Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 281 of 322
Found at i:93261722 original size:157 final size:158
Alignment explanation
Indices: 93261379--93261758 Score: 592
Period size: 157 Copynumber: 2.4 Consensus size: 158
93261369 TTGAATGATG
* * * *
93261379 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAAT-TCCGGGCTAAGACCCGAAGGCAT
*
93261441 TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTA
64 TTGTCCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTA
*
93261506 AGCCCGAAGGCATTTGTGTGAGTTACTAAA
129 AGCCCGAAGGCATTTGTGCGAGTTACTAAA
93261536 TCCGGGTTAAGTCCCGAAGGCATTTGTGCG-AGATACTAATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATTCCGGGCTAAGACCCGAAGGCATT
93261599 TGTCCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAA
65 TGTCCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAA
93261664 GCCCGAAGGCATTTGTGCGAGTTACTAAA
130 GCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
93261693 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAAT-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAAGTACTA-ATTCCGGGCTAAGACCCGAAGGCATT
93261757 TG
65 TG
93261759 AACGAGGAGC
Statistics
Matches: 207, Mismatches: 9, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
157 166 0.80
158 31 0.15
159 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (158 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATTCCGGGCTAAGACCCGAAGGCATTT
GTCCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG
CCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:93261781 original size:79 final size:79
Alignment explanation
Indices: 93261379--93261758 Score: 483
Period size: 79 Copynumber: 4.8 Consensus size: 79
93261369 TTGAATGATG
* * * *
93261379 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TCCGGGCTAAG-CCCGAAGGCA
*
93261440 TTTGTGCGAGAT-ACTAAT
62 TTTGTGCGAG-TGACTAAA
*
93261458 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
* *
93261522 TGTGAGTTACTAAA
66 TGCGAGTGACTAAA
93261536 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
* *
93261601 TCCGAGAT-ACTAAT
66 TGCGAG-TGACTAAA
*
93261615 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
*
93261679 TGCGAGTTACTAAA
66 TGCGAGTGACTAAA
* *
93261693 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAAT-CGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
93261756 TTG
63 TTG
93261759 AACGAGGAGC
Statistics
Matches: 274, Mismatches: 15, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
77 2 0.01
78 116 0.42
79 127 0.46
80 28 0.10
81 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
TGCGAGTGACTAAA
Found at i:93262438 original size:100 final size:100
Alignment explanation
Indices: 93262265--93262464 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
93262255 TTTGTTGTGG
93262265 GTCGTGGACCCTTTGGACTTGTATAAATTTTGGATAGCCATGCGAAAATGGCTTATATGTATTTG
1 GTCGTGGACCCTTTGGACTTGTATAAATTTTGGATAGCCATGCGAAAATGGCTTATATGTATTTG
93262330 AGTATAATGTTATAATCATTTGGTGTGGATATGCT
66 AGTATAATGTTATAATCATTTGGTGTGGATATGCT
*
93262365 GTCGTGGACCCTTTGGACTTGTATAAATTTTGGATAGCCATGCGAAAATGGCTTATATGTGTTTG
1 GTCGTGGACCCTTTGGACTTGTATAAATTTTGGATAGCCATGCGAAAATGGCTTATATGTATTTG
93262430 AGTATAATGTTATAATCATTTGGTGTGGATATGCT
66 AGTATAATGTTATAATCATTTGGTGTGGATATGCT
93262465 TGACAAGGAT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (100 bp):
GTCGTGGACCCTTTGGACTTGTATAAATTTTGGATAGCCATGCGAAAATGGCTTATATGTATTTG
AGTATAATGTTATAATCATTTGGTGTGGATATGCT
Found at i:93264085 original size:56 final size:49
Alignment explanation
Indices: 93263990--93264931 Score: 582
Period size: 50 Copynumber: 18.8 Consensus size: 49
93263980 ATTTGGGTAA
* *
93263990 AGAGATCCCAGTAAGACCATGTCTGGGACATGGCATTGGCATCACTGGGATTGTG
1 AGAGGTCCCAGTAAGACCATGTCTGGGACATGGCATTGGCA-C-C-GAGA---TG
*
93264045 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
93264095 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGTCATGGGCACCGATATG
1 AGAGGT-CCCAGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * * * *
93264145 AGAACTCCTATGTAAGACCATATTTGGGATATGACATTGGCAATACAAGA-A
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGC-A-CCGAGATG
* * *
93264196 ACATGT--CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
93264244 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGTCATGGGCACCGATATG
1 AGAGGT-CCCAGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * * * *
93264294 AGAACTCCTATGTAAGACCATATTTGGGATATGACATTGGCAATACAAGA-A
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGC-A-CCGAGATG
* * *
93264345 ACATGT--CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
93264393 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGTCATGGGCACCGATATG
1 AGAGGT-CCCAGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * * * *
93264443 AGAACTCCTATGTAAGACCATATTTGGGATATGACATTGGCAATACAAGA-A
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGC-A-CCGAGATG
* * *
93264494 ACATGT--CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
93264542 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGTCATGGGCACCGATATG
1 AGAGGT-CCCAGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * * * *
93264592 AGAACTCCTATGTAAGACCATATTTGGGATATGACATTGGCAATACAAGA-A
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGC-A-CCGAGATG
* * *
93264643 ACATGT--CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
93264691 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGTCATGGGCACCGATATG
1 AGAGGT-CCCAGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * * * *
93264741 AGAACTCCTATGTAAGACCATATTTGGGATATGACATTGGCAATACAAGA-A
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGC-A-CCGAGATG
* * *
93264792 ACATGT--CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
93264840 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGTCATGGGCACCGATATG
1 AGAGGT-CCCAGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * *
93264890 AGAACTCCTATGTAAGACCATATTTGGGATATGACATTGGCA
1 AGAGGTCCCA-GTAAGACCATGTCTGGGACATGGCATTGGCA
93264932 ATACAAGAAA
Statistics
Matches: 672, Mismatches: 177, Indels: 81
0.72 0.19 0.09
Matches are distributed among these distances:
47 20 0.03
48 25 0.04
49 147 0.22
50 393 0.58
51 28 0.04
52 15 0.02
53 3 0.00
54 1 0.00
55 10 0.01
56 30 0.04
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
AGAGGTCCCAGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:93264980 original size:149 final size:149
Alignment explanation
Indices: 93264053--93264972 Score: 1831
Period size: 149 Copynumber: 6.2 Consensus size: 149
93264043 TGAGAGGTCC
93264053 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
93264118 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
66 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
93264183 GGCAATACAAGAAACATGT
131 GGCAATACAAGAAACATGT
93264202 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
93264267 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
66 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
93264332 GGCAATACAAGAAACATGT
131 GGCAATACAAGAAACATGT
93264351 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
93264416 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
66 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
93264481 GGCAATACAAGAAACATGT
131 GGCAATACAAGAAACATGT
93264500 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
93264565 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
66 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
93264630 GGCAATACAAGAAACATGT
131 GGCAATACAAGAAACATGT
93264649 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
93264714 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
66 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
93264779 GGCAATACAAGAAACATGT
131 GGCAATACAAGAAACATGT
93264798 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
93264863 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
66 CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
*
93264928 GGCAATACAAGAAACATCT
131 GGCAATACAAGAAACATGT
93264947 CATGTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCATGTCTGGGACATGG
93264973 ATTTGGCATG
Statistics
Matches: 770, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 770 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (149 bp):
CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
CTGGGACATGTCATGGGCACCGATATGAGAACTCCTATGTAAGACCATATTTGGGATATGACATT
GGCAATACAAGAAACATGT
Found at i:93268662 original size:6 final size:6
Alignment explanation
Indices: 93268651--93268676 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
93268641 TATCGCAAAG
93268651 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
93268677 GAACACAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:93273632 original size:33 final size:35
Alignment explanation
Indices: 93273595--93273661 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
93273585 AGGATTTTAA
*
93273595 GTGATGAATGTG-AA-TGTGTATATATGTGATAAT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAT
93273628 GTGATGAATGTGAAAGTGTATATATATGTGATAA
1 GTGATGAATGTGAAAGTGTATATATATGTGATAA
93273662 GGCCTAATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 12 0.39
34 2 0.06
35 17 0.55
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.37
Consensus pattern (35 bp):
GTGATGAATGTGAAAGTGTATATATATGTGATAAT
Found at i:93273717 original size:47 final size:47
Alignment explanation
Indices: 93273626--93274508 Score: 1640
Period size: 47 Copynumber: 18.7 Consensus size: 47
93273616 ATATGTGATA
*
93273626 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCTG
93273675 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93273722 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93273769 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93273816 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93273863 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93273910 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93273957 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93274004 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93274051 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93274098 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93274145 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93274192 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93274239 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
* *
93274286 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
*
93274333 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
93274380 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
* * * **
93274427 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
* * *
93274474 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
93274509 TCCCGAAGGG
Statistics
Matches: 820, Mismatches: 14, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
47 800 0.98
49 20 0.02
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
Found at i:93280223 original size:49 final size:50
Alignment explanation
Indices: 93280105--93280228 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
93280095 TAAAGAGGTA
* *
93280105 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTC
* * * * *
93280155 ACATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-AACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAAC-TC
*
93280204 CCATGTAAGACTATGTCTGGGACAT
1 CCATGTAAGACCATGTCTGGGACAT
93280229 AGCTTTGGCT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.05
49 28 0.45
50 31 0.50
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTC
Found at i:93280237 original size:49 final size:50
Alignment explanation
Indices: 93280105--93280237 Score: 153
Period size: 49 Copynumber: 2.7 Consensus size: 50
93280095 TAAAGAGGTA
* * *
93280105 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACAAGAGAACTC
* * * *
93280155 ACATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-AACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACAAGAGAAC-TC
* * *
93280204 CCATGTAAGACTATGTCTGGGACATAGCTTTGGC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGC
93280238 TTGCTATATT
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 3 0.04
49 35 0.51
50 31 0.45
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACAAGAGAACTC
Found at i:93280489 original size:209 final size:209
Alignment explanation
Indices: 93280129--93280546 Score: 818
Period size: 209 Copynumber: 2.0 Consensus size: 209
93280119 GTCTGGGACA
93280129 TGGCATGGGCACCTATATGAGAACTCACATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC
1 TGGCATGGGCACCTATATGAGAACTCACATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC
93280194 AAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCTTGCTATATTCAGACAGGAGA
66 AAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCTTGCTATATTCAGACAGGAGA
93280259 TCCGAGTATCCTTAGTATTCCAAGTGATTCAACGGGCTAATAAAGAGACGTTGTTACATGAAAGT
