Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 71 of 109
Found at i:22890259 original size:132 final size:131
Alignment explanation
Indices: 22889997--22890301 Score: 337
Period size: 132 Copynumber: 2.3 Consensus size: 131
22889987 AGGAGGTGGC
* * * *
22889997 GGTGGTAGCGGAGGTGGCGGCGGCGGAGGTGGTGGCAGTGGAGAAGGGTCTGGATATGGGTCTGG
1 GGTGGTAGCGGA-GTGGCGGAGGTGGAGGTGGTGGCAGTGGAGAAGGGTCGGGATATGGGTCCGG
* * * * ** *
22890062 ATCCGGTTACGGAAGTGGGTCTGGATCCGGATACGGAAGTGGCGTTGGTGGTGGAAACGGTGGAG
65 ATCCGGATACGGAAGTGGGTCTGGATACGGATACGGAAGTGGAGTCGGTGAAGGAAACGGCGGAG
22890127 GA
130 GA
* * *
22890129 GGTGGTGGCGGCAGTGGCGGTGGTGGAGGTGGTGGCAGTGGAGGAGGGTCGGGATATGGGTCCGