Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 60 of 210
Found at i:21018177 original size:29 final size:30
Alignment explanation
Indices: 21018118--21018173 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
21018108 CTTAATTATA
* *
21018118 ATTTTAGCCTCTAATATTTTTCATTTTATC
1 ATTTTAGCCTCTAATATATTTCATTTAATC
21018148 ATTTTAGCC-CTAAT-TATTTCATTTAA
1 ATTTTAGCCTCTAATATATTTCATTTAA
21018174 ATCACTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
29 5 0.21
30 9 0.38
ACGTcount: A:0.27, C:0.16, G:0.04, T:0.54
Consensus pattern (30 bp):
ATTTTAGCCTCTAATATATTTCATTTAATC
Found at i:21018931 original size:42 final size:42
Alignment explanation
Indices: 21018885--21018965 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
21018875 AATATTTTTA
*
21018885 TTTTTTTAATTTTAAAATACTTTTAAGATACTTTTTTAAAAT
1 TTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAAAAT
*
21018927 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
1 TTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAA
21018966 TTTTAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (42 bp):
TTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAAAAT
Found at i:21018950 original size:30 final size:30
Alignment explanation
Indices: 21018917--21018986 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
21018907 TTAAGATACT
*
21018917 TTTTTAAAAT-TTTTTTTAATTTTAAAATA
1 TTTTTAAAATACTTTTTTAATTTTAAAATA
21018946 TTTTTAAAATACTTTTTTAATTTTAAAATA
1 TTTTTAAAATACTTTTTTAATTTTAAAATA
21018976 TTTTTAAAATA
1 TTTTTAAAATA
21018987 AATTTTTGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 10 0.26
30 29 0.74
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTTAAAATACTTTTTTAATTTTAAAATA
Found at i:21018993 original size:13 final size:11
Alignment explanation
Indices: 21018894--21018986 Score: 58
Period size: 11 Copynumber: 8.9 Consensus size: 11
21018884 ATTTTTTTAA
*
21018894 TTTTAAAATAC
1 TTTTAAAATAT
*
21018905 TTTTAAGATACTT
1 TTTTAAAATA--T
21018918 TTTTAAAAT-T
1 TTTTAAAATAT
* *
21018928 TTTT---TTAA
1 TTTTAAAATAT
21018936 TTTTAAAATAT
1 TTTTAAAATAT
21018947 TTTTAAAATACT
1 TTTTAAAATA-T
*
21018959 TTTT----TAA
1 TTTTAAAATAT
21018966 TTTTAAAATAT
1 TTTTAAAATAT
21018977 TTTTAAAATA
1 TTTTAAAATA
21018987 AATTTTTGGT
Statistics
Matches: 62, Mismatches: 9, Indels: 22
0.67 0.10 0.24
Matches are distributed among these distances:
7 5 0.08
8 6 0.10
10 5 0.08
11 33 0.53
12 5 0.08
13 8 0.13
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:21018993 original size:30 final size:30
Alignment explanation
Indices: 21018929--21018993 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
21018919 TTTAAAATTT
**
21018929 TTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTAATTTTAAAATATTTTTAAAATAAA
21018959 TTTTTAATTTTAAAATATTTTTAAAATAAA
1 TTTTTAATTTTAAAATATTTTTAAAATAAA
21018989 TTTTT
1 TTTTT
21018994 GGTATTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTTAATTTTAAAATATTTTTAAAATAAA
Found at i:21022386 original size:60 final size:60
Alignment explanation
Indices: 21022322--21022449 Score: 202
Period size: 60 Copynumber: 2.1 Consensus size: 60
21022312 CTTTTTTCAT
*
21022322 CCAACTATGAAAAGTTACAAAATAGTCACTCAACTATTAGTAAATTTCTTCTTTGATCAC
1 CCAACTATGAAAAGTTACAAAATAGTCACTCAACTATTAGTAAATTTATTCTTTGATCAC
* * * *
21022382 CCAACTATGAAAAGTTACAAAATGGTCACTCAACTATTAGTACATTTATTTTTTGGTCAC
1 CCAACTATGAAAAGTTACAAAATAGTCACTCAACTATTAGTAAATTTATTCTTTGATCAC
*
21022442 CTAACTAT
1 CCAACTAT
21022450 TCAATTTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (60 bp):
CCAACTATGAAAAGTTACAAAATAGTCACTCAACTATTAGTAAATTTATTCTTTGATCAC
Found at i:21022415 original size:29 final size:29
Alignment explanation
Indices: 21022323--21022418 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
21022313 TTTTTTCATC
*
21022323 CAACTATGAAAAGTTACAAAATAGTCACT
1 CAACTATGAAAAGTTACAAAATGGTCACT
* * **** * *
21022352 CAACTATTAGTAAA-TTTCTTCTTTGATCACC
1 CAACTA-T-GAAAAGTTAC-AAAATGGTCACT
21022383 CAACTATGAAAAGTTACAAAATGGTCACT
1 CAACTATGAAAAGTTACAAAATGGTCACT
21022412 CAACTAT
1 CAACTAT
21022419 TAGTACATTT
Statistics
Matches: 46, Mismatches: 17, Indels: 8
0.65 0.24 0.11
Matches are distributed among these distances:
29 23 0.50
30 8 0.17
31 15 0.33
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (29 bp):
CAACTATGAAAAGTTACAAAATGGTCACT
Found at i:21024702 original size:16 final size:17
Alignment explanation
Indices: 21024681--21024714 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21024671 TTTTCTCATT
21024681 TTAT-AATTATTTTTTA
1 TTATAAATTATTTTTTA
21024697 TTATAAAATTATTTTTTA
1 TTAT-AAATTATTTTTTA
21024715 AAATAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
18 12 0.75
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATAAATTATTTTTTA
Found at i:21028086 original size:31 final size:31
Alignment explanation
Indices: 21028027--21028108 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 31
21028017 TTTAAATATG
* * *
21028027 TACAATTGAATCAAAATCAAAGTTTCATGTA
1 TACAATTGAACCAAAATCAAAATATCATGTA
* * *
21028058 TACATTTGAACCAAAATTAAAATATCATGTG
1 TACAATTGAACCAAAATCAAAATATCATGTA
*
21028089 TATAATT-ACACC-AAATCAAA
1 TACAATTGA-ACCAAAATCAAA
21028109 GTTCAACGTA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 8 0.20
31 33 0.80
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (31 bp):
TACAATTGAACCAAAATCAAAATATCATGTA
Found at i:21029275 original size:150 final size:149
Alignment explanation
Indices: 21028999--21029506 Score: 729
Period size: 150 Copynumber: 3.4 Consensus size: 149
21028989 TTCAATTCCC
*
21028999 AGCTAGAATTTGCTGAAAATCATTGTTGTTTTTGGTTGTTCGTTAGAGCATTTGAGCTTTGGTGA
1 AGCTCGAATTTGCTGAAAATCATTGTT-TTTTTGGTTGTTCGTTAGAGCATTTGAGCTTTGGTGA
21029064 GATTCTTGGCTTTGGGTTAGTGTGTTTTTTCGATTTTATTTCAATTCCCTTTAGTATAATTGCCT
65 GATTCTTGGCTTTGGGTTAGTGTGTTTTTTCGATTTTATTTCAATTCCCTTTAGTATAATTGCCT
21029129 TGTTTTTTTTTTAACTTCTT
130 TGTTTTTTTTTTAACTTCTT
21029149 AGCTCGAATTTGCTGAAAATCATTGTTGTTTTTGGTTGTTCGTTAGAGCATTTGAGCTTTGGTGA
1 AGCTCGAATTTGCTGAAAATCATTGTT-TTTTTGGTTGTTCGTTAGAGCATTTGAGCTTTGGTGA
21029214 GATTCTTGGCTTTGGGTTAGTGTGTTTTTTCGATTTTATTTCAATTCCCTTTAGTATAATTGCCT
65 GATTCTTGGCTTTGGGTTAGTGTGTTTTTTCGATTTTATTTCAATTCCCTTTAGTATAATTGCCT
21029279 TGTTTTTTTTTTAACTTCTT
130 TGTTTTTTTTTTAACTTCTT
* * * * *
21029299 AGCTCGAATTTGCTGAAAATCATTGATTTATTGGTTGTTCGTTTGAGCATTCGAGCTTGGGTGAG
1 AGCTCGAATTTGCTGAAAATCATTGTTTTTTTGGTTGTTCGTTAGAGCATTTGAGCTTTGGTGAG
* * * * * * * * *
21029364 ATTCTTGGCTCTGGGTT--TTTTTTTTTTCAAATTTATTCCAATACCCTTTACTCTAATTGCCCT
66 ATTCTTGGCTTTGGGTTAGTGTGTTTTTTCGATTTTATTTCAATTCCCTTTAGTATAATTG-CC-
* *
21029427 TTTTTTTTTTTTTTACTTCTT
129 TTGTTTTTTTTTTAACTTCTT
* * * *
21029448 AGTTCG-ATTTCGCTGAAAATAATT-TTTTTATTGGTTATTCGCTT-GAGCATTTGATCTTT
1 AGCTCGAATTT-GCTGAAAATCATTGTTTTT-TTGGTTGTTCG-TTAGAGCATTTGAGCTTT
21029507 CATGGTGTTT
Statistics
Matches: 328, Mismatches: 25, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
147 34 0.10
148 9 0.03
149 108 0.33
150 177 0.54
ACGTcount: A:0.18, C:0.13, G:0.19, T:0.51
Consensus pattern (149 bp):
AGCTCGAATTTGCTGAAAATCATTGTTTTTTTGGTTGTTCGTTAGAGCATTTGAGCTTTGGTGAG
ATTCTTGGCTTTGGGTTAGTGTGTTTTTTCGATTTTATTTCAATTCCCTTTAGTATAATTGCCTT
GTTTTTTTTTTAACTTCTT
Found at i:21029436 original size:149 final size:149
Alignment explanation
Indices: 21028999--21029754 Score: 720
Period size: 150 Copynumber: 4.9 Consensus size: 149
21028989 TTCAATTCCC
* * *
21028999 AGCTAGAATTTGCTGAAAATCATTGTTGTTTTTGGTTGTTCGTTAGAGCATTTGAGCTTTGGTGA
1 AGCTCGAATTTGCTGAAAATCATTGTTGTTATTGGTTGTTCGTTTGAGCATTTGAGCTTTGGTGA
* * * * * * *
21029064 GATTCTTGGCTTTGGGTTAGTGTGTTTTTTCGATTTTATTTCAATTCCCTTTAGTATAATTGCC-
66 GATTCTTGGCTCTGGGTT--TTTTTTTTTTCAAATTTATTTCAATACCCTTTAGTCTAATTGCCT
*
21029128 TTGTTTTTTTTTTAACTTCTT
129 TTTTTTTTTTTTTAACTTCTT
* *
21029149 AGCTCGAATTTGCTGAAAATCATTGTTGTTTTTGGTTGTTCGTTAGAGCATTTGAGCTTTGGTGA
1 AGCTCGAATTTGCTGAAAATCATTGTTGTTATTGGTTGTTCGTTTGAGCATTTGAGCTTTGGTGA
* * * * * * *
21029214 GATTCTTGGCTTTGGGTTAGTGTGTTTTTTCGATTTTATTTCAATTCCCTTTAGTATAATTGCC-
66 GATTCTTGGCTCTGGGTT--TTTTTTTTTTCAAATTTATTTCAATACCCTTTAGTCTAATTGCCT
*
21029278 TTGTTTTTTTTTTAACTTCTT
129 TTTTTTTTTTTTTAACTTCTT
* * *
21029299 AGCTCGAATTTGCTGAAAATCATTGAT-TTATTGGTTGTTCGTTTGAGCATTCGAGCTTGGGTGA
1 AGCTCGAATTTGCTGAAAATCATTGTTGTTATTGGTTGTTCGTTTGAGCATTTGAGCTTTGGTGA
* *
21029363 GATTCTTGGCTCTGGGTTTTTTTTTTTTCAAATTTATTCCAATACCCTTTACTCTAATTGCCCTT
66 GATTCTTGGCTCTGGGTTTTTTTTTTTTCAAATTTATTTCAATACCCTTTAGTCTAATTG-CCTT
*
21029428 TTTTTTTTTTTTTACTTCTT
130 TTTTTTTTTTTTAACTTCTT
* * * * * * **
21029448 AGTTCG-ATTTCGCTGAAAATAATT-TTTTTATTGGTTATTCGCTTGAGCATTTGATCTTTCATG
1 AGCTCGAATTT-GCTGAAAATCATTGTTGTTATTGGTTGTTCGTTTGAGCATTTGAGCTTTGGTG
* * * * *
21029511 -GTGTTTTTGGCACTGGGTTAGGTTTTTTTTTTCTTTTCAAATTTATCTCAATACTCTTTAGTCT
65 AG-ATTCTTGGCTCT--G---GG--TTTTTTTT-TTTTCAAATTTATTTCAATACCCTTTAGTCT
21029575 AATTGCCTTGGTTTTTTTTTTTTTAAACTTCCTT
121 AATTGCC-T--TTTTTTTTTTTTT-AACTT-CTT
* * *
21029609 -GCTCGATTTTGCTGAAAATCATTGTTATATATATATTGGTTGTTCGTTTGAGCAATTT-ATCTT
1 AGCTCGAATTTGCTGAAAATCATTG---T-TGT-TATTGGTTGTTCGTTTGAGC-ATTTGAGCTT
** * *
21029672 TCATG-GTGTTCTTGGCTCTGAGTTAGGTTTTTTTTCTTTTCAAATTTATTTCAATACCCTTTAC
60 TGGTGAG-ATTCTTGGCTCT--G---GGTTTTTTTT-TTTTCAAATTTATTTCAATACCCTTTAG
*
21029736 TCTAATTGCCTTGTTTTTT
118 TCTAATTGCCTTTTTTTTT
21029755 AACTTCATAT
Statistics
Matches: 532, Mismatches: 48, Indels: 41
0.86 0.08 0.07