131 TCCGAGTATCCTTAGTATTCCAAGTGATTCAACGGGCTAATAAAGAGACGTTGTTACATGAAAGT
93280324 TCAGGTAAAAGCCT
196 TCAGGTAAAAGCCT
* *
93280338 TGGCATGGGCACCTATATGAGAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCAGTAC
1 TGGCATGGGCACCTATATGAGAACTCACATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC
93280403 AAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCTTGCTATATTCAGACAGGAGA
66 AAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCTTGCTATATTCAGACAGGAGA
93280468 TCCGAGTATCCTTAGTATTCCAAGTGATTCAACGGGCTAATAAAGAGACGTTGTTACATGAAAGT
131 TCCGAGTATCCTTAGTATTCCAAGTGATTCAACGGGCTAATAAAGAGACGTTGTTACATGAAAGT
93280533 TCAGGTAAAAGCCT
196 TCAGGTAAAAGCCT
93280547 AATAGGCAAG
Statistics
Matches: 207, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 207 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (209 bp):
TGGCATGGGCACCTATATGAGAACTCACATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC
AAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCTTGCTATATTCAGACAGGAGA
TCCGAGTATCCTTAGTATTCCAAGTGATTCAACGGGCTAATAAAGAGACGTTGTTACATGAAAGT
TCAGGTAAAAGCCT
Found at i:93287546 original size:50 final size:50
Alignment explanation
Indices: 93287435--93287721 Score: 299
Period size: 50 Copynumber: 5.6 Consensus size: 50
93287425 ATTTGGGTAA
* *
93287435 AGAGGTCCCATGTAAGACCATGTCTGGGACACGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * *
93287491 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGTACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
93287541 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
93287591 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * *
93287641 AGAACTCACATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** *
93287690 AAACATCCCATGTAAGACTATGTCTGGGACAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACAT
93287722 AGCTGATACG
Statistics
Matches: 198, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
49 28 0.14
50 128 0.65
53 3 0.02
55 1 0.01
56 38 0.19
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:93293919 original size:50 final size:50
Alignment explanation
Indices: 93293849--93293978 Score: 183
Period size: 50 Copynumber: 2.6 Consensus size: 50
93293839 TAAAAGTGAA
*
93293849 AATGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGG
1 AATGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACACGTACCGG
* **
93293898 AATGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG
1 AATGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACACGTACCGG
*
93293948 -ATAGTTATGGTCACATGTGTAGTACTATGTG
1 AAT-GATA-GGTCACATGTGTAGTACTATGTG
93293979 AATCGAACAT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
49 8 0.11
50 42 0.58
51 22 0.31
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (50 bp):
AATGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACACGTACCGG
Found at i:93294163 original size:135 final size:135
Alignment explanation
Indices: 93293921--93294191 Score: 488
Period size: 135 Copynumber: 2.0 Consensus size: 135
93293911 ATGTGTAGTA
* * *
93293921 CTATGTGCAGGCTACTATGCGTACCGGATAGTTATGGTCACATGTGTAGTACTATGTGAATCGAA
1 CTATGTGCAGGCTACTATGCATACCAGATAGTAATGGTCACATGTGTAGTACTATGTGAATCGAA
93293986 CATCATTGATTAGTAAGGTGGTTGCTATGTGCTGAATCCACCGTATCTTTTATTATTCCAAAGTG
66 CATCATTGATTAGTAAGGTGGTTGCTATGTGCTGAATCCACCGTATCTTTTATTATTCCAAAGTG
93294051 TTCAT
131 TTCAT
* * *
93294056 CTATGTGCAGGCTACTATGTATATCAGATGGTAATGGTCACATGTGTAGTACTATGTGAATCGAA
1 CTATGTGCAGGCTACTATGCATACCAGATAGTAATGGTCACATGTGTAGTACTATGTGAATCGAA
93294121 CATCATTGATTAGTAAGGTGGTTGCTATGTGCTGAATCCACCGTATCTTTTATTATTCCAAAGTG
66 CATCATTGATTAGTAAGGTGGTTGCTATGTGCTGAATCCACCGTATCTTTTATTATTCCAAAGTG
93294186 TTCAT
131 TTCAT
93294191 C
1 C
93294192 GGGAAATTGA
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 130 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.36
Consensus pattern (135 bp):
CTATGTGCAGGCTACTATGCATACCAGATAGTAATGGTCACATGTGTAGTACTATGTGAATCGAA
CATCATTGATTAGTAAGGTGGTTGCTATGTGCTGAATCCACCGTATCTTTTATTATTCCAAAGTG
TTCAT
Found at i:93300568 original size:2 final size:2
Alignment explanation
Indices: 93300561--93300593 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
93300551 AATAAGCAAA
93300561 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
93300594 AAGCTCTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:93303068 original size:47 final size:47
Alignment explanation
Indices: 93302992--93303104 Score: 147
Period size: 47 Copynumber: 2.4 Consensus size: 47
93302982 CTTCGGGACT
* * *
93302992 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTT-GGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCA-TTAGGCCC
* * * *
93303039 TGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGCCC
93303086 TATCACATATATACACTTT
1 TATCACATATATACACTTT
93303105 ATCTTGGCCG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 2 0.04
47 55 0.96
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.35
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGCCC
Found at i:93304992 original size:13 final size:13
Alignment explanation
Indices: 93304974--93304998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93304964 TACTAAATTT
93304974 TCATGGATTCAAA
1 TCATGGATTCAAA
93304987 TCATGGATTCAA
1 TCATGGATTCAA
93304999 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:93306189 original size:15 final size:15
Alignment explanation
Indices: 93306169--93306200 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
93306159 CATTTCACTA
*
93306169 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
93306184 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
93306199 TT
1 TT
93306201 TGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:93307489 original size:13 final size:13
Alignment explanation
Indices: 93307471--93307495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93307461 CCCAATATGT
93307471 AATTGAACTTGAA
1 AATTGAACTTGAA
93307484 AATTGAACTTGA
1 AATTGAACTTGA
93307496 GATCGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:93307872 original size:17 final size:17
Alignment explanation
Indices: 93307850--93307923 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
93307840 ATTTTAATAG
93307850 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
93307867 TTTAATACTT--ATCTTAA
1 TTTAATA-TTAAAT-TTAA
* **
93307884 --TAGTATTTTA-TTAA
1 TTTAATATTAAATTTAA
*
93307898 TTTAATATTAAATCTAA
1 TTTAATATTAAATTTAA
93307915 TTTAATATT
1 TTTAATATT
93307924 TATATTGTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
14 6 0.13
15 4 0.09
16 10 0.22
17 23 0.51
18 2 0.04
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:93307891 original size:48 final size:48
Alignment explanation
Indices: 93307833--93307926 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 48
93307823 ATTCCAGAAA
* * *
93307833 TAATATTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATCT
1 TAATAGTATTTTAATAATTTAATATTAAATCTAATTTAATACTTATCT
* *
93307881 TAATAGTATTTTATTAATTTAATATTAAATCTAATTTAATATTTAT
1 TAATAGTATTTTAATAATTTAATATTAAATCTAATTTAATACTTAT
93307927 ATTGTAGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.54
Consensus pattern (48 bp):
TAATAGTATTTTAATAATTTAATATTAAATCTAATTTAATACTTATCT
Found at i:93307896 original size:37 final size:36
Alignment explanation
Indices: 93307833--93307908 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
93307823 ATTCCAGAAA
*
93307833 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATT-AATTTAATAT
*
93307869 TAATACTTATCTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATAT
93307906 TAA
1 TAA
93307909 ATCTAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:93307997 original size:28 final size:29
Alignment explanation
Indices: 93307954--93308012 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
93307944 TATTATTTTA
* *
93307954 ATAAGATTTAATATTAAATTTAATCTAAT
1 ATAAGATTAAATATTAAATTAAATCTAAT
* *
93307983 ATAAGA-TAAATATTAGATTAAATTTAAT
1 ATAAGATTAAATATTAAATTAAATCTAAT
93308011 AT
1 AT
93308013 TAAAGTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (29 bp):
ATAAGATTAAATATTAAATTAAATCTAAT
Found at i:93312761 original size:25 final size:25
Alignment explanation
Indices: 93312731--93312783 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
93312721 ATAACGTGTT
* *
93312731 TTATGTGCCTCTTTTTAAGAGGAAG
1 TTATGTACCTCATTTTAAGAGGAAG
*
93312756 TTATGTATCTCATTTTAAGAGGAAG
1 TTATGTACCTCATTTTAAGAGGAAG
93312781 TTA
1 TTA
93312784 ACTTTTGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (25 bp):
TTATGTACCTCATTTTAAGAGGAAG
Found at i:93317313 original size:37 final size:36
Alignment explanation
Indices: 93317262--93317337 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
93317252 ATTCCAAAAA
*
93317262 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
93317298 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
93317335 TAA
1 TAA
93317338 AGTAATTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:93323616 original size:42 final size:42
Alignment explanation
Indices: 93323480--93324510 Score: 1844
Period size: 42 Copynumber: 24.7 Consensus size: 42
93323470 ATTTGAATTT
* * * * *
93323480 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGAT-TT
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
*
93323520 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93323560 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93323602 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93323644 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93323686 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93323728 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93323770 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93323812 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93323854 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93323896 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93323938 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93323980 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93324022 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93324064 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93324106 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93324148 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93324190 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93324232 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93324274 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93324316 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
93324358 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
* * **
93324400 TATCCGGGCTAAGACCCGAAGGCAATTGTGAAAGTTG--ATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
* * *
93324440 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG--CTA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
** * * *
93324480 TGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGC
93324511 TTGTGGTAAT
Statistics
Matches: 968, Mismatches: 19, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
40 132 0.14
41 2 0.00
42 834 0.86
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (42 bp):
TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
Found at i:93327356 original size:61 final size:63
Alignment explanation
Indices: 93327240--93327360 Score: 158
Period size: 61 Copynumber: 2.0 Consensus size: 63
93327230 GTTTTCTCCA
* * * * **
93327240 AAATGAAAATGAAAATGGAGAAAATGGAATCTTTTGAAAATGAATATGGTTTTCTCAAAATGG
1 AAATGAAAATGAAAATGGAGAAAATGGAATCATTTAAAAATGAACAAGGAATTCTCAAAATGG
93327303 AAATGAAAATGAAAAT-GAG-AAAT-GAATTCATTTAAAAATGAACAAGGAATTCTCAAAA
1 AAATGAAAATGAAAATGGAGAAAATGGAA-TCATTTAAAAATGAACAAGGAATTCTCAAAA
93327361 ATGATCGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
60 3 0.06
61 29 0.57
62 3 0.06
63 16 0.31
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (63 bp):
AAATGAAAATGAAAATGGAGAAAATGGAATCATTTAAAAATGAACAAGGAATTCTCAAAATGG
Found at i:93330827 original size:20 final size:20
Alignment explanation
Indices: 93330778--93330835 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
93330768 GAACTTTTAT
*
93330778 TAATTTTTTTAATTTTTAAA
1 TAATTTTTTAAATTTTTAAA
** *
93330798 TAATACTTTAAAATTTTAAA
1 TAATTTTTTAAATTTTTAAA
*
93330818 TTATTTTTTAAATTTTTA
1 TAATTTTTTAAATTTTTA
93330836 TTAGTATTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTTTTTAAATTTTTAAA
Found at i:93330855 original size:11 final size:11
Alignment explanation
Indices: 93330820--93330860 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
93330810 ATTTTAAATT
93330820 ATTTTT-TAA-
1 ATTTTTATAAG
*
93330829 ATTTTTATTAG
1 ATTTTTATAAG
93330840 TATTTTTATAAG
1 -ATTTTTATAAG
93330852 ATTTTTATA
1 ATTTTTATA
93330861 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 6 0.22
10 2 0.07
11 9 0.33
12 10 0.37
