Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 41 of 153
Found at i:13886981 original size:14 final size:15
Alignment explanation
Indices: 13886962--13886994 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13886952 GGGGCAAAGC
*
13886962 TAAAAAT-CTTGAAT
1 TAAAAATGCTTAAAT
13886976 TAAAAATGCTTAAAT
1 TAAAAATGCTTAAAT
13886991 TAAA
1 TAAA
13886995 TTATTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (15 bp):
TAAAAATGCTTAAAT
Found at i:13891694 original size:91 final size:91
Alignment explanation
Indices: 13891539--13892032 Score: 656
Period size: 91 Copynumber: 5.4 Consensus size: 91
13891529 TAATGATTGA
* * * * * *
13891539 AGGATGCCAGAGTGTCTTTCGACCATAGTTTTATTCAATTTTCGATATGATGT-CATAGTATCTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTC-ATTTTCGATATGATTTCCATAATATCTT
*
13891603 TCAACCATGGTCTTTTTCATTTTCAAT
65 TCAACCATGGTCTTATTCATTTTCAAT
* * *
13891630 AGGATGCCACAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGATTTCCATAATGTCTTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATATGATTTCCATAATATCTTT
*
13891695 CAACCATGGTCTTATTCATTTTCGAT
66 CAACCATGGTCTTATTCATTTTCAAT
* * * * * *
13891721 AGGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCCGATATGATGT-CATAGTGTCTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCGATATGATTTCCATAATATCTT
*
13891785 TCAACCATGGTTTTATTCATTTTCCAAT
65 TCAACCATGGTCTTATTCATTTT-CAAT
* *
13891813 ATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGA-TGCCATAATATCTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATATGATTTCCATAATATCTT
13891877 TCAA-CATGGTCTTATTCATTTTCCAAT
65 TCAACCATGGTCTTATTCATTTT-CAAT
* *
13891904 ATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGATATGA-TGCCATAATATCTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCGATATGATTTCCATAATATCTT
*
13891968 TCAACCATGGTCTTATTCATTTTCGAT
65 TCAACCATGGTCTTATTCATTTTCAAT
* * * *
13891995 AGGCTGCCATAGTGTTTTTCAACTATGGTCTTACTCAT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCAT
13892033 CTGAATCATG
Statistics
Matches: 362, Mismatches: 34, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
90 15 0.04
91 255 0.70
92 92 0.25
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.42
Consensus pattern (91 bp):
AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATATGATTTCCATAATATCTTT
CAACCATGGTCTTATTCATTTTCAAT
Found at i:13891706 original size:46 final size:45
Alignment explanation
Indices: 13891541--13892072 Score: 647
Period size: 46 Copynumber: 11.7 Consensus size: 45
13891531 ATGATTGAAG
* * * *
13891541 GATGCCAGAGTGTCTTTCGACCATAGTTTTATTCAATTTTCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTC-ATTTTCGATAT
* * * * *
13891587 GATGTCATAGTATCTTTCAACCATGGTCTTTTTCATTTTCAATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* *
13891632 GATGCCACAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* * *
13891677 GATTTCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GA-TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* * *
13891723 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCGATAT
* * *
13891769 GATGTCATAGTGTCTTTCAACCATGGTTTTATTCATTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
13891815 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
* * *
13891861 GATGCCATAATATCTTTCAA-CATGGTCTTATTCATTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
13891906 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCGATAT
* * *
13891952 GATGCCATAATATCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* * * * *
13891997 GCTGCCATAGTGTTTTTCAACTATGGTCTTACTCA-TCT-GAATCAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCG-AT-AT
** * *
13892042 GATGCCATAACGTCTTTCAGCTATGGTCTTA
1 GATGCCATAGTGTCTTTCAACCATGGTCTTA
13892073 CTCGTTTGAA
Statistics
Matches: 425, Mismatches: 54, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.00
44 4 0.01
45 190 0.45
46 226 0.53
47 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
Found at i:13891794 original size:137 final size:135
Alignment explanation
Indices: 13891541--13892072 Score: 672
Period size: 137 Copynumber: 3.9 Consensus size: 135
13891531 ATGATTGAAG
* * * * * * *
13891541 GATGCCAGAGTGTCTTTCGACCATAGTTTTATTCAATTTTCGATATGATGTCATAGTATCTTTCA
1 GATGCCATAATGTCTTTCAACCATGGTCTTATTC-ATTTTCGATAGGATGCCATAGTATCTTTCA
* ** * * *
13891606 ACCATGGTCTTTTTCATTTTCAATAGGATGCCACAGTGTCTTTCAACCATGGTCTTATTCATTTT
65 ACTATGGTCTTACTCATTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT
*
13891671 CGATAG
130 CGATAT
* *
13891677 GATTTCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGATGCCATAGTGTCTTTCA
1 GA-TGCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGATGCCATAGTATCTTTCA
* * *
13891742 ACTATGGTCTTACTCACTTTCCGATATGATGTCATAGTGTCTTTCAACCATGGTTTTATTCATTT
65 ACTATGGTCTTACTCA-TTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTT
*
13891807 TCCAATAT
129 T-CGATAT
* * *
13891815 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGCCATAATATCTTTCA
1 GATGCCATAATGTCTTTCAACCATGGTCTTATTCATTTT-CGATAGGATGCCATAGTATCTTTCA
*
13891880 AC-ATGGTCTTATTCATTTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTT
65 ACTATGGTCTTACTCA-TTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TT
13891944 TTCGATAT
128 TTCGATAT
* * * *
13891952 GATGCCATAATATCTTTCAACCATGGTCTTATTCATTTTCGATAGGCTGCCATAGTGTTTTTCAA
1 GATGCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGATGCCATAGTATCTTTCAA
* * ** * *
13892017 CTATGGTCTTACTCATCT-GAATCATGATGCCATAACGTCTTTCAGCTATGGTCTTA
66 CTATGGTCTTACTCATTTCCAAT-ATGATGCCATAGTGTCTTTCAACCATGGTCTTA
13892073 CTCGTTTGAA
Statistics
Matches: 344, Mismatches: 45, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
135 3 0.01
136 95 0.28
137 212 0.62
138 34 0.10
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (135 bp):
GATGCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGATGCCATAGTATCTTTCAA
CTATGGTCTTACTCATTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTC
GATAT
Found at i:13891946 original size:23 final size:23
Alignment explanation
Indices: 13891920--13891990 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
13891910 CCATAGTGTC
13891920 TTTCAACCATGGTCTTATTCATT
1 TTTCAACCATGGTCTTATTCATT
* * * * * *
13891943 TTTCGA-TATGATGCCATAAT-ATC
1 TTTCAACCATG--GTCTTATTCATT
13891966 TTTCAACCATGGTCTTATTCATT
1 TTTCAACCATGGTCTTATTCATT
13891989 TT
1 TT
13891991 CGATAGGCTG
Statistics
Matches: 32, Mismatches: 12, Indels: 8
0.62 0.23 0.15
Matches are distributed among these distances:
22 8 0.25
23 16 0.50
24 8 0.25
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (23 bp):
TTTCAACCATGGTCTTATTCATT
Found at i:13897161 original size:68 final size:69
Alignment explanation
Indices: 13897031--13897165 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 69
13897021 TGATTAAACT
* * * *
13897031 TAATCACTATAATATTAAATTAGTATAATATTTATAAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTATAATATTAAATTAATAAAATATCTATAAAGATAAATATTAAATTAAATTTAATATT
13897096 AAGA
66 AAGA
* * * *
13897100 TAATCACTTTAATATTAAATTAATAAAATA-CTATTAAGATAAGTATTAAATTTAATTTAATATT
1 TAATCACTATAATATTAAATTAATAAAATATCTATAAAGATAAATATTAAATTAAATTTAATATT
13897164 AA
66 AA
13897166 ACTATTAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 31 0.53
69 27 0.47
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (69 bp):
TAATCACTATAATATTAAATTAATAAAATATCTATAAAGATAAATATTAAATTAAATTTAATATT
AAGA
Found at i:13900855 original size:28 final size:30
Alignment explanation
Indices: 13900807--13900873 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 30
13900797 ATTTACCCCA
* *
13900807 TGTTTATTGTCCCGACGGAC-TCT-ATCTG
1 TGTTTACTGTCCCGACAGACATCTGATCTG
*
13900835 TGTTTACTGTCCC-AGCAGACTATCTGTTCTG
1 TGTTTACTGTCCCGA-CAGAC-ATCTGATCTG
13900866 TGTTTACT
1 TGTTTACT
13900874 ATACCTACGC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 1 0.03
28 16 0.50
30 3 0.09
31 12 0.38
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (30 bp):
TGTTTACTGTCCCGACAGACATCTGATCTG
Found at i:13905552 original size:27 final size:28
Alignment explanation
Indices: 13905518--13905582 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
13905508 ATAAAAAATA
13905518 ACCAAAATATTAT-AACTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
*
13905545 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
13905573 ACCAAAATAT
1 ACCAAAATAT
13905583 ACAAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 13 0.36
28 23 0.64
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAAACTTTTTTTATTT
Found at i:13916562 original size:21 final size:21
Alignment explanation
Indices: 13916527--13916594 Score: 86
Period size: 22 Copynumber: 3.3 Consensus size: 21
13916517 CAAAAGTGAA
13916527 AATCATGTG--ATTAGCAATC
1 AATCATGTGACATTAGCAATC
13916546 AATCATGTGACATTAGCAATC
1 AATCATGTGACATTAGCAATC
* * *
13916567 AAACATTGTTACATCAGCAATC
1 AATCA-TGTGACATTAGCAATC
13916589 AATCAT
1 AATCAT
13916595 TATTGAAGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.21
21 15 0.36
22 18 0.43
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (21 bp):
AATCATGTGACATTAGCAATC
Found at i:13921581 original size:40 final size:40
Alignment explanation
Indices: 13921493--13921582 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
13921483 GTTTATACAT
* * *
13921493 CGGTACCCCTGAATCGCACATACGTGCCCCTGTTTGTACTT
1 CGGTA-CCCTGAATCGCACATACATGCCCCTGATTGTACTA
** *
13921534 CAATACCCTGAATTGCACATACATGCCCCTGATTGTACTA
1 CGGTACCCTGAATCGCACATACATGCCCCTGATTGTACTA
13921574 CGGTACCCT
1 CGGTACCCT
13921583 TGGATATACT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 38 0.93
41 3 0.07
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (40 bp):
CGGTACCCTGAATCGCACATACATGCCCCTGATTGTACTA
Found at i:13931853 original size:17 final size:18
Alignment explanation
Indices: 13931818--13931860 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
13931808 GGGTCTGATT
13931818 ATTATATAATAAAATATAA
1 ATTATA-AATAAAATATAA
*
13931837 ATTATAAATATAA-ATAA
1 ATTATAAATAAAATATAA