Matches are distributed among these distances:
147 34 0.06
148 8 0.02
149 124 0.23
150 175 0.33
151 1 0.00
154 2 0.00
156 10 0.02
157 33 0.06
159 13 0.02
160 20 0.04
161 13 0.02
163 1 0.00
164 45 0.08
165 2 0.00
166 47 0.09
167 4 0.01
ACGTcount: A:0.18, C:0.13, G:0.17, T:0.52
Consensus pattern (149 bp):
AGCTCGAATTTGCTGAAAATCATTGTTGTTATTGGTTGTTCGTTTGAGCATTTGAGCTTTGGTGA
GATTCTTGGCTCTGGGTTTTTTTTTTTTCAAATTTATTTCAATACCCTTTAGTCTAATTGCCTTT
TTTTTTTTTTTAACTTCTT
Found at i:21029595 original size:157 final size:156
Alignment explanation
Indices: 21029088--21029907 Score: 649
Period size: 150 Copynumber: 5.3 Consensus size: 156
21029078 GGTTAGTGTG
* * * * * * *
21029088 TTTTTTCGATTTTATTTCAATTCCCTTTAGTATAATTGCCTTG-TTTTTTTTTTAACTTCTTAGC
1 TTTTTTCAAATTTATTTCAATACCCTTTACTCTAATTGCCTTGTTTTTTTTTTTTACTTCTTAGT
* * * * **
21029152 TCGAATTTGCTGAAAATCAT-TGTTGTTT-TTGGTTGTTCG-TTAGAGCATTTGAGCTTTGGTGA
66 TCGATTTTGCTGAAAATAATCT-TT-TTTATTGGTTATTCGCTT-GAGCATTTGATCTTTCATG-
* * * *
21029214 G-ATTCTTGGCTTTGGGTTA-G----TGTG
127 GTGTTCTTGGCTCTGGGTTAGGTTTTTTTT
* * * * * * *
21029238 TTTTTTCGATTTTATTTCAATTCCCTTTAGTATAATTGCCTTG-TTTTTTTTTTAACTTCTTAGC
1 TTTTTTCAAATTTATTTCAATACCCTTTACTCTAATTGCCTTGTTTTTTTTTTTTACTTCTTAGT
* * ** * * * * *** *
21029302 TCGAATTTGCTGAAAATCAT-TGATTTATTGGTTGTTCGTTTGAGCATTCGAGCTTGGGTGAG-A
66 TCGATTTTGCTGAAAATAATCTTTTTTATTGGTTATTCGCTTGAGCATTTGATCTTTCATG-GTG
21029365 TTCTTGGCTCT--G---GG--TTTTTT
130 TTCTTGGCTCTGGGTTAGGTTTTTTTT
* *
21029385 TTTTTTCAAATTTATTCCAATACCCTTTACTCTAATTGCCCTTTTTTTTTTTTTTTACTTCTTAG
1 TTTTTTCAAATTTATTTCAATACCCTTTACTCTAATTG-CCTTGTTTTTTTTTTTTACTTCTTAG
*
21029450 TTCGATTTCGCTGAAAATAAT-TTTTTTATTGGTTATTCGCTTGAGCATTTGATCTTTCATGGTG
65 TTCGATTTTGCTGAAAATAATCTTTTTTATTGGTTATTCGCTTGAGCATTTGATCTTTCATGGTG
* *
21029514 TTTTTGGCACTGGGTTAGGTTTTTTTT
130 TTCTTGGCTCTGGGTTAGGTTTTTTTT
* * *
21029541 TTCTTTTCAAATTTATCTCAATACTCTTTAGTCTAATTGCCTTGGTTTTTTTTTTTTTAAACTTC
1 TT-TTTTCAAATTTATTTCAATACCCTTTACTCTAATTGCCTT-G-TTTTTTTTTTTT--ACTT-
* * * * *
21029606 CTT-GCTCGATTTTGCTGAAAATCATTGTTATATATATATTGGTTGTTCGTTTGAGCAATTT-AT
60 CTTAGTTCGATTTTGCTGAAAAT-AATCTT-T-T-T-TATTGGTTATTCGCTTGAGC-ATTTGAT
*
21029669 CTTTCATGGTGTTCTTGGCTCTGAGTTAGG-TTTTTTT
119 CTTTCATGGTGTTCTTGGCTCTGGGTTAGGTTTTTTTT
* * *
21029706 TCTTTTCAAATTTATTTCAATACCCTTTACTCTAATTGCCTTG-----TTTTTTAACTTCATA-T
1 TTTTTTCAAATTTATTTCAATACCCTTTACTCTAATTGCCTTGTTTTTTTTTTTTACTTCTTAGT
* * * * *
21029765 CTCTAATTTTGCTGAAAAT-CTCTGTTTTATTGGTTATTCGCTAGAGCACTTGATCTTTCATGGT
66 -TC-GATTTTGCTGAAAATAATCTTTTTTATTGGTTATTCGCTTGAGCATTTGATCTTTCATGGT
* **
21029829 GTTCTTGACTCTGGGTTTTTGTGTTTTTTT
129 GTTCTTGGCTCTGGG-TTAGGT-TTTTTTT
* * *
21029859 TTTTTTCAATTTTATTTCGATACCCTTCACTCTAATTGCCTTGTTTTTT
1 TTTTTTCAAATTTATTTCAATACCCTTTACTCTAATTGCCTTGTTTTTT
21029908 GTTACTTCCT
Statistics
Matches: 563, Mismatches: 67, Indels: 72
0.80 0.10 0.10
Matches are distributed among these distances:
145 1 0.00
147 35 0.06
148 8 0.01
149 120 0.21
150 129 0.23
151 5 0.01
152 1 0.00
153 47 0.08
154 6 0.01
155 6 0.01
156 26 0.05
157 38 0.07
158 13 0.02
160 21 0.04
161 5 0.01
162 2 0.00
163 2 0.00
164 38 0.07
165 9 0.02
166 47 0.08
167 4 0.01
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.53
Consensus pattern (156 bp):
TTTTTTCAAATTTATTTCAATACCCTTTACTCTAATTGCCTTGTTTTTTTTTTTTACTTCTTAGT
TCGATTTTGCTGAAAATAATCTTTTTTATTGGTTATTCGCTTGAGCATTTGATCTTTCATGGTGT
TCTTGGCTCTGGGTTAGGTTTTTTTT
Found at i:21029955 original size:153 final size:149
Alignment explanation
Indices: 21029658--21029975 Score: 370
Period size: 153 Copynumber: 2.1 Consensus size: 149
21029648 TTGTTCGTTT
* *
21029658 GAGCAATTTATCTTTCATGGTGTTCTTGGCTCTGAGTTAGGTTTTTTTTCTTTTCAAATTTATTT
1 GAGC-ATTGATCTTTCATGGTGTTCTTGACTCTGAGTTAGGTTTTTTTTCTTTTCAAATTTATTT
* * ** * *
21029723 CAATACCCTTTACTCTAATTGCCTTGTTTTTTAACTTCATATCTCTAATTTTGCTGAAAATCTCT
65 CAATACCCTTCACTCTAATTGCCTTGTTTTTTAACTTCATATCTCTAAATTCACTCAAAACCTCT
** *
21029788 GTTTTATTGGTTATTCGCTA
130 GTTTTATTCATTATTAGCTA
* * * *
21029808 GAGCACTTGATCTTTCATGGTGTTCTTGACTCTGGGTTTTTGTGTTTTTTTTTTTTTCAATTTTA
1 GAGCA-TTGATCTTTCATGGTGTTCTTGACTCTGAG--TTAG-GTTTTTTTTCTTTTCAAATTTA
* * *
21029873 TTTCGATACCCTTCACTCTAATTGCCTTGTTTTTTGTTACTTCCTATCTC-AAATTCACTCAAAA
62 TTTCAATACCCTTCACTCTAATTGCCTTG-TTTTT-TAACTTCATATCTCTAAATTCACTCAAAA
* *
21029937 CCTTTGTTTT-TTCATTATTAGCTT
125 CCTCTGTTTTATTCATTATTAGCTA
21029961 GAGCATTGAATCTTT
1 GAGCATTG-ATCTTT
21029976 AGTAATCTTC
Statistics
Matches: 141, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
149 1 0.01
150 31 0.22
152 6 0.04
153 68 0.48
154 23 0.16
155 12 0.09
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.51
Consensus pattern (149 bp):
GAGCATTGATCTTTCATGGTGTTCTTGACTCTGAGTTAGGTTTTTTTTCTTTTCAAATTTATTTC
AATACCCTTCACTCTAATTGCCTTGTTTTTTAACTTCATATCTCTAAATTCACTCAAAACCTCTG
TTTTATTCATTATTAGCTA
Found at i:21029987 original size:153 final size:152
Alignment explanation
Indices: 21029698--21030011 Score: 352
Period size: 153 Copynumber: 2.1 Consensus size: 152
21029688 TCTGAGTTAG
* *
21029698 GTTTTTTTTCTTTTCAAATTTATTTCAATACCCTTTACTCTAATTGCCTTGTTTTTTAACTTCAT
1 GTTTTTTTTTTTTTCAAATTTATTTCAATACCCTTCACTCTAATTGCCTTGTTTTTTAACTTCAT
* ** * * ** * **
21029763 ATCTCTAATTTTGCTGAAAATCTCTGTTTTATTGGTTATTCGCTAGAGCACTTGATCTTTCATGG
66 ATCTCTAAATTCACTCAAAACCTCTGTTTTATTCATTATTAGCTAGAGCACTTGATCTTTCATAA
* *
21029828 TGTTCTT-GACTCTGGGTTTTTGT
131 TCTTCTTAG-CTCTGGGTGTTT-T
* * *
21029851 GTTTTTTTTTTTTTCAATTTTATTTCGATACCCTTCACTCTAATTGCCTTGTTTTTTGTTACTTC
1 GTTTTTTTTTTTTTCAAATTTATTTCAATACCCTTCACTCTAATTGCCTTG-TTTTT-TAACTTC
* * *
21029916 CTATCTC-AAATTCACTCAAAACCTTTGTTTT-TTCATTATTAGCTTGAGCA-TTGAATCTTT-A
64 ATATCTCTAAATTCACTCAAAACCTCTGTTTTATTCATTATTAGCTAGAGCACTTG-ATCTTTCA
21029977 GTAATCTTCTTAGCTCTGGGTGTTTT
128 -TAATCTTCTTAGCTCTGGGTGTTTT
21030003 -TTTTTTTTT
1 GTTTTTTTTT
21030012 AATTCAATAC
Statistics
Matches: 136, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
151 9 0.07
152 5 0.04
153 86 0.63
154 24 0.18
155 12 0.09
ACGTcount: A:0.18, C:0.17, G:0.11, T:0.53
Consensus pattern (152 bp):
GTTTTTTTTTTTTTCAAATTTATTTCAATACCCTTCACTCTAATTGCCTTGTTTTTTAACTTCAT
ATCTCTAAATTCACTCAAAACCTCTGTTTTATTCATTATTAGCTAGAGCACTTGATCTTTCATAA
TCTTCTTAGCTCTGGGTGTTTT
Found at i:21038043 original size:80 final size:80
Alignment explanation
Indices: 21037875--21038386 Score: 443
Period size: 80 Copynumber: 6.4 Consensus size: 80
21037865 GTTTTTCTTG
* * * * ** * * * *
21037875 AGTAATTTCTGAAATTTTTTCTGGGAATTTGAGTGAGGGAACACTGGTTAGGTATCCTTTTGCTC
1 AGTAATTTGTGAAA-ATTTTCTGGGAATTTGAATGAGGGAAAACTAATTTGATACCCTTTTGCTT
* * *
21037940 TTGTTGTATTTGCTTG
65 TTGCTGTATTTCCTTT
* * *
21037956 AGTAATTTGTGAAATTTTTTCTGGGAATTTGAATG-GGAGAAATC-AATTCGATACCCTTTTGCT
1 AGTAATTTGTGAAA-ATTTTCTGGGAATTTGAATGAGG-GAAAACTAATTTGATACCCTTTTGCT
21038019 TTTGCTGTATTTCCTTT
64 TTTGCTGTATTTCCTTT
* * * *
21038036 AGTAATTTGTGAAAATTTTCTGGGAATTTGCAA-GAGGG-GACCAAATTTGATATCCTTTTGCTT
1 AGTAATTTGTGAAAATTTTCTGGGAATTTG-AATGAGGGAAAACTAATTTGATACCCTTTTGCTT
21038099 TTGCTGTATTTCC-TT
65 TTGCTGTATTTCCTTT
** * ** * *
21038114 AGTTCTCTGTGAATTTTTTCTGGGAATTTGCATGAGGGAAAAC-AATTTTTGATTCCCTTTTGCT
1 AGTAATTTGTGAAAATTTTCTGGGAATTTGAATGAGGGAAAACTAA--TTTGATACCCTTTTGCT
* *
21038178 CTTGCTGTATTTGCTTGT
64 TTTGCTGTATTTCCTT-T
* * ** * *
21038196 -GTAATTTGTGAAAATTTTCTGGGAAATCGCTTGAGGGAAAACTAGTTTG-TGCCCTTTTTG-TT
1 AGTAATTTGTGAAAATTTTCTGGGAATTTGAATGAGGGAAAACTAATTTGATACCC-TTTTGCTT
*
21038258 CTTGCTGTATTTCCTTG
65 -TTGCTGTATTTCCTTT
* * *
21038275 AGTAATTTGTGAAAATTTTCTTGGAATTTGCATGAAGGG-AAACCAATTCTGATACCCTTTTGCT
1 AGTAATTTGTGAAAATTTTCTGGGAATTTGAATG-AGGGAAAACTAATT-TGATACCCTTTTGCT
*
21038339 CTTT-CTATATTTCCTTT
64 -TTTGCTGTATTTCCTTT
* *
21038356 GAGTGAATCTGTGAAAATTTTCTGAGAATTT
1 -AGT-AATTTGTGAAAATTTTCTGGGAATTT
21038387 TCAAGAGGAA
Statistics
Matches: 355, Mismatches: 55, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
77 1 0.00
78 36 0.10
79 55 0.15
80 133 0.37
81 94 0.26
82 12 0.03
83 24 0.07
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.44
Consensus pattern (80 bp):
AGTAATTTGTGAAAATTTTCTGGGAATTTGAATGAGGGAAAACTAATTTGATACCCTTTTGCTTT
TGCTGTATTTCCTTT
Found at i:21038172 original size:159 final size:159
Alignment explanation
Indices: 21037926--21038400 Score: 514
Period size: 159 Copynumber: 3.0 Consensus size: 159
21037916 CACTGGTTAG
* * * *
21037926 GTATCCTTTTGCTCTTGTTGTATTTGCTTGAGTAATTTGTGAAATTTTTTCTGGGAATTTGAATG
1 GTATCCTTTTGCTTTTGCTGTATTTCCTTGAGTAATTTGTG-AATTTTTTCTGGGAATTTGCATG
* *
21037991 -GGAGAAATCAA-TTCGATACCCTTTTGCTTTTGCTGTATTTCCTTTAGTAATTTGTGAAAATTT
65 AGG-GAAAACAATTTTGATACCCTTTTGCTTTTGCTGTATTTCCTTTAGTAATTTGTGAAAATTT
* *
21038054 TCTGGGAATTTGCAAGAGGG-GACCAAATTT
129 TCTGGGAATTTGCAAGAGGGAAAACAAATTT
** *
21038084 GATATCCTTTTGCTTTTGCTGTATTTCCTT-AGTTCTCTGTGAATTTTTTCTGGGAATTTGCATG
1 G-TATCCTTTTGCTTTTGCTGTATTTCCTTGAGTAATTTGTGAATTTTTTCTGGGAATTTGCATG
* * *
21038148 AGGGAAAACAATTTTTGATTCCCTTTTGCTCTTGCTGTATTTGCTTGT-GTAATTTGTGAAAATT
65 AGGGAAAACAA-TTTTGATACCCTTTTGCTTTTGCTGTATTTCCTT-TAGTAATTTGTGAAAATT
* * ** * *
21038212 TTCTGGGAAATCGCTTGAGGGAAAACTAGTTT
128 TTCTGGGAATTTGCAAGAGGGAAAACAAATTT
** ** *
21038244 GTGCCCTTTTTG-TTCTTGCTGTATTTCCTTGAGTAATTTGTGAAAATTTTCTTGGAATTTGCAT
1 GTATCC-TTTTGCTT-TTGCTGTATTTCCTTGAGTAATTTGTGAATTTTTTCTGGGAATTTGCAT
* * * *
21038308 GAAGGGAAACCAATTCTGATACCCTTTTGCTCTTT-CTATATTTCCTTTGAGTGAATCTGTGAAA
64 G-AGGGAAAACAATTTTGATACCCTTTTGCT-TTTGCTGTATTTCCTTT-AGT-AATTTGTGAAA
