGACATGAGAAC
** * *
21159439 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATGAGAAC
* * * *
21159489 TCCCATGTAAGACCATATTTGAGATATGGCATTGGCA-GTACATGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACATGAGAAC
21159537 ATCCCATGTAAGACCATGTCTGGGACATGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGC
21159568 TTTAGCATGT
Statistics
Matches: 105, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
48 4 0.04
49 32 0.30
50 69 0.66
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACATGAGAAC
Found at i:21163197 original size:14 final size:15
Alignment explanation
Indices: 21163178--21163206 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21163168 CATGCATAAA
21163178 ATGACC-AATTCCAT
1 ATGACCAAATTCCAT
21163192 ATGACCAAATTCCAT
1 ATGACCAAATTCCAT
21163207 TCAACCAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.28
Consensus pattern (15 bp):
ATGACCAAATTCCAT
Found at i:21165085 original size:59 final size:60
Alignment explanation
Indices: 21164986--21165146 Score: 172
Period size: 59 Copynumber: 2.7 Consensus size: 60
21164976 ACAAGTGTGC
* * * **
21164986 TAAA-CGATGGTCGAAACCGTCCCTTTTCTTTAATAAATGGTCGTCACCATCCATTCTT-A
1 TAAATCGATGGTCGAAACCATCCCATTTCATTAATTGATGGTCGTCACCATCCATT-TTCA
* * * *
21165045 TAAAT-GTTGGTCGAAACCATTCCC-TTTCATTAATTGATGGTAGTTACCATCCCTTTTCA
1 TAAATCGATGGTCGAAACCA-TCCCATTTCATTAATTGATGGTCGTCACCATCCATTTTCA
21165104 TAAATCGATGGTCGAAACCATCCCATTTCA-T-ATTCGATGGTCG
1 TAAATCGATGGTCGAAACCATCCCATTTCATTAATT-GATGGTCG
21165147 AAATCATCCC
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
58 5 0.06
59 59 0.69
60 22 0.26
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (60 bp):
TAAATCGATGGTCGAAACCATCCCATTTCATTAATTGATGGTCGTCACCATCCATTTTCA
Found at i:21165103 original size:30 final size:29
Alignment explanation
Indices: 21165044--21165159 Score: 101
Period size: 30 Copynumber: 4.0 Consensus size: 29
21165034 ATCCATTCTT
* *
21165044 ATAAAT-GTTGGTCGAAACCATTCCCTTTC
1 ATAAATCGATGGTAGAAACCA-TCCCTTTC
* * **
21165073 ATTAATTGATGGTAGTTACCATCCCTTTTC
1 ATAAATCGATGGTAGAAACCATCCC-TTTC
*
21165103 ATAAATCGATGGTCGAAACCATCCCATTTC
1 ATAAATCGATGGTAGAAACCATCCC-TTTC
* * *
21165133 AT-ATTCGATGGTCGAAATCATCCCTTT
1 ATAAATCGATGGTAGAAACCATCCCTTT
21165160 TCATCTTCGA
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
28 3 0.04
29 29 0.40
30 40 0.56
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (29 bp):
ATAAATCGATGGTAGAAACCATCCCTTTC
Found at i:21165154 original size:29 final size:29
Alignment explanation
Indices: 21165052--21165230 Score: 184
Period size: 29 Copynumber: 6.1 Consensus size: 29
21165042 TTATAAATGT
21165052 TGGTCGAAACCATTCCC-TTTCATTAATT-GA
1 TGGTCGAAACCA-TCCCTTTTCA-T-ATTCGA
* ** *
21165082 TGGTAGTTACCATCCCTTTTCATAAATCGA
1 TGGTCGAAACCATCCCTTTTCAT-ATTCGA
*
21165112 TGGTCGAAACCATCCCATTTCATATTCGA
1 TGGTCGAAACCATCCCTTTTCATATTCGA
* *
21165141 TGGTCGAAATCATCCCTTTTCATCTTCGA
1 TGGTCGAAACCATCCCTTTTCATATTCGA
* *
21165170 TGATC-ATCACCATCCCTTTTCATATTCGA
1 TGGTCGA-AACCATCCCTTTTCATATTCGA
* * *
21165199 TTGTCGAAACCATCTCTTTTCTTATTCGA
1 TGGTCGAAACCATCCCTTTTCATATTCGA
21165228 TGG
1 TGG
21165231 GTGTCAATAC
Statistics
Matches: 123, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
28 1 0.01
29 86 0.70
30 36 0.29
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (29 bp):
TGGTCGAAACCATCCCTTTTCATATTCGA
Found at i:21166214 original size:12 final size:12
Alignment explanation
Indices: 21166197--21166221 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21166187 AATGACACTC
21166197 TAAAAATATTTA
1 TAAAAATATTTA
21166209 TAAAAATATTTA
1 TAAAAATATTTA
21166221 T
1 T
21166222 GACTTAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAATATTTA
Found at i:21183997 original size:14 final size:15
Alignment explanation
Indices: 21183973--21184002 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
21183963 CAACATGATG
21183973 TTTCTTTCTCCTCAT
1 TTTCTTTCTCCTCAT
21183988 TTTC-TTCTCCTCAT
1 TTTCTTTCTCCTCAT
21184002 T
1 T
21184003 CTTTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTCTTTCTCCTCAT
Found at i:21189904 original size:16 final size:16
Alignment explanation
Indices: 21189883--21189914 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21189873 ATTTTGTTGC
*
21189883 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
21189899 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
21189915 CTTGCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:21190193 original size:51 final size:51
Alignment explanation
Indices: 21190132--21190332 Score: 221
Period size: 51 Copynumber: 4.0 Consensus size: 51
21190122 ATTAATGATA
* *
21190132 CCGATTCACATAGTAGCCTGCACATGGTACTACACACGTGACCATCACTAT
1 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* *
21190183 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGATCA-AAGCTAT
1 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTAT
* * * ***
21190234 CCGGTACGCATAGTAGCCTACACATAGTACTACACATACGACCTATCA-T-T
1 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
* * * *
21190284 CTGGTACACGTAGTAGCCTGCACATAATA-TCACACACGTGACCATCACT
1 CCGATACACATAGTAGCCTGCACATAGTACT-ACACACGTGACCATCACT
21190333 TTCACTTTCA
Statistics
Matches: 125, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
49 5 0.04
50 36 0.29
51 82 0.66
52 1 0.01
53 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (51 bp):
CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:21190306 original size:101 final size:102
Alignment explanation
Indices: 21190140--21190324 Score: 250
Period size: 101 Copynumber: 1.8 Consensus size: 102
21190130 TACCGATTCA
* * **
21190140 CATAGTAGCCTGCACATGGTACTACACACGTGACCATCACTATCCGATACACATAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACACACGACCATCACTATCCGATACACATAGTAGCCTGCA
*
21190205 CATAGTA-CTACACACGTGATCAAAGCTATCCGGTACG
66 CATAATATC-ACACACGTGATCAAAGCTATCCGGTACG
* * * *
21190242 CATAGTAGCCTACACATAGTACTACACATACGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACACACGACC-ATCACTATCCGATACACATAGTAGCCTGC
21190305 ACATAATATCACACACGTGA
65 ACATAATATCACACACGTGA
21190325 CCATCACTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
101 36 0.50
102 32 0.44
103 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACACACGACCATCACTATCCGATACACATAGTAGCCTGCA
CATAATATCACACACGTGATCAAAGCTATCCGGTACG
Found at i:21202255 original size:50 final size:50
Alignment explanation
Indices: 21202178--21202320 Score: 178
Period size: 50 Copynumber: 2.9 Consensus size: 50
21202168 TATTAAGATT
* *
21202178 ATGAGAGGTCCTACGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATTGGCACCGAG
* * * * *
21202228 ATGAGAGGTCCCCCGTAAGACCTTGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATTGGCACCGAG
** * * *
21202278 ATGAGAACTCCCATGTAAGACCATATTTGGGATATGGCATTGG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATTGG
21202321 TAGTACAGGA
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATTGGCACCGAG
Found at i:21211221 original size:24 final size:24
Alignment explanation
Indices: 21211194--21211241 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
21211184 ACATTCGTAG
21211194 GTTAAATAAATTATACTAATAAAT
1 GTTAAATAAATTATACTAATAAAT
*
21211218 GTTAAATATATTATACTAATAAAT
1 GTTAAATAAATTATACTAATAAAT
21211242 ACTAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
GTTAAATAAATTATACTAATAAAT
Found at i:21211247 original size:24 final size:24
Alignment explanation
Indices: 21211196--21211248 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
21211186 ATTCGTAGGT
**
21211196 TAAATAAATTATACTAATAAATGT
1 TAAATAAATTATACTAATAAATAC
*
21211220 TAAATATATTATACTAATAAATAC
1 TAAATAAATTATACTAATAAATAC
21211244 TAAAT
1 TAAAT
21211249 TTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAATAAATTATACTAATAAATAC
Found at i:21212295 original size:2 final size:2
Alignment explanation
Indices: 21212288--21212328 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
21212278 ATTGTTAAAG
21212288 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
21212329 GATGCTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21217737 original size:42 final size:42
Alignment explanation
Indices: 21217678--21217761 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
21217668 TAACCTAATT
21217678 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
21217720 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
21217762 AATAAAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (42 bp):
GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
Found at i:21217769 original size:42 final size:42
Alignment explanation
Indices: 21217680--21217772 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
21217670 ACCTAATTGG
**
21217680 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGG
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
21217722 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
21217764 TAAAATAAT
1 GAAAATAAT
21217773 CCTAGAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (42 bp):
GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:21223146 original size:38 final size:38
Alignment explanation
Indices: 21223104--21223202 Score: 112
Period size: 38 Copynumber: 2.6 Consensus size: 38
21223094 TAAATATAAT
* *
21223104 AATTATAATTACCATAATTATAATAATGTTTGA-CCAAA
1 AATTATAATTACCATAATTATAATAATATTCGATCC-AA
* * *
21223142 AATTACAATT-GCAGTAATTATAATAATATTCGATCCTA
1 AATTATAATTACCA-TAATTATAATAATATTCGATCCAA
*
21223180 AATTATAATTACAATAATTATAA
1 AATTATAATTACCATAATTATAA
21223203 CAAGGATTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
37 2 0.04
38 45 0.90
39 3 0.06
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (38 bp):
AATTATAATTACCATAATTATAATAATATTCGATCCAA
Found at i:21225180 original size:103 final size:104
Alignment explanation
Indices: 21224929--21225296 Score: 609
Period size: 103 Copynumber: 3.6 Consensus size: 104
21224919 TAACCGTTAT
* * ** *
21224929 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
21224994 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* *
21225033 TGGTGGAT-ATCACACTTAGCACCACCAATGAACC-GGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
21225095 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
21225135 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
21225200 AATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
21225238 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
21225297 TTATATACAA
Statistics
Matches: 250, Mismatches: 10, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
102 73 0.29
103 129 0.52
104 48 0.19
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (104 bp):
TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:21225200 original size:27 final size:27