13931854 ATTATAA
1 ATTATAA
13931861 TAATCGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.48
18 6 0.26
19 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTATAAATAAAATATAA
Found at i:13934715 original size:19 final size:18
Alignment explanation
Indices: 13934693--13934730 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
13934683 AAAATTACAA
13934693 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAA-ATTTAT
*
13934712 AAAAATTCCAAAATTTAT
1 AAAAATTCAAAAATTTAT
13934730 A
1 A
13934731 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATTCAAAAATTTAT
Found at i:13935203 original size:18 final size:18
Alignment explanation
Indices: 13935182--13935216 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
13935172 TAAACCGTCT
13935182 GTTCTTTTTCTTTTTTTG
1 GTTCTTTTTCTTTTTTTG
13935200 GTTCTTTTTCTTTTTTT
1 GTTCTTTTTCTTTTTTT
13935217 CTTTTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.09, T:0.80
Consensus pattern (18 bp):
GTTCTTTTTCTTTTTTTG
Found at i:13937052 original size:228 final size:228
Alignment explanation
Indices: 13936655--13937110 Score: 876
Period size: 228 Copynumber: 2.0 Consensus size: 228
13936645 CTGTGGGTCG
*
13936655 GAATGTAAGCTTCACGATACTGCTCACACGAGCTGTGGAGTATCTGTAACAAATGTAGGACCTCA
1 GAATGTAAGCTTCACGATACTGCTCACACGAGCTGTGGAGTATCCGTAACAAATGTAGGACCTCA
13936720 GTCATTGGTAGGACATTTAATACCAGCACCCAAAACATGAAATTCCTAATGACATGTCATTTGTA
66 GTCATTGGTAGGACATTTAATACCAGCACCCAAAACATGAAATTCCTAATGACATGTCATTTGTA
13936785 TCTTACGAATTCCTAAGATTCAACTGGGACTCGATAACCTTCATTGCATTGATTTATTTATACAT
131 TCTTACGAATTCCTAAGATTCAACTGGGACTCGATAACCTTCATTGCATTGATTTATTTATACAT
13936850 CAATCAATTTATATTATAAATAAAATAATAACA
196 CAATCAATTTATATTATAAATAAAATAATAACA
*
13936883 GAATGTAAGCTTCACGATACTGCTCACATGAGCTGTGGAGTATCCGTAACAAATGTAGGACCTCA
1 GAATGTAAGCTTCACGATACTGCTCACACGAGCTGTGGAGTATCCGTAACAAATGTAGGACCTCA
*
13936948 GTCATTGGTAGGACATTTAATACCAGCACCCGAAACATGAAATTCCTAATGACATGTCATTTGTA
66 GTCATTGGTAGGACATTTAATACCAGCACCCAAAACATGAAATTCCTAATGACATGTCATTTGTA
*
13937013 TCTTACGAATTCCTAAGATTCAACTGGGACTCGATAACCTTTATTGCATTGATTTATTTATACAT
131 TCTTACGAATTCCTAAGATTCAACTGGGACTCGATAACCTTCATTGCATTGATTTATTTATACAT
13937078 CAATCAATTTATATTATAAATAAAATAATAACA
196 CAATCAATTTATATTATAAATAAAATAATAACA
13937111 TAAAATTTGA
Statistics
Matches: 224, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 224 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (228 bp):
GAATGTAAGCTTCACGATACTGCTCACACGAGCTGTGGAGTATCCGTAACAAATGTAGGACCTCA
GTCATTGGTAGGACATTTAATACCAGCACCCAAAACATGAAATTCCTAATGACATGTCATTTGTA
TCTTACGAATTCCTAAGATTCAACTGGGACTCGATAACCTTCATTGCATTGATTTATTTATACAT
CAATCAATTTATATTATAAATAAAATAATAACA
Found at i:13937381 original size:149 final size:148
Alignment explanation
Indices: 13937177--13937472 Score: 565
Period size: 149 Copynumber: 2.0 Consensus size: 148
13937167 TAAGGACGTA
*
13937177 AAAGTATATTGAGCTAATCCGTAGCTTTTTTTTTCCTCAATCTAGGTTTGTACGTGGTTTATTTT
1 AAAGTATATTGAGCTAATCCGTAGCTTTTTTTTTCCTCAATCTAGGTCTGTACGTGGTTTATTTT
*
13937242 GATCTAAGGGACATTTAAACAACCCACATTTATCATCATTTCACAATAAAACCCTAGAATTTATA
66 GATCTAAGGGACATTTAAACAACCCAAATTTATCATCATTTCACAATAAAACCCTAGAATTTATA
13937307 CCTTTAACAAATTTGTCG
131 CCTTTAACAAATTTGTCG
13937325 AAAGTATATTGAGCTAATCCGTAGCTTTTTCTTTTCCTCAATCTAGGTCTGTACGTGGTTTATTT
1 AAAGTATATTGAGCTAATCCGTAGCTTTTT-TTTTCCTCAATCTAGGTCTGTACGTGGTTTATTT
13937390 TGATCTAAGGGACATTTAAACAACCCAAATTTATCATCATTTCACAATAAAACCCTAGAATTTAT
65 TGATCTAAGGGACATTTAAACAACCCAAATTTATCATCATTTCACAATAAAACCCTAGAATTTAT
13937455 ACCTTTAACAAATTTGTC
130 ACCTTTAACAAATTTGTC
13937473 CCTAATTCCA
Statistics
Matches: 145, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
148 30 0.21
149 115 0.79
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (148 bp):
AAAGTATATTGAGCTAATCCGTAGCTTTTTTTTTCCTCAATCTAGGTCTGTACGTGGTTTATTTT
GATCTAAGGGACATTTAAACAACCCAAATTTATCATCATTTCACAATAAAACCCTAGAATTTATA
CCTTTAACAAATTTGTCG
Found at i:13941398 original size:147 final size:142
Alignment explanation
Indices: 13941102--13941406 Score: 326
Period size: 146 Copynumber: 2.1 Consensus size: 142
13941092 ATTACTTAAC
** * * * * *
13941102 CTTAATTATATAATGCTAATTGTATAAATTAAAATTTAGCATAAAGTTAGCACGTTTAGAGTTTA
1 CTTAATTATATAATGCTAACAGTATAAATTAAAATCTACCATAAAGCTAGCACGTTTAAAATTTA
* * * ***
13941167 GGCTTCAATATCATTAATATAAAAATGAACATTATAATATAATAATTTATATAGTGTTACATATC
66 AGCTTCAATATCATTAATATAAAAAAGAACAATATAATATAATAATTTATATAAAATTACATATC
*
13941232 ACTAATAATATA
131 ACTAATAATAGA
** *
13941244 CTCTAATTATATAATGCTAACAGTATATGTTATAATCTACCATAAAGCTAGTTACACGTTTAAAA
1 CT-TAATTATATAATGCTAACAGTATAAATTAAAATCTACCATAAAGCTAG---CACGTTTAAAA
* *
13941309 TTTAAGC-TCACATATCATTAATATAAAAAAGTACAATATAATA-ACATAGTTGTATATAAAATT
62 TTTAAGCTTCA-ATATCATTAATATAAAAAAGAACAATATAATATA-ATAATT-TATATAAAATT
* * *
13941372 GCATATCATTCATAATAGA
124 ACATATCACTAATAATAGA
13941391 TCTTAATTATATAATG
1 -CTTAATTATATAATG
13941407 ATAATTATAT
Statistics
Matches: 133, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
142 2 0.02
143 40 0.30
145 4 0.03
146 49 0.37
147 36 0.27
148 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (142 bp):
CTTAATTATATAATGCTAACAGTATAAATTAAAATCTACCATAAAGCTAGCACGTTTAAAATTTA
AGCTTCAATATCATTAATATAAAAAAGAACAATATAATATAATAATTTATATAAAATTACATATC
ACTAATAATAGA
Found at i:13941413 original size:14 final size:15
Alignment explanation
Indices: 13941394--13941427 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
13941384 TAATAGATCT
13941394 TAATTATATA-ATGA
1 TAATTATATATATGA
*
13941408 TAATTATATATATTA
1 TAATTATATATATGA
13941423 TAATT
1 TAATT
13941428 TATCATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TAATTATATATATGA
Found at i:13941418 original size:147 final size:142
Alignment explanation
Indices: 13941102--13941426 Score: 341
Period size: 147 Copynumber: 2.2 Consensus size: 142
13941092 ATTACTTAAC
* * * * * * * *
13941102 CTTAATTATATAATGCTAATTGTATAAATTAAAATTTAGCATAAAGTTAGCACGTTTAGAGTTTA
1 CTTAATTATATAATGCTAATTATATATATTATAATCTACCATAAAGCTAGCACGTTTAAAATTTA
* * * ***
13941167 GGCTTCAATATCATTAATATAAAAATGAACATTATAATATAATAATTTATATAGTGTTACATATC
66 AGCTTCAATATCATTAATATAAAAAAGAACAATATAATATAATAATTTATATAAAATTACATATC
*
13941232 ACTAATAATATA
131 ACTAATAATAGA
* *
13941244 CTCTAATTATATAATGCTAA-CAGTATATGTTATAATCTACCATAAAGCTAGTTACACGTTTAAA
1 CT-TAATTATATAATGCTAATTA-TATATATTATAATCTACCATAAAGCTAG---CACGTTTAAA
* *
13941308 ATTTAAGC-TCACATATCATTAATATAAAAAAGTACAATATAATA-ACATAGTTGTATATAAAAT
61 ATTTAAGCTTCA-ATATCATTAATATAAAAAAGAACAATATAATATA-ATAATT-TATATAAAAT
* * *
13941371 TGCATATCATTCATAATAGA
123 TACATATCACTAATAATAGA
*
13941391 TCTTAATTATATAATGATAATTATATATATTATAAT
1 -CTTAATTATATAATGCTAATTATATATATTATAAT
13941427 TTATCATAGA
Statistics
Matches: 148, Mismatches: 25, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
142 2 0.01
143 39 0.26
145 4 0.03
146 49 0.33
147 51 0.34
148 3 0.02
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (142 bp):
CTTAATTATATAATGCTAATTATATATATTATAATCTACCATAAAGCTAGCACGTTTAAAATTTA
AGCTTCAATATCATTAATATAAAAAAGAACAATATAATATAATAATTTATATAAAATTACATATC
ACTAATAATAGA
Found at i:13941678 original size:19 final size:19
Alignment explanation
Indices: 13941654--13941697 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
13941644 AATATTTATT
13941654 TTAATTATATA-AATATTAA
1 TTAATTATATATAAT-TTAA
* *
13941673 TTAATTTTTTATAATTTAA
1 TTAATTATATATAATTTAA
13941692 TTAATT
1 TTAATT
13941698 GAGTTGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAATTATATATAATTTAA
Found at i:13942893 original size:5 final size:5
Alignment explanation
Indices: 13942883--13942913 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
13942873 AAAAATAAGC
*
13942883 AAATA AAATA AAATA AAATA AAATA GAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
13942914 TAATTAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:13944380 original size:31 final size:31
Alignment explanation
Indices: 13944313--13944382 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
13944303 CTTAACAGTC
13944313 TAATGACTTAAATAACAACTTTTGAATAACT
1 TAATGACTTAAATAACAACTTTTGAATAACT
* * * * *
13944344 CAATGACTTAAGTGAA-AGCTTTTGAATGATT
1 TAATGACTTAAAT-AACAACTTTTGAATAACT
13944375 TAATGACT
1 TAATGACT
13944383 ATTTTGTAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (31 bp):
TAATGACTTAAATAACAACTTTTGAATAACT
Found at i:13957565 original size:17 final size:17
Alignment explanation
Indices: 13957543--13957577 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13957533 TATATGTCCA
*
13957543 TTTTTTATGTTTTAATT
1 TTTTTTATATTTTAATT
*
13957560 TTTTTTATATTTTTATT
1 TTTTTTATATTTTAATT
13957577 T
1 T
13957578 GCTATGATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTTTATATTTTAATT
Found at i:13957977 original size:109 final size:109
Alignment explanation
Indices: 13957706--13958124 Score: 450
Period size: 109 Copynumber: 3.8 Consensus size: 109
13957696 AAATTGAGGT
** * *
13957706 AATATTTAGTATTTGGAAATTCGAGAAAACATGCTCTAAGGTGCTGGGTGTCGTTTTTTTTCCCT
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCG--ATTTTT--CT
* *
13957771 CGTTCAACCCAAATGGCTTAATATTCTTTTTAAAAAATTT-TAAAATAAGGC
62 CGTTCAA-CCAAATGGCTAAATA-TC-CTTTAAAAAATTTCT-AAATAAGGC
* * * * *
13957822 AATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCCAAGGAGCTGGGTGTCGATTTTTCTCGTT
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * * * *
13957887 CAACCAAATAGCTAAATATCCTTTCAAAAATTTCTAATTGAGGT
66 CAACCAAATGGCTAAATATCCTTTAAAAAATTTCTAAATAAGGC
*
13957931 AATATTTAGCCTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * * *
13957996 CAACCAAATGGCTTAATATCATTCTTAAAAATTTCAAAATAAGGC
66 CAACCAAATGGCTAAATATCCTT-TAAAAAATTTCTAAATAAGGC
* * * * * * *
13958041 AATGTTTTGCGTCTGGAAATTCGAG-GAACGTGCCCTAAGGTGTTGGGTTTCGA--TTTCTCGTT
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * *
13958103 TAACCAAATTGCCAAATATCCT
66 CAACCAAATGGCTAAATATCCT
13958125 ATTGAATTTA
Statistics
Matches: 258, Mismatches: 43, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