* * *
21038372 ATTTTCTGAGAATTTTCAAGAGGAAAAAC
125 ATTTTCTGGGAATTTGCAAGAGGGAAAAC
21038401 CAATGATGTT
Statistics
Matches: 261, Mismatches: 42, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
157 29 0.11
158 11 0.04
159 92 0.35
160 29 0.11
161 54 0.21
162 14 0.05
163 32 0.12
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (159 bp):
GTATCCTTTTGCTTTTGCTGTATTTCCTTGAGTAATTTGTGAATTTTTTCTGGGAATTTGCATGA
GGGAAAACAATTTTGATACCCTTTTGCTTTTGCTGTATTTCCTTTAGTAATTTGTGAAAATTTTC
TGGGAATTTGCAAGAGGGAAAACAAATTT
Found at i:21042695 original size:191 final size:191
Alignment explanation
Indices: 21042371--21042753 Score: 714
Period size: 191 Copynumber: 2.0 Consensus size: 191
21042361 AGCCACATTG
*
21042371 TGTTTATTCATGATAATGGAAATACAAGAAAATTTTAAAAAAGTGGTAAAGAACTTTGTGATCCT
1 TGTTTATTCATGATAATGGAAATACAAGAAAATTTTAAAAAAGAGGTAAAGAACTTTGTGATCCT
*
21042436 TTGGTTTATACAAGTGAATAGCATTGAAGCACTCGCCTATACATATATGCTCGTGGATGGTGAAT
66 TTGGTTTATACAAGTGAATAGCATTGAAGCACCCGCCTATACATATATGCTCGTGGATGGTGAAT
21042501 TTTCACATTTGAAGCCACTGCTTTACTTCATGTTAATGTATTCTTAAAACAACTAGTTGAA
131 TTTCACATTTGAAGCCACTGCTTTACTTCATGTTAATGTATTCTTAAAACAACTAGTTGAA
*
21042562 TGTTTATTCATGATAATGGAAATACAAGAAAATTTTAAAAAGGAGGTAAAGAACTTTGTGATCCT
1 TGTTTATTCATGATAATGGAAATACAAGAAAATTTTAAAAAAGAGGTAAAGAACTTTGTGATCCT
*
21042627 TTGGTTTATGCAAGTGAGA-AGCATTGAAGCACCCGCCTATACATATATGCTCGTGGATGGTGAA
66 TTGGTTTATACAAGTGA-ATAGCATTGAAGCACCCGCCTATACATATATGCTCGTGGATGGTGAA
21042691 TTTTCACATTTGAAGCCACTGCTTTACTTCATGTTAATGTATTCTTAAAACAACTAGTTGAA
130 TTTTCACATTTGAAGCCACTGCTTTACTTCATGTTAATGTATTCTTAAAACAACTAGTTGAA
21042753 T
1 T
21042754 TAGCTCACAT
Statistics
Matches: 187, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
191 186 0.99
192 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (191 bp):
TGTTTATTCATGATAATGGAAATACAAGAAAATTTTAAAAAAGAGGTAAAGAACTTTGTGATCCT
TTGGTTTATACAAGTGAATAGCATTGAAGCACCCGCCTATACATATATGCTCGTGGATGGTGAAT
TTTCACATTTGAAGCCACTGCTTTACTTCATGTTAATGTATTCTTAAAACAACTAGTTGAA
Found at i:21043135 original size:99 final size:101
Alignment explanation
Indices: 21042954--21043154 Score: 334
Period size: 99 Copynumber: 2.0 Consensus size: 101
21042944 TACACTAGCC
* * * * *
21042954 TCTGCTAGTTTACTTTGAGTGTTGACATTTATAGTTCACGTTTCCTGGCTGCTTTATTGTGAGCG
1 TCTGCTAGTTTACTTTGAGTGTTGACATTTATAGTTCACATTTCCTGGATGCTCTATTATGAGCA
21043019 GTACATGTATTTTTGTAATAGCATATGACAGTTGTT
66 GTACATGTATTTTTGTAATAGCATATGACAGTTGTT
*
21043055 TCTGCTAGTTTACTTTGAGTGTTGACA-TT-TAGTTCACATTTCTTGGATGCTCTATTATGAGCA
1 TCTGCTAGTTTACTTTGAGTGTTGACATTTATAGTTCACATTTCCTGGATGCTCTATTATGAGCA
21043118 GTACATGTATTTTTGTAATAGCATATGACAGTTGTT
66 GTACATGTATTTTTGTAATAGCATATGACAGTTGTT
21043154 T
1 T
21043155 TACCTTTTTC
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 65 0.69
100 2 0.02
101 27 0.29
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.45
Consensus pattern (101 bp):
TCTGCTAGTTTACTTTGAGTGTTGACATTTATAGTTCACATTTCCTGGATGCTCTATTATGAGCA
GTACATGTATTTTTGTAATAGCATATGACAGTTGTT
Found at i:21043313 original size:95 final size:95
Alignment explanation
Indices: 21043150--21043338 Score: 369
Period size: 95 Copynumber: 2.0 Consensus size: 95
21043140 ATATGACAGT
*
21043150 TGTTTTACCTTTTTCCAGGTTTTTCTTCAGATGCCCTCAGCCGAGGACACGATATGGGAATGATC
1 TGTTTTACCTTTTTCCAGGTTTTTCTTCAGATGCCCTCAGCCAAGGACACGATATGGGAATGATC
21043215 TCAGATGTCCCTGCTACTGTGGCAGCTGTA
66 TCAGATGTCCCTGCTACTGTGGCAGCTGTA
21043245 TGTTTTACCTTTTTCCAGGTTTTTCTTCAGATGCCCTCAGCCAAGGACACGATATGGGAATGATC
1 TGTTTTACCTTTTTCCAGGTTTTTCTTCAGATGCCCTCAGCCAAGGACACGATATGGGAATGATC
21043310 TCAGATGTCCCTGCTACTGTGGCAGCTGT
66 TCAGATGTCCCTGCTACTGTGGCAGCTGT
21043339 GAAGAACCCT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (95 bp):
TGTTTTACCTTTTTCCAGGTTTTTCTTCAGATGCCCTCAGCCAAGGACACGATATGGGAATGATC
TCAGATGTCCCTGCTACTGTGGCAGCTGTA
Found at i:21048970 original size:23 final size:23
Alignment explanation
Indices: 21048921--21048979 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
21048911 CTTCCTTAAA
* *
21048921 AAAAATGAAAAAGAAATTCAAGT
1 AAAAATGAAAAACAAAGTCAAGT
*
21048944 AAAAATGAAAACCCAAAGTCAAG-
1 AAAAATGAAAA-ACAAAGTCAAGT
*
21048967 AAAAGCTGAAAAA
1 AAAA-ATGAAAAA
21048980 TGAACCAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.64, C:0.10, G:0.14, T:0.12
Consensus pattern (23 bp):
AAAAATGAAAAACAAAGTCAAGT
Found at i:21054119 original size:122 final size:123
Alignment explanation
Indices: 21053980--21054224 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 123
21053970 GCCTAGACCC
21053980 AACCAATAAATAGGTCTACTTGACATTCGATTGCCTATTCGTTGTAGTTGTATAAATAAAATATT
1 AACCAATAAATAGGTCTACTTGACATTCGATTGCCTATTCGTTGTAGTTGTATAAATAAAATATT
21054045 TTAATATAATTTTATATCCATAATATTTTTTATTTTATAATTGC-TTTTATATAATTT
66 TTAATATAATTTTATATCCATAATATTTTTTATTTTATAATTGCTTTTTATATAATTT
21054102 AACCAATAAATAGGTCTACTTGACATTCGATTGCCTATTCGTTGTAGTTGTATAAATAAAATATT
1 AACCAATAAATAGGTCTACTTGACATTCGATTGCCTATTCGTTGTAGTTGTATAAATAAAATATT
21054167 TTAATATAATTTTATATCCATAATATTTTTTATTTTATAATTGCTTTTTATATAATTT
66 TTAATATAATTTTATATCCATAATATTTTTTATTTTATAATTGCTTTTTATATAATTT
21054225 TATTTTCATA
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
122 109 0.89
123 13 0.11
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (123 bp):
AACCAATAAATAGGTCTACTTGACATTCGATTGCCTATTCGTTGTAGTTGTATAAATAAAATATT
TTAATATAATTTTATATCCATAATATTTTTTATTTTATAATTGCTTTTTATATAATTT
Found at i:21063991 original size:19 final size:20
Alignment explanation
Indices: 21063967--21064004 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
21063957 TCATTGATTT
21063967 TTAAATTTAGGGA-CAATTG
1 TTAAATTTAGGGACCAATTG
21063986 TTAAATTTAGGGACCAATT
1 TTAAATTTAGGGACCAATT
21064005 TTGACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (20 bp):
TTAAATTTAGGGACCAATTG
Found at i:21064636 original size:31 final size:31
Alignment explanation
Indices: 21064601--21064667 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
21064591 AAAAAACCTT
*
21064601 AATAGCCTAGTGACGTAAATAAAAACTTTTG
1 AATAGCCTAGTGACGTAAATAAAAACTTTCG
** * *
21064632 AATAGTTTAGTGACTTAAATGAAAACTTTCG
1 AATAGCCTAGTGACGTAAATAAAAACTTTCG
21064663 AATAG
1 AATAG
21064668 TTCAAATGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (31 bp):
AATAGCCTAGTGACGTAAATAAAAACTTTCG
Found at i:21064668 original size:31 final size:31
Alignment explanation
Indices: 21064608--21064669 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
21064598 CTTAATAGCC
*
21064608 TAGTGACGTAAATAAAAACTTTTGAATAGTT
1 TAGTGACGTAAATAAAAACTTTCGAATAGTT
* *
21064639 TAGTGACTTAAATGAAAACTTTCGAATAGTT
1 TAGTGACGTAAATAAAAACTTTCGAATAGTT
21064670 CAAATGACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.35
Consensus pattern (31 bp):
TAGTGACGTAAATAAAAACTTTCGAATAGTT
Found at i:21070359 original size:155 final size:156
Alignment explanation
Indices: 21070077--21070389 Score: 619
Period size: 155 Copynumber: 2.0 Consensus size: 156
21070067 TAGCACGATA
21070077 TTAATATATTTTATGATTGTTCAAGTTCGACCCGATTTGAAATACGAGCTTTTGTTTTTTTGAAA
1 TTAATATATTTTATGATTGTTCAAGTTCGACCCGATTTGAAATACGAGCTTTTGTTTTTTTGAAA
21070142 AGATCGTTCATATTTGTAAATGTCTAACCCTATTTTATATCAAGCCCGTCCATATTTTTTTCATA
66 AGATCGTTCATATTTGTAAATGTCTAACCCTATTTTATATCAAGCCCGTCCATATTTTTTTCATA
21070207 TTTAAAAATATATA-TTATATAGTTT
131 TTTAAAAATATATATTTATATAGTTT
21070232 TTAATATATTTTATGATTGTTCAAGTTCGACCCGATTTGAAATACGAGCTTTTGTTTTTTTGAAA
1 TTAATATATTTTATGATTGTTCAAGTTCGACCCGATTTGAAATACGAGCTTTTGTTTTTTTGAAA
21070297 AGATCGTTCATATTTGTAAATGTCTAACCCTATTTTATATCAAGCCCGTCCATATTTTTTTCATA
66 AGATCGTTCATATTTGTAAATGTCTAACCCTATTTTATATCAAGCCCGTCCATATTTTTTTCATA
21070362 TTTAAAAATATATATTTATATAGTTT
131 TTTAAAAATATATATTTATATAGTTT
21070388 TT
1 TT
21070390 TATTTTAATT
Statistics
Matches: 157, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
155 144 0.92
156 13 0.08
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (156 bp):
TTAATATATTTTATGATTGTTCAAGTTCGACCCGATTTGAAATACGAGCTTTTGTTTTTTTGAAA
AGATCGTTCATATTTGTAAATGTCTAACCCTATTTTATATCAAGCCCGTCCATATTTTTTTCATA
TTTAAAAATATATATTTATATAGTTT
Found at i:21071241 original size:15 final size:16
Alignment explanation
Indices: 21071216--21071246 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21071206 ACACTGACCA
21071216 AAATATTTATTTTATT
1 AAATATTTATTTTATT
21071232 AAAT-TTTATTTTATT
1 AAATATTTATTTTATT
21071247 CAAGTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AAATATTTATTTTATT
Found at i:21071246 original size:20 final size:19
Alignment explanation
Indices: 21071219--21071272 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
21071209 CTGACCAAAA
21071219 TATTTATTTTATTAAATTT
1 TATTTATTTTATTAAATTT
** *
21071238 TATTTTATTCAAGTAAATTT
1 TA-TTTATTTTATTAAATTT
21071258 TATTTATATTTATTA
1 TATTTAT-TTTATTA
21071273 TTCTCTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTTATTTTATTAAATTT
Found at i:21080024 original size:28 final size:25
Alignment explanation
Indices: 21079972--21080025 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 25
21079962 AAATTAGTAC
* *
21079972 TTTTTTTCTAATTGATACTTGAGTT
1 TTTTTTTCTAATTAATACTTAAGTT
21079997 TTTTTTGTCTCAATTAAGTACTTAAGTT
1 TTTTTT-TCT-AATTAA-TACTTAAGTT
21080025 T
1 T
21080026 GGATTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 3 0.12
27 5 0.21
28 10 0.42
ACGTcount: A:0.22, C:0.09, G:0.11, T:0.57
Consensus pattern (25 bp):
TTTTTTTCTAATTAATACTTAAGTT