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (11 bp):
ATTTTTATAAG
Found at i:93331232 original size:8 final size:8
Alignment explanation
Indices: 93331220--93331267 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
93331210 TAAATAATAT
93331220 TATTTATA
1 TATTTATA
*
93331228 AATTTAATA
1 TATTT-ATA
*
93331237 TATTTAATT
1 TATTT-ATA
93331246 TATTTATA
1 TATTTATA
93331254 TATTTATA
1 TATTTATA
*
93331262 AATTTA
1 TATTTA
93331268 AATAATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 19 0.56
9 15 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATTTATA
Found at i:93331243 original size:9 final size:9
Alignment explanation
Indices: 93331214--93331268 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
93331204 AATTTTTAAA
93331214 TAATATTATT
1 TAATA-TATT
*
93331224 T-ATAAATT
1 TAATATATT
93331232 TAATATATT
1 TAATATATT
*
93331241 TAATTTATT
1 TAATATATT
93331250 T-ATATATT
1 TAATATATT
*
93331258 T-ATAAATT
1 TAATATATT
93331266 TAA
1 TAA
93331269 ATAATAATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
8 18 0.47
9 19 0.50
10 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAATATATT
Found at i:93332026 original size:50 final size:50
Alignment explanation
Indices: 93331951--93332057 Score: 196
Period size: 50 Copynumber: 2.1 Consensus size: 50
93331941 ATTCTATGAG
*
93331951 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACGCTAACTGAC
1 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
93332001 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
1 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
*
93332051 ATAGAAA
1 AAAGAAA
93332058 CTTTTTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.25
Consensus pattern (50 bp):
AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
Found at i:93333543 original size:13 final size:13
Alignment explanation
Indices: 93333525--93333549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93333515 AAAATTATGT
93333525 TATTTTAATTTAA
1 TATTTTAATTTAA
93333538 TATTTTAATTTA
1 TATTTTAATTTA
93333550 TTAAATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTAATTTAA
Found at i:93333742 original size:22 final size:20
Alignment explanation
Indices: 93333716--93333755 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
93333706 TTTGAATGTT
93333716 TGAGTTTAACTTATTTTTTAAA
1 TGAGTTTAA-TT-TTTTTTAAA
93333738 TGAGTTTAATTTTTTTTA
1 TGAGTTTAATTTTTTTTA
93333756 TCTAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (20 bp):
TGAGTTTAATTTTTTTTAAA
Found at i:93340841 original size:27 final size:27
Alignment explanation
Indices: 93340803--93340857 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
93340793 ACTAGTAAAG
93340803 TATTTAGACTAATAAAGTATGTCAAAA
1 TATTTAGACTAATAAAGTATGTCAAAA
93340830 TATTTAGACTAATAAAGTATGTCAAAA
1 TATTTAGACTAATAAAGTATGTCAAAA
93340857 T
1 T
93340858 TAAAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (27 bp):
TATTTAGACTAATAAAGTATGTCAAAA
Found at i:93342077 original size:19 final size:19
Alignment explanation
Indices: 93342055--93342108 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
93342045 ACCAAAAATT
93342055 TATTTTAAAAATAAAAAAA
1 TATTTTAAAAATAAAAAAA
**
93342074 TATTTTAAAAATATTTTAAAA
1 TATTTTAAAAATA--AAAAAA
93342095 T-TTTTAAAAATAAA
1 TATTTTAAAAATAAA
93342109 TATTTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 13 0.45
20 11 0.38
21 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TATTTTAAAAATAAAAAAA
Found at i:93342104 original size:10 final size:11
Alignment explanation
Indices: 93342069--93342106 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
93342059 TTAAAAATAA
93342069 AAAAATATTTT
1 AAAAATATTTT
93342080 AAAAATATTTT
1 AAAAATATTTT
93342091 -AAAAT-TTTT
1 AAAAATATTTT
93342100 AAAAATA
1 AAAAATA
93342107 AATATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.16
10 10 0.40
11 11 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:93342702 original size:6 final size:6
Alignment explanation
Indices: 93342691--93342716 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
93342681 AAGCCGACGT
93342691 GGCAGC GGCAGC GGCAGC GGCAGC GG
1 GGCAGC GGCAGC GGCAGC GGCAGC GG
93342717 GTCCATCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.54, T:0.00
Consensus pattern (6 bp):
GGCAGC
Found at i:93343723 original size:168 final size:169
Alignment explanation
Indices: 93343421--93343784 Score: 531
Period size: 168 Copynumber: 2.2 Consensus size: 169
93343411 TGGTCTTGAA
*
93343421 TGATTTTAGGAAACACG-TTTGTTTAAATTAAGACTTCAATTTTACAGCTTGATAAATTAGACTT
1 TGATTTTAGGAAACA-GATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTT
93343485 TGTGATGACATGCAATTTGAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAG
65 TGTGATGACATGCAA-TTGAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAG
93343550 GAATATAAGTAAATAGTAATGAAACCTTGGGTCTT-AAATTT
129 GAATATAAGTAAATAGTAATGAAACCTT-GGTCTTAAAATTT
* *
93343591 TGATTCTAGGAAACAGATTTGTTTAAA-TAAGACTTCAATTTTACAGCATGATAAATTAGATTTT
1 TGATTTTAGGAAACAGATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTT
* * ** *
93343655 GTGATGACATTCACA-TGAATGCTTTCTTGTCCTTTATTTATATGGTTTTCCAATTTCACAATGG
66 GTGATGACATGCA-ATTGAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGG
** * *
93343719 AATATACTTAAATGGTAATGAAACCTTTGTCTTAAAATTT
130 AATATAAGTAAATAGTAATGAAACCTTGGTCTTAAAATTT
* *
93343759 T-ATTTTAGGAAACTGATTTGCTTAAA
1 TGATTTTAGGAAACAGATTTGTTTAAA
93343785 ATTATATCTT
Statistics
Matches: 176, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
167 27 0.15
168 76 0.43
169 48 0.27
170 25 0.14
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (169 bp):
TGATTTTAGGAAACAGATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTT
GTGATGACATGCAATTGAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGA
ATATAAGTAAATAGTAATGAAACCTTGGTCTTAAAATTT
Found at i:93345398 original size:20 final size:20
Alignment explanation
Indices: 93345352--93345398 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
93345342 AGCTCGTTTC
*
93345352 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
93345372 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
93345392 CAGCTCA
1 CAGCTCA
93345399 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:93345889 original size:12 final size:12
Alignment explanation
Indices: 93345872--93345932 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
93345862 GGGGAAAAAA
93345872 GAAAAAGAAATT
1 GAAAAAGAAATT
** **
93345884 GAAAAAGTGAGA
1 GAAAAAGAAATT
*
93345896 GAAAAAGAAAAT
1 GAAAAAGAAATT
93345908 GAAGAAATGAAAATT
1 GAA-AAA-G-AAATT
93345923 GAAAAAGAAA
1 GAAAAAGAAA
93345933 AAGCGAAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
12 22 0.59
13 4 0.11
14 4 0.11
15 7 0.19
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.11
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:93345921 original size:14 final size:13
Alignment explanation
Indices: 93345896--93345933 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
93345886 AAAAGTGAGA
93345896 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
93345908 GAAGAAATGAAAATT
1 GAA-AAA-GAAAATT
93345923 GAAAAAGAAAA
1 GAAAAAGAAAA
93345934 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.13
13 8 0.35
14 8 0.35
15 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:93345947 original size:21 final size:21
Alignment explanation
Indices: 93345897--93345947 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
93345887 AAAGTGAGAG
* *
93345897 AAAAAGAAAATGAAGAAATGA
1 AAAAAGAAAAAGAAGAAACGA
**
93345918 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-CGA
93345939 AAAAAGAAA
1 AAAAAGAAA
93345948 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.08
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAACGA
Found at i:93346184 original size:86 final size:86
Alignment explanation
Indices: 93346039--93346213 Score: 350
Period size: 86 Copynumber: 2.0 Consensus size: 86
93346029 AAGAGAGGAA
93346039 TTCTTTTGCTAACCCCCTTTCGAAATTACCTTGTGATTTTTCTTTGTTTCAGGTTTGCAAGATTC
1 TTCTTTTGCTAACCCCCTTTCGAAATTACCTTGTGATTTTTCTTTGTTTCAGGTTTGCAAGATTC
93346104 CATCCACGGATTGGTTCCAAC
66 CATCCACGGATTGGTTCCAAC
93346125 TTCTTTTGCTAACCCCCTTTCGAAATTACCTTGTGATTTTTCTTTGTTTCAGGTTTGCAAGATTC
1 TTCTTTTGCTAACCCCCTTTCGAAATTACCTTGTGATTTTTCTTTGTTTCAGGTTTGCAAGATTC
93346190 CATCCACGGATTGGTTCCAAC
66 CATCCACGGATTGGTTCCAAC
93346211 TTC
1 TTC
93346214 ATTACCTTTC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (86 bp):
TTCTTTTGCTAACCCCCTTTCGAAATTACCTTGTGATTTTTCTTTGTTTCAGGTTTGCAAGATTC
CATCCACGGATTGGTTCCAAC
Found at i:93356587 original size:20 final size:20
Alignment explanation
Indices: 93356549--93356587 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
93356539 AATATTATAA
** *
93356549 ATAAATAAATTTTATTAATC
1 ATAAATAAATAATAATAATC
93356569 ATAAATAAATAATAATAAT
1 ATAAATAAATAATAATAAT
93356588 TAAGTAAGAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAATAAATAATAATAATC
Found at i:93356589 original size:24 final size:24
Alignment explanation
Indices: 93356545--93356590 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
93356535 CGTTAATATT
* *
93356545 ATAAATAAATAAATTTTATTAATC
1 ATAAATAAATAAATATAATTAATC
93356569 ATAAATAAAT-AATAATAATTAA
1 ATAAATAAATAAAT-ATAATTAA
93356591 GTAAGACTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAAATAAATAAATATAATTAATC
Found at i:93358492 original size:16 final size:16
Alignment explanation
Indices: 93358471--93358502 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93358461 GAACTATGTA
93358471 GAGATTTTATGAGCTC
1 GAGATTTTATGAGCTC
93358487 GAGATTTTATGAGCTC
1 GAGATTTTATGAGCTC
93358503 CTTAAACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (16 bp):
GAGATTTTATGAGCTC
Found at i:93367387 original size:67 final size:67
Alignment explanation
Indices: 93367267--93367397 Score: 156
Period size: 67 Copynumber: 2.0 Consensus size: 67
93367257 AGGAGGGCCC
* ** * * *
93367267 ATTTAAAACTTTGCACCATCAACATGGCAAGAAGAATTTTTGCATTCTTAACATGATAAGAGGAC
1 ATTTAAAACTTTGCACCACCAACATGGCAAGAAGAACCTTTACATACTTAACATGACAAGAGGAC
93367332 TT
66 TT
* ** *
93367334 ATTTCAAACTTTGCACCACCAACATGGTGAGAAGAGCCTTTACA-ACTTCAACATGACAAGAGGA
1 ATTTAAAACTTTGCACCACCAACATGGCAAGAAGAACCTTTACATACTT-AACATGACAAGAGGA
93367398 AGGCCCATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 3 0.06
67 50 0.94
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (67 bp):
ATTTAAAACTTTGCACCACCAACATGGCAAGAAGAACCTTTACATACTTAACATGACAAGAGGAC
TT
Found at i:93384160 original size:41 final size:41
Alignment explanation
Indices: 93384103--93384314 Score: 316
Period size: 41 Copynumber: 5.1 Consensus size: 41
93384093 TATCTTATGC
* *
93384103 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAGGTGCCAGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
* *
93384144 GATCTGAATCAGGCTATAAGCCTAGCAGCCTAAGTGCTGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
* *
93384185 GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
* * * * *
93384226 GATCTAAATCAGGTTATAAACCTTGTAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
93384267 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
93384308 GAATCTG
1 G-ATCTG
93384315 TTAAATTAAG
Statistics
Matches: 154, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 149 0.97
42 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (41 bp):
GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
Found at i:93385895 original size:17 final size:17
Alignment explanation
Indices: 93385873--93385906 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
93385863 GACTTAGGTT
93385873 TATTTTCAGTTCTTTTC
1 TATTTTCAGTTCTTTTC
93385890 TATTTTCAGTTCTTTTC
1 TATTTTCAGTTCTTTTC
93385907 AGTTCTTTAA
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:0.12, C:0.18, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTCAGTTCTTTTC
Found at i:93385905 original size:10 final size:10
Alignment explanation
Indices: 93385875--93385914 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
93385865 CTTAGGTTTA
93385875 TTTTCAGTTC
1 TTTTCAGTTC
*
93385885 TTTTC---TA
1 TTTTCAGTTC
93385892 TTTTCAGTTC
1 TTTTCAGTTC
93385902 TTTTCAGTTC
1 TTTTCAGTTC
93385912 TTT
1 TTT
93385915 AAACTTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
7 6 0.24
10 19 0.76
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.65
Consensus pattern (10 bp):
TTTTCAGTTC
Found at i:93386394 original size:15 final size:15
Alignment explanation
Indices: 93386374--93386403 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
93386364 TCCGAAGTCC
93386374 TTTTTATTTAGGTTT
1 TTTTTATTTAGGTTT
*
93386389 TTTTTATTTATGTTT
1 TTTTTATTTAGGTTT
93386404 CCTTATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (15 bp):
TTTTTATTTAGGTTT
Found at i:93388230 original size:13 final size:13
Alignment explanation
Indices: 93388214--93388243 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