107 26 0.10
109 120 0.47
110 40 0.16
111 13 0.05
112 9 0.03
114 5 0.02
116 45 0.17
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (109 bp):
AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
CAACCAAATGGCTAAATATCCTTTAAAAAATTTCTAAATAAGGC
Found at i:13970104 original size:25 final size:25
Alignment explanation
Indices: 13970058--13970107 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13970048 AGTTAAAAAA
* * *
13970058 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
13970083 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
13970108 ACGCCTCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:13970251 original size:125 final size:125
Alignment explanation
Indices: 13969932--13970569 Score: 1161
Period size: 125 Copynumber: 5.1 Consensus size: 125
13969922 CAATTCAAAT
*
13969932 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGTGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
13969997 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTT-AAAAA
* * **
13970058 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCTCAAGTAATG
1 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
13970123 CAGTGGAATAAATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAC
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
13970183 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
13970248 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAC
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
13970308 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
13970373 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
13970433 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
13970498 CAGTGGAACAGATTAGAA-CCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTA-AAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
13970558 GATTAAAGCCAC
1 GATTAAAGCCAC
13970570 AATGACGAAT
Statistics
Matches: 496, Mismatches: 15, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
125 380 0.77
126 116 0.23
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (125 bp):
GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
Found at i:13970479 original size:25 final size:25
Alignment explanation
Indices: 13970433--13970482 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13970423 CAGTTAAAAA
* * *
13970433 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
13970458 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
13970483 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:13973332 original size:109 final size:109
Alignment explanation
Indices: 13973061--13973479 Score: 468
Period size: 109 Copynumber: 3.8 Consensus size: 109
13973051 AAATTGAGGT
** * *
13973061 AATATTTAGTATTTGGAAATTCGAGAAAACATGCTCTAAGGTGCTGGGTGTCGTTTTTTTTCCCT
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCG--ATTTTT--CT
*
13973126 CGTTCAACCCAAATGGCTTAATATCCTTTTTAAAAAATTT-TAAAATAAGGC
62 CGTTCAA-CCAAATGGCTAAATATCC--TTTAAAAAATTTCT-AAATAAGGC
* * * * *
13973177 AATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCCAAGGAGCTGGGTGTCGATTTTTCTCGTT
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * * * *
13973242 CAACCAAATAGCTAAATATCCTTTCAAAAATTTCTAATTGAGGT
66 CAACCAAATGGCTAAATATCCTTTAAAAAATTTCTAAATAAGGC
*
13973286 AATATTTAGCCTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * * *
13973351 CAACCAAATGGCTTAATATCATTCTTAAAAATTTCAAAATAAGGC
66 CAACCAAATGGCTAAATATCCTT-TAAAAAATTTCTAAATAAGGC
* * * * * *
13973396 AATGTTTTGCGTCTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCTCGTT
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * *
13973458 TAACCAAATTGCCAAATATCCT
66 CAACCAAATGGCTAAATATCCT
13973480 ATTGAATTTA
Statistics
Matches: 260, Mismatches: 41, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
107 26 0.10
109 121 0.47
110 38 0.15
111 16 0.06
112 9 0.03
114 5 0.02
116 45 0.17
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
CAACCAAATGGCTAAATATCCTTTAAAAAATTTCTAAATAAGGC
Found at i:13974419 original size:55 final size:56
Alignment explanation
Indices: 13974282--13974419 Score: 190
Period size: 56 Copynumber: 2.5 Consensus size: 56
13974272 TTTTTTTCAC
* * *
13974282 GTGCTGGGACACTGATGGCCGGCATCCTTGTACCAGATTTGAGAAAAAAAATTTTG
1 GTGCTGGGACACTGATGGCTGGCACCCTTGTACCAGATTTGAGAAAAAAAATTTGG
* * *
13974338 GTACTAGGACACTGATGG-TCGACACCCTTGTACCAGATTTGA-AAAAAAAATTTGG
1 GTGCTGGGACACTGATGGCT-GGCACCCTTGTACCAGATTTGAGAAAAAAAATTTGG
*
13974393 GTGCTGGGATACTGATGGCTGGCACCC
1 GTGCTGGGACACTGATGGCTGGCACCC
13974420 ACTTAGTTGG
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
55 33 0.47
56 37 0.53
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (56 bp):
GTGCTGGGACACTGATGGCTGGCACCCTTGTACCAGATTTGAGAAAAAAAATTTGG
Found at i:13974993 original size:21 final size:21
Alignment explanation
Indices: 13974967--13975013 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
13974957 TTTGTTGGTC
*
13974967 AAATTTTATATTTTCGTATAT
1 AAATTTTATATTTTCGTAAAT
13974988 AAATTTTATATTTTCGTAAAT
1 AAATTTTATATTTTCGTAAAT
13975009 AAATT
1 AAATT
13975014 ATTCTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
AAATTTTATATTTTCGTAAAT
Found at i:13975008 original size:110 final size:110
Alignment explanation
Indices: 13974879--13975125 Score: 431
Period size: 110 Copynumber: 2.2 Consensus size: 110
13974869 TTGTTGGTTG
* * *
13974879 AATTTTATATTTTTGTAAATAAATTATTCTAAAATGTTTGTATTATTTTGGGGTGTTGTAAAAAT
1 AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAAAT
*
13974944 ATTTTAATTCATATTTGTTGGTCAAATTTTATATTTTCGTATATA
66 ATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATATA
13974989 AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAAAT
1 AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAAAT
*
13975054 ATTTTAATCCATATTTGTTGGTCGAATTTTATATTTTCGTATATA
66 ATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATATA
* *
13975099 AATTTTATATTTTCGTATATACATTAT
1 AATTTTATATTTTCGTAAATAAATTAT
13975126 ATTTTTTTTG
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 130 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (110 bp):
AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAAAT
ATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATATA
Found at i:13975104 original size:21 final size:21
Alignment explanation
Indices: 13975078--13975119 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13975068 TTGTTGGTCG
13975078 AATTTTATATTTTCGTATATA
1 AATTTTATATTTTCGTATATA
13975099 AATTTTATATTTTCGTATATA
1 AATTTTATATTTTCGTATATA
13975120 CATTATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
AATTTTATATTTTCGTATATA
Found at i:13975125 original size:19 final size:20
Alignment explanation
Indices: 13975081--13975130 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
13975071 TTGGTCGAAT
13975081 TTTATATTTTCGTATATAAA
1 TTTATATTTTCGTATATAAA
*
13975101 TTTTATATTTTCGTATATACA
1 -TTTATATTTTCGTATATAAA
13975122 -TTATATTTT
1 TTTATATTTT
13975131 TTTTGTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 9 0.32
21 19 0.68
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATATTTTCGTATATAAA
Found at i:13975205 original size:18 final size:17
Alignment explanation
Indices: 13975178--13975211 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13975168 TTTATTATTA
*
13975178 TTTGAGTTATATTATTTG
1 TTTGAATTATA-TATTTG
13975196 TTTGAATTATATATTT
1 TTTGAATTATATATTT
13975212 TTGACTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (17 bp):
TTTGAATTATATATTTG
Found at i:13975962 original size:30 final size:27
Alignment explanation
Indices: 13975899--13975963 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
13975889 TTCTTGATTT
*
13975899 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
* *
13975926 ATATTATAAATTATATTAATTAAAGTTAAG
1 ATATTATAAA-AATATT-ATTAAA-TTAAA
13975956 ATATTATA
1 ATATTATA
13975964 TTATAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 5 0.16
29 5 0.16
30 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:13977491 original size:21 final size:21
Alignment explanation
Indices: 13977436--13977527 Score: 98
Period size: 21 Copynumber: 4.4 Consensus size: 21
13977426 TTATCGGCTT
13977436 TGTCG-ATCAGGCACTTTATG
1 TGTCGTATCAGGCACTTTATG
13977456 TGTCGTATCTCAGGCACTTTATG
1 TGTCGTA--TCAGGCACTTTATG
****
13977479 TGTCGTATCAGGCACCCCGTG
1 TGTCGTATCAGGCACTTTATG
* *
13977500 TGTCGTTTCAGGCA-TATATG
1 TGTCGTATCAGGCACTTTATG
13977520 TGTCGTAT
1 TGTCGTAT
13977528 ACTGATCAGG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
20 14 0.24
21 24 0.41
23 21 0.36
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (21 bp):
TGTCGTATCAGGCACTTTATG
Found at i:13977492 original size:44 final size:41
Alignment explanation
Indices: 13977436--13977527 Score: 105
Period size: 44 Copynumber: 2.2 Consensus size: 41
13977426 TTATCGGCTT
*** *
13977436 TGTCG-ATCAGGCACTTTATGTGTCGTATCTCAGGCACTTTATG
1 TGTCGTATCAGGCACCCCATGTGTCGT-T-TCAGGCA-TATATG
*
13977479 TGTCGTATCAGGCACCCCGTGTGTCGTTTCAGGCATATATG
1 TGTCGTATCAGGCACCCCATGTGTCGTTTCAGGCATATATG
13977520 TGTCGTAT
1 TGTCGTAT
13977528 ACTGATCAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
41 13 0.30
42 7 0.16
43 6 0.14
44 17 0.40
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (41 bp):
TGTCGTATCAGGCACCCCATGTGTCGTTTCAGGCATATATG
Found at i:13978547 original size:8 final size:8
Alignment explanation
Indices: 13978495--13978549 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
13978485 TTTTTTGAAG
13978495 TATATTAT
1 TATATTAT
*
13978503 TATTTTAT
1 TATATTAT
*
13978511 TATATT-G
1 TATATTAT
*
13978518 TAAATTATAT
1 TATA-T-TAT
13978528 TATATTAT
1 TATATTAT
13978536 TATATTAT
1 TATATTAT
13978544 TATATT
1 TATATT
13978550 TTAAATAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 3 0.08
8 30 0.79
9 2 0.05
10 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:13978781 original size:13 final size:13
Alignment explanation
Indices: 13978750--13978790 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
13978740 GACGAAACAG
*
13978750 AGAAGGAAAG-AA
1 AGAAAGAAAGAAA
*
13978762 GGAAAGAAAGAAA
1 AGAAAGAAAGAAA
13978775 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
13978788 AGA
1 AGA
13978791 GAAAATTGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:13980069 original size:12 final size:12
Alignment explanation
Indices: 13980052--13980086 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13980042 GTGTGTCGAA
*
13980052 TACTGTTACTGT
1 TACTGTTACCGT
13980064 TACTGTTACCGT
1 TACTGTTACCGT
*
13980076 TACCGTTACCG
1 TACTGTTACCG
13980087 ATTCGACACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (12 bp):
TACTGTTACCGT
Found at i:13980105 original size:57 final size:58
Alignment explanation
Indices: 13980017--13980136 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 58
13980007 GCCGACTAAT
* * * *
13980017 GTTACTGTTACCGATCCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG-TTACC
1 GTTACCGTTACCGATCCGACACTTTGTGTGTCGAACACTGTTACCGTTACTGATTACC
* *
13980074 GTTACCGTTACCGATTCGACACTTTGTGTGTCGAACACTGTTACCGTTACTGATTACT
1 GTTACCGTTACCGATCCGACACTTTGTGTGTCGAACACTGTTACCGTTACTGATTACC
13980132 GTTAC
1 GTTAC
13980137 TGGTGTGTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
57 47 0.84
58 9 0.16
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (58 bp):
GTTACCGTTACCGATCCGACACTTTGTGTGTCGAACACTGTTACCGTTACTGATTACC
Found at i:13985569 original size:21 final size:21
Alignment explanation
Indices: 13985497--13985566 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 21
13985487 AGAAATTCAA
13985497 TTAATT-TTTAA-TTTAAACT
1 TTAATTATTTAATTTTAAACT
* *
13985516 ATAATTA-TTAA-GTTAAACT
1 TTAATTATTTAATTTTAAACT
13985535 TTAATTATTTAATTTTAAA-T
1 TTAATTATTTAATTTTAAACT
* *
13985555 TTGATTTTTTAA
1 TTAATTATTTAA
13985567 ATTAAAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
19 22 0.52
20 15 0.36
21 5 0.12
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (21 bp):
TTAATTATTTAATTTTAAACT
Found at i:13985574 original size:20 final size:20
Alignment explanation
Indices: 13985497--13985575 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
13985487 AGAAATTCAA
* *
13985497 TTAATT-TTTAATTTAAACT
1 TTAATTATTTAAATTAAAAT
* * *
13985516 ATAATTA-TTAAGTTAAACT
1 TTAATTATTTAAATTAAAAT
* *
13985535 TTAATTATTTAATTTTAAAT
1 TTAATTATTTAAATTAAAAT
* *
13985555 TTGATTTTTTAAATTAAAAT
1 TTAATTATTTAAATTAAAAT
13985575 T
1 T
13985576 AAGAATTTCA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 22 0.46
20 26 0.54
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
TTAATTATTTAAATTAAAAT
Found at i:13985799 original size:41 final size:41
Alignment explanation
Indices: 13985731--13986087 Score: 493
Period size: 41 Copynumber: 8.7 Consensus size: 41
13985721 CCATTCGGGG
* * *
13985731 CTTTAGCGGCGTTTTTTAGAAAAGCGCCGCTAATGCTCAGGGT
1 CTTTAGCGGCG-TTTTTGGGAAAGCGCCGCTAATGCTC-TGGT
* *
13985774 -TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTTTGGT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
* *
13985814 CTTTAGCGGCGTTTTTGGGGAAGCGTCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
* * *
13985855 CTTTAGTGGCGTTTTTGGAAAAGCGCCGTTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
* * *
13985896 CTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATACTTTGGT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
* * *
13985937 CTTTAACGGGGTTTTTGGGGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
*
13985978 CTTTAGCGGCGCTTTTTGGGAAAGCGCCGCTAATACTCTGGT
1 CTTTAGCGGCG-TTTTTGGGAAAGCGCCGCTAATGCTCTGGT
* *
13986020 CTTTAGCGGCGTTTTT-GAAGAAGCGCCGCTAATGCTCTGAT
1 CTTTAGCGGCGTTTTTGGGA-AAGCGCCGCTAATGCTCTGGT
13986061 CTTTAGCGGCGTTTTTGGGAAAGCGCC
1 CTTTAGCGGCGTTTTTGGGAAAGCGCC
13986088 ACAAAAACAT
Statistics
Matches: 280, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
40 5 0.02
41 224 0.80
42 51 0.18
ACGTcount: A:0.17, C:0.20, G:0.31, T:0.33
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
Found at i:13986482 original size:22 final size:24
Alignment explanation
Indices: 13986432--13986491 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 24
13986422 ATATGATTTA
13986432 GAGTTTAAGGTTTA-GAAGTTACT
1 GAGTTTAAGGTTTATGAAGTTACT
* *
13986455 -ATTTTAAGGTTTATGGA-TTA-T
1 GAGTTTAAGGTTTATGAAGTTACT
* *
13986476 GAGTTTAGGGGTTATG
1 GAGTTTAAGGTTTATG
13986492 TGTTACATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 27 0.90
23 2 0.07
ACGTcount: A:0.27, C:0.02, G:0.28, T:0.43
Consensus pattern (24 bp):
GAGTTTAAGGTTTATGAAGTTACT
Found at i:13986520 original size:35 final size:36
Alignment explanation
Indices: 13986463--13986547 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 36
13986453 CTATTTTAAG
* * * *
13986463 GTTTATGGATTATGAGTTTAGGGGTTATGTGTTACA
1 GTTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACA
* *
13986499 TTTTATGGTTTAAGA-TTTAGGGTTTAAGGGTTACA
1 GTTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACA
13986534 GTTTATGGTTTAAG
1 GTTTATGGTTTAAG
13986548 GGTATAGATT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 30 0.71
36 12 0.29
ACGTcount: A:0.24, C:0.02, G:0.28, T:0.46
Consensus pattern (36 bp):
GTTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACA
Found at i:13986749 original size:16 final size:17
Alignment explanation
Indices: 13986730--13986771 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
13986720 AAATTATTTA
13986730 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
13986746 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
13986763 TAAAATAAT
1 T-AAATAAT
13986772 GATTATAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.42
17 7 0.29
18 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:13990427 original size:22 final size:22
Alignment explanation
Indices: 13990400--13990442 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13990390 CTTATTTTAT
*
13990400 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
13990422 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
13990443 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:13990635 original size:9 final size:9
Alignment explanation
Indices: 13990611--13990643 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
13990601 AATAATTGAA
13990611 TAATTTATT
1 TAATTTATT
13990620 T-ATTTATT
1 TAATTTATT
13990628 TAATTTATT
1 TAATTTATT
*
13990637 TACTTTA
1 TAATTTA
13990644 CACTATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (9 bp):
TAATTTATT
Found at i:13990754 original size:86 final size:86
Alignment explanation
Indices: 13990659--13990837 Score: 315
Period size: 86 Copynumber: 2.1 Consensus size: 86
13990649 TATAATAACT
*
13990659 TAATAATTTATTTATTTAAAACATTTATTTTACACTATATAATAATCAAATAATTTATTTATTTA
1 TAATAATTTATTTATTTAAAACATTTATTTTACACCATATAATAATCAAATAATTTATTTATTTA
13990724 A-TTATTTTACTTTACACTATA
66 ATTTA-TTTACTTTACACTATA
**
13990745 TAATAATTTATTTATTTAAAACATTTATTTTACACCATATAATAATTTAATAATTTATTTATTTA
1 TAATAATTTATTTATTTAAAACATTTATTTTACACCATATAATAATCAAATAATTTATTTATTTA
13990810 ATTTATTTACTTTACACTATA
66 ATTTATTTACTTTACACTATA
13990831 TAATAAT
1 TAATAAT
13990838 GGAATAATTT
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
86 86 0.97
87 3 0.03
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (86 bp):
TAATAATTTATTTATTTAAAACATTTATTTTACACCATATAATAATCAAATAATTTATTTATTTA
ATTTATTTACTTTACACTATA
Found at i:13990785 original size:133 final size:133
Alignment explanation
Indices: 13990617--13990858 Score: 376
Period size: 133 Copynumber: 1.8 Consensus size: 133
13990607 TGAATAATTT
*** *
13990617 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAACTTAATAATTTATTTATTTAAAACA
1 ATTTATTTATTTAAAACATTTACTTTACACCATATAATAACTTAATAATTTATTTATTTAAAACA
*
13990682 TTTATTTTACACTATATAATAATCAAATAATTTATTTATTTAATTATTTTACTTTACACTATATA
66 TTTACTTTACACTATATAATAATCAAATAATTTATTTATTTAATTATTTTACTTTACACTATATA
13990747 ATA
131 ATA
* * ***
13990750 ATTTATTTATTTAAAACATTTATTTTACACCATATAATAATTTAATAATTTATTTATTTAATTTA
1 ATTTATTTATTTAAAACATTTACTTTACACCATATAATAACTTAATAATTTATTTATTTAAAACA
**
13990815 TTTACTTTACACTATATAATAATGGAATAATTTATTTATTTAAT
66 TTTACTTTACACTATATAATAATCAAATAATTTATTTATTTAAT
13990859 AATTGGATAA
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 97 1.00
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (133 bp):
ATTTATTTATTTAAAACATTTACTTTACACCATATAATAACTTAATAATTTATTTATTTAAAACA
TTTACTTTACACTATATAATAATCAAATAATTTATTTATTTAATTATTTTACTTTACACTATATA
ATA
Found at i:13990810 original size:16 final size:16
Alignment explanation
Indices: 13990789--13990887 Score: 55
Period size: 16 Copynumber: 6.2 Consensus size: 16
13990779 CCATATAATA
13990789 ATTTAATAATTTATTT
1 ATTTAATAATTTATTT
13990805 A-TT--TAATTTATTT
1 ATTTAATAATTTATTT
* * *
13990818 ACTTTACACT-ATATAATA
1 A-TTTA-A-TAATTTATTT
**
13990836 ATGGAATAATTTATTT
1 ATTTAATAATTTATTT
* *
13990852 ATTTAATAATTGGA-TA
1 ATTTAATAATT-TATTT
*
13990868 ATTGAATAATTTATTT
1 ATTTAATAATTTATTT
13990884 ATTT
1 ATTT
13990888 CACACTATTT
Statistics
Matches: 58, Mismatches: 16, Indels: 18
0.63 0.17 0.20
Matches are distributed among these distances:
13 11 0.19
15 6 0.10
16 31 0.53
17 3 0.05
18 6 0.10
19 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (16 bp):
ATTTAATAATTTATTT
Found at i:13990813 original size:13 final size:14
Alignment explanation
Indices: 13990795--13990823 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13990785 AATAATTTAA
13990795 TAATTTATTTA-TT
1 TAATTTATTTACTT
13990808 TAATTTATTTACTT
1 TAATTTATTTACTT
13990822 TA
1 TA
13990824 CACTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TAATTTATTTACTT
Found at i:13990858 original size:47 final size:46
Alignment explanation
Indices: 13990617--13990858 Score: 293
Period size: 47 Copynumber: 5.3 Consensus size: 46
13990607 TGAATAATTT
13990617 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAACTTAATA
1 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAA-TTAATA
*** * *
13990664 ATTTATTTATTTAAAACATTTATTTTACACTATATAATAATCAAATA
1 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAAT-TAATA
13990711 ATTTATTTATTTAA-TTATTTTACTTTACACTATATAATAATT--T-
1 ATTTATTTATTTAATTTA-TTTACTTTACACTATATAATAATTAATA
** * *
13990754 ATTTATTTA---AA-ACATTTATTTTACACCATATAATAATTTAATA
1 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAA-TTAATA
*
13990797 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAATGGAATA
1 ATTTATTTATTTAATTTATTTACTTTACACTATATAATAAT-TAATA
13990844 ATTTATTTATTTAAT
1 ATTTATTTATTTAAT
13990859 AATTGGATAA
Statistics
Matches: 166, Mismatches: 18, Indels: 22
0.81 0.09 0.11
Matches are distributed among these distances:
39 20 0.12
40 5 0.03
42 1 0.01
43 18 0.11
44 1 0.01
46 5 0.03
47 116 0.70
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (46 bp):
ATTTATTTATTTAATTTATTTACTTTACACTATATAATAATTAATA
Found at i:13994519 original size:24 final size:24
Alignment explanation
Indices: 13994492--13994540 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
13994482 TAAAGTGATC
*
13994492 AAGGGTCTCTTTGGATGGACATTT
1 AAGGGTCTCTTTGGATGAACATTT
13994516 AAGGGTCTCTTTGGATGAACATTT
1 AAGGGTCTCTTTGGATGAACATTT
13994540 A
1 A
13994541 TCTTTAGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (24 bp):
AAGGGTCTCTTTGGATGAACATTT
Found at i:13998358 original size:16 final size:17
Alignment explanation
Indices: 13998326--13998360 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13998316 AATTTAGTTG
13998326 AAGTATAAACGATGTAT
1 AAGTATAAACGATGTAT
*
13998343 AAGTATATAC-ATGTAT
1 AAGTATAAACGATGTAT
13998359 AA
1 AA
13998361 ATTATTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (17 bp):
AAGTATAAACGATGTAT
Found at i:13999073 original size:41 final size:41
Alignment explanation
Indices: 13999012--13999214 Score: 236
Period size: 41 Copynumber: 5.0 Consensus size: 41
13999002 TGAAAATAAG
* *
13999012 ATGTTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTG-A
1 ATGTATCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAA
13999052 AT-TACTTCAGACTTTATGTCTAGCAGGCTT-AGTGCCGGTGAA
1 ATGTA--TCAGACTTTATGTCTAGCAGGCTTGA-TGCCGGTGAA
* *
13999094 ATGTATCAGACTTTATGTCTAGCAGGCTTTG-TGCTGATGAA
1 ATGTATCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTGAA
*
13999135 ATGTATCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGGA
1 ATGTATCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTGAA
* * * * *
13999176 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTATCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
13999215 TTTTATACAA
Statistics
Matches: 143, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
39 1 0.01
40 5 0.03
41 130 0.91
42 5 0.03
43 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (41 bp):
ATGTATCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAA
Found at i:14000135 original size:17 final size:17
Alignment explanation
Indices: 14000113--14000146 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14000103 ATGGACACGG
14000113 GTCGGGGTGTTACATAT
1 GTCGGGGTGTTACATAT
14000130 GTCGGGGTGTTACATAT
1 GTCGGGGTGTTACATAT
14000147 ACAATTAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.35, T:0.35
Consensus pattern (17 bp):
GTCGGGGTGTTACATAT
Found at i:14009123 original size:15 final size:14
Alignment explanation
Indices: 14009102--14009137 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
14009092 ATAATCCTTA
*
14009102 ATAATTATCTTAAT
1 ATAATTATCCTAAT
14009116 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
14009131 ATAATTA
1 ATAATTA
14009138 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:14013070 original size:14 final size:14
Alignment explanation
Indices: 14013051--14013077 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14013041 CATGATAAAA
14013051 TAAAATACAAGTGG
1 TAAAATACAAGTGG
14013065 TAAAATACAAGTG
1 TAAAATACAAGTG
14013078 TGCAAGAGAA
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:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:14017915 original size:14 final size:14
Alignment explanation
Indices: 14017896--14017922 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14017886 CATGATAAAA
14017896 TAAAATACAAGTGG
1 TAAAATACAAGTGG
14017910 TAAAATACAAGTG
1 TAAAATACAAGTG
14017923 TGAAAGAGAA
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:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:14019840 original size:3 final size:3
Alignment explanation
Indices: 14019834--14019868 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
14019824 TATCGATGAT
*
14019834 GAG GAG GTG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
14019869 CGACAACGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.66, T:0.03
Consensus pattern (3 bp):
GAG
Found at i:14022833 original size:17 final size:17
Alignment explanation
Indices: 14022811--14022843 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14022801 TGTTTATATA
*
14022811 TTAATTTTTTATGTATT
1 TTAATTTCTTATGTATT
14022828 TTAATTTCTTATGTAT
1 TTAATTTCTTATGTAT
14022844 ATTTGGCAAA
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:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (17 bp):
TTAATTTCTTATGTATT
Found at i:14024343 original size:53 final size:53
Alignment explanation
Indices: 14024263--14024368 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
14024253 ACAAACACTC
14024263 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
1 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
14024316 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
1 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
14024369 ACCAATATCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (53 bp):
TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
Found at i:14024880 original size:43 final size:43
Alignment explanation
Indices: 14024843--14024937 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
14024833 CCGTGTGTCT
14024843 GCCCGTGTGTATATTCGAAATAGGGTCACACGGCCGTGTCGCA
1 GCCCGTGTGTATATTCGAAATAGGGTCACACGGCCGTGTCGCA
* ** * *
14024886 GCCCGTGTGTGTATTCGATGTTGGGTCACACGGCTGTGTCGCA
1 GCCCGTGTGTATATTCGAAATAGGGTCACACGGCCGTGTCGCA
*
14024929 GGCCGTGTG
1 GCCCGTGTG
14024938 CGAGACCGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.15, C:0.24, G:0.35, T:0.26
Consensus pattern (43 bp):
GCCCGTGTGTATATTCGAAATAGGGTCACACGGCCGTGTCGCA
Found at i:14026389 original size:43 final size:42
Alignment explanation
Indices: 14026336--14026455 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
14026326 TTCAAGGTAT
* *
14026336 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
1 GATTACGTGTAAGACCATGTCTGGGATA-TGGCATCGATATGA
* * *
14026379 GATTACGTGTAAGACCCTGTCTGGGATAGTGGCATTGATATGG
1 GATTACGTGTAAGACCATGTCTGGGATA-TGGCATCGATATGA
* * * * *
14026422 GATAACATGTAGGACTATATCTGGGATATGGCAT
1 GATTACGTGTAAGACCATGTCTGGGATATGGCAT
14026456 TGTATGTGAT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 6 0.09
43 59 0.91
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (42 bp):
GATTACGTGTAAGACCATGTCTGGGATATGGCATCGATATGA
Found at i:14030329 original size:21 final size:22
Alignment explanation
Indices: 14030300--14030346 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
14030290 CAGAAGGAGT
*
14030300 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
14030322 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
14030343 GAGT
1 GAGT
14030347 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:14033683 original size:21 final size:22
Alignment explanation
Indices: 14033657--14033699 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
14033647 AAGTTGAATT
14033657 TAAAGTTATGAAT-TAT-ATATA
1 TAAAGTT-TGAATGTATGATATA
14033678 TAAAGTTTGAATGTATGATATA
1 TAAAGTTTGAATGTATGATATA
14033700 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTTTGAATGTATGATATA
Found at i:14033698 original size:20 final size:21
Alignment explanation
Indices: 14033657--14033700 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
14033647 AAGTTGAATT
*
14033657 TAAAGTTATGAATTATATATA
1 TAAAGTTATGAATTATAGATA
14033678 TAAAGTT-TGAATGTAT-GATA
1 TAAAGTTATGAAT-TATAGATA
14033698 TAA
1 TAA
14033701 GTTCTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAAGTTATGAATTATAGATA
Found at i:14033806 original size:65 final size:66
Alignment explanation
Indices: 14033737--14033951 Score: 216
Period size: 64 Copynumber: 3.4 Consensus size: 66
14033727 GAATTTTATA
* * * * * * *
14033737 TATATATGCACATATGGTTCGAATATATATATT-TAAAGTTCTTGAGCTGTATTTAATGTATGAA
1 TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
14033801 T
66 T
* *
14033802 TATATATACATATGTGGTTC-AA-ATATAGGTTACAAAGTTTTTGAGCGGAATTTAATGTATGAA
1 TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
14033865 T
66 T
* * * *
14033866 TTTACATACATATGTGGTTCG-A-ATATAGGTTACAAA-TTCTTTGAGCTGAATTTTAATGT-TG
1 TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTC-TTGAGCGGAA-TTTAATGTATG
14033927 TAA-
64 -AAT
14033930 -AT-TATACATATGTGGTTCGAAT
1 TATATATACATATGTGGTTCGAAT
14033952 GTTTGTTTGC
Statistics
Matches: 128, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
62 16 0.12
63 11 0.09
64 74 0.58
65 27 0.21
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.41
Consensus pattern (66 bp):
TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
T
Found at i:14033857 original size:64 final size:64
Alignment explanation
Indices: 14033771--14033947 Score: 238
Period size: 64 Copynumber: 2.8 Consensus size: 64
14033761 ATATATATTT
* *
14033771 AAAGTTCTTGAGCTGTATTTAATGTATGAATTATATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTTTTGAGCTGAATTTAATGTATGAATTATATATACATATGTGGTTCAAATATAGGTTAC
* * * *
14033835 AAAGTTTTTGAGCGGAATTTAATGTATGAATTTTACATACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTTTTGAGCTGAATTTAATGTATGAATTATATATACATATGTGGTTCAAATATAGGTTAC
14033899 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTT-TTTGAGCTGAA-TTTAATGTATG-AATTATATATACATATGTGGTTC
14033948 GAATGTTTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
62 15 0.15
63 3 0.03
64 73 0.72
65 10 0.10
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (64 bp):
AAAGTTTTTGAGCTGAATTTAATGTATGAATTATATATACATATGTGGTTCAAATATAGGTTAC
Found at i:14036940 original size:25 final size:25
Alignment explanation
Indices: 14036906--14036962 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
14036896 CACATAAACT
*
14036906 GGAAGCTCACATGAGCCATGTAACG
1 GGAAGCTCACATGAACCATGTAACG
14036931 GGAAGCTCACATGAACCATGTAACG
1 GGAAGCTCACATGAACCATGTAACG
*
14036956 AGAAGCT
1 GGAAGCT
14036963 TATTTGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (25 bp):
GGAAGCTCACATGAACCATGTAACG
Found at i:14039512 original size:15 final size:15
Alignment explanation
Indices: 14039492--14039525 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
14039482 TATCATTTTC
14039492 ATGTTAATTATTAAT
1 ATGTTAATTATTAAT
*
14039507 ATGTTAATTATTATT
1 ATGTTAATTATTAAT
14039522 ATGT
1 ATGT
14039526 AGTGGGTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATGTTAATTATTAAT
Found at i:14042345 original size:44 final size:44
Alignment explanation
Indices: 14042279--14042440 Score: 216
Period size: 44 Copynumber: 3.5 Consensus size: 44
14042269 TGAGTACTTT
*
14042279 TGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATC
14042323 TGATCAGTGACAAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGACAA--G-T--G-G-TAGCTTTAGCTACACTTATC
* **
14042374 TTATCAGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATC
*
14042418 TGATCAGGGACAAGTGACAAGTG
1 TGATCAGTGACAAGTGACAAGTG
14042441 ATAAATGTGA
Statistics
Matches: 103, Mismatches: 8, Indels: 14
0.82 0.06 0.11
Matches are distributed among these distances:
44 58 0.56
45 1 0.01
46 2 0.02
47 1 0.01
48 1 0.01
49 2 0.02
50 1 0.01
51 37 0.36
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (44 bp):
TGATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATC
Found at i:14042360 original size:51 final size:51
Alignment explanation
Indices: 14042284--14042444 Score: 246
Period size: 51 Copynumber: 3.3 Consensus size: 51
14042274 ACTTTTGATC
14042284 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
14042335 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCT--T-A-T--C-
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
14042379 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
14042430 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
14042445 ATGTGATCCG
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
44 38 0.39
45 1 0.01
46 1 0.01
47 2 0.02
48 1 0.01
49 1 0.01
50 1 0.01
51 53 0.54
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:14052718 original size:3 final size:3
Alignment explanation
Indices: 14052710--14052752 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
14052700 TCAGTTAAGC
* *
14052710 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAG TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14052753 TGAATTGGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14058450 original size:34 final size:34
Alignment explanation
Indices: 14058411--14058478 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
14058401 TGGCCGGATC
14058411 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
1 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
14058445 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
1 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
14058479 TTTAAATAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (34 bp):
ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
Found at i:14068524 original size:30 final size:32
Alignment explanation
Indices: 14068466--14068558 Score: 86
Period size: 30 Copynumber: 3.0 Consensus size: 32
14068456 TGTGATTTTA
* * * *
14068466 AAATTTT-ATTTTGGTGCAATTGTATAAATAT
1 AAATTTTAATTTTGATTCAACTATATAAATAT
*
14068497 AAA-TTTAATTTTGATTTAA-TATATAAATA-
1 AAATTTTAATTTTGATTCAACTATATAAATAT
* * *
14068526 AAATTTTGATTTTGGTTCAACTATACAAATAT
1 AAATTTTAATTTTGATTCAACTATATAAATAT
14068558 A
1 A
14068559 CCTACAAAGC
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
29 3 0.06
30 25 0.50
31 21 0.42
32 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (32 bp):
AAATTTTAATTTTGATTCAACTATATAAATAT
Found at i:14069731 original size:54 final size:54
Alignment explanation
Indices: 14069649--14069811 Score: 326
Period size: 54 Copynumber: 3.0 Consensus size: 54
14069639 CAAACTAGTG
14069649 CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
1 CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
14069703 CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
1 CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
14069757 CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
1 CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
14069811 C
1 C
14069812 TTTTCATATA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.18
Consensus pattern (54 bp):
CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
Found at i:14072393 original size:12 final size:12
Alignment explanation
Indices: 14072376--14072418 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
14072366 TTTTAATTAT
14072376 TTTAATTATTTC
1 TTTAATTATTTC
14072388 TTTAATT-TTAAT-
1 TTTAATTATT--TC
14072400 TTTAATTATTTC
1 TTTAATTATTTC
14072412 TTTAATT
1 TTTAATT
14072419 TTAATTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.11
12 21 0.78
13 3 0.11
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAATTATTTC
Found at i:14072431 original size:33 final size:33
Alignment explanation
Indices: 14072353--14072435 Score: 102
Period size: 33 Copynumber: 2.5 Consensus size: 33
14072343 ATTGCGATGA
14072353 CTAATTAATTTAATTTTAATTATTTTAATTATTT
1 CTAATTAATTTAATTTTAATTATTTT-ATTATTT
14072387 CT--TTAATTTTAATTTTAATTATTTCT-TTAATTT
1 CTAATTAA-TTTAATTTTAATTATTT-TATT-ATTT
14072420 -TAATTAATTTAATTTT
1 CTAATTAATTTAATTTT
14072436 CTTGTTCGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
32 7 0.16
33 30 0.68
34 7 0.16
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (33 bp):
CTAATTAATTTAATTTTAATTATTTTATTATTT
Found at i:14072434 original size:24 final size:24
Alignment explanation
Indices: 14072361--14072434 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 24
14072351 GACTAATTAA
*
14072361 TTTAATTTTAATTATTTTAATTATTTC
1 TTTAATTTTAATTAATTT-A--ATTTC
14072388 TTTAATTTTAATTTTAA-TT-ATTTC
1 TTTAATTTTAA--TTAATTTAATTTC
14072412 TTTAATTTTAATTAATTTAATTT
1 TTTAATTTTAATTAATTTAATTT
14072435 TCTTGTTCGA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
22 4 0.10
23 2 0.05
24 20 0.48
27 11 0.26
28 2 0.05
29 3 0.07
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTAATTTTAATTAATTTAATTTC
Found at i:14078900 original size:48 final size:48
Alignment explanation
Indices: 14078829--14078967 Score: 206
Period size: 48 Copynumber: 2.9 Consensus size: 48
14078819 CACTGGAGGT
* * *
14078829 GGCTTCACAACGGGAGGACTTGGGTATACAGGAGGCGTTGGTGTTGGC
1 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGGTGCTGGC
**
14078877 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGGAACTGGC
1 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGGTGCTGGC
* * *
14078925 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGTG
1 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGGTG
14078968 GTGGTGAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.20, C:0.16, G:0.42, T:0.22
Consensus pattern (48 bp):
GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGGTGCTGGC
Found at i:14088840 original size:24 final size:24
Alignment explanation
Indices: 14088813--14088860 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
14088803 AAGATTTAGT
14088813 ATTTATTAGTATAATATATTTGAC
1 ATTTATTAGTATAATATATTTGAC
* *
14088837 ATTTATTAGTATAGTTTATTTGAC
1 ATTTATTAGTATAATATATTTGAC
14088861 TTACTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTGAC
Found at i:14090807 original size:24 final size:24
Alignment explanation
Indices: 14090780--14090827 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
14090770 AAGATTTAGT
14090780 ATTTATTAGTATAATATATTTGAC
1 ATTTATTAGTATAATATATTTGAC
* *
14090804 ATTTATTAGTATAGTTTATTTGAC
1 ATTTATTAGTATAATATATTTGAC
14090828 TTACTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTGAC
Found at i:14093677 original size:22 final size:21
Alignment explanation
Indices: 14093652--14093695 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
14093642 AAGCATATGA
*
14093652 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
14093674 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
14093695 A
1 A
14093696 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:14094965 original size:12 final size:12
Alignment explanation
Indices: 14094948--14094988 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
14094938 CTCGTACTCA
14094948 TCTTCTTCGTCT
1 TCTTCTTCGTCT
14094960 TCTTCTTCGTCT
1 TCTTCTTCGTCT
* *
14094972 TCTTCTACATCT
1 TCTTCTTCGTCT
14094984 TCTTC
1 TCTTC
14094989 CTTTGCATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.05, C:0.34, G:0.05, T:0.56
Consensus pattern (12 bp):
TCTTCTTCGTCT
Found at i:14099187 original size:11 final size:11
Alignment explanation
Indices: 14099173--14099240 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
14099163 TTTTTTTAAA
14099173 TTTTAAAATAT
1 TTTTAAAATAT
14099184 TTTTAAAATACT
1 TTTTAAAATA-T
** *
14099196 TTTTTTATTAT
1 TTTTAAAATAT
14099207 TTTT--AA-A-
1 TTTTAAAATAT
14099214 TTTTAAAATAT
1 TTTTAAAATAT
14099225 TTTTAAAATACT
1 TTTTAAAATA-T
14099237 TTTT
1 TTTT
14099241 TTAATTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
7 4 0.09
8 1 0.02
9 3 0.06
10 1 0.02
11 25 0.53
12 13 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:14099199 original size:41 final size:40
Alignment explanation
Indices: 14099154--14099249 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 40
14099144 AATATATTTA
14099154 TTTTTTAAATTTTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTT-AATTTTTTTAAATTTTAAAATATTTTTAAAATAC
*