Found at i:21080340 original size:20 final size:20
Alignment explanation
Indices: 21080315--21080354 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
21080305 TGATAATGTG
*
21080315 AGAATAGAAAATGACTATTA
1 AGAATAGAAAATGACCATTA
21080335 AGAATAGAAAATGACCATTA
1 AGAATAGAAAATGACCATTA
21080355 GATATTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.07, G:0.15, T:0.23
Consensus pattern (20 bp):
AGAATAGAAAATGACCATTA
Found at i:21081268 original size:49 final size:51
Alignment explanation
Indices: 21081159--21081289 Score: 176
Period size: 49 Copynumber: 2.5 Consensus size: 51
21081149 CATTGTTTTA
* *
21081159 AAAATGGAAACACAAATAAATCTTAAAAAAAAGCATAAAAACAAAAAGGTTGGTT
1 AAAATGGAAACACAAAT-AA--TTAAAAAAAAGCA-AAAAACAAAAAAGTTGATT
* *
21081214 CAAATGGAAACACAAATAATTAAAAAAAA-C-AAAAACAAAAAATTTGATT
1 AAAATGGAAACACAAATAATTAAAAAAAAGCAAAAAACAAAAAAGTTGATT
21081263 AAAATGGAAACACAAATAATTAAAAAA
1 AAAATGGAAACACAAATAATTAAAAAA
21081290 CAAAAAGATT
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
49 42 0.59
51 1 0.01
52 10 0.14
54 2 0.03
55 16 0.23
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (51 bp):
AAAATGGAAACACAAATAATTAAAAAAAAGCAAAAAACAAAAAAGTTGATT
Found at i:21081289 original size:23 final size:23
Alignment explanation
Indices: 21081215--21081289 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
21081205 AGGTTGGTTC
21081215 AAATGGAAACACAAATAATTAAA
1 AAATGGAAACACAAATAATTAAA
*** * * *
21081238 AAAAACAAAAACAAAAAATTTGATTA
1 AAATGGAAACACAAATAA-TT-A-AA
21081264 AAATGGAAACACAAATAATTAAA
1 AAATGGAAACACAAATAATTAAA
21081287 AAA
1 AAA
21081290 CAAAAAGATT
Statistics
Matches: 37, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
23 17 0.46
24 3 0.08
25 3 0.08
26 14 0.38
ACGTcount: A:0.68, C:0.08, G:0.07, T:0.17
Consensus pattern (23 bp):
AAATGGAAACACAAATAATTAAA
Found at i:21081795 original size:5 final size:5
Alignment explanation
Indices: 21081785--21081810 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21081775 ATTTAAAAAA
21081785 CGGGC CGGGC CGGGC CGGGC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGGC C
21081811 TGGGTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:21081962 original size:18 final size:19
Alignment explanation
Indices: 21081941--21081977 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21081931 TAAGCTATTA
*
21081941 TTTTAACTTA-ATTTAAAT
1 TTTTAACATATATTTAAAT
21081959 TTTTAACATATATTTAAAT
1 TTTTAACATATATTTAAAT
21081978 AATTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAACATATATTTAAAT
Found at i:21081994 original size:21 final size:19
Alignment explanation
Indices: 21081941--21082000 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 19
21081931 TAAGCTATTA
*
21081941 TTTTAAC-TTAATTTAAAT
1 TTTTAACATAAATTTAAAT
*
21081959 TTTTAACATATATTTAAAT
1 TTTTAACATAAATTTAAAT
21081978 AATTTTAA-ATAAAATTT-AAT
1 --TTTTAACAT-AAATTTAAAT
21081998 TTT
1 TTT
21082001 GGAATTCAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 10 0.29
19 9 0.26
20 5 0.14
21 11 0.31
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAACATAAATTTAAAT
Found at i:21083551 original size:24 final size:24
Alignment explanation
Indices: 21083523--21083573 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
21083513 CCTTCCTCAA
*
21083523 TAGTCATTTCATGCAGAAAGTAGT
1 TAGTCATTTCATGCAGAAAGCAGT
21083547 TAGTCATTTCATGCAGAAAGCAGT
1 TAGTCATTTCATGCAGAAAGCAGT
21083571 TAG
1 TAG
21083574 AGTCAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (24 bp):
TAGTCATTTCATGCAGAAAGCAGT
Found at i:21095124 original size:2 final size:2
Alignment explanation
Indices: 21095117--21095150 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
21095107 TTCAATAATT
*
21095117 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21095151 ATGCATTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:21098066 original size:24 final size:22
Alignment explanation
Indices: 21098009--21098071 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 22
21097999 TGGTTAAAGA
21098009 ATTAAAAATTTTAATTAATTCG
1 ATTAAAAATTTTAATTAATTCG
**
21098031 ATT---AATACTAATTTAATTCG
1 ATTAAAAATTTTAA-TTAATTCG
21098051 ATTTAAAAATTTTAATTAATT
1 A-TTAAAAATTTTAATTAATT
21098072 TAATTAACAC
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
19 6 0.19
20 9 0.28
21 2 0.06
22 3 0.09
23 6 0.19
24 6 0.19
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (22 bp):
ATTAAAAATTTTAATTAATTCG
Found at i:21114168 original size:31 final size:31
Alignment explanation
Indices: 21114132--21114190 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
21114122 AAGGTCACTA
*
21114132 AATTATCCGAAAG-TTTTAATTTAAGTCATTG
1 AATTATCCAAAAGTTTTTAA-TTAAGTCATTG
*
21114163 AATTATTCAAAAGTTTTTAATTAAGTCA
1 AATTATCCAAAAGTTTTTAATTAAGTCA
21114191 CCGGCTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (31 bp):
AATTATCCAAAAGTTTTTAATTAAGTCATTG
Found at i:21118607 original size:18 final size:19
Alignment explanation
Indices: 21118574--21118610 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21118564 NNNNNNNNNN
21118574 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATTTATA
*
21118593 AAAATTCCAAA-ATTTATA
1 AAAATTCAAAATATTTATA
21118611 TTTTTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATATTTATA
Found at i:21119340 original size:43 final size:43
Alignment explanation
Indices: 21119257--21119349 Score: 125
Period size: 43 Copynumber: 2.1 Consensus size: 43
21119247 ATGGTACTAG
*
21119257 TTAATGTGTCAAAACGGCGGTTCCCTTCGTCCACTTCCTCTCCC
1 TTAATGTGTC-AAACGGCGGTTCCCTTCATCCACTTCCTCTCCC
* * *
21119301 TTAATGTGTC-AATGGTGGTTCCACTTCATCCACTTCCTCTCTC
1 TTAATGTGTCAAACGGCGGTTCC-CTTCATCCACTTCCTCTCCC
21119344 TTAATG
1 TTAATG
21119350 CGTTGATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 10 0.23
43 24 0.55
44 10 0.23
ACGTcount: A:0.17, C:0.31, G:0.15, T:0.37
Consensus pattern (43 bp):
TTAATGTGTCAAACGGCGGTTCCCTTCATCCACTTCCTCTCCC
Found at i:21122286 original size:17 final size:17
Alignment explanation
Indices: 21122260--21122299 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21122250 TTGGAAAGTA
21122260 AAAATAATAAAA-AATG
1 AAAATAATAAAATAATG
*
21122276 ATAAATGATAAAATAATG
1 A-AAATAATAAAATAATG
21122294 AAAATA
1 AAAATA
21122300 TCATATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.70
18 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (17 bp):
AAAATAATAAAATAATG
Found at i:21123288 original size:25 final size:25
Alignment explanation
Indices: 21123260--21123349 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 25
21123250 ATGAGCGACT
21123260 CGATATATGGCTCTTCAGAGCTTCC
1 CGATATATGGCTCTTCAGAGCTTCC
* *
21123285 CGAT-TAAAGGCTCTTTCATGAGCTTTC
1 CGATAT-ATGGCTC-TTCA-GAGCTTCC
* * *
21123312 CGATTATTTAGCTC-TCCGAAGCTTCC
1 CGA-TATATGGCTCTTCAG-AGCTTCC
21123338 CGATAT-TGGCTC
1 CGATATATGGCTC
21123350 ACTTGAACCT
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
24 6 0.12
25 14 0.27
26 15 0.29
27 10 0.20
28 5 0.10
29 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (25 bp):
CGATATATGGCTCTTCAGAGCTTCC
Found at i:21123314 original size:27 final size:25
Alignment explanation
Indices: 21123268--21123317 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
21123258 CTCGATATAT
21123268 GGCTCTTCAGAGCTTCCCGATTAAA
1 GGCTCTTCAGAGCTTCCCGATTAAA
*
21123293 GGCTCTTTCATGAGCTTTCCGATTA
1 GGCTC-TTCA-GAGCTTCCCGATTA
21123318 TTTAGCTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 4 0.18
27 13 0.59
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (25 bp):
GGCTCTTCAGAGCTTCCCGATTAAA
Found at i:21123418 original size:25 final size:24
Alignment explanation
Indices: 21123365--21123420 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
21123355 AACCTTCCTG
*
21123365 GCTTCTCGTTAATGGCTCTCTGGA
1 GCTTCCCGTTAATGGCTCTCTGGA
* *
21123389 ACTTCCCGTTACATGGCTCAT-TTGA
1 GCTTCCCGTTA-ATGGCTC-TCTGGA
21123414 GCTTCCC
1 GCTTCCC
21123421 TTTTTATGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 9 0.35
25 16 0.62
26 1 0.04
ACGTcount: A:0.14, C:0.30, G:0.20, T:0.36
Consensus pattern (24 bp):
GCTTCCCGTTAATGGCTCTCTGGA
Found at i:21133324 original size:14 final size:14
Alignment explanation
Indices: 21133305--21133348 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
21133295 TTAAATTATA
21133305 AATTAAATATTGTT
1 AATTAAATATTGTT
21133319 AATTAAATA-T-TT
1 AATTAAATATTGTT
21133331 AATTCAAATATTTGTT
1 AATT-AAATA-TTGTT
21133347 AA
1 AA
21133349 GAATAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.23
13 6 0.23
14 9 0.35
15 1 0.04
16 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (14 bp):
AATTAAATATTGTT
Found at i:21133341 original size:13 final size:12
Alignment explanation
Indices: 21133305--21133343 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
21133295 TTAAATTATA
21133305 AATTAAATATTGTT
1 AATTAAATA-T-TT
21133319 AATTAAATATTT
1 AATTAAATATTT
21133331 AATTCAAATATTT
1 AATT-AAATATTT
21133344 GTTAAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.25
13 9 0.38
14 9 0.38
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (12 bp):
AATTAAATATTT
Found at i:21137770 original size:31 final size:31
Alignment explanation
Indices: 21137735--21137800 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
21137725 TATAAAAATG
*
21137735 GTCACTGAGCAATTCG-AAAGTTTTCATTTAA
1 GTCACTGAACAATT-GAAAAGTTTTCATTTAA
* *
21137766 GTCACTGAACTATTGAAAAGTTTTTATTTAA
1 GTCACTGAACAATTGAAAAGTTTTCATTTAA