93388204 AGAAGAAGGT
93388214 AATCCCTTTAGGC
1 AATCCCTTTAGGC
*
93388227 AATCCTTTTAGGC
1 AATCCCTTTAGGC
93388240 AATC
1 AATC
93388244 ACAAGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (13 bp):
AATCCCTTTAGGC
Found at i:93389199 original size:12 final size:12
Alignment explanation
Indices: 93389182--93389207 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
93389172 CCTTACACGT
93389182 CCGTGTGCTAGG
1 CCGTGTGCTAGG
93389194 CCGTGTGCTAGG
1 CCGTGTGCTAGG
93389206 CC
1 CC
93389208 ATATAATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:93390192 original size:30 final size:29
Alignment explanation
Indices: 93390156--93390376 Score: 126
Period size: 30 Copynumber: 7.4 Consensus size: 29
93390146 GGTTGTCACC
* *
93390156 ATCCCTTTTCATAGTTCGATAGCTGAAGCT
1 ATCCCTTTTCATAATTCAATAGCTGAA-CT
* * * *
93390186 ATCCCTTTTCATAATGCAAT-GATCGTCACC
1 ATCCCTTTTCATAATTCAATAGCT-G-AACT
* *
93390216 ATCCCTTTTCATAATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCAATAGCTGAA-CT
* * * *
93390246 ATCCCTTTTCATATTTCAAT-GGTCGTCACC
1 ATCCCTTTTCATAATTCAATAGCT-G-AACT
** * * * *
93390276 ATCCCTTTTCATTGTT-AATGGTTGTCACC
1 ATCCCTTTTCATAATTCAATAGCTG-AACT
** *
93390305 ATCCCTTTTCATTGTTCAATAGGC-AAATCT
1 ATCCCTTTTCATAATTCAATA-GCTGAA-CT
*
93390335 ATCCCTTTTCATAATTCGATAGCTGAAGCT
1 ATCCCTTTTCATAATTCAATAGCTGAA-CT
93390365 ATCCCTTTTCAT
1 ATCCCTTTTCAT
93390377 TGGTCGATGA
Statistics
Matches: 149, Mismatches: 31, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
29 32 0.21
30 113 0.76
31 4 0.03
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATTCAATAGCTGAACT
Found at i:93390217 original size:60 final size:60
Alignment explanation
Indices: 93390150--93390287 Score: 231
Period size: 60 Copynumber: 2.3 Consensus size: 60
93390140 CACAATGGTT
* *
93390150 GTCACCATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATGCAATGATC
1 GTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATGCAATGATC
* * *
93390210 GTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCAATGGTC
1 GTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATGCAATGATC
93390270 GTCACCATCCCTTTTCAT
1 GTCACCATCCCTTTTCAT
93390288 TGTTAATGGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 73 1.00
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (60 bp):
GTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATGCAATGATC
Found at i:93390304 original size:29 final size:30
Alignment explanation
Indices: 93390142--93390324 Score: 133
Period size: 30 Copynumber: 6.1 Consensus size: 30
93390132 AGTGGAGTCA
* *
93390142 CAATGGTTGTCACCATCCCTTTTCATAGTT
1 CAATGGTCGTCACCATCCCTTTTCATTGTT
* * * * ** *
93390172 CGATAG-C-TGAAGCTATCCCTTTTCATAATG
1 CAATGGTCGT-CA-CCATCCCTTTTCATTGTT
* **
93390202 CAATGATCGTCACCATCCCTTTTCATAATT
1 CAATGGTCGTCACCATCCCTTTTCATTGTT
* * * * *
93390232 CGATAGCCG-AAGCTATCCCTTTTCATAT-TT
1 CAATGGTCGTCA-CCATCCCTTTTCAT-TGTT
93390262 CAATGGTCGTCACCATCCCTTTTCATTGTT
1 CAATGGTCGTCACCATCCCTTTTCATTGTT
*
93390292 -AATGGTTGTCACCATCCCTTTTCATTGTT
1 CAATGGTCGTCACCATCCCTTTTCATTGTT
93390321 CAAT
1 CAAT
93390325 AGGCAAATCT
Statistics
Matches: 118, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
28 1 0.01
29 31 0.26
30 82 0.69
31 3 0.03
32 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (30 bp):
CAATGGTCGTCACCATCCCTTTTCATTGTT
Found at i:93390369 original size:89 final size:88
Alignment explanation
Indices: 93390156--93390378 Score: 252
Period size: 89 Copynumber: 2.5 Consensus size: 88
93390146 GGTTGTCACC
*
93390156 ATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATGCAATGATCGTCACCATCCC
1 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCAT--TGCAATGATCGTCACCATCCC
* *
93390221 TTTTCATAATTCGATAGCCGAAGCT
64 TTTTCATAATTCAATAGCCAAAGCT
* * * * * * * *
93390246 ATCCCTTTTCATATTTCAAT-GGTCGTCA-CCATCCCTTTTCATTGTTAATGGTTGTCACCATCC
1 ATCCCTTTTCATAATTCGATAGCT-G-AAGCTATCCCTTTTCATTG-CAATGATCGTCACCATCC
** * *
93390309 CTTTTCATTGTTCAATAGGCAAATCT
63 CTTTTCATAATTCAATAGCCAAAGCT
93390335 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATTG
1 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATTG
93390379 GTCGATGATT
Statistics
Matches: 109, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
88 3 0.03
89 71 0.65
90 34 0.31
91 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (88 bp):
ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATTGCAATGATCGTCACCATCCCTT
TTCATAATTCAATAGCCAAAGCT
Found at i:93398956 original size:79 final size:81
Alignment explanation
Indices: 93398854--93399037 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
93398844 GCTCCTCGTT
* *
93398854 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
93398916 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
93398934 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
93398998 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
93399014 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93399038 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:93398971 original size:39 final size:41
Alignment explanation
Indices: 93398854--93399037 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
93398844 GCTCCTCGTT
* *
93398854 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
93398894 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
93398934 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
93398973 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
93399014 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93399038 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:93406731 original size:40 final size:40
Alignment explanation
Indices: 93406701--93407005 Score: 438
Period size: 40 Copynumber: 7.7 Consensus size: 40
93406691 GCTCCTCGTT
* * *
93406701 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
93406741 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
93406781 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
93406821 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
93406861 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
93406901 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
93406940 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
93406981 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
93407006 CATCATTCAA
Statistics
Matches: 246, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
38 2 0.01
39 33 0.13
40 198 0.80
41 13 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:93413901 original size:40 final size:39
Alignment explanation
Indices: 93413762--93413901 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 39
93413752 CTATTGAATA
* ** * *
93413762 AATGCACATACATGCCCTTGTTTGTACTTCGGAACCCCTA
1 AATGCACATACGTGCCC-TGTTTGTACTTAAGTACCCCTG
* * * *
93413802 AATGCACATACGTGCCCCTGTTTCTACTTTAGTAACCTTG
1 AATGCACATACGTG-CCCTGTTTGTACTTAAGTACCCCTG
*
93413842 AATGCACATACGTTCCCCTGTTTGTACTTAAGTACCCCTG
1 AATGCACATACG-TGCCCTGTTTGTACTTAAGTACCCCTG
*
93413882 AATGCAACTTACGTGCCCTG
1 AATGC-ACATACGTGCCCTG
93413902 CTTATACTCT
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
40 72 0.88
41 10 0.12
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (39 bp):
AATGCACATACGTGCCCTGTTTGTACTTAAGTACCCCTG
Found at i:93413924 original size:80 final size:80
Alignment explanation
Indices: 93413762--93413917 Score: 188
Period size: 80 Copynumber: 1.9 Consensus size: 80
93413752 CTATTGAATA
* ** * *
93413762 AATGCACATACATGCCCTTGTTTGTACTTCGGAACCCCTAAATGCACATACGTGCCCCTGTTTCT
1 AATGCACATACATGCCCCTGTTTGTACTTAAGAACCCCTAAATGCACATACGTGCCCCTGCTTAT
*
93413827 ACTTTAGTAACCTTG
66 ACTCTAGTAACCTTG
* * * * *
93413842 AATGCACATACGTTCCCCTGTTTGTACTTAAGTACCCCTGAATGCAACTTACGTG-CCCTGCTTA
1 AATGCACATACATGCCCCTGTTTGTACTTAAGAACCCCTAAATGC-ACATACGTGCCCCTGCTTA
*
93413906 TACTCTGGTAAC
65 TACTCTAGTAAC
93413918 TCTGAATTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
80 55 0.87
81 8 0.13
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (80 bp):
AATGCACATACATGCCCCTGTTTGTACTTAAGAACCCCTAAATGCACATACGTGCCCCTGCTTAT
ACTCTAGTAACCTTG
Found at i:93418138 original size:13 final size:12
Alignment explanation
Indices: 93418112--93418144 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
93418102 AATTTCACGA
93418112 AAAATTTC-TTG
1 AAAATTTCGTTG
93418123 AAAATTTCGTTTG
1 AAAATTTCG-TTG
93418136 AAAATTTCG
1 AAAATTTCG
93418145 ACGTTTTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
13 12 0.60
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (12 bp):
AAAATTTCGTTG
Found at i:93418586 original size:95 final size:95
Alignment explanation
Indices: 93418423--93418612 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
93418413 GACATTAGCC
93418423 AGGGGGAAGCCATGGTTAGGGTTTTCAAGCTTCCAAGCTCGATTGTAAGTTCGTTCTGACCTCGT
1 AGGGGGAAGCCATGGTTAGGGTTTTCAAGCTTCCAAGCTCGATTGTAAGTTCGTTCTGACCTCGT
93418488 TTTTAATGTTCTTTACATTTTTAGAGTCCT
66 TTTTAATGTTCTTTACATTTTTAGAGTCCT
93418518 AGGGGGAAGCCATGGTTAGGGTTTTCAAGCTTCCAAGCTCGATTGTAAGTTCGTTCTGACCTCGT
1 AGGGGGAAGCCATGGTTAGGGTTTTCAAGCTTCCAAGCTCGATTGTAAGTTCGTTCTGACCTCGT
93418583 TTTTAATGTTCTTTACATTTTTAGAGTCCT
66 TTTTAATGTTCTTTACATTTTTAGAGTCCT
93418613 GGAAACTTGA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (95 bp):
AGGGGGAAGCCATGGTTAGGGTTTTCAAGCTTCCAAGCTCGATTGTAAGTTCGTTCTGACCTCGT
TTTTAATGTTCTTTACATTTTTAGAGTCCT
Found at i:93419617 original size:50 final size:50
Alignment explanation
Indices: 93419447--93419778 Score: 350
Period size: 50 Copynumber: 6.6 Consensus size: 50
93419437 CGATGAACAT
* * *
93419447 GTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGA-TAG-TCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA--ACTTGATCAC
* * * * * *
93419498 ATGTGTAGTACTAAT-TGAAGGCTACAATGTGTACCG-AGAAGCTTTGGTCAC
1 GTGTGTAGTACT-ATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGATCAC
*
93419549 GTGTGTAGTACTAGGTGAAGGCTACTACGTGAACCGTAAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCAC
* * * * * *
93419599 GTGTGTAGTACTAAGTGAAGACTACTATGTGTACTG-AAAAGCTTTGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGATCAC
* *
93419650 GTGTGTAGTACTAGGTGAAGGCTACTACGTGAACCATAAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCAC
* * * *
93419700 GTGTGTAGTACTATGTAAAAGCTACTACTTGAAGCGTAAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCAC
*
93419750 GTGTGTAGTACTATGTGAAGGATACTACG
1 GTGTGTAGTACTATGTGAAGGCTACTACG
93419779 AGTATCGAAT
Statistics
Matches: 233, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
49 5 0.02
50 120 0.52
51 102 0.44
52 6 0.03
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (50 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCAC
Found at i:93419641 original size:101 final size:100
Alignment explanation
Indices: 93419447--93419778 Score: 399
Period size: 101 Copynumber: 3.3 Consensus size: 100
93419437 CGATGAACAT
* * *
93419447 GTGTGTAGTACT-GTGTGAAGGCTACTACGTGAATCGATAAATGA-TAG-TCACATGTGTAGTAC
1 GTGTGTAGTACTAG-GTGAAGGCTACTACGTGAACCG-TAAA--ACTTGATCACGTGTGTAGTAC
* * * *
93419509 TAATTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCAC
62 TAAGTGAAGACTACTATGTGTA-CGAAAAGCTTTGGTCAC
93419549 GTGTGTAGTACTAGGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAGGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTAAG
93419614 TGAAGACTACTATGTGTACTGAAAAGCTTTGGTCAC
66 TGAAGACTACTATGTGTAC-GAAAAGCTTTGGTCAC
* *
93419650 GTGTGTAGTACTAGGTGAAGGCTACTACGTGAACCATAAAACTTGATCACGTGTGTAGTACTATG
1 GTGTGTAGTACTAGGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTAAG
* * *
93419715 T-AAAAGCTACTACT-TGAAGCGTAAAA-C-TTGATCAC
66 TGAAGA-CTACTA-TGTGTA-CG-AAAAGCTTTGGTCAC
* *
93419750 GTGTGTAGTACTATGTGAAGGATACTACG
1 GTGTGTAGTACTAGGTGAAGGCTACTACG
93419779 AGTATCGAAT
Statistics
Matches: 208, Mismatches: 14, Indels: 18
0.87 0.06 0.08
Matches are distributed among these distances:
99 1 0.00
100 40 0.19
101 127 0.61
102 39 0.19
103 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (100 bp):
GTGTGTAGTACTAGGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTAAG
TGAAGACTACTATGTGTACGAAAAGCTTTGGTCAC
Found at i:93428773 original size:40 final size:40
Alignment explanation
Indices: 93428719--93429910 Score: 2082
Period size: 40 Copynumber: 29.8 Consensus size: 40
93428709 CATTTGAATG
93428719 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
93428759 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
93428799 ATATCCGGGCTAAGACCCGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93428839 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
93428879 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93428919 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93428959 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93428999 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93429039 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429079 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429119 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429159 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429199 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429239 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93429279 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429319 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429359 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429399 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429439 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429479 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429519 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429559 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429599 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429639 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429679 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429719 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429759 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93429799 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
93429839 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
** * *
93429879 ATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
93429911 TTGTGGTAAT
Statistics
Matches: 1124, Mismatches: 24, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
39 3 0.00
40 1118 0.99
41 3 0.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:93432318 original size:33 final size:33
Alignment explanation
Indices: 93432269--93432336 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
93432259 CATGCAGAAT
*
93432269 CAGTTGGGCCTGAGCCCTATACAAT-ATCAGTA
1 CAGTTGGGCCTGAGCCCAATACAATAATCAGTA
* *
93432301 CAGTGTGGGCCTTAGCCCAATACAGTAATCAGTA
1 CAGT-TGGGCCTGAGCCCAATACAATAATCAGTA
93432335 CA
1 CA
93432337 ATGCAGTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 4 0.13
33 18 0.58
34 9 0.29
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (33 bp):
CAGTTGGGCCTGAGCCCAATACAATAATCAGTA
Found at i:93432495 original size:25 final size:26
Alignment explanation
Indices: 93432440--93432508 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
93432430 CACCAATATC
93432440 GCAGC-AAGCTGCCAGTAATAATGAA
1 GCAGCAAAGCTGCCAGTAATAATGAA
* *
93432465 GTAGCAAAGCTG-CAGTAATAGT-AA
1 GCAGCAAAGCTGCCAGTAATAATGAA
* *
93432489 TGCAGCAAGGTTGCCAGTAA
1 -GCAGCAAAGCTGCCAGTAA
93432509 CAGTATATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 2 0.06
25 22 0.61
26 12 0.33
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAATAATGAA
Found at i:93432717 original size:27 final size:27
Alignment explanation
Indices: 93432687--93432963 Score: 272
Period size: 27 Copynumber: 10.3 Consensus size: 27
93432677 AGTATAACAA
93432687 TCATTTTACCCTAT-GGGGGTATTTCGG
1 TCATTTTACCCT-TCGGGGGTATTTCGG
* * * * *
93432714 TCATTTCACCCATTC-AGCGCATTTCGA
1 TCATTTTACCC-TTCGGGGGTATTTCGG
** * ***
93432741 TTGTTTTACCTTTTAAGGGTATTTCGG
1 TCATTTTACCCTTCGGGGGTATTTCGG
* **
93432768 TCAATTTA-CCTCTCGGGGGTATTTCAA
1 TCATTTTACCCT-TCGGGGGTATTTCGG
* *
93432795 TTATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGGGGGTATTTCGG
* * **
93432822 TCAGTTTACCCTTCAGGGGTATTTTAG
1 TCATTTTACCCTTCGGGGGTATTTCGG
*
93432849 TCATTTTACCCTTCGGGGGTATTTCGA
1 TCATTTTACCCTTCGGGGGTATTTCGG
*
93432876 TCATTTTACCCTTCGGGGGTATTTCGA
1 TCATTTTACCCTTCGGGGGTATTTCGG
93432903 TCATTTTACCCTTCGGGGGTATTTCGG
1 TCATTTTACCCTTCGGGGGTATTTCGG
* * * *
93432930 CCATTTTATCCTTCAGGGGTACTTCGG
1 TCATTTTACCCTTCGGGGGTATTTCGG
93432957 TCATTTT
1 TCATTTT
93432964 GCCTACAAAT
Statistics
Matches: 201, Mismatches: 44, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
26 4 0.02
27 193 0.96
28 4 0.02
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTTCGGGGGTATTTCGG
Found at i:93437295 original size:9 final size:9
Alignment explanation
Indices: 93437281--93437305 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
93437271 GGAGCGTCAA
93437281 AGTATTCAG
1 AGTATTCAG
93437290 AGTATTCAG
1 AGTATTCAG
93437299 AGTATTC
1 AGTATTC
93437306 TTTGAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (9 bp):
AGTATTCAG
Found at i:93441169 original size:12 final size:11
Alignment explanation
Indices: 93441144--93441181 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
93441134 GAACATGATG
93441144 AATTTTA-ATT
1 AATTTTATATT
93441154 AATTTTATAGTT
1 AATTTTATA-TT
93441166 AATTTT-TATT
1 AATTTTATATT
93441176 AATTTT
1 AATTTT
93441182 GACTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:93448823 original size:22 final size:21
Alignment explanation
Indices: 93448798--93448841 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
93448788 TGATAAAATT
93448798 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
93448820 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
93448841 T
1 T
93448842 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:93454051 original size:26 final size:26
Alignment explanation
Indices: 93454022--93454072 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
93454012 AAGCTACCGG
* *
93454022 TAATAATGACGCAGCAAAGCTGCCAT
1 TAATAATAACACAGCAAAGCTGCCAT
* *
93454048 TAATAGTAACACAGCAAGGCTGCCA
1 TAATAATAACACAGCAAAGCTGCCA
93454073 GTAACAGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (26 bp):
TAATAATAACACAGCAAAGCTGCCAT
Found at i:93454278 original size:27 final size:27
Alignment explanation
Indices: 93454254--93454455 Score: 253
Period size: 27 Copynumber: 7.5 Consensus size: 27
93454244 AAGAGTATAA
*
93454254 TAGTCATTTTACTCTTCGAGGGTATTT
1 TAGTCATTTTACCCTTCGAGGGTATTT
* * * *
93454281 TGGTCTTTTTACCTTTTGAGGGTATTT
1 TAGTCATTTTACCCTTCGAGGGTATTT
*
93454308 TGGTCATTTTACCCTTCGAGGGTATTT
1 TAGTCATTTTACCCTTCGAGGGTATTT
* * * *
93454335 CAATCATTTCACCCTTCGAGGGTACTT
1 TAGTCATTTTACCCTTCGAGGGTATTT
* *
93454362 TAGTTATTTTACCCTTCGGGGGTATTT
1 TAGTCATTTTACCCTTCGAGGGTATTT
*
93454389 TAGTCATTTTACCTTTC-AGAGGTATTT
1 TAGTCATTTTACCCTTCGAG-GGTATTT
*
93454416 CAGTCATTTTACCCTTCGAGGGTATTT
1 TAGTCATTTTACCCTTCGAGGGTATTT
*
93454443 TGGTCATTTTACC
1 TAGTCATTTTACC
93454456 AACAAATCGT
Statistics
Matches: 147, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 144 0.98
28 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.19, T:0.46
Consensus pattern (27 bp):
TAGTCATTTTACCCTTCGAGGGTATTT
Found at i:93461987 original size:61 final size:61
Alignment explanation
Indices: 93461916--93462110 Score: 246
Period size: 61 Copynumber: 3.2 Consensus size: 61
93461906 AAAATTCCAT
* * * *
93461916 AAAGGATTTCCTGTCCAGAGTATTGCCACAAAAGTTGTCCTTTACGTTCAATACTCGCCAC
1 AAAGGTTTTCCTGTCCAGAGTATTGCCACAAAGGCTGTCCTTTACATTCAATACTCGCCAC
* * * * *
93461977 AAAGGTTTTCCTGTCCAAAGTAATGCCACAAAGGCTGTCATTTACATTTAATACTCACCAC
1 AAAGGTTTTCCTGTCCAGAGTATTGCCACAAAGGCTGTCCTTTACATTCAATACTCGCCAC
** * * * *
93462038 AAAGGTTTTATTATCTAGAGTATTGCCACAAAGGCTGTCCTTTTCATTCAGTACTCGCCAC
1 AAAGGTTTTCCTGTCCAGAGTATTGCCACAAAGGCTGTCCTTTACATTCAATACTCGCCAC
*
93462099 AAAGGCTTTCCT
1 AAAGGTTTTCCT
93462111 TCTCTTGGTG
Statistics
Matches: 111, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 111 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (61 bp):
AAAGGTTTTCCTGTCCAGAGTATTGCCACAAAGGCTGTCCTTTACATTCAATACTCGCCAC
Found at i:93466174 original size:20 final size:20
Alignment explanation
Indices: 93466119--93466177 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
93466109 CTCTACTTCA
* *
93466119 AGCTCACTTAGCTCAACTTT
1 AGCTCAATTAGCTCATCTTT
* *
93466139 AGCTCAATGAGCTCATTTTT
1 AGCTCAATTAGCTCATCTTT
*
93466159 AGCTCATTTAGCTCATCTT
1 AGCTCAATTAGCTCATCTT
93466178 AAGCATATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (20 bp):
AGCTCAATTAGCTCATCTTT
Found at i:93479648 original size:41 final size:40
Alignment explanation
Indices: 93479579--93479668 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 40
93479569 GATTTGGAGT
*
93479579 TACCGGAGTGTAAACAAGGGCACCTATGTGCTATAT-AGGGG
1 TACCGAAGTGTAAACAAGGGCACCTATGTGC-A-ATCAGGGG
* * * *
93479620 TACCGAAGTGTAAATAGGGGTACGTATGTGCAATCAGGGG
1 TACCGAAGTGTAAACAAGGGCACCTATGTGCAATCAGGGG
*
93479660 TACCAAAGT
1 TACCGAAGT
93479669 ACAACCAGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 2 0.05
40 14 0.33
41 26 0.62
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (40 bp):
TACCGAAGTGTAAACAAGGGCACCTATGTGCAATCAGGGG
Found at i:93481468 original size:40 final size:40
Alignment explanation
Indices: 93481424--93481564 Score: 210
Period size: 40 Copynumber: 3.5 Consensus size: 40
93481414 GGTTCTGTGC
93481424 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
*
93481464 CTAGCAGGCTTAATGCCGATGAATTTTTCAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
* * * ** *
93481504 CTAGCAAGCTTGATGCCAGTGACCTTTACAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
*
93481544 CTAGCAGGCTTAATGTCGGTG
1 CTAGCAGGCTTAATGCCGGTG
93481565 TTCTGAGTCT
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
Found at i:93482986 original size:40 final size:41
Alignment explanation
Indices: 93482919--93483055 Score: 188
Period size: 41 Copynumber: 3.4 Consensus size: 41
93482909 GTTACAACCG
* *
93482919 AAGTACAAACAAGGGCACATATGTGCAATTCAGGGGTACCA
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTACCA
*
93482960 AAGTACAAAC-GGGGCACGTATATGCAATTCAGGGGTACCA
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTACCA
* * * *
93483000 AAGTACAAACAGAGGCAAGTATGTGCAATTCAGGGCTA-TA
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTACCA
93483040 GAAGTACAAACAGGGG
1 -AAGTACAAACAGGGG
93483056 ATAATTCAGT
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 38 0.45
41 47 0.55
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.17
Consensus pattern (41 bp):
AAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTACCA
Found at i:93483966 original size:20 final size:20
Alignment explanation
Indices: 93483941--93483981 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
93483931 CTAAGTCCTT
93483941 TCAATGGTCTATTTACTATC
1 TCAATGGTCTATTTACTATC
93483961 TCAATGGTCTATTTACTATC
1 TCAATGGTCTATTTACTATC
93483981 T
1 T
93483982 AAGTCCTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (20 bp):
TCAATGGTCTATTTACTATC
Found at i:93486250 original size:91 final size:90
Alignment explanation
Indices: 93486083--93486253 Score: 236
Period size: 91 Copynumber: 1.9 Consensus size: 90
93486073 TACCATAATA
* *
93486083 AAAAAACATATTGATAGTTCAAGTACTACATTAGATATTTTCAAAGTACATGTACCACATTAGCA
1 AAAAAACATATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTA-ATGTACCACATTAGCA
*
93486148 TTTTATAAAAGTACAGGTACCATCAC
65 TATTATAAAAGTACAGGTACCATCAC
* * * *
93486174 AAAACACATATTGATAGTTCAAGTACCATATTAGACATTTTCAAAGT-ATGATACCTCATTGGAC
1 AAAAAACATATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTAATG-TACCACATTAG-C
*
93486238 ATATTATGAAAGTACA
64 ATATTATAAAAGTACA
93486254 TGTATTAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
89 3 0.04
90 9 0.13
91 58 0.83
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (90 bp):
AAAAAACATATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTAATGTACCACATTAGCAT
ATTATAAAAGTACAGGTACCATCAC
Found at i:93486380 original size:13 final size:14
Alignment explanation
Indices: 93486341--93486382 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
93486331 TAGAAAATCA
**
93486341 ATTTTTATTAAAAAT
1 ATTTTTATT-AATTT
93486356 ATTTTTATTAATTT
1 ATTTTTATTAATTT
93486370 ATTTTTA-TAATTT
1 ATTTTTATTAATTT
93486383 TTATGAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 6 0.24
14 10 0.40
15 9 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTTATTAATTT
Found at i:93494225 original size:13 final size:15
Alignment explanation
Indices: 93494195--93494227 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
93494185 AATCTAAATT
*
93494195 AAAAATATTATATAA
1 AAAAACATTATATAA
93494210 AAAAACATTAT-TAA
1 AAAAACATTATATAA
93494224 AAAA
1 AAAA
93494228 TTATGTAAAA
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:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAACATTATATAA
Found at i:93495069 original size:16 final size:17
Alignment explanation
Indices: 93495042--93495084 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
93495032 TGGTAAAGTA
93495042 AATAAA-AAAGTAA-AT
1 AATAAATAAAGTAATAT
93495057 AATAAATAAAGTAATAT
1 AATAAATAAAGTAATAT
93495074 ATATATAATAA
1 A-ATA-AATAA
93495085 TCAAATCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.25
16 7 0.29
17 3 0.12
18 3 0.12
19 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
AATAAATAAAGTAATAT
Found at i:93495083 original size:19 final size:17
Alignment explanation
Indices: 93495034--93495084 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 17
93495024 ACTCAGAGTG
*
93495034 GTAAAGTAA-ATAAAAAA
1 GTAAA-TAATATAATAAA
93495051 GTAAATAATA-AATAAA
1 GTAAATAATATAATAAA
93495067 GTAATATATATATAATAA
1 GTAA-ATA-ATATAATAA