14099195 TTTTTTTATTATTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATT-TTTTTAAATTTTAAAATATTTTTAAAATAC
14099236 TTTTTTTAATTTTT
1 -TTTTTTAATTTTT
14099250 AAAATAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
40 3 0.06
41 39 0.76
42 9 0.18
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTTAATTTTTTTAAATTTTAAAATATTTTTAAAATAC
Found at i:14099240 original size:30 final size:31
Alignment explanation
Indices: 14099184--14099255 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 31
14099174 TTTAAAATAT
** *
14099184 TTTTAAAATACTTTTTTTATTA-TTTTTAAA
1 TTTTAAAATACTTTTTAAAATATTTTTTAAA
*
14099214 TTTTAAAATA-TTTTTAAAATACTTTTTTTAAT
1 TTTTAAAATACTTTTTAAAATA--TTTTTTAAA
14099246 TTTTAAAATA
1 TTTTAAAATA
14099256 AATTTTTGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 8 0.23
30 10 0.29
32 17 0.49
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTAAAATACTTTTTAAAATATTTTTTAAA
Found at i:14099261 original size:21 final size:21
Alignment explanation
Indices: 14099223--14099262 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14099213 ATTTTAAAAT
**
14099223 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
14099244 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
14099263 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:14099269 original size:22 final size:21
Alignment explanation
Indices: 14099222--14099280 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
14099212 AATTTTAAAA
* *
14099222 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
14099242 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
14099265 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
14099281 AGGCCGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:14099844 original size:15 final size:15
Alignment explanation
Indices: 14099800--14099845 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
14099790 ACAATTAGGT
14099800 TAAAATATTTTAAAAA
1 TAAAAT-TTTTAAAAA
* *
14099816 TAAAA--ATTATAAA
1 TAAAATTTTTAAAAA
14099829 TAAAATTTTTAAAAA
1 TAAAATTTTTAAAAA
14099844 TA
1 TA
14099846 TGTATATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
13 11 0.46
15 8 0.33
16 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAATTTTTAAAAA
Found at i:14106917 original size:18 final size:17
Alignment explanation
Indices: 14106875--14106920 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
14106865 TGAAATAATA
14106875 AATATTT-AA-TTATAT
1 AATATTTAAATTTATAT
14106890 AATAGTTTTAAATTTATAT
1 AATA--TTTAAATTTATAT
14106909 AGATATTTAAAT
1 A-ATATTTAAAT
14106921 ATAAAAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.15
17 3 0.12
18 9 0.35
19 7 0.27
20 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
AATATTTAAATTTATAT
Found at i:14108542 original size:42 final size:42
Alignment explanation
Indices: 14108467--14108550 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
14108457 CTTACAATTC
* * ** *
14108467 ATGTTGTGAGTTTGAATTATAGGAATTTTCTACTTGTGATGT
1 ATGTCGTGAATTTGAATTATAGGAATTGCCTACTTATGATGT
* *
14108509 ATGTCGTGAATTTGAGTTGTAGGAATTGCCTACTTATGATGT
1 ATGTCGTGAATTTGAATTATAGGAATTGCCTACTTATGATGT
14108551 GCACATGTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.24, C:0.07, G:0.25, T:0.44
Consensus pattern (42 bp):
ATGTCGTGAATTTGAATTATAGGAATTGCCTACTTATGATGT
Found at i:14110309 original size:25 final size:25
Alignment explanation
Indices: 14110281--14110369 Score: 72
Period size: 25 Copynumber: 3.6 Consensus size: 25
14110271 CGAGCATGTA
*
14110281 ATCGGGAAGCTCTTCTGAGCCATAT
1 ATCGGGAAGCTCATCTGAGCCATAT
* * *
14110306 ATCGAGAAGCTCATGTGAGCCATGT
1 ATCGGGAAGCTCATCTGAGCCATAT
* * ****
14110331 AACAGGAAGCTCCGGAGAGCCAT-T
1 ATCGGGAAGCTCATCTGAGCCATAT
14110355 AGTCGGGAAGCTCAT
1 A-TCGGGAAGCTCAT
14110370 ATAAGAGCCT
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
24 2 0.04
25 47 0.96
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (25 bp):
ATCGGGAAGCTCATCTGAGCCATAT
Found at i:14110440 original size:25 final size:25
Alignment explanation
Indices: 14110405--14110468 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
14110395 ATGCGAGCCA
* * *
14110405 ATATCGAGAAGCTTCGGAGAGCTAGT
1 ATATCGGGAAGCTCCGAAGAGCTA-T
14110431 -TATCGGGAAGCTCCGAAGAGCTAT
1 ATATCGGGAAGCTCCGAAGAGCTAT
*
14110455 ATATCGGGATGCTC
1 ATATCGGGAAGCTC
14110469 ATGAAAGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (25 bp):
ATATCGGGAAGCTCCGAAGAGCTAT
Found at i:14112844 original size:15 final size:16
Alignment explanation
Indices: 14112812--14112844 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14112802 AAAGTTTTTA
*
14112812 TAAAATAACATAATAT
1 TAAAATAACATAAAAT
14112828 TAAAATAA-ATAAAAT
1 TAAAATAACATAAAAT
14112843 TA
1 TA
14112845 TTCTCCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATAACATAAAAT
Found at i:14129237 original size:15 final size:15
Alignment explanation
Indices: 14129217--14129272 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
14129207 ATATAATTAT
14129217 TTTTATATTAAAATA
1 TTTTATATTAAAATA
*
14129232 TTTTATTTTAAATTATA
1 TTTTATATTAAA--ATA
*
14129249 TTTTGA-AATAAAATA
1 TTTT-ATATTAAAATA
14129264 TTTTATATT
1 TTTTATATT
14129273 GAGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 1 0.03
15 20 0.61
17 11 0.33
18 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TTTTATATTAAAATA
Found at i:14129642 original size:42 final size:42
Alignment explanation
Indices: 14129580--14129710 Score: 176
Period size: 41 Copynumber: 3.2 Consensus size: 42
14129570 ACGCTGTAAT
* * *
14129580 AGGTAAAGTAGTAGCAGCGTTTATGAGAAAAACGCCGCAAAA
1 AGGTCAAGCAGTAGCGGCGTTTATGAGAAAAACGCCGCAAAA
* *
14129622 AGGTCAAGCAGTAGTGGCGTTTATGAGAAAAACGCCAC-AAA
1 AGGTCAAGCAGTAGCGGCGTTTATGAGAAAAACGCCGCAAAA
* * *
14129663 AGGTTAAGCAGTAGCGGCGTTTATGAGAAAAACACTGCAAAA
1 AGGTCAAGCAGTAGCGGCGTTTATGAGAAAAACGCCGCAAAA
14129705 A-GTCAA
1 AGGTCAA
14129711 AGAAAAAATC
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
41 40 0.52
42 37 0.48
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (42 bp):
AGGTCAAGCAGTAGCGGCGTTTATGAGAAAAACGCCGCAAAA
Found at i:14129704 original size:41 final size:41
Alignment explanation
Indices: 14129565--14129704 Score: 172
Period size: 41 Copynumber: 3.4 Consensus size: 41
14129555 GGCGCTAACG
* * * * *
14129565 GAAAAACGCTGTAATAGGTAAAGTAGTAGCAGCGTTTATGA
1 GAAAAACGCCGCAAAAGGTAAAGCAGTAGCGGCGTTTATGA
* *
14129606 GAAAAACGCCGCAAAAAGGTCAAGCAGTAGTGGCGTTTATGA
1 GAAAAACGCCGC-AAAAGGTAAAGCAGTAGCGGCGTTTATGA
* *
14129648 GAAAAACGCCACAAAAGGTTAAGCAGTAGCGGCGTTTATGA
1 GAAAAACGCCGCAAAAGGTAAAGCAGTAGCGGCGTTTATGA
* *
14129689 GAAAAACACTGCAAAA
1 GAAAAACGCCGCAAAA
14129705 AGTCAAAGAA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 50 0.59
42 35 0.41
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (41 bp):
GAAAAACGCCGCAAAAGGTAAAGCAGTAGCGGCGTTTATGA
Found at i:14130378 original size:18 final size:18
Alignment explanation
Indices: 14130352--14130386 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14130342 TTACATAAAA
*
14130352 AAATTATATAAAAATTTC
1 AAATGATATAAAAATTTC
*
14130370 AAATGATATAATAATTT
1 AAATGATATAAAAATTT
14130387 AATATAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
AAATGATATAAAAATTTC
Found at i:14132101 original size:18 final size:18
Alignment explanation
Indices: 14132075--14132109 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14132065 CTATTTGAAC
14132075 AGATATGCAAATTGCGCT
1 AGATATGCAAATTGCGCT
*
14132093 AGATCTGCAAATTGCGC
1 AGATATGCAAATTGCGC
14132110 GAGGGTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (18 bp):
AGATATGCAAATTGCGCT
Found at i:14133689 original size:26 final size:26
Alignment explanation
Indices: 14133655--14133793 Score: 89
Period size: 26 Copynumber: 5.4 Consensus size: 26
14133645 TATATTTTTA
14133655 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATATTTAATAATAATTATT
*
14133681 TTAAATTATATTT--T-AT-AGTATT
1 TTAAATTATATTTAATAATAATTATT
* * *
14133703 ATATATTATGATTT--TAGTAAATTCA-T
1 TTAAATTAT-ATTTAATAAT-AATT-ATT
* * *
14133729 ATAAA-AATATTTAATGTTAAGAATT-TT
1 TTAAATTATATTTAA---TAATAATTATT
14133756 ATTAAATTATATTTAATAATAATTATT
1 -TTAAATTATATTTAATAATAATTATT
14133783 TTAAATTATAT
1 TTAAATTATAT
14133794 CTTATAGTAT
Statistics
Matches: 87, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
22 12 0.14
23 7 0.08
24 6 0.07
25 2 0.02
26 38 0.44
27 4 0.05
28 8 0.09
29 10 0.11
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (26 bp):
TTAAATTATATTTAATAATAATTATT
Found at i:14133770 original size:102 final size:100
Alignment explanation
Indices: 14133640--14133887 Score: 363
Period size: 102 Copynumber: 2.5 Consensus size: 100
14133630 ATAAGTGGGG
* * *
14133640 AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTAT
1 AATTATAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATCTTATAGTATTAT
*
14133705 ATATTATGATTTTAGTAAATTCATATAAAAATATTT
66 ATATTATGATTTTAGTAAATTCATAT-AAAATATTA
14133741 AATGT-TAAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATCTTATAGTATT
1 AAT-TAT-AGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATCTTATAGTATT
* ***
14133805 ATATATTATGATTTTAGTAAATTTATATATTTTATTA
64 ATATATTATGATTTTAGTAAATTCATATAAAATATTA
* * *
14133842 AATTATATATTTTTATTAAATAATATTTAATAATAATTATTTTAAA
1 AATTATAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAA
14133888 ATATGATTAA
Statistics
Matches: 133, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
100 38 0.29
101 13 0.10
102 82 0.62
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (100 bp):
AATTATAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATCTTATAGTATTAT
ATATTATGATTTTAGTAAATTCATATAAAATATTA
Found at i:14133838 original size:18 final size:17
Alignment explanation
Indices: 14133815--14133854 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
14133805 ATATATTATG
14133815 ATTTTAGTAAATTTATAT
1 ATTTTAGTAAA-TTATAT
*
14133833 ATTTTATTAAATTATAT
1 ATTTTAGTAAATTATAT
14133850 ATTTT
1 ATTTT
14133855 TATTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
ATTTTAGTAAATTATAT