21137797 GTCA
1 GTCA
21137801 TTGGGCAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (31 bp):
GTCACTGAACAATTGAAAAGTTTTCATTTAA
Found at i:21145719 original size:45 final size:45
Alignment explanation
Indices: 21145668--21145758 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
21145658 TATTTTAAAC
*
21145668 GAATGAAGA-TGTTAGATAGTGTTTATTCATATGGATAACATGGAG
1 GAATGAAGACT-TTAGATAGTGTTGATTCATATGGATAACATGGAG
*
21145713 GAATGAAGACTTTAGATAGTGTTGATTCATGTGGATAACATGGAG
1 GAATGAAGACTTTAGATAGTGTTGATTCATATGGATAACATGGAG
21145758 G
1 G
21145759 TGGTTAAACC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 42 0.98
46 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (45 bp):
GAATGAAGACTTTAGATAGTGTTGATTCATATGGATAACATGGAG
Found at i:21147279 original size:44 final size:44
Alignment explanation
Indices: 21147216--21147306 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
21147206 AATTGAACAA
* * *
21147216 ATTGATCACTCCACTGTTAAATAGTAACGGAGGACTAAT-GATGC
1 ATTGATCACTCCAATGTTAAATAGTAACGAAAGACTAATAG-TGC
21147260 ATTGATCACTCCAATGTTAAATAGTAACGAAAGACTAATAGTGC
1 ATTGATCACTCCAATGTTAAATAGTAACGAAAGACTAATAGTGC
21147304 ATT
1 ATT
21147307 TATATGAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 42 0.98
45 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (44 bp):
ATTGATCACTCCAATGTTAAATAGTAACGAAAGACTAATAGTGC
Found at i:21157580 original size:139 final size:140
Alignment explanation
Indices: 21157330--21157611 Score: 548
Period size: 139 Copynumber: 2.0 Consensus size: 140
21157320 GTTTGCAACA
21157330 TTATGCTCTCTTTACTTTTGTAATAACAATTAGACCATCATATTTTGCATTTCGTTAATATTATG
1 TTATGCTCTCTTTACTTTTGTAATAACAATTAGACCATCATATTTTGCATTTCGTTAATATTATG
21157395 TCAAATTTTATGTAAATTTAGATTTTTTATTATATCTGTTCTTTTTAATATAATACTTAAAATTA
66 TCAAATTTTATGTAAATTTAGATTTTTTATTATATCTGTTCTTTTTAATATAATACTTAAAATTA
21157460 -TATAATTTT
131 TTATAATTTT
21157469 TTATGCTCTCTTTACTTTTGTAATAACAATTAGACCATCATATTTTGCATTTCGTTAATATTATG
1 TTATGCTCTCTTTACTTTTGTAATAACAATTAGACCATCATATTTTGCATTTCGTTAATATTATG
21157534 TCAAATTTTATGTAAATTTAGATTTTTTATTATATCTGTTCTTTTTAATATAATACTTAAAATTA
66 TCAAATTTTATGTAAATTTAGATTTTTTATTATATCTGTTCTTTTTAATATAATACTTAAAATTA
21157599 TTTATAATTTT
131 -TTATAATTTT
21157610 TT
1 TT
21157612 TAATTTTTAA
Statistics
Matches: 141, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
139 130 0.92
141 11 0.08
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (140 bp):
TTATGCTCTCTTTACTTTTGTAATAACAATTAGACCATCATATTTTGCATTTCGTTAATATTATG
TCAAATTTTATGTAAATTTAGATTTTTTATTATATCTGTTCTTTTTAATATAATACTTAAAATTA
TTATAATTTT
Found at i:21161832 original size:21 final size:21
Alignment explanation
Indices: 21161806--21161858 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
21161796 CGCTGTTTCT
* *
21161806 AATCTCACTGCTACAATACCC
1 AATCTCACCGCTACAATAACC
* *
21161827 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
21161848 AATCTCACCGC
1 AATCTCACCGC
21161859 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:21163088 original size:6 final size:6
Alignment explanation
Indices: 21163072--21163101 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
21163062 ATGGAGGTAT
*
21163072 CAACGG AAACGG CAACGG CAACGG CAACGG
1 CAACGG CAACGG CAACGG CAACGG CAACGG
21163102 TGATTGACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.37, C:0.30, G:0.33, T:0.00
Consensus pattern (6 bp):
CAACGG
Found at i:21166674 original size:6 final size:6
Alignment explanation
Indices: 21166665--21166730 Score: 114
Period size: 6 Copynumber: 11.0 Consensus size: 6
21166655 GAGTAAGATT
* *
21166665 CATATA CATATA CATATA CATGTA CATATA CATATA CATATA CATGTA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
21166713 CATATA CATATA CATATA
1 CATATA CATATA CATATA
21166731 TTAAATCCTC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:21166697 original size:24 final size:24
Alignment explanation
Indices: 21166665--21166730 Score: 132
Period size: 24 Copynumber: 2.8 Consensus size: 24
21166655 GAGTAAGATT
21166665 CATATACATATACATATACATGTA
1 CATATACATATACATATACATGTA
21166689 CATATACATATACATATACATGTA
1 CATATACATATACATATACATGTA
21166713 CATATACATATACATATA
1 CATATACATATACATATA
21166731 TTAAATCCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (24 bp):
CATATACATATACATATACATGTA
Found at i:21166934 original size:17 final size:17
Alignment explanation
Indices: 21166912--21166946 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
21166902 AAGTTTATAT
21166912 ATATTTCCATTCAATAA
1 ATATTTCCATTCAATAA
21166929 ATATTTCCATTCAATAA
1 ATATTTCCATTCAATAA
21166946 A
1 A
21166947 CATTCTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATTTCCATTCAATAA
Found at i:21167564 original size:31 final size:32
Alignment explanation
Indices: 21167516--21167578 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
21167506 GAGGGGATTG
21167516 TTCAAGAACTTTTGAACCCCTTGTGAAATCAA
1 TTCAAGAACTTTTGAACCCCTTGTGAAATCAA
21167548 TTCAAGAAC-TTTGAACCCCTTGTGAAATCAA
1 TTCAAGAACTTTTGAACCCCTTGTGAAATCAA
21167579 CTCATGATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 22 0.71
32 9 0.29
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (32 bp):
TTCAAGAACTTTTGAACCCCTTGTGAAATCAA
Found at i:21168853 original size:2 final size:2
Alignment explanation
Indices: 21168846--21168878 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21168836 TGCGTGGAGG
21168846 TA TA TA 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 T
21168879 TTGTTATTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21172309 original size:14 final size:11
Alignment explanation
Indices: 21172278--21172306 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
21172268 CCTGGGCAGT
21172278 AGAAGAAATGG
1 AGAAGAAATGG
21172289 AGAAGAAATGG
1 AGAAGAAATGG
21172300 AGAAGAA
1 AGAAGAA
21172307 GAAGAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.07
Consensus pattern (11 bp):
AGAAGAAATGG
Found at i:21177215 original size:17 final size:17
Alignment explanation
Indices: 21177189--21177221 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21177179 GTGTTGTTTA
*
21177189 TTCATTAAACATTAGTG
1 TTCATAAAACATTAGTG
21177206 TTCATAAAACATTAGT
1 TTCATAAAACATTAGT
21177222 TAAATTGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (17 bp):
TTCATAAAACATTAGTG
Found at i:21192500 original size:34 final size:36
Alignment explanation
Indices: 21192444--21192512 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 36
21192434 AAACTATTCA
*
21192444 AAATTAAAATTAAGTTACTATGTTTTTAA-AAAATT
1 AAATTAAAATTAAGTTACTATGTTTTCAATAAAATT
*
21192479 AAATT-AAATTAAATTTA-TATGTTTTCAATAAAAT
1 AAATTAAAATT-AAGTTACTATGTTTTCAATAAAAT
21192513 ATTTTTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 15 0.50
35 15 0.50
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (36 bp):
AAATTAAAATTAAGTTACTATGTTTTCAATAAAATT
Found at i:21192819 original size:17 final size:17
Alignment explanation
Indices: 21192799--21192852 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
21192789 TATGATTTTG
21192799 TTAATAGAATGAATATT
1 TTAATAGAATGAATATT
*
21192816 TTAAT-GATATG-ATTTT
1 TTAATAGA-ATGAATATT
21192832 GTTAATAGAATGAATATT
1 -TTAATAGAATGAATATT
21192850 TTA
1 TTA
21192853 GTGGTATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 6 0.19
17 19 0.61
18 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (17 bp):
TTAATAGAATGAATATT
Found at i:21192827 original size:34 final size:34
Alignment explanation
Indices: 21192789--21192862 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
21192779 TGAAGTTTTT
21192789 TATGATTTTGTTAATAGAATGAATATTTTAATGA
1 TATGATTTTGTTAATAGAATGAATATTTTAATGA
* *
21192823 TATGATTTTGTTAATAGAATGAATATTTTAGTGG
1 TATGATTTTGTTAATAGAATGAATATTTTAATGA
21192857 TATGAT
1 TATGAT
21192863 CCAATAAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (34 bp):
TATGATTTTGTTAATAGAATGAATATTTTAATGA
Found at i:21215463 original size:22 final size:22
Alignment explanation
Indices: 21215438--21215479 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
21215428 CCTAATCACA
21215438 ACCTACTACCACTAAGTAACAT
1 ACCTACTACCACTAAGTAACAT
*
21215460 ACCTACTACCACTAATTAAC
1 ACCTACTACCACTAAGTAAC
21215480 TTGTACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.24
Consensus pattern (22 bp):
ACCTACTACCACTAAGTAACAT
Found at i:21235669 original size:56 final size:50
Alignment explanation
Indices: 21235558--21235655 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
21235548 TCATAAGATT
21235558 TAAA-TTTTTTATTAATATTATGTTTAATTTTAATGAAAATAAAAATTAG
1 TAAATTTTTTTATTAATATTATGTTTAATTTTAATGAAAATAAAAATTAG
*
21235607 TAAATTTTTTTATTAATATTATGTTTACTTTTAATGAAAATAAAAATTA
1 TAAATTTTTTTATTAATATTATGTTTAATTTTAATGAAAATAAAAATTA
21235656 TATTTTACTA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 4 0.09
50 43 0.91
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (50 bp):
TAAATTTTTTTATTAATATTATGTTTAATTTTAATGAAAATAAAAATTAG
Found at i:21236511 original size:2 final size:2
Alignment explanation
Indices: 21236506--21236536 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
21236496 AAAGAAAAAA
*
21236506 AC AC AC AC AC AC AC AC AC AC AC AC GC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
21236537 AAAGAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.48, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:21246847 original size:6 final size:6
Alignment explanation