93495085 TCAAATCGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 12 0.41
17 9 0.31
18 3 0.10
19 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (17 bp):
GTAAATAATATAATAAA
Found at i:93495897 original size:14 final size:14
Alignment explanation
Indices: 93495871--93495903 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
93495861 AAATATTGAC
93495871 ATTTTTTTCTTAAT
1 ATTTTTTTCTTAAT
93495885 ATTTATTTT-TTAAT
1 ATTT-TTTTCTTAAT
93495899 ATTTT
1 ATTTT
93495904 AATATGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 13 0.72
15 4 0.22
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTTTTCTTAAT
Found at i:93498095 original size:17 final size:16
Alignment explanation
Indices: 93498068--93498107 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
93498058 CTATATTTTT
93498068 ATTTT-TTATTTATAAA
1 ATTTTATTATTT-TAAA
93498084 ATTTTATTATTTTAAA
1 ATTTTATTATTTTAAA
93498100 ATTATTAT
1 ATT-TTAT
93498108 ATATACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTATTATTTTAAA
Found at i:93498154 original size:36 final size:41
Alignment explanation
Indices: 93498084--93498160 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 41
93498074 TATTTATAAA
93498084 ATTTTATTATTTTAAAATTATTATATATACTTTTAATTTTT
1 ATTTTATTATTTTAAAATTATTATATATACTTTTAATTTTT
*
93498125 ATTTTA-TATTTTTAAA-T-TTA-ATATA-TTTTAATTTTT
1 ATTTTATTATTTTAAAATTATTATATATACTTTTAATTTTT
93498161 TTTAAATTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
36 11 0.31
37 5 0.14
38 3 0.09
39 1 0.03
40 9 0.26
41 6 0.17
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (41 bp):
ATTTTATTATTTTAAAATTATTATATATACTTTTAATTTTT
Found at i:93498185 original size:26 final size:26
Alignment explanation
Indices: 93498133--93498185 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
93498123 TTATTTTATA
* * *
93498133 TTTTTAAATTTAATATATTTTAATTT
1 TTTTTAAATTGAACATATGTTAATTT
* *
93498159 TTTTTAAATTGAACGTATGTTAGTTT
1 TTTTTAAATTGAACATATGTTAATTT
93498185 T
1 T
93498186 GCCACATGCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (26 bp):
TTTTTAAATTGAACATATGTTAATTT
Found at i:93499055 original size:42 final size:43
Alignment explanation
Indices: 93498989--93499174 Score: 241
Period size: 43 Copynumber: 4.3 Consensus size: 43
93498979 ACGTCGCTAA
* * * *
93498989 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAAACGCCGCTAAAAGTAATGTT
* * *
93499033 CTTTAGCGGCGTTTAGGAAAAAAACGCCGCT-AATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAG-TAATGTT
93499076 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
* * *
93499119 CTATAGCGGCGCTT-GGTAGAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
*
93499161 CTTTAGCAGCGCTT
1 CTTTAGCGGCGCTT
93499175 CATCTACAAA
Statistics
Matches: 128, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
42 41 0.32
43 71 0.55
44 16 0.12
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
Found at i:93499227 original size:43 final size:43
Alignment explanation
Indices: 93499097--93499235 Score: 120
Period size: 43 Copynumber: 3.3 Consensus size: 43
93499087 CTTAGGAAAA
* * * ** **
93499097 AAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGTAGA-
1 AAACGCCACTAAAAGTAATGTTCTTTAGCAGCGCTTCATCTAC
*
93499139 AAACGCCGCTAAAAGTAATGTTCTTTAGCAGCGCTTCATCTAC
1 AAACGCCACTAAAAGTAATGTTCTTTAGCAGCGCTTCATCTAC
* * * * * *
93499182 AAACGCCATTAAAAGTAGTGTTTTTTCGCGGCGCTT-ATTTCAC
1 AAACGCCACTAAAAGTAATGTTCTTTAGCAGCGCTTCATCT-AC
*
93499225 AAACGGCACTA
1 AAACGCCACTA
93499236 TATGATATGA
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 39 0.49
43 41 0.51
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (43 bp):
AAACGCCACTAAAAGTAATGTTCTTTAGCAGCGCTTCATCTAC
Found at i:93499691 original size:21 final size:21
Alignment explanation
Indices: 93499667--93499731 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
93499657 CTTCTCTCGT
* *
93499667 TGCTTCTCTCACTGCGGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
*
93499688 TGCTTCTCTCGCTACAGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
* *
93499709 TGCTTCCCTCGCTGCCGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
93499730 TG
1 TG
93499732 TTTTAAGTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.05, C:0.45, G:0.18, T:0.32
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCAGCCTC
Found at i:93500160 original size:142 final size:141
Alignment explanation
Indices: 93499890--93500167 Score: 450
Period size: 142 Copynumber: 2.0 Consensus size: 141
93499880 TTAGGCTAAC
* *
93499890 AAAAGATCCTTGAAATCGAACCCGACCATACCTTTCAGGACCTAAAACTTCAGTAATAATCCGGT
1 AAAAGATCCTTGAAATCGAACCCGACCATACCTTTCAGGACCCAAAACTTCAGTAATAATCCGGA
* * *
93499955 TATCAATGTCTTCAAGATGAACAAAACTATCACTAGAAGCAATCATTTCGTACTCCGTCTTTTTA
66 TATCAATGTCTTCAAGATGAACAAAACTATCACTAGAAACAATCACTTCGTACGCCGTCTTTTT-
93500020 TCCTTTAGTGAT
130 TCCTTTAGTGAT
*
93500032 AAAAGATCCTTGAAATCGAACCCGACCATACTTTTCAGGACCCAAAACTTCAGTAATAATCC-GA
1 AAAAGATCCTTGAAATCGAACCCGACCATACCTTTCAGGACCCAAAACTTCAGTAATAATCCGGA
** *
93500096 TATCAATGTCTTCAAGATGAACGGAACTATCACTAGAAACAATCGCTTCGTACGCCGTCTTTTTT
66 TATCAATGTCTTCAAGATGAACAAAACTATCACTAGAAACAATCACTTCGTACGCCGTC-TTTTT
93500161 TCCTTTA
130 TCCTTTA
93500168 TTTTTTCCTA
Statistics
Matches: 126, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
141 61 0.48
142 65 0.52
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (141 bp):
AAAAGATCCTTGAAATCGAACCCGACCATACCTTTCAGGACCCAAAACTTCAGTAATAATCCGGA
TATCAATGTCTTCAAGATGAACAAAACTATCACTAGAAACAATCACTTCGTACGCCGTCTTTTTT
CCTTTAGTGAT
Found at i:93501463 original size:18 final size:18
Alignment explanation
Indices: 93501440--93501604 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
93501430 AATTGCAATG
93501440 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
93501458 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
93501476 GTAAGTTAAATGTAAG-T-T
1 GTAAGTT--ATGTAAGTTAT
*
93501494 GTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAG--TTAT
93501513 GTAAG-T-TGTAAGTTAAAT
1 GTAAGTTATGTAAGTT--AT
*
93501531 GT-A-TTGTGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
93501545 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
93501563 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
93501579 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
93501596 GTAAGTTAT
1 GTAAGTTAT
93501605 TATGTATTGT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 14 0.12
17 8 0.07
18 61 0.53
19 15 0.13
20 4 0.03
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:93501488 original size:11 final size:9
Alignment explanation
Indices: 93501440--93501604 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
93501430 AATTGCAATG
93501440 GTAAGTTAT
1 GTAAGTTAT
93501449 GTAAGTTAT
1 GTAAGTTAT
93501458 GTAAGTTAAAT
1 GTAAGTT--AT
93501469 GT-A-TTAT
1 GTAAGTTAT
93501476 GTAAGTTAAAT
1 GTAAGTT--AT
93501487 GTAAG-T-T
1 GTAAGTTAT
93501494 GTAAGTTAT
1 GTAAGTTAT
*
93501503 -TATGTATTAT
1 GTAAG--TTAT
93501513 GTAAG-T-T
1 GTAAGTTAT
93501520 GTAAGTTAAAT
1 GTAAGTT--AT
*
93501531 GT-A-TTGT
1 GTAAGTTAT
93501538 GTAAG-T-T
1 GTAAGTTAT
93501545 GTAAGTTAAAT
1 GTAAGTT--AT
93501556 GT-A-TTAT
1 GTAAGTTAT
93501563 GTAAG-T-T
1 GTAAGTTAT
93501570 GTAAGTTAT
1 GTAAGTTAT
*
93501579 -TATGTATTAT
1 GTAAG--TTAT
93501589 GTAAG-T-T
1 GTAAGTTAT
93501596 GTAAGTTAT
1 GTAAGTTAT
93501605 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:93501515 original size:19 final size:19
Alignment explanation
Indices: 93501454--93501750 Score: 78
Period size: 19 Copynumber: 15.6 Consensus size: 19
93501444 GTTATGTAAG
*
93501454 TTATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
*
93501472 TTATGTAAGTTA-AATGTAA
1 TTATGTAAGTTATTATGT-A
*
93501491 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
93501509 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
*
93501534 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
93501559 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
93501575 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
93501593 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
93501611 TTGTGTAAGTTGCAAGTTAAATGTA
1 TTATGTAAGTT---A-TT--ATGTA
* *
93501636 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
93501652 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
93501670 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
* * *
93501688 TTGTGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
93501704 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
93501722 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
93501740 TTGTGTAAGTT
1 TTATGTAAGTT
93501751 GTAAGTTAAA
Statistics
Matches: 212, Mismatches: 31, Indels: 71
0.68 0.10 0.23
Matches are distributed among these distances:
14 3 0.01
15 18 0.08
16 11 0.05
17 3 0.01
18 53 0.25
19 60 0.28
20 3 0.01
21 1 0.00
22 2 0.01
23 5 0.02
24 1 0.00
25 52 0.25
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (19 bp):
TTATGTAAGTTATTATGTA
Found at i:93501519 original size:26 final size:26
Alignment explanation
Indices: 93501485--93501866 Score: 531
Period size: 26 Copynumber: 15.2 Consensus size: 26
93501475 TGTAAGTTAA
93501485 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
93501511 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
93501536 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
93501561 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
93501587 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
93501613 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
93501638 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
93501664 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
93501690 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
93501716 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
93501742 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
93501767 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
93501785 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
93501810 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
93501836 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
93501863 ATGT
1 ATGT
93501867 CGACAAGATT
Statistics
Matches: 323, Mismatches: 21, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.04
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 104 0.32
26 179 0.55
27 11 0.03
28 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:93501790 original size:43 final size:46
Alignment explanation
Indices: 93501485--93501867 Score: 277
Period size: 51 Copynumber: 7.7 Consensus size: 46
93501475 TGTAAGTTAA
* * *
93501485 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TATATGTATT
* *
93501536 GTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTCA--TGTAA--TA-TATGTATT
* * * * *
93501587 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGCAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TATATGTATT
* *
93501638 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TA-TATGTATT
* * *
93501690 GTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTCA--TGTAA--TA-TATGTATT
* *
93501742 GTGTAAGTTGTAAGTTAAATGTATTATGTCA-GTCA-A-ATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTCATGTAATATATGTATT
*
93501785 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTCA--TGTAA--TA-TATGTATT
93501836 ATGTAAGTAATGTAAGTTAAATGTATTATGTC
1 ATGTAAGT--TGTAAGTTAAATGTATTATGTC
93501868 GACAAGATTT
Statistics
Matches: 300, Mismatches: 19, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
43 36 0.12
45 1 0.00
46 3 0.01
48 3 0.01
49 1 0.00
50 24 0.08
51 114 0.38
52 97 0.32
53 21 0.07
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (46 bp):
ATGTAAGTTGTAAGTTAAATGTATTATGTCATGTAATATATGTATT
Found at i:93501818 original size:18 final size:18
Alignment explanation
Indices: 93501750--93501793 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
93501740 TTGTGTAAGT
93501750 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
* *
93501768 TGTCAGTCAAATGTATTA
1 TGTAAGTTAAATGTATTA
93501786 TGTAAGTT
1 TGTAAGTT
93501794 GTAAGTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:93504328 original size:7 final size:7
Alignment explanation
Indices: 93504266--93504339 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
93504256 CCCCAAACCA
*
93504266 TAAACTA
1 TAAACTC
93504273 TAAACTTC
1 TAAAC-TC
*
93504281 TAAACCC
1 TAAACTC
*
93504288 TAAACCC
1 TAAACTC
* *
93504295 AAAACAC
1 TAAACTC
*
93504302 TAAAATC
1 TAAACTC
*
93504309 TACA-TC
1 TAAACTC
93504315 ATAAACTC
1 -TAAACTC
93504323 TAAACTC
1 TAAACTC
*
93504330 AAAACTC
1 TAAACTC
93504337 TAA
1 TAA
93504340 TATTCACAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
6 2 0.04
7 43 0.81
8 8 0.15
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACTC
Found at i:93504795 original size:113 final size:112
Alignment explanation
Indices: 93504614--93504963 Score: 425