Alignment explanation
Indices: 21225169--21225220 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
21225159 CCAATGAACC
*
21225169 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
21225196 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
21225221 TTCACATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:21225657 original size:29 final size:29
Alignment explanation
Indices: 21225624--21225687 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21225614 TAATCCACCA
21225624 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
21225653 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
21225683 CCCAA
1 CCCAA
21225688 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:21225661 original size:30 final size:30
Alignment explanation
Indices: 21225631--21225687 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21225621 CCACCCAACT
21225631 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
21225660 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
21225688 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:21230276 original size:40 final size:40
Alignment explanation
Indices: 21230192--21230375 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
21230182 TTGAATGCTG
* * * *
21230192 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
21230231 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * **
21230272 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACCAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
21230312 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
21230352 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21230376 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 110 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:21230396 original size:39 final size:39
Alignment explanation
Indices: 21230272--21230422 Score: 117
Period size: 40 Copynumber: 3.8 Consensus size: 39
21230262 AGTTATTAAT
* ** * * *
21230272 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATAC-CAAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
21230312 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
21230352 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
21230392 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
21230423 GAGCTATATC
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 29 0.31
40 64 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:21238135 original size:40 final size:40
Alignment explanation
Indices: 21238051--21238233 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
21238041 TTGAATGCTG
* * * *
21238051 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
21238090 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
21238131 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATA-CAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
21238170 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
21238210 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21238234 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:21238202 original size:79 final size:81
Alignment explanation
Indices: 21238051--21238230 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 81
21238041 TTGAATGCTG
* * * *
21238051 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
* *
21238115 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
21238131 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACAAT-TCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACAATATCCGGACTAAGAT-CCGAAGGCA
21238192 TTCGTGCGAGTTTTAAAA
64 TTCGTGCGAGTTTTAAAA
21238210 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
21238231 ATTGAATGAG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 51 0.58
80 25 0.28
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:21238254 original size:39 final size:39
Alignment explanation
Indices: 21238131--21238280 Score: 117
Period size: 39 Copynumber: 3.8 Consensus size: 39
21238121 AGTTATTAAT
* ** * *
21238131 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAG--ATACAAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTCTA-AAA
** *
21238170 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
21238210 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
21238250 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
21238281 GAGCTATATC
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
38 3 0.03
39 52 0.55
40 37 0.39
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:21238254 original size:79 final size:79
Alignment explanation
Indices: 21238104--21238270 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
21238094 GGACTAAGAT
* * * * **
21238104 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACAA
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCATTGAACGAGATACAA
* *
21238169 TTCCGGGTTAAGTC
66 TACCGGGCTAAGTC
* * *
21238183 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTCCCGAAGG-CATTGAATGAGTTACT
1 CCGAAGGCATTCGTGCGAGTTATT-AAATCCGGGTTAAGTCCCGAAGGCCATTGAACGAGATACA
*
21238246 ATGACCGGGCTATGTC
65 AT-ACCGGGCTAAGTC
21238262 CCGAAGGCA
1 CCGAAGGCA
21238271 CTTGAACGAG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
78 14 0.19
79 60 0.81
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCATTGAACGAGATACAA
TACCGGGCTAAGTC
Found at i:21243733 original size:26 final size:26