Indices: 21246836--21246898 Score: 110
Period size: 6 Copynumber: 10.7 Consensus size: 6
21246826 GTGGAGTCCT
*
21246836 TTTTTC TTTTTC TTCTTC -TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
21246883 TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTT
21246899 ATTCTGCTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
5 4 0.07
6 50 0.93
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:21246908 original size:23 final size:22
Alignment explanation
Indices: 21246836--21246898 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 22
21246826 GTGGAGTCCT
21246836 TTTTTCTTTTTCTTCTTCTTTTC
1 TTTTTCTTTTTCTT-TTCTTTTC
21246859 TTTTTCTTTTTCTTTTTCTTTTTC
1 TTTTTCTTTTTC-TTTTC-TTTTC
21246883 TTTTTCTTTTTCTTTT
1 TTTTTCTTTTTCTTTT
21246899 ATTCTGCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTCTTTTTCTTTTCTTTTC
Found at i:21247753 original size:18 final size:18
Alignment explanation
Indices: 21247728--21247778 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
21247718 TTGGCGGCAC
*
21247728 ACAGTCCAAATGTGTTGG
1 ACAGTCCAAATGTGGTGG
* *
21247746 AGAGTCCAAATATGGTGG
1 ACAGTCCAAATGTGGTGG
*
21247764 ACAATCCAAATGTGG
1 ACAGTCCAAATGTGG
21247779 CAAATAGTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (18 bp):
ACAGTCCAAATGTGGTGG
Found at i:21250599 original size:31 final size:32
Alignment explanation
Indices: 21250547--21250607 Score: 106
Period size: 31 Copynumber: 1.9 Consensus size: 32
21250537 ATCTCACCTT
21250547 ACCAAATGATACAAGAGTATGGACACATGTTA
1 ACCAAATGATACAAGAGTATGGACACATGTTA
*
21250579 ACCAAATG-TACAAGATTATGGACACATGT
1 ACCAAATGATACAAGAGTATGGACACATGT
21250608 ACTTAACATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (32 bp):
ACCAAATGATACAAGAGTATGGACACATGTTA
Found at i:21254448 original size:31 final size:31
Alignment explanation
Indices: 21254413--21254472 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
21254403 GAAATCAATG
*
21254413 ACCAAATTGAATCTAATTA-CTAAATTTAGAT
1 ACCAAAATGAATCTAATTATC-AAATTTAGAT
*
21254444 ACCAAAATGAATGTAATTATCAAATTTAG
1 ACCAAAATGAATCTAATTATCAAATTTAG
21254473 GGGTTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (31 bp):
ACCAAAATGAATCTAATTATCAAATTTAGAT
Found at i:21257429 original size:15 final size:15
Alignment explanation
Indices: 21257398--21257447 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
21257388 TTTAAATTTG
21257398 ATATTTAATTTATAT
1 ATATTTAATTTATAT
21257413 ATATTCTAATTTA-AT
1 ATATT-TAATTTATAT
*
21257428 ATAATTATATTT-TAT
1 ATATTTA-ATTTATAT
21257443 -TATTT
1 ATATTT
21257448 TGGTTCGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.20
15 17 0.57
16 7 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATTTAATTTATAT
Found at i:21265192 original size:20 final size:21
Alignment explanation
Indices: 21265155--21265197 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
21265145 GCATATAAAT
**
21265155 TTATTTTATTTCCTAATT-TA
1 TTATTTTATTTCAAAATTATA
*
21265175 TTATTTTATTTTAAAATTATA
1 TTATTTTATTTCAAAATTATA
21265196 TT
1 TT
21265198 TTGAAAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATTTTATTTCAAAATTATA
Found at i:21270594 original size:7 final size:7
Alignment explanation
Indices: 21270582--21270608 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
21270572 AATGTATCAT
21270582 CCTAAAC
1 CCTAAAC
21270589 CCTAAAC
1 CCTAAAC
21270596 CCTAAAC
1 CCTAAAC
21270603 CCTAAA
1 CCTAAA
21270609 TGTATCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
CCTAAAC
Found at i:21270660 original size:6 final size:7
Alignment explanation
Indices: 21270643--21270671 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
21270633 TATTTTTTTG
21270643 AAAAATT
1 AAAAATT
21270650 AAAAATT
1 AAAAATT
21270657 AAAAATT
1 AAAAATT
21270664 AAAAATT
1 AAAAATT
21270671 A
1 A
21270672 TTTTAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAAATT
Found at i:21275884 original size:2 final size:2
Alignment explanation
Indices: 21275877--21275902 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21275867 TAAAATTCAG
21275877 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21275903 TACAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21275964 original size:22 final size:21
Alignment explanation
Indices: 21275918--21275977 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
21275908 TTTAAGTATC
**
21275918 AATT-AATTAAATATTTAAATT
1 AATTAAATTAAA-ATTTAAAAA
*
21275939 AATTGAGATTAAAATTTAAAAA
1 AATT-AAATTAAAATTTAAAAA
21275961 AATTAAATTCAAAATTT
1 AATTAAATT-AAAATTT
21275978 CAATGGTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 8 0.25
22 18 0.56
23 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (21 bp):
AATTAAATTAAAATTTAAAAA
Found at i:21277807 original size:21 final size:19
Alignment explanation
Indices: 21277781--21277820 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
21277771 CTGGTTCGGT
21277781 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
21277802 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
21277821 AAAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:21278880 original size:137 final size:136
Alignment explanation
Indices: 21278731--21279120 Score: 525
Period size: 137 Copynumber: 2.8 Consensus size: 136
21278721 GTTGTTTGAA
* * * * *
21278731 TTTTTTTGGTGATAGATCGTTGTTTAATAGTCTG-GTTATGCAAGTTCGTTTGATCAAATTTAGA
1 TTTTTTTGGTGATGGATCGTTGTTTTATAGTC-GAATTATG-AAGTTCGTTTGATCGAATTTCGA
* *
21278795 TAGATTTGTAGTGATTACGAGCGTCGAAATTGTTCTCTCTGCTCTGCTAATCTTTGCTTTTGAAT
64 TAGATTTGAAGTGATTACGAGCGTCGAAATTGTTCTCTCTTCTCTGCTAATCTTTGCTTTTGAAT
21278860 TTCTT-TTT
129 TT-TTATTT
*
21278868 TTTTTTTTGTGATGGATCGTTGTTTTATAGTCGAATTATGAAAGTTCGTTTGATCGAATTTCGAT
1 TTTTTTTGGTGATGGATCGTTGTTTTATAGTCGAATTATG-AAGTTCGTTTGATCGAATTTCGAT
* * *
21278933 AGCTTTGGAGTGATTACGAGCGTCGAAATTGTTCTCTCTTCTCTGCTAACCTTTGCTTTTGAATT
65 AGATTTGAAGTGATTACGAGCGTCGAAATTGTTCTCTCTTCTCTGCTAATCTTTGCTTTTGAATT
21278998 TTTATTT
130 TTTATTT
* * *
21279005 TGTTTTTGGGTGATGGATGGTTGTTTTATAGCCGAATTATGAAGTTCGTTTGATCGAATTTCGAT
1 T-TTTTTTGGTGATGGATCGTTGTTTTATAGTCGAATTATGAAGTTCGTTTGATCGAATTTCGAT
* * * * *
21279070 A-ACTTTGAAGTGGTTCCCAGCGTTCGAAGTTGTTCTCTCTTCTCTACTAAT
65 AGA-TTTGAAGTGATTACGAGCG-TCGAAATTGTTCTCTCTTCTCTGCTAAT
21279121 TTTCGATTTT
Statistics
Matches: 225, Mismatches: 23, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
136 3 0.01
137 162 0.72
138 60 0.27
ACGTcount: A:0.20, C:0.13, G:0.21, T:0.46
Consensus pattern (136 bp):
TTTTTTTGGTGATGGATCGTTGTTTTATAGTCGAATTATGAAGTTCGTTTGATCGAATTTCGATA
GATTTGAAGTGATTACGAGCGTCGAAATTGTTCTCTCTTCTCTGCTAATCTTTGCTTTTGAATTT
TTATTT
Found at i:21279783 original size:2 final size:2
Alignment explanation
Indices: 21279778--21279812 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
21279768 TTGCATTGAG
*
21279778 AT 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 AT A
21279813 CCTCTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21293916 original size:18 final size:18
Alignment explanation
Indices: 21293893--21293928 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21293883 TATGATTTTA
21293893 TTTTGTTTAATTTTTAAT
1 TTTTGTTTAATTTTTAAT
21293911 TTTTGTTTAATTTTTAAT
1 TTTTGTTTAATTTTTAAT
21293929 AATTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (18 bp):
TTTTGTTTAATTTTTAAT
Found at i:21299255 original size:21 final size:19
Alignment explanation
Indices: 21299224--21299263 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
21299214 AATAAGTAAG
21299224 CTTTTTAATCATATATATT
1 CTTTTTAATCATATATATT
21299243 CTTTGTTACATCATATATATT
1 CTTT-TTA-ATCATATATATT
21299264 TAATCATCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (19 bp):
CTTTTTAATCATATATATT
Found at i:21301378 original size:14 final size:14
Alignment explanation
Indices: 21301359--21301385 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21301349 TTAGGTCCAA
21301359 TTATTAAATTTTTT
1 TTATTAAATTTTTT
21301373 TTATTAAATTTTT
1 TTATTAAATTTTT
21301386 GGTGTGACAT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTAAATTTTTT
Found at i:21307851 original size:108 final size:107
Alignment explanation
Indices: 21307726--21307935 Score: 332
Period size: 108 Copynumber: 2.0 Consensus size: 107
21307716 GTAATAGTTT
* * *
21307726 TCCAGTTATTAGTAAAAAAAAATTTTGGTCATCTAGTTAGTAAATATTTTTTTGGTCATCTAACT
1 TCCAGCTATTAGTAAAAAAAAATTTTGGTCATCTAGTTAGCAAATATTTTTTGGGTCATCTAACT
*
21307791 GTTCAATTCTGTCTTTTTTGATCATCGAC-AGGTAAAGAGGTTA
66 GTTCAATTCTGTCTTTTTT-ATCACCGACGA-GTAAAGAGGTTA
* *
21307834 TCCAGCTATTAGTAAAAAAAAATTTTGGTCATCTTGTTAGCAAATATTTTTTGGGTCATCTAATT
1 TCCAGCTATTAGTAAAAAAAAATTTTGGTCATCTAGTTAGCAAATATTTTTTGGGTCATCTAACT
*
21307899 GTTCAATTTTGTCTTTTTTATCACCGACGAGTAAAGA
66 GTTCAATTCTGTCTTTTTTATCACCGACGAGTAAAGA
21307936 TGGTAGCTTT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
107 15 0.16
108 79 0.84
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (107 bp):
TCCAGCTATTAGTAAAAAAAAATTTTGGTCATCTAGTTAGCAAATATTTTTTGGGTCATCTAACT
GTTCAATTCTGTCTTTTTTATCACCGACGAGTAAAGAGGTTA
Found at i:21315320 original size:30 final size:29
Alignment explanation
Indices: 21315257--21315320 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21315247 CATTCTACCC
* * *
21315257 ATATTCATTATTAATATTTTTGAAATAAT
1 ATATTCATTATTAATAATTTTAAAATAAA
21315286 ATATTCA-TATTATATAAATTTTAAAATAAA
1 ATATTCATTATTA-AT-AATTTTAAAATAAA
21315316 ATATT
1 ATATT