Period size: 113 Copynumber: 3.1 Consensus size: 112
93504604 TTCCCACAAC
* * * *
93504614 GCGCCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCAC-AACTGCTAGTATACATCA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTA-AATAAGCGCCACTAA-TGCTAATATACATCA
* * *
93504678 AGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
64 AGACCAAAGCACTGCGTTTTGGTTAATATTTTGTGGCGCTTTTCAATAA
* * *
93504727 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTT-AAATAAGCGCCACTAATGCTAATATACATCAA
* * * * *
93504792 GACCAAA-CTCTGCGTTTTGGTTAAGAAATATTGTGGCGCTTTTCAGTAC
65 GACCAAAGCACTGCGTTTTGGTT-A-ATATTTTGTGGCGCTTTTCAATAA
* * * *
93504841 TCGCCGCTAATACTATACTTTAGCGGCATTTTAATATAAGCGCCACTAATGCTACTATACATCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAA-ATAAGCGCCACTAATGCTAATATACATCAA
* * *
93504906 GACCAAAGCACTGTGTTTTGGTTAATCTTTTGTGGCGTTTTTCAATAA
65 GACCAAAGCACTGCGTTTTGGTTAATATTTTGTGGCGCTTTTCAATAA
*
93504954 GCGCCACTAA
1 GCGCCGCTAA
93504964 GCCTAATATA
Statistics
Matches: 200, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
112 14 0.07
113 89 0.44
114 84 0.42
115 13 0.06
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (112 bp):
GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAAATAAGCGCCACTAATGCTAATATACATCAAG
ACCAAAGCACTGCGTTTTGGTTAATATTTTGTGGCGCTTTTCAATAA
Found at i:93504880 original size:114 final size:113
Alignment explanation
Indices: 93504614--93504930 Score: 388
Period size: 114 Copynumber: 2.8 Consensus size: 113
93504604 TTCCCACAAC
* * * *
93504614 GCGCCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCAC-AACTGCTAGTATACATCA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTA-AATAAGCGCCACTAA-TGCTAATATACATCA
* * *
93504678 AGACCAAAGCGCTGCGTTTTGGTT-AATATTTTGCGGCGCTTTACAATAA
64 AGACCAAAGCACTGCGTTTTGGTTAAAAATATTGCGGCGCTTTACAATAA
* * *
93504727 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTT-AAATAAGCGCCACTAATGCTAATATACATCAA
* * * * *
93504792 GACCAAA-CTCTGCGTTTTGGTTAAGAAATATTGTGGCGCTTTTCAGTAC
65 GACCAAAGCACTGCGTTTTGGTTAA-AAATATTGCGGCGCTTTACAATAA
* * * *
93504841 TCGCCGCTAATACTATACTTTAGCGGCATTTTAATATAAGCGCCACTAATGCTACTATACATCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAA-ATAAGCGCCACTAATGCTAATATACATCAA
*
93504906 GACCAAAGCACTGTGTTTTGGTTAA
65 GACCAAAGCACTGCGTTTTGGTTAA
93504931 TCTTTTGTGG
Statistics
Matches: 175, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
112 14 0.08
113 63 0.36
114 83 0.47
115 15 0.09
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (113 bp):
GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAAATAAGCGCCACTAATGCTAATATACATCAAG
ACCAAAGCACTGCGTTTTGGTTAAAAATATTGCGGCGCTTTACAATAA
Found at i:93505068 original size:188 final size:188
Alignment explanation
Indices: 93504751--93505125 Score: 592
Period size: 188 Copynumber: 2.0 Consensus size: 188
93504741 ATGCTTTAGC
* * *
93504751 GGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAAGACCAAACTCTGCGTTTTGGTTAA
1 GGCGTTTTCAAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTTAA
* *
93504816 GAAATATTGTGGCGCTTTTCAGTACTCGCCGCTAATACTATACTTTAGCGGCATTTTAATATAAG
66 GAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATACTTTAGCGGCATTTTAATATAAG
* *
93504881 CGCCACTAATGCTACTATACATCAAGACCAAAGCACTGTGTTTTGGTTAATCTTTTGT
131 CGCCACTAATGCTACTATACATCAAGACCAAAGCACTGCGTTTTGGTTAATATTTTGT
*
93504939 GGCGTTTTTC-AATAAGCGCCACTAAGCCTAATATACGGCAAGACCAAACTCTGCGTTTTGGTTA
1 GGCG-TTTTCAAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTTA
* *
93505003 AGAAATCTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATGA-TTTAGCGGCGTTTTAATATA
65 AGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTAT-ACTTTAGCGGCATTTTAATATA
* * * *
93505067 AGTGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTTG
129 AGCGCCACTAATGCTACTATACATCAAGACCAAAGCACTGCGTTTTGGTTAATATTTTG
93505126 CGGTGCTTAT
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
188 165 0.96
189 6 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (188 bp):
GGCGTTTTCAAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTTAA
GAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATACTTTAGCGGCATTTTAATATAAG
CGCCACTAATGCTACTATACATCAAGACCAAAGCACTGCGTTTTGGTTAATATTTTGT
Found at i:93505243 original size:98 final size:98
Alignment explanation
Indices: 93505039--93505314 Score: 435
Period size: 98 Copynumber: 2.8 Consensus size: 98
93505029 TCGCCGCTAA
* * *** * * * *
93505039 TACTATGATTTAGCGGCGTTTTAATATAAGTGCCACTACTGCTAGTATACATCAAGACCAAAGCG
1 TACTATGCTTTAGCGGTGTTTTCCGATAAGCGCCACTAATGCTAGTATACCTCAAGACCAAA-CT
93505104 CTGCGTTTTGGTTAATATTTTGCGGTGCTTATTG
65 CTGCGTTTTGGTTAATATTTTGCGGTGCTTATTG
* *
93505138 TACTATGCTTTAGCGGTGTTTTCCGATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTC
1 TACTATGCTTTAGCGGTGTTTTCCGATAAGCGCCACTAATGCTAGTATACCTCAAGACCAAACTC
93505203 TGCGTTTTGGTTAATATTTTGCGGTGCTTATTG
66 TGCGTTTTGGTTAATATTTTGCGGTGCTTATTG
*
93505236 TACTATGCTTTAGCGGTGTTTTCCGATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
1 TACTATGCTTTAGCGGTGTTTTCCGATAAGCGCCACTAATGCTAGTATACCTCAAGACCAAACTC
93505301 TGCGTTTTGGTTAA
66 TGCGTTTTGGTTAA
93505315 GATGTATTGT
Statistics
Matches: 163, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
98 111 0.68
99 52 0.32
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (98 bp):
TACTATGCTTTAGCGGTGTTTTCCGATAAGCGCCACTAATGCTAGTATACCTCAAGACCAAACTC
TGCGTTTTGGTTAATATTTTGCGGTGCTTATTG
Found at i:93524880 original size:26 final size:26
Alignment explanation
Indices: 93524844--93524899 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
93524834 TAGTAAATGC
93524844 TATTTTGAAATTAT-TATTAAGTATTA
1 TATTTTGAAATT-TGTATTAAGTATTA
* **
93524870 TATTTTTAAATTTGTATTATTTATTA
1 TATTTTGAAATTTGTATTAAGTATTA
93524896 TATT
1 TATT
93524900 ATTATATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (26 bp):
TATTTTGAAATTTGTATTAAGTATTA
Found at i:93526605 original size:649 final size:648
Alignment explanation
Indices: 93524817--93527478 Score: 3119
Period size: 678 Copynumber: 4.0 Consensus size: 648
93524807 ATATATTAGT
*
93524817 TTTATTATTTTATTATTTAGTAAATGCTATTTTGAAATTATTATTAAGTATTATATTTTTAAATT
1 TTTATTA-TGTATTATTTAGTAAATGCTATTTTGAAATTATTATTAAGTATTATATTTTTAAATT
93524882 TGTATTATTTATTA-TATTATTATATTGTGTATATATTTCATCTTCTATTTTTTTATTAAAAATT
65 TGTATTATTTATTATTATTATTATATTGTGTATATATTTCATCTTCTATTTTTTTATTAAAAATT
* *
93524946 ATTTATTACATATTTTTATATATTTTGTATTTATTATAAATTGTTTTAAAATTATTTATATTATA
130 ATTTATTACATATTTTTATATATTTTGTATCTATTATAAATTGTTTTAAAATTATGTATATTATA
**
93525011 TCATATGTTAAATGGATTTAAAGA-TTT-TATATATATTTTTGTGCATATAATCCTTTTTTAAAA
195 TCATATGTTAAATGGATTTAAAGATTTTATATATATATTTTTGTGCATATAATCCTTTTAAAAAA
93525074 AA-AATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATTT
260 AATAATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATTT
93525138 AAAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAGTTTTTTTATATATTTTTT
325 AAAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAGTTTTTTTATATATTTTTT
* * *
93525203 TAAAATATTTTCCCATGTATGTGGAACGACGTCGTTCCTTGGGAATAGGGTATT-TTGCCCGATG
390 TAAAATATTTTCCTATGTATAT-TAA--A--T--TT--TT----ATA---TATTATT-----AT-
* *** **** * * * * * * *
93525267 AGTCCCTCACCTTTTGCGCGCGTTTCATTTAAATCCCAGATT-C-AATTT-TATTTTTCTAATT-
433 A-T-TCTTTTCTTTT---AAAATTT-TTTTACAT---ATATTACTCATTTAAATATGT-TAATTA
* * * **** * *
93525328 TCTCCCCTGTA-ATTTTATAAAATTTTAAAT-TTAATCCTATGTGTTTTTTTA-TTAATTTTAT-
488 T-T---ATATACA-TATATGTTTTTTTAAATATT-AT--TAT-TATTTTTTTACCT--TTTTATC
* * * ** * * * * * * * *
93525389 ATTATAT-ATTAT-TTGTTTTATTCTAAACCTATATATTTTATT-A-TATAATTAT-ACAATTAT
542 AATAT-TGATT-TGGTGTTTTAAT-TATTCGTATTTGTTTT-TTAAGTGTTATTTTGTC-ACT-T
* * ** * * * * * * * *
93525449 TTTCACCTGTTATTTATTATG-TAT-TAATCCTTATATATATATTAGTTTTA
601 TTT-A-TTATTATAAATTTTGATTTCTACTTC-TATTTTTATATT-CTTTAA
93525499 -TTATTA--TATTATTTAGTAAATGCTATTTTGAAATTATTATTAAGTATTATATTTTTAAATTT
1 TTTATTATGTATTATTTAGTAAATGCTATTTTGAAATTATTATTAAGTATTATATTTTTAAATTT
93525561 GTATTATTTA-TATTATTATTATATTGTGTATATATTTCATCTTCTATTTTTTTATTAAAAATTA
66 GTATTATTTATTATTATTATTATATTGTGTATATATTTCATCTTCTATTTTTTTATTAAAAATTA
*
93525625 TTTATTACATATTTTTATATATTTTGTATCTATTATAAATTGTTTTAAAAATATGTATATTATAT
131 TTTATTACATATTTTTATATATTTTGTATCTATTATAAATTGTTTTAAAATTATGTATATTATAT
93525690 CATATGTTAAATGGATTTAAAGATTTTATATATATATTTTTGTGCATATAATCCTTTTAAAAAAA
196 CATATGTTAAATGGATTTAAAGATTTTATATATATATTTTTGTGCATATAATCCTTTTAAAAAAA
93525755 ATAATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATTTA
261 ATAATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATTTA
93525820 AAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAGTTTTTTTATATATTTTTTT
326 AAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAGTTTTTTTATATATTTTTTT
*
93525885 AAAATATTTTCCTATGTATATTAAATTTTTATATATTATTATATTCTTTTCTTTTAAATTTTTTT
391 AAAATATTTTCCTATGTATATTAAATTTTTATATATTATTATATTCTTTTCTTTTAAAATTTTTT
93525950 TACATATATTACTCATTTAAATATGTTAATTATTATATACATATATGTTTTTTTAAATATTATTA
456 TACATATATTACTCATTTAAATATGTTAATTATTATATACATATATGTTTTTTTAAATATTATTA
* *
93526015 TTATTTTTTTACCTTTTTATCAATATTGATTTGGTGTTTTGATTATTCGTATTTGGTTTTTAAGT
521 TTATTTTTTTACCTTTTTATCAATATTGATTTGGTGTTTTAATTATTCGTATTTGTTTTTTAAGT
93526080 GTTATTTTGTCACTTTTTATTATTATAAATTTTGATTTCTACTTCTATTTTTATATTCTTTAA
586 GTTATTTTGTCACTTTTTATTATTATAAATTTTGATTTCTACTTCTATTTTTATATTCTTTAA
93526143 TTTATTATGTATTATTTAGTAAATGCTATTTTGAAATTATTATTAAGTATTATATTTTTAAATTT
1 TTTATTATGTATTATTTAGTAAATGCTATTTTGAAATTATTATTAAGTATTATATTTTTAAATTT
93526208 GTATTATTTATTAGATTATTATTATATTGTGTATATATTTCATCTTCTATTTTTTTATTAAAAAT
66 GTATTATTTATT--ATTATTATTATATTGTGTATATATTTCATCTTCTATTTTTTTATTAAAAAT
93526273 TATTTATTACATATTTTTATATATTTTGTATCTATTATAAATTGTTTTAAAATTATGTATATTAT
129 TATTTATTACATATTTTTATATATTTTGTATCTATTATAAATTGTTTTAAAATTATGTATATTAT
* ****
93526338 ATCATATGTTAAATGGATTTAAAGATTTTATATATATTTTTTTGTGCATATAATCCTTTTTTTTA
194 ATCATATGTTAAATGGATTTAAAGATTTTATATATATATTTTTGTGCATATAATCCTTTTAAAAA
93526403 AAA-AATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATT
259 AAATAATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATT
93526467 TAAAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAGTTTTTTTATATATTTTT
324 TAAAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAGTTTTTTTATATATTTTT
93526532 TTAAAATATTTTCCTATGTATATTAAATTTTTATATATTATTATATTCTTTTCTTTTAAAATTTT
389 TTAAAATATTTTCCTATGTATATTAAATTTTTATATATTATTATATTCTTTTCTTTTAAAATTTT
93526597 TTTACATATATTACTCATTTAAATATGTTAATTATTATATACATATAT-TTTTTTT-AATATTAT
454 TTTACATATATTACTCATTTAAATATGTTAATTATTATATACATATATGTTTTTTTAAATATTAT
93526660 TATTATTATTTTTACCTTTTTATCAATATTGATTTGGTGTTTTAATTATTCGTATTTGTTTTTTA
519 TATTATT-TTTTTACCTTTTTATCAATATTGATTTGGTGTTTTAATTATTCGTATTTGTTTTTTA
*
93526725 AGTGTTATTTTGTCACTTTTTATTATTATAAATTTTGATTTCCACTTCTATTTTTATATTCTTTA
583 AGTGTTATTTTGTCACTTTTTATTATTATAAATTTTGATTTCTACTTCTATTTTTATATTCTTTA
93526790 A
648 A
* * * * * * * *
93526791 TTTATTATGAATTGTTTCGT-ATTTCTATTTACT-AACATT-GTATATAGGT-TTATCTTTTAGC
1 TTTATTATGTATTATTTAGTAAATGCTATTT--TGAA-ATTATTAT-TAAGTATTATATTTT---
* * * * *
93526852 ATAATCATCT-TATGATGTGTA-TATT-TCATTATTTTAG-GT-TAT-TTCTTAT-TTGCCTATA
59 -TAA--ATTTGTATTAT-T-TATTATTATTATTATATT-GTGTATATATT-TCATCTT--CTAT-
* ** * * ** *
93526910 TTATTATGAATTGTAATATGTTGTAATCTATTACCT-TTGGTATATTTGTCTTGTGA--TATGTA
114 TT-TT-T-TA-T-TAA-A-AAT-T-ATTTATTACATATTTTTATATAT-T-TTGT-ATCTAT-TA
* * * ** ** *
93526972 TTAACGCCATTCTTCTACATGAGTCAACGTTTTAAATAAAGAAATTCATAATGTTAAATGGATTT
166 -TAA----ATTGTT-T---T-A---AA-ATTATGTAT-ATTATA-TCAT-ATGTTAAATGGATTT
93527037 AAAGATTTTATATATATATTTTTGTGCATATAATCCTTTTAAAAAAAATAATATTATCTATTATA
214 AAAGATTTTATATATATATTTTTGTGCATATAATCCTTTTAAAAAAAATAATATTATCTATTATA
93527102 TATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATTTAAAATATTTAACATGTATA
279 TATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATTTAAAATATTTAACATGTATA
*
93527167 ATATTTTTAATTGTTTTAATAATAAAAG--TTTTTATGTATTTTTTTAAAATATTTTCCTATGTA
344 ATATTTTTAATTGTTTTAATAATAAAAGTTTTTTTATATATTTTTTTAAAATATTTTCCTATGTA
* *
93527230 TATTAAATTGTTATATATTATTATATTCTTTTCTTTT-AAATTTTTTTATATATATTACTCATTT
409 TATTAAATTTTTATATATTATTATATTCTTTTCTTTTAAAATTTTTTTACATATATTACTCATTT
* * * *
93527294 AAATATGTGAATTATTATATACATATATGTTTTTTTTAAATATTATTTTTATTTTTTTTCTTTTT
474 AAATATGTTAATTATTATATACATATATG-TTTTTTTAAATATTATTATTATTTTTTTACCTTTT
93527359 TATCAATATTGATTTGGTGTTTTAATTATTCGTATTTGTTTTTTAAGTGTTATTTTGTCACTTTT
538 TATCAATATTGATTTGGTGTTTTAATTATTCGTATTTGTTTTTTAAGTGTTATTTTGTCACTTTT
93527424 TATTATTATAAATTTTGATTT-TCACTTCTATTTTTTATATTCTTTAA
603 TATTATTATAAATTTTGATTTCT-ACTTCTA-TTTTTATATTCTTTAA
93527471 TTTATTAT
1 TTTATTAT
93527479 AAATTGTTTT
Statistics
Matches: 1789, Mismatches: 111, Indels: 162
0.87 0.05 0.08
Matches are distributed among these distances:
644 14 0.01
645 21 0.01
646 27 0.02
647 120 0.07
648 163 0.09
649 250 0.14
650 201 0.11
651 21 0.01
652 10 0.01
653 17 0.01
654 17 0.01
655 6 0.00
656 1 0.00