Alignment explanation
Indices: 21243703--21243753 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
21243693 ACCAATGAAC
*
21243703 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
21243729 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
21243754 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:21243786 original size:103 final size:103
Alignment explanation
Indices: 21243463--21243831 Score: 623
Period size: 104 Copynumber: 3.6 Consensus size: 103
21243453 TAACCGTTAT
* * ** *
21243463 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGAT-ACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
21243528 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
21243567 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATA-CGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
21243632 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
21243671 TGGTGGATACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGGA
1 TGGTGGATACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
21243735 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
21243773 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
21243832 TTATATACAA
Statistics
Matches: 255, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
102 51 0.20
103 96 0.38
104 108 0.42
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.18
Consensus pattern (103 bp):
TGGTGGATACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:21244192 original size:29 final size:29
Alignment explanation
Indices: 21244159--21244222 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21244149 TAATCCACCA
21244159 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
21244188 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
21244218 CCCAA
1 CCCAA
21244223 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:21244196 original size:30 final size:30
Alignment explanation
Indices: 21244166--21244222 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21244156 CCACCCAACT
21244166 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
21244195 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
21244223 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:21246387 original size:27 final size:27
Alignment explanation
Indices: 21246346--21246416 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
21246336 GAGTCCACTG
*
21246346 GGATAGTAAACACGGGGTAGCCCGTCA
1 GGATAGTAAACACGGGGTAGCCCGCCA
* **
21246373 GGGTAGTAAACACGGGGTAGCTTGCCA
1 GGATAGTAAACACGGGGTAGCCCGCCA
*
21246400 GGATAATAAACACGGGG
1 GGATAGTAAACACGGGG
21246417 AAGTTCGCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.35, T:0.15
Consensus pattern (27 bp):
GGATAGTAAACACGGGGTAGCCCGCCA
Found at i:21246429 original size:27 final size:27
Alignment explanation
Indices: 21246379--21246438 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
21246369 GTCAGGGTAG
* *
21246379 TAAACACGGGGTAGCTTGCCAGGATAA
1 TAAACACGGGGAAGCTTGCCAGGACAA
* *
21246406 TAAACACGGGGAAG-TTCGCTAGGACAT
1 TAAACACGGGGAAGCTT-GCCAGGACAA
21246433 TAAACA
1 TAAACA
21246439 TGAATTCAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (27 bp):
TAAACACGGGGAAGCTTGCCAGGACAA
Found at i:21247877 original size:14 final size:14
Alignment explanation
Indices: 21247858--21247884 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21247848 TATGGAAATG
21247858 GATGCAGACGTGTA
1 GATGCAGACGTGTA
21247872 GATGCAGACGTGT
1 GATGCAGACGTGT
21247885 GAATCATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.37, T:0.22
Consensus pattern (14 bp):
GATGCAGACGTGTA
Found at i:21252675 original size:43 final size:43
Alignment explanation
Indices: 21252614--21252704 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
21252604 TTTTGAGTTC
* * *
21252614 ATTA-CAAGATTTCCTTGATTAGGTAAATGT-ATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAAT-TCATTATATCTTTT
* * *
21252656 ATTACCAATATTTACTTGATTAAGAAAATTCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATTCATTATATCTTTT
21252699 ATTACC
1 ATTACC
21252705 TTGCAATGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATTCATTATATCTTTT
Found at i:21254279 original size:43 final size:43
Alignment explanation
Indices: 21254119--21254280 Score: 216
Period size: 43 Copynumber: 3.8 Consensus size: 43
21254109 ATTTTTAGGA
* ** ** *
21254119 AAAGCACTGCTAAAGAACATGTAATTTAGCGACGTTTGTGGGG
1 AAAGCACCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGG
* *
21254162 AAAGCACCGCTAAATGTCATGTTCTTTAGCGTCGTTTGTGGGG
1 AAAGCACCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGG
* * *
21254205 AACGCGCCGCTAAAGGTCCTGTTCTTTAGCGGCGTTTGTGGGG
1 AAAGCACCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGG
*
21254248 AAAGCACCTCTAAAGGTCATGTTCTTTAGCGGC
1 AAAGCACCGCTAAAGGTCATGTTCTTTAGCGGC
21254281 ATTTTTCCAT
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
AAAGCACCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGG
Found at i:21259248 original size:37 final size:37
Alignment explanation
Indices: 21259198--21259276 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21259188 TTATTACGAA
* * *
21259198 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCAG
*
21259235 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCAG
21259272 GTCTT
1 GTCTT
21259277 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCAG
Done.