21315321 TTTAACAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 5 0.17
29 9 0.30
30 16 0.53
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATTCATTATTAATAATTTTAAAATAAA
Found at i:21316155 original size:31 final size:31
Alignment explanation
Indices: 21316117--21316249 Score: 105
Period size: 31 Copynumber: 4.4 Consensus size: 31
21316107 TTTATGACAC
* *
21316117 TTGGTATCTGAACTTGACACGTTTTTCTAAT
1 TTGGTACCTAAACTTGACACGTTTTTCTAAT
* ** *
21316148 TTGGTATCTAAACTT----TTTTTTGGTCCAAT
1 TTGGTACCTAAACTTGACACGTTTT--TCTAAT
* * *
21316177 TTGGTACCCAAACTTGACACGTATTCCTAAT
1 TTGGTACCTAAACTTGACACGTTTTTCTAAT
* *
21316208 TTGGTACCTGAACTTGACTC-TTTTTCTTAAT
1 TTGGTACCTAAACTTGACACGTTTTTC-TAAT
21316239 TTGGTACCTAA
1 TTGGTACCTAA
21316250 TCTTTTTTTT
Statistics
Matches: 78, Mismatches: 17, Indels: 14
0.72 0.16 0.13
Matches are distributed among these distances:
27 4 0.05
29 18 0.23
30 4 0.05
31 49 0.63
33 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (31 bp):
TTGGTACCTAAACTTGACACGTTTTTCTAAT
Found at i:21318359 original size:16 final size:16
Alignment explanation
Indices: 21318309--21318350 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
21318299 AATAATTTGA
* *
21318309 TAATTTTACTTACAAT
1 TAATTTTAATAACAAT
21318325 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
21318341 TAATTTTAAT
1 TAATTTTAAT
21318351 TTTAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:21323113 original size:17 final size:18
Alignment explanation
Indices: 21323091--21323131 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
21323081 CAAATTTCCT
21323091 TTCACAT-TC-AATATTAA
1 TTCACATATCAAATA-TAA
21323108 TTCACATATCAAATATAA
1 TTCACATATCAAATATAA
21323126 TTCACA
1 TTCACA
21323132 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
TTCACATATCAAATATAA
Found at i:21323497 original size:22 final size:22
Alignment explanation
Indices: 21323472--21323515 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
21323462 ACAAAATCAC
21323472 AACTTTATGCACACTCTACTAT
1 AACTTTATGCACACTCTACTAT
*
21323494 AACTTTATGCACACTTTACTAT
1 AACTTTATGCACACTCTACTAT
21323516 CTTTCACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.39
Consensus pattern (22 bp):
AACTTTATGCACACTCTACTAT
Found at i:21324374 original size:20 final size:21
Alignment explanation
Indices: 21324334--21324381 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
21324324 CTTCATATCA
* *
21324334 ATTCTAAATATTTTTAAATTG
1 ATTCTAAATAATTTCAAATTG
21324355 ATTCTAAA-AATTTCAAATTG
1 ATTCTAAATAATTTCAAATTG
21324375 --TCTAAAT
1 ATTCTAAAT
21324382 CATATCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 6 0.25
20 10 0.42
21 8 0.33
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (21 bp):
ATTCTAAATAATTTCAAATTG
Found at i:21332608 original size:6 final size:6
Alignment explanation
Indices: 21332597--21332621 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21332587 ATTGGAGCAA
21332597 CCATTG CCATTG CCATTG CCATTG C
1 CCATTG CCATTG CCATTG CCATTG C
21332622 TAGCTTCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.32
Consensus pattern (6 bp):
CCATTG
Found at i:21332882 original size:31 final size:31
Alignment explanation
Indices: 21332837--21332897 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
21332827 TTACAAAATG
*
21332837 ATCACTAAATTATTCAAAAGTTTTCATTTAA
1 ATCACTAAACTATTCAAAAGTTTTCATTTAA
* *
21332868 ATCAGTAAACTATTCAAAAGTTTTTATTTA
1 ATCACTAAACTATTCAAAAGTTTTCATTTA
21332898 TGTCATTGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (31 bp):
ATCACTAAACTATTCAAAAGTTTTCATTTAA
Found at i:21337673 original size:14 final size:15
Alignment explanation
Indices: 21337651--21337679 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21337641 CTATTAACTG
21337651 ATTTATATTATATAT
1 ATTTATATTATATAT
21337666 ATTT-TATTATATAT
1 ATTTATATTATATAT
21337680 TATTAATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTATATTATATAT
Found at i:21340436 original size:121 final size:121
Alignment explanation
Indices: 21340218--21340481 Score: 293
Period size: 121 Copynumber: 2.2 Consensus size: 121
21340208 TTTATTCAAA
** * * *
21340218 GTTTGATTTTTATAAGTTGAGATAAACTTAAAGGGTTAGAGAGTATTTCAATTAATGAGAATATC
1 GTTTGATTTTTATGGGTTGAGATAAACTTAAAAGGTTAGAAAGTATTTCAATCAATGAGAATATC
* * * *
21340283 TAATTCGAATTCAAGCTAATATGATATAACCCAAATTCAAAAGT-T-TCGTCTAAT
66 TAATTCGAATTCAAGCTAATATGATACAACCCAAATTCAAAAATCTCTCGCCTAAG
* *
21340337 GTTTGATTTTTATGGGTT-AGGATCAGACTTAAAAGGTTAGGAAAGTATTTCAATCAATGGGAAT
1 GTTTGATTTTTATGGGTTGA-GAT-AAACTTAAAAGGTTA-GAAAGTATTTCAATCAATGAGAAT
* * * * * * *
21340401 GTTTAATTCGAATTTAAGCTAGT-TCGATCCGACCCAAATTCAAAAATCTCTTGCCTAAG
63 ATCTAATTCGAATTCAAGCTAATAT-GATACAACCCAAATTCAAAAATCTCTCGCCTAAG
21340460 GTTTGATTTTTTATGGGTTGAG
1 GTTTGA-TTTTTATGGGTTGAG
21340482 CTTAGCAAGT
Statistics
Matches: 119, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
118 1 0.01
119 19 0.16
120 14 0.12
121 58 0.49
122 1 0.01
123 12 0.10
124 13 0.11
125 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.37
Consensus pattern (121 bp):
GTTTGATTTTTATGGGTTGAGATAAACTTAAAAGGTTAGAAAGTATTTCAATCAATGAGAATATC
TAATTCGAATTCAAGCTAATATGATACAACCCAAATTCAAAAATCTCTCGCCTAAG
Found at i:21352939 original size:13 final size:12
Alignment explanation
Indices: 21352921--21352956 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
21352911 AAACATATAT
21352921 TTATATTTTTAGA
1 TTATATTTTTA-A
21352934 TTATATTTTTAA
1 TTATATTTTTAA
21352946 TATATATTTTT
1 T-TATATTTTT
21352957 TATTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 2 0.09
13 20 0.91
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (12 bp):
TTATATTTTTAA
Found at i:21354514 original size:15 final size:15
Alignment explanation
Indices: 21354490--21354527 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
21354480 ATTTTGTTTT
21354490 TGTA-TTTTAATTTAA
1 TGTATTTTTAA-TTAA
21354505 T-TATTTTTAATTAA
1 TGTATTTTTAATTAA
21354519 TGTATTTTT
1 TGTATTTTT
21354528 TGAATTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
TGTATTTTTAATTAA
Found at i:21356535 original size:26 final size:26
Alignment explanation
Indices: 21356493--21356544 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
21356483 ATACTGTCTA
21356493 AGTGTTAGATTTCAACCTTT-TTATT
1 AGTGTTAGATTTCAACCTTTATTATT
* *
21356518 AGTGTTTGTATTTTAACCTTTATTATT
1 AGTGTTAG-ATTTCAACCTTTATTATT
21356545 TTCATAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.56
Consensus pattern (26 bp):
AGTGTTAGATTTCAACCTTTATTATT
Found at i:21361526 original size:6 final size:6
Alignment explanation
Indices: 21361515--21361579 Score: 130
Period size: 6 Copynumber: 10.8 Consensus size: 6
21361505 CTATACCTTC
21361515 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
21361563 ATGTAT ATGTAT ATGTA
1 ATGTAT ATGTAT ATGTA
21361580 CTGTTTAGAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (6 bp):
ATGTAT
Found at i:21364284 original size:22 final size:23
Alignment explanation
Indices: 21364258--21364300 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
21364248 TATATTATCT
21364258 AATTTAT-AACATATAAAAATTA
1 AATTTATAAACATATAAAAATTA
*
21364280 AATTTATAAACATTTAAAAAT
1 AATTTATAAACATATAAAAAT
21364301 ATTAAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
AATTTATAAACATATAAAAATTA
Found at i:21365378 original size:142 final size:141
Alignment explanation
Indices: 21365122--21365402 Score: 456
Period size: 142 Copynumber: 2.0 Consensus size: 141
21365112 TAAGCTAGTT
* *
21365122 TTAATTGAAGTTGAACTGATTGAACTTAGCTTAAGGTATCAAACTGAATCATGGCGGATGAGAGG
1 TTAATTGAAATTGAACTGATTGAACTTAGCTTAAGGTATCAAACTGAATCATGGCGAATGAGAGG
* * *
21365187 TTAAGAACTGATTTCTTGGCTATGTAGTGCCTATTTTTTGAAACTCTAGGCTAGTTTTAACTGAA
66 TTAAGAACTGATTTCTTGGCTATGCAGTGCCTAATTTTTGAAACTCTAGGCTAGTTCTAA-TGAA
21365252 CTTAGCTTAAAG
130 CTTAGCTTAAAG
* *
21365264 TTAATTGAAATTGAACTGATTGAACTTAGCTTAAGGTATCAAATTGAGTCATGGCGAATGAGAGG
1 TTAATTGAAATTGAACTGATTGAACTTAGCTTAAGGTATCAAACTGAATCATGGCGAATGAGAGG
* *
21365329 TTAAGAACTGATTTGC-TGGCTATGCCGTGCCTAATTTTTGAAATTCTAGGCTAGTTCTAATGAA
66 TTAAGAACTGATTT-CTTGGCTATGCAGTGCCTAATTTTTGAAACTCTAGGCTAGTTCTAATGAA
21365393 CTTAGCTTAA
130 CTTAGCTTAA
21365403 GGTATCAAAT
Statistics
Matches: 129, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
141 14 0.11
142 114 0.88
143 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.35
Consensus pattern (141 bp):
TTAATTGAAATTGAACTGATTGAACTTAGCTTAAGGTATCAAACTGAATCATGGCGAATGAGAGG
TTAAGAACTGATTTCTTGGCTATGCAGTGCCTAATTTTTGAAACTCTAGGCTAGTTCTAATGAAC
TTAGCTTAAAG
Found at i:21378651 original size:18 final size:19
Alignment explanation
Indices: 21378615--21378650 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
21378605 TGCATAAGTT
21378615 TTAAATGTAAAAGCTAAAA
1 TTAAATGTAAAAGCTAAAA
21378634 TTAAA-GTAAAA-CTAAAA
1 TTAAATGTAAAAGCTAAAA
21378651 AGAAAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (19 bp):
TTAAATGTAAAAGCTAAAA
Found at i:21380213 original size:2 final size:2
Alignment explanation
Indices: 21380208--21380232 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21380198 AGATTATTCA
21380208 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21380233 ATCTAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21384158 original size:22 final size:20
Alignment explanation
Indices: 21384133--21384172 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21384123 GAATGACAAT