Found at i:14133855 original size:18 final size:19
Alignment explanation
Indices: 14133815--14133867 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 19
14133805 ATATATTATG
*
14133815 ATTTTAGTAAATT-TATAT
1 ATTTTATTAAATTATATAT
14133833 ATTTTATTAAATTATATAT
1 ATTTTATTAAATTATATAT
*
14133852 -TTTTATTAAATAATAT
1 ATTTTATTAAATTATAT
14133868 TTAATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 27 0.84
19 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTTTATTAAATTATATAT
Found at i:14134123 original size:16 final size:16
Alignment explanation
Indices: 14134102--14134153 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
14134092 AAAATTACCT
*
14134102 ATTACAACTCTATTTC
1 ATTACAACTCTATTCC
14134118 ATTACAGA-TCTATTCC
1 ATTACA-ACTCTATTCC
** *
14134134 ATTACGTCTCTATTGC
1 ATTACAACTCTATTCC
14134150 ATTA
1 ATTA
14134154 GAGTGAACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 29 0.97
17 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:14137285 original size:17 final size:18
Alignment explanation
Indices: 14137254--14137287 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14137244 AATTTAACTT
14137254 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
14137272 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
14137288 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:14137533 original size:21 final size:20
Alignment explanation
Indices: 14137499--14137547 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
14137489 GACCCTGAAG
* * *
14137499 TTTAGGGTTTAGGTTTGAGA
1 TTTAGGATTAAGGTTTAAGA
14137519 TTTACGGATTAAGGTTTAAGA
1 TTTA-GGATTAAGGTTTAAGA
14137540 TTTAGGAT
1 TTTAGGAT
14137548 ATAGGATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.43
Consensus pattern (20 bp):
TTTAGGATTAAGGTTTAAGA
Found at i:14137601 original size:28 final size:28
Alignment explanation
Indices: 14137568--14137627 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
14137558 TAGATTTGGA
* *
14137568 GTTTAGGGTTC-ATGTTTATGGTTCAAGG
1 GTTTAGGGTTCGA-GTTCAAGGTTCAAGG
14137596 GTTTAGGGTTCGAGTTCAAGGTTCAAGG
1 GTTTAGGGTTCGAGTTCAAGGTTCAAGG
14137624 GTTT
1 GTTT
14137628 TGGTTTATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.18, C:0.08, G:0.33, T:0.40
Consensus pattern (28 bp):
GTTTAGGGTTCGAGTTCAAGGTTCAAGG
Found at i:14137655 original size:21 final size:21
Alignment explanation
Indices: 14137615--14137660 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14137605 TCGAGTTCAA
* *
14137615 GGTTCAAGGGTTTTGGTTTATG
1 GGTTCAAGGATTTAGGTTTA-G
14137637 GGTTC-AGGATTTAGGTTTAG
1 GGTTCAAGGATTTAGGTTTAG
14137657 GGTT
1 GGTT
14137661 TTATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 12 0.55
22 5 0.23
ACGTcount: A:0.15, C:0.04, G:0.37, T:0.43
Consensus pattern (21 bp):
GGTTCAAGGATTTAGGTTTAG
Found at i:14139245 original size:31 final size:32
Alignment explanation
Indices: 14139207--14139318 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 32
14139197 AATTAAAATA
*
14139207 AAAATTAAAAAATGTATTTTAAAA-ATATTTT
1 AAAATTAAAAAAAGTATTTTAAAATATATTTT
* *
14139238 AAAATTAAAAAAAGTATTTTAAAATTTTTTTT
1 AAAATTAAAAAAAGTATTTTAAAATATATTTT
** * * *
14139270 AAAATTTAAAATTAAAAAAATTAAAAAAAGTATTTT
1 AAAA-TTAAAA--AAAGTATTTTAAAATA-TATTTT
14139306 AAAATTAAAAAAA
1 AAAATTAAAAAAA
14139319 ATAAAAATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
31 23 0.35
32 9 0.14
33 9 0.14
35 16 0.24
36 9 0.14
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (32 bp):
AAAATTAAAAAAAGTATTTTAAAATATATTTT
Found at i:14139325 original size:76 final size:76
Alignment explanation
Indices: 14139182--14139325 Score: 184
Period size: 76 Copynumber: 1.9 Consensus size: 76
14139172 ATAAATACCA
* *** *
14139182 AAAATTTATTTTAAAAATTAAAATAAAAATTAAAAAATGTATTTTAAAAATATTTTAAAATTAAA
1 AAAATTTATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAATATAAAAAAAATAAA
14139247 AAAAGTATTTT
66 AAAAGTATTTT
* *
14139258 AAAATTTTTTTTAAAATTTAAAATTAAAAAAATTAAAAAAAGTATTTT-AAAAT-TAAAAAAAAT
1 AAAATTTATTTTAAAAATTAAAA-T--AAAAATTAAAAAAAGTATTTTAAAAATATAAAAAAAAT
14139321 AAAAA
63 AAAAA
14139326 TATTTATTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
76 21 0.36
77 12 0.21
78 5 0.09
79 20 0.34
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (76 bp):
AAAATTTATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAATATAAAAAAAATAAA
AAAAGTATTTT
Found at i:14140545 original size:17 final size:16
Alignment explanation
Indices: 14140505--14140548 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
14140495 TAATAGAATA
14140505 AATTTAGTGTTAATTGT
1 AATTTAGT-TTAATTGT
* *
14140522 AAATTAGTTTAATTTT
1 AATTTAGTTTAATTGT
14140538 ACATTTAGTTT
1 A-ATTTAGTTT
14140549 GTCAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (16 bp):
AATTTAGTTTAATTGT
Found at i:14140996 original size:31 final size:29
Alignment explanation
Indices: 14140929--14141002 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
14140919 ATATATAAAT
* *
14140929 TTTAATTTGGTACAATTATAAACATGAAA
1 TTTAATTTGGTTCAAATATAAACATGAAA
* *
14140958 TTCTAATTATGGTTCAAATATATACTTGAAA
1 TT-TAATT-TGGTTCAAATATAAACATGAAA
14140989 CTTTAATTTTGGTT
1 -TTTAA-TTTGGTT
14141003 TAATCATACA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 2 0.05
30 5 0.14
31 26 0.70
32 4 0.11
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (29 bp):
TTTAATTTGGTTCAAATATAAACATGAAA
Found at i:14141499 original size:26 final size:26
Alignment explanation
Indices: 14141441--14141493 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
14141431 ACAGTAAATA
*
14141441 TATTATTATAAGGATATTTTTTATTT
1 TATTATTATAAGGATATTTATTATTT
* *
14141467 TATTATTATAAGGGTGTTTATTATTT
1 TATTATTATAAGGATATTTATTATTT
14141493 T
1 T
14141494 TATATTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.60
Consensus pattern (26 bp):
TATTATTATAAGGATATTTATTATTT
Found at i:14146849 original size:13 final size:13
Alignment explanation
Indices: 14146831--14146894 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
14146821 AGTTTGGCAA
14146831 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
14146844 TGCTTTAGAAAAG
1 TGCTTTTGAAAAG
* *
14146857 TGCTGTGGACAAA-
1 TGCTTTTGA-AAAG
* *
14146870 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
14146883 TGCTTTTGAAAA
1 TGCTTTTGAAAA
14146895 ATTTGAGTGT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 2 0.05
13 35 0.88
14 3 0.08
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:14151063 original size:339 final size:339
Alignment explanation
Indices: 14150443--14151120 Score: 1356
Period size: 339 Copynumber: 2.0 Consensus size: 339
14150433 CCATGGATTA
14150443 ATATGCATAAATTGTAAAGTTTTATGGTAGAAAATGAAAGATTGTTGATAGATAAACAACTTTTG
1 ATATGCATAAATTGTAAAGTTTTATGGTAGAAAATGAAAGATTGTTGATAGATAAACAACTTTTG
14150508 TAAAGTGAATTTTGAGGAAATTATGATTTAGGGACAAAATTGAAAAGATGTAACATTCATGGAAA
66 TAAAGTGAATTTTGAGGAAATTATGATTTAGGGACAAAATTGAAAAGATGTAACATTCATGGAAA
14150573 AATTCTGAATTTTATGAAATGCATGGGTTACTATTGTTACATGTAAAAATTGGCTAGGCTTGGAA
131 AATTCTGAATTTTATGAAATGCATGGGTTACTATTGTTACATGTAAAAATTGGCTAGGCTTGGAA
14150638 TAAGGATTAAATTGCATGGATTTTATTTTTCGAGCTTAGGGATGAAATTGTAATTAATCAAAAGT
196 TAAGGATTAAATTGCATGGATTTTATTTTTCGAGCTTAGGGATGAAATTGTAATTAATCAAAAGT
14150703 ATAGGGGTGAAATGGTAATTTTTCCTAAGATGTGAATTGGATTGAATTGAATATGAATTGTATTA
261 ATAGGGGTGAAATGGTAATTTTTCCTAAGATGTGAATTGGATTGAATTGAATATGAATTGTATTA
14150768 AATTGATCTAAATT
326 AATTGATCTAAATT
14150782 ATATGCATAAATTGTAAAGTTTTATGGTAGAAAATGAAAGATTGTTGATAGATAAACAACTTTTG
1 ATATGCATAAATTGTAAAGTTTTATGGTAGAAAATGAAAGATTGTTGATAGATAAACAACTTTTG
14150847 TAAAGTGAATTTTGAGGAAATTATGATTTAGGGACAAAATTGAAAAGATGTAACATTCATGGAAA
66 TAAAGTGAATTTTGAGGAAATTATGATTTAGGGACAAAATTGAAAAGATGTAACATTCATGGAAA
14150912 AATTCTGAATTTTATGAAATGCATGGGTTACTATTGTTACATGTAAAAATTGGCTAGGCTTGGAA
131 AATTCTGAATTTTATGAAATGCATGGGTTACTATTGTTACATGTAAAAATTGGCTAGGCTTGGAA
14150977 TAAGGATTAAATTGCATGGATTTTATTTTTCGAGCTTAGGGATGAAATTGTAATTAATCAAAAGT
196 TAAGGATTAAATTGCATGGATTTTATTTTTCGAGCTTAGGGATGAAATTGTAATTAATCAAAAGT
14151042 ATAGGGGTGAAATGGTAATTTTTCCTAAGATGTGAATTGGATTGAATTGAATATGAATTGTATTA
261 ATAGGGGTGAAATGGTAATTTTTCCTAAGATGTGAATTGGATTGAATTGAATATGAATTGTATTA
14151107 AATTGATCTAAATT
326 AATTGATCTAAATT
14151121 TACTCGTATA
Statistics
Matches: 339, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
339 339 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.36
Consensus pattern (339 bp):
ATATGCATAAATTGTAAAGTTTTATGGTAGAAAATGAAAGATTGTTGATAGATAAACAACTTTTG
TAAAGTGAATTTTGAGGAAATTATGATTTAGGGACAAAATTGAAAAGATGTAACATTCATGGAAA
AATTCTGAATTTTATGAAATGCATGGGTTACTATTGTTACATGTAAAAATTGGCTAGGCTTGGAA
TAAGGATTAAATTGCATGGATTTTATTTTTCGAGCTTAGGGATGAAATTGTAATTAATCAAAAGT
ATAGGGGTGAAATGGTAATTTTTCCTAAGATGTGAATTGGATTGAATTGAATATGAATTGTATTA
AATTGATCTAAATT
Found at i:14152969 original size:41 final size:41
Alignment explanation
Indices: 14152773--14152959 Score: 315
Period size: 41 Copynumber: 4.6 Consensus size: 41
14152763 TGATTCAGTA
14152773 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14152814 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14152855 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* * *
14152896 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATACT-T
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAAT-GTAT
14152937 CACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
14152960 GTAACGTCTG
Statistics
Matches: 141, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
40 2 0.01
41 138 0.98
42 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:14156197 original size:30 final size:30
Alignment explanation
Indices: 14156163--14156220 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
14156153 ATTTTCGGAC
* *
14156163 CTAGGGGTAAAATGGTCATTTTGCAAAAGT
1 CTAGGGGCAAAATGGCCATTTTGCAAAAGT
*
14156193 CTAGGGGCAAAATGGCCATTTTGTAAAA
1 CTAGGGGCAAAATGGCCATTTTGCAAAA
14156221 TTTTAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (30 bp):
CTAGGGGCAAAATGGCCATTTTGCAAAAGT
Done.