657 3 0.00
658 8 0.00
659 2 0.00
660 10 0.01
661 15 0.01
662 6 0.00
663 4 0.00
665 4 0.00
666 2 0.00
667 5 0.00
668 4 0.00
671 1 0.00
672 3 0.00
674 2 0.00
675 2 0.00
676 6 0.00
677 58 0.03
678 277 0.15
679 171 0.10
680 185 0.10
681 153 0.09
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (648 bp):
TTTATTATGTATTATTTAGTAAATGCTATTTTGAAATTATTATTAAGTATTATATTTTTAAATTT
GTATTATTTATTATTATTATTATATTGTGTATATATTTCATCTTCTATTTTTTTATTAAAAATTA
TTTATTACATATTTTTATATATTTTGTATCTATTATAAATTGTTTTAAAATTATGTATATTATAT
CATATGTTAAATGGATTTAAAGATTTTATATATATATTTTTGTGCATATAATCCTTTTAAAAAAA
ATAATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATTTA
AAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAGTTTTTTTATATATTTTTTT
AAAATATTTTCCTATGTATATTAAATTTTTATATATTATTATATTCTTTTCTTTTAAAATTTTTT
TACATATATTACTCATTTAAATATGTTAATTATTATATACATATATGTTTTTTTAAATATTATTA
TTATTTTTTTACCTTTTTATCAATATTGATTTGGTGTTTTAATTATTCGTATTTGTTTTTTAAGT
GTTATTTTGTCACTTTTTATTATTATAAATTTTGATTTCTACTTCTATTTTTATATTCTTTAA
Found at i:93527330 original size:680 final size:678
Alignment explanation
Indices: 93526339--93527701 Score: 2473
Period size: 680 Copynumber: 2.0 Consensus size: 678
93526329 GTATATTATA
* ****
93526339 TCAT-ATGTTAAATGGATTTAAAGATTTTATATATATTTTTTTGTGCATATAATCCTTTTTTTTA
1 TCATAATGTTAAATGGATTTAAAGATTTTATATATATATTTTTGTGCATATAATCCTTTTAAAAA
93526403 AAAAATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATTT
66 AAAAATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATTT
93526468 AAAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAGTTTTTTTATATATTTTTT
131 AAAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAG-TTTTTTATATATTTTTT
*
93526533 TAAAATATTTTCCTATGTATATTAAATTTTTATATATTATTATATTCTTTTCTTTTAAAATTTTT
195 TAAAATATTTTCCTATGTATATTAAATTGTTATATATTATTATATTCTTTTCTTTTAAAATTTTT
* *
93526598 TTACATATATTACTCATTTAAATATGTTAATTATTATATACATATATTTTTTTTAATATTATTAT
260 TTACATATATTACTCATTTAAATATGTGAATTATTATATACATATATTTTTTTAAATATTATTAT
93526663 TATTATTTTTACCTTTTTATCAATATTGATTTGGTGTTTTAATTATTCGTATTTGTTTTTTAAGT
325 TATT-TTTTTACCTTTTTATCAATATTGATTTGGTGTTTTAATTATTCGTATTTGTTTTTTAAGT
93526728 GTTATTTTGTCACTTTTTATTATTATAAATTTTGATTTCCACTTCTA-TTTTTATATTCTTTAAT
389 GTTATTTTGTCACTTTTTATTATTATAAATTTTGATTTCCACTTCTATTTTTTATATTCTTTAAT
*
93526792 TTATTATGAATTGTTTCGTATTTCTATTTACTAACATTGTATATAGGTTTATCTTTTAGCATAAT
454 TTATTATAAATTGTTTCGTATTTCTATTTACTAACATTGTATATAGGTTTATCTTTTAGCATAAT
93526857 CATCTTATGATGTGTATATTTCATTATTTTAGGTTATTTCTTATTTGCCTATATTATTATGAATT
519 CATCTTATGATGTGTATATTTCATTATTTTAGGTTATTTCTTATTTGCCTATATTATTATGAATT
*
93526922 GTAATATGTTGTAATCTATTACCTTTGGTATATTTGTCTTGTGATATGTATTAACGCCATTCTTC
584 GTAATATGTTGTAATCTATTACCTTTAGTATATTTGTCTTGTGATATGTATTAACGCCATTCTTC
93526987 TACATGAGTCAACGTTTTAAATAAAGAAAT
649 TACATGAGTCAACGTTTTAAATAAAGAAAT
93527017 TCATAATGTTAAATGGATTTAAAGATTTTATATATATATTTTTGTGCATATAATCCTTTTAAAAA
1 TCATAATGTTAAATGGATTTAAAGATTTTATATATATATTTTTGTGCATATAATCCTTTTAAAAA
93527082 AAATAATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATT
66 AAA-AATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATT
*
93527147 TAAAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAG-TTTTTATGTATTTTTT
130 TAAAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAGTTTTTTATATATTTTTT
93527211 TAAAATATTTTCCTATGTATATTAAATTGTTATATATTATTATATTCTTTTCTTTT-AAATTTTT
195 TAAAATATTTTCCTATGTATATTAAATTGTTATATATTATTATATTCTTTTCTTTTAAAATTTTT
*
93527275 TTATATATATTACTCATTTAAATATGTGAATTATTATATACATATATGTTTTTTTTAAATATTAT
260 TTACATATATTACTCATTTAAATATGTGAATTATTATATACATATA---TTTTTTTAAATATTAT
* * *
93527340 TTTTATTTTTTTTCTTTTTTATCAATATTGATTTGGTGTTTTAATTATTCGTATTTGTTTTTTAA
322 TATTATTTTTTTACCTTTTTATCAATATTGATTTGGTGTTTTAATTATTCGTATTTGTTTTTTAA
*
93527405 GTGTTATTTTGTCACTTTTTATTATTATAAATTTTGATTTTCACTTCTATTTTTTATATTCTTTA
387 GTGTTATTTTGTCACTTTTTATTATTATAAATTTTGATTTCCACTTCTATTTTTTATATTCTTTA
*
93527470 ATTTATTATAAATTGTTTTGTATTTCTATTTACTAACATTGTATATAGGTTTATCTTTTAGCATA
452 ATTTATTATAAATTGTTTCGTATTTCTATTTACTAACATTGTATATAGGTTTATCTTTTAGCATA
93527535 ATCATCTTATGATGTGTATATTTCATTATTTTAGGTTATTTCTTATTTGCCTATATTATTATGAA
517 ATCATCTTATGATGTGTATATTTCATTATTTTAGGTTATTTCTTATTTGCCTATATTATTATGAA
*
93527600 TTGTAATATGTTGTAATTTATTACCTTTAGTATATTTGTCTTGTGATATGTATTAACGCCATTCT
582 TTGTAATATGTTGTAATCTATTACCTTTAGTATATTTGTCTTGTGATATGTATTAACGCCATTCT
*
93527665 TCTGCATGAGTCAACGTTTTAAATAAAGAAAT
647 TCTACATGAGTCAACGTTTTAAATAAAGAAAT
93527697 TCATA
1 TCATA
93527702 TTTACCAAAT
Statistics
Matches: 660, Mismatches: 19, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
677 52 0.08
678 74 0.11
679 162 0.25
680 372 0.56
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.55
Consensus pattern (678 bp):
TCATAATGTTAAATGGATTTAAAGATTTTATATATATATTTTTGTGCATATAATCCTTTTAAAAA
AAAAATATTATCTATTATATATTTTTATTCTCTTAAAAAATCTTAATGTTTTATATTATTTATTT
AAAATATTTAACATGTATAATATTTTTAATTGTTTTAATAATAAAAGTTTTTTATATATTTTTTT
AAAATATTTTCCTATGTATATTAAATTGTTATATATTATTATATTCTTTTCTTTTAAAATTTTTT
TACATATATTACTCATTTAAATATGTGAATTATTATATACATATATTTTTTTAAATATTATTATT
ATTTTTTTACCTTTTTATCAATATTGATTTGGTGTTTTAATTATTCGTATTTGTTTTTTAAGTGT
TATTTTGTCACTTTTTATTATTATAAATTTTGATTTCCACTTCTATTTTTTATATTCTTTAATTT
ATTATAAATTGTTTCGTATTTCTATTTACTAACATTGTATATAGGTTTATCTTTTAGCATAATCA
TCTTATGATGTGTATATTTCATTATTTTAGGTTATTTCTTATTTGCCTATATTATTATGAATTGT
AATATGTTGTAATCTATTACCTTTAGTATATTTGTCTTGTGATATGTATTAACGCCATTCTTCTA
CATGAGTCAACGTTTTAAATAAAGAAAT
Found at i:93539269 original size:89 final size:91
Alignment explanation
Indices: 93539067--93539296 Score: 245
Period size: 89 Copynumber: 2.5 Consensus size: 91
93539057 CAGACCAAAG
* * *
93539067 CATAGCAGATCTGGCCTTCACG-TGTTTACACTGAAACAGATCCAAGATAACAAGATTTGGCTTC
1 CATAGCAGATCTGACCTTCA-GATGTTTACACTGAAACAGATCCAAGATAACAAGATCTGGCGTC
* * *
93539131 TCTATCTCCGACGGAGAGCAAATCGAAGA
65 TCCATATCCGACGGAGAGC-AA-CGAACA
* * *
93539160 CATAGCAGATCTGACTTTCAGATGTTTTCACATTAAAGCAGATCCAAGATAAC-AGATCTGGCGT
1 CATAGCAGATCTGACCTTCAGATGTTTACAC-TGAAA-CAGATCCAAGATAACAAGATCTGGCGT
* *
93539224 CTCCATATTCGATGGAGAGC-A-G-ACA
64 CTCCATATCCGACGGAGAGCAACGAACA
* * **
93539249 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
1 CATAGCAGATCTGACCTTCAGATGTTTACACTGAAACAGATCCAAGAT
93539297 GATTTGGCAT
Statistics
Matches: 116, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
87 11 0.09
88 3 0.03
89 29 0.25
90 1 0.01
92 2 0.02
93 26 0.22
94 29 0.25
95 15 0.13
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (91 bp):
CATAGCAGATCTGACCTTCAGATGTTTACACTGAAACAGATCCAAGATAACAAGATCTGGCGTCT
CCATATCCGACGGAGAGCAACGAACA
Found at i:93539353 original size:87 final size:87
Alignment explanation
Indices: 93539248--93539481 Score: 353
Period size: 87 Copynumber: 2.7 Consensus size: 87
93539238 GAGAGCAGAC
* *
93539248 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
93539313 GTTTACAAGAAGCAAATCGAAG
66 GTTTACAAGAAGCAAATCGAAG
*
93539335 ACATAGCAGGTCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
*
93539400 GTTTACAAGGAGCAAATCGAAG
66 GTTTACAAGAAGCAAATCGAAG
* * * ** * *
93539422 ACATAGCAGATTTGGCTTTCATG-TGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATC
1 ACATAGCAGATCTGACCTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATC
93539482 TCTGTATTGT
Statistics
Matches: 134, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
87 133 0.99
88 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (87 bp):
ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
GTTTACAAGAAGCAAATCGAAG
Found at i:93539503 original size:87 final size:86
Alignment explanation
Indices: 93539248--93539521 Score: 290
Period size: 87 Copynumber: 3.2 Consensus size: 86
93539238 GAGAGCAGAC
* ** * * *
93539248 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATTTGGCCTTCAGATGTTTACACTGAAGCAAATCCAAGATGATTTGGCATCCTTGT
*
93539313 GTTTACAAGAAGCAAATCGAAG
66 GTTTACAGGAA-CAAATCGAAG
* * * * *
93539335 ACATAGCAGGTCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATTTGGCCTTCAGATGTTTACACTGAAGCAAATCCAAGATGATTTGGCATCCTTGT
*
93539400 GTTTACAAGGAGCAAATCGAAG
66 GTTTAC-AGGAACAAATCGAAG
* * *
93539422 ACATAGCAGATTTGGCTTTCATG-TGTTTACGCTGAAGCAAATCTAAGATGATTTGGCAT-CTCT
1 ACATAGCAGATTTGGCCTTCA-GATGTTTACACTGAAGCAAATCCAAGATGATTTGGCATCCT-T
* *
93539485 GTATTGT-CAGGGAACAAATTGAAG
64 GTGTT-TACA-GGAACAAATCGAAG
93539509 --A-AGCAGATTTGGC
1 ACATAGCAGATTTGGC
93539522 GTCTCTGTGT
Statistics
Matches: 166, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
84 12 0.07
85 1 0.01
86 3 0.02
87 145 0.87
88 5 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (86 bp):
ACATAGCAGATTTGGCCTTCAGATGTTTACACTGAAGCAAATCCAAGATGATTTGGCATCCTTGT
GTTTACAGGAACAAATCGAAG
Found at i:93541228 original size:26 final size:26
Alignment explanation
Indices: 93541192--93541247 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
93541182 TAGTAAATGC
93541192 TATTTTGAAATTAT-TATTAAGTATTA
1 TATTTTGAAATT-TGTATTAAGTATTA
* **
93541218 TATTTTTAAATTTGTATTATTTATTA
1 TATTTTGAAATTTGTATTAAGTATTA
93541244 TATT
1 TATT
93541248 ATTATATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (26 bp):
TATTTTGAAATTTGTATTAAGTATTA
Found at i:93546580 original size:42 final size:42
Alignment explanation
Indices: 93546533--93546615 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
93546523 AAAGTTGAGA
93546533 TTCAATGTTTGCATTTCTGAAATGAATATGGACTCATTCATT
1 TTCAATGTTTGCATTTCTGAAATGAATATGGACTCATTCATT
93546575 TTCAATGTTTGCATTTCTGAAATGAATATGGACTCATTCAT
1 TTCAATGTTTGCATTTCTGAAATGAATATGGACTCATTCAT
93546616 ACACCATGCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (42 bp):
TTCAATGTTTGCATTTCTGAAATGAATATGGACTCATTCATT
Found at i:93553375 original size:3 final size:3
Alignment explanation
Indices: 93553367--93553392 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
93553357 TAACCATAGC
93553367 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
93553393 CAATTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:93553547 original size:15 final size:15
Alignment explanation
Indices: 93553529--93553557 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93553519 ATATGCATAT
93553529 AATATATACACACAC
1 AATATATACACACAC
93553544 AATATATACACACA
1 AATATATACACACA
93553558 ATTATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (15 bp):
AATATATACACACAC
Found at i:93555077 original size:2 final size:2
Alignment explanation
Indices: 93555070--93555095 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93555060 CAAATACTTC
93555070 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
93555096 CAAATATTTT
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:93575744 original size:28 final size:28
Alignment explanation
Indices: 93575694--93575766 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
93575684 TATATATGTG
* * * *
93575694 GCACTTAGTGCGTGAAATGTTGAGAATA
1 GCACTTAGTGTGCGAGATATTGAGAATA
* * *
93575722 GCACTTGGTGTGCGAGATATTGAGTATG
1 GCACTTAGTGTGCGAGATATTGAGAATA
93575750 GCACTTAGTGTGCGAGA
1 GCACTTAGTGTGCGAGA
93575767 CATCGAAGAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.29
Consensus pattern (28 bp):
GCACTTAGTGTGCGAGATATTGAGAATA
Found at i:93577451 original size:32 final size:32
Alignment explanation
Indices: 93577410--93577513 Score: 183
Period size: 32 Copynumber: 3.3 Consensus size: 32
93577400 TGAGCCATAT
*
93577410 GGGCGTGTGTGACCACACGGCCTAACCCACAC
1 GGGCGTGTGTGACCACATGGCCTAACCCACAC
93577442 GGGCGTGTGTGACCACATGGCCTAACCCACAC
1 GGGCGTGTGTGACCACATGGCCTAACCCACAC
*
93577474 GGGCGTGTGTGACCACATGACCT-ACCCACAC
1 GGGCGTGTGTGACCACATGGCCTAACCCACAC
93577505 GGGCGTGTG
1 GGGCGTGTG
93577514 ACCCTGTTTC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
31 17 0.24
32 53 0.76
ACGTcount: A:0.20, C:0.34, G:0.31, T:0.15
Consensus pattern (32 bp):
GGGCGTGTGTGACCACATGGCCTAACCCACAC
Found at i:93577918 original size:48 final size:47
Alignment explanation
Indices: 93577804--93578018 Score: 195
Period size: 48 Copynumber: 4.5 Consensus size: 47
93577794 CGAGGCTGAC
* * * *
93577804 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCGTGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCAC-CTC-TA-TCGTGCCGAT
* *
93577854 GCCATGTCTCAGACATGGTCTTACACTGGCACCTCTATACGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCACCTCTAT-CGTGCCGAT
* * *
93577902 GCCATGTCCCAGACATGGTCTTACACTGACACATC--TCGTTGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATCG-TGCCGAT
* * * * * * *
93577948 G-CATGTCCCAGACCT-ATCTTACACTGGCTCCTGTCTCAATTCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATC-GTGCCGAT
*
93577994 GCCATGTCCCATACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
93578019 GTGTCTCTCA
Statistics
Matches: 135, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
44 13 0.10
45 15 0.11
46 15 0.11
47 13 0.10
48 48 0.36
49 2 0.01
50 29 0.21
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.29
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATCGTGCCGAT
Done.