21384133 AAAACAGTGACAAAACAACACC
1 AAAACAGTG--AAAACAACACC
*
21384155 AAAATAGTGAAAACAACA
1 AAAACAGTGAAAACAACA
21384173 GCATGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.62, C:0.20, G:0.10, T:0.07
Consensus pattern (20 bp):
AAAACAGTGAAAACAACACC
Found at i:21392044 original size:62 final size:62
Alignment explanation
Indices: 21391978--21392174 Score: 177
Period size: 62 Copynumber: 3.1 Consensus size: 62
21391968 AAAGTTATGA
21391978 TAATTATATACATTTAAAAATATTTTAATTTAATTTACAATTACTAGTTAAAAATATTGTGC
1 TAATTATATACATTTAAAAATATTTTAATTTAATTTACAATTACTAGTTAAAAATATTGTGC
* * * * * * * * *
21392040 TAATTTTA-AAATTGAATTATTACTTGAATAAAACTCTTAAGTATA-AAATA-TAG-GAAAAATA
1 TAATTATATACATTTAA-AAATA-TT---T-TAA-T-TTAA-TTTACAATTACTAGTTAAAAATA
* *
21392101 GTTATGA
57 -TTGTGC
21392108 TAATTATATACATTTAAAAATATTTTAATTTAATTTACAATTACTAGTTAAAAATATTGTGC
1 TAATTATATACATTTAAAAATATTTTAATTTAATTTACAATTACTAGTTAAAAATATTGTGC
21392170 TAATT
1 TAATT
21392175 TTAAAATTGA
Statistics
Matches: 99, Mismatches: 22, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
60 3 0.03
61 14 0.14
62 23 0.23
63 11 0.11
64 1 0.01
66 1 0.01
67 11 0.11
68 18 0.18
69 14 0.14
70 3 0.03
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.43
Consensus pattern (62 bp):
TAATTATATACATTTAAAAATATTTTAATTTAATTTACAATTACTAGTTAAAAATATTGTGC
Found at i:21392114 original size:130 final size:130
Alignment explanation
Indices: 21391970--21392245 Score: 552
Period size: 130 Copynumber: 2.1 Consensus size: 130
21391960 ATTTAATTAA
21391970 AGTTATGATAATTATATACATTTAAAAATATTTTAATTTAATTTACAATTACTAGTTAAAAATAT
1 AGTTATGATAATTATATACATTTAAAAATATTTTAATTTAATTTACAATTACTAGTTAAAAATAT
21392035 TGTGCTAATTTTAAAATTGAATTATTACTTGAATAAAACTCTTAAGTATAAAATATAGGAAAAAT
66 TGTGCTAATTTTAAAATTGAATTATTACTTGAATAAAACTCTTAAGTATAAAATATAGGAAAAAT
21392100 AGTTATGATAATTATATACATTTAAAAATATTTTAATTTAATTTACAATTACTAGTTAAAAATAT
1 AGTTATGATAATTATATACATTTAAAAATATTTTAATTTAATTTACAATTACTAGTTAAAAATAT
21392165 TGTGCTAATTTTAAAATTGAATTATTACTTGAATAAAACTCTTAAGTATAAAATATAGGAAAAAT
66 TGTGCTAATTTTAAAATTGAATTATTACTTGAATAAAACTCTTAAGTATAAAATATAGGAAAAAT
21392230 AGTTATGATAATTATA
1 AGTTATGATAATTATA
21392246 GATTAAATTA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 146 1.00
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (130 bp):
AGTTATGATAATTATATACATTTAAAAATATTTTAATTTAATTTACAATTACTAGTTAAAAATAT
TGTGCTAATTTTAAAATTGAATTATTACTTGAATAAAACTCTTAAGTATAAAATATAGGAAAAAT
Found at i:21396759 original size:17 final size:17
Alignment explanation
Indices: 21396738--21396779 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
21396728 TAATTTTTTA
21396738 AAAATT-TTACAAA-GAT
1 AAAATTATTA-AAATGAT
21396754 ATAAATTATTAAAATGAT
1 A-AAATTATTAAAATGAT
21396772 AAAATTAT
1 AAAATTAT
21396780 ATTTTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.04
17 15 0.65
18 7 0.30
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (17 bp):
AAAATTATTAAAATGAT
Found at i:21398110 original size:19 final size:18
Alignment explanation
Indices: 21398078--21398113 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21398068 TTTAAGCTTT
*
21398078 TTTAAAAATTTAAAATTA
1 TTTAAAAATATAAAATTA
21398096 TTTAAAAATCATAAAATT
1 TTTAAAAAT-ATAAAATT
21398114 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTAAAAATATAAAATTA
Found at i:21398131 original size:22 final size:21
Alignment explanation
Indices: 21398099--21398144 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
21398089 AAAATTATTT
21398099 AAAAATCATAAAATTTATAAAA
1 AAAAATCAT-AAATTTATAAAA
* * *
21398121 AAAAATTATAATTTTATTAAA
1 AAAAATCATAAATTTATAAAA
21398142 AAA
1 AAA
21398145 TAACAATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATCATAAATTTATAAAA
Found at i:21411653 original size:25 final size:25
Alignment explanation
Indices: 21411625--21411689 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
21411615 ACCTCATTTT
*
21411625 AAATCATAAATT-TTTGAGAGAAATA
1 AAATTATAAATTCTTTGA-AGAAATA
* * *
21411650 AAATTTTAAATTCTTTTAAGAAATT
1 AAATTATAAATTCTTTGAAGAAATA
21411675 AAATTATAAACTTCT
1 AAATTATAAA-TTCT
21411690 AATTTTGTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 25 0.76
26 8 0.24
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (25 bp):
AAATTATAAATTCTTTGAAGAAATA
Found at i:21412183 original size:3 final size:3
Alignment explanation
Indices: 21412175--21412204 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
21412165 AATCCACAAT
21412175 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
21412205 TTCTTCTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:21413965 original size:30 final size:31
Alignment explanation
Indices: 21413904--21413967 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
21413894 AACATCCAAG
21413904 TGATTTAAATAAAAACTTTTAAATAGGTCAA
1 TGATTTAAATAAAAACTTTTAAATAGGTCAA
* *
21413935 TGATTTAAATAAAAAC-TTTCAATAGTTCAA
1 TGATTTAAATAAAAACTTTTAAATAGGTCAA
21413965 TGA
1 TGA
21413968 CCATTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (31 bp):
TGATTTAAATAAAAACTTTTAAATAGGTCAA
Found at i:21418571 original size:26 final size:28
Alignment explanation
Indices: 21418531--21418583 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
21418521 CTGCATACTT
21418531 TAAAATTGTAATTATT-ATAT-TTAATA
1 TAAAATTGTAATTATTGATATATTAATA
* *
21418557 TAAAATTTTATTTATTGATATATTAAT
1 TAAAATTGTAATTATTGATATATTAAT
21418584 TATGATTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 4 0.17
28 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (28 bp):
TAAAATTGTAATTATTGATATATTAATA
Found at i:21420208 original size:19 final size:19
Alignment explanation
Indices: 21420184--21420238 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
21420174 AATAAACACC
21420184 AAAAAAAATTTAAAAAATA
1 AAAAAAAATTTAAAAAATA
*
21420203 AAAAAAATATTT-TAAAATA
1 AAAAAAA-ATTTAAAAAATA
**
21420222 AAAAAATTTTTAAAAAA
1 AAAAAAAATTTAAAAAA
21420239 AGTATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 3 0.10
19 23 0.77
20 4 0.13
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAAAAATTTAAAAAATA
Found at i:21420218 original size:14 final size:14
Alignment explanation
Indices: 21420201--21420251 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
21420191 ATTTAAAAAA
21420201 TAAAAAAAATATTT
1 TAAAAAAAATATTT
*
21420215 TAAAATAAAAAAATTTT
1 T-AAA-AAAAATA-TTT
*
21420232 TAAAAAAAGTATTT
1 TAAAAAAAATATTT
21420246 TAAAAA
1 TAAAAA
21420252 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 10 0.32
15 8 0.26
16 9 0.29
17 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
TAAAAAAAATATTT
Found at i:21420224 original size:16 final size:16
Alignment explanation
Indices: 21420205--21420257 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
21420195 AAAAAATAAA
21420205 AAAAATATTTTAAAAT
1 AAAAATATTTTAAAAT
* *
21420221 AAAAAAATTTTTAAA-
1 AAAAATATTTTAAAAT
*
21420236 AAAAGTATTTTAAAAAT
1 AAAAATATTTT-AAAAT
21420253 AAAAA
1 AAAAA
21420258 ATAAATACAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 9 0.31
16 16 0.55
17 4 0.14
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
AAAAATATTTTAAAAT
Found at i:21422380 original size:3 final size:3
Alignment explanation
Indices: 21422372--21422416 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
21422362 ATATTTTTCT
21422372 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21422417 AGAGGAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:21428855 original size:21 final size:21
Alignment explanation
Indices: 21428830--21428875 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
21428820 AGAATTAAAT
*
21428830 TTTATTATTTCTATTTTGATA
1 TTTATTATTTCTATTTTAATA
* *
21428851 TTTATTTTTTTTATTTTAATA
1 TTTATTATTTCTATTTTAATA
21428872 TTTA
1 TTTA
21428876 AATTATCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTATTATTTCTATTTTAATA
Found at i:21437868 original size:23 final size:23
Alignment explanation
Indices: 21437842--21437887 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
21437832 TAGAGTTATA
* *
21437842 GATATGGTCTATATTCTCAAATT
1 GATATGGTCCAAATTCTCAAATT
21437865 GATATGGTCCAAATTCTCAAATT
1 GATATGGTCCAAATTCTCAAATT
21437888 AAATCACACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (23 bp):
GATATGGTCCAAATTCTCAAATT
Found at i:21450145 original size:13 final size:14
Alignment explanation
Indices: 21450112--21450146 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
21450102 GAATACACGG
*
21450112 ATAACCAAATACGA
1 ATAACAAAATACGA
21450126 ATAACAAAATACGA
1 ATAACAAAATACGA
21450140 AT-ACAAA
1 ATAACAAA
21450147 GATAACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.63, C:0.17, G:0.06, T:0.14
Consensus pattern (14 bp):
ATAACAAAATACGA
Found at i:21468554 original size:14 final size:15
Alignment explanation
Indices: 21468526--21468556 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
21468516 CACATATCAA
21468526 ATTTCTATGTATTTC
1 ATTTCTATGTATTTC
21468541 ATTTCTAT-TATTTC
1 ATTTCTATGTATTTC
21468555 AT
1 AT
21468557 CCACGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTTCTATGTATTTC
Found at i:21472810 original size:10 final size:10
Alignment explanation
Indices: 21472795--21472824 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
21472785 AACAAAGATT
21472795 AAAAAAAGAA
1 AAAAAAAGAA
21472805 AAAAAAAGAA
1 AAAAAAAGAA
*
21472815 GAAAAAAGAA
1 AAAAAAAGAA
21472825 CAGAAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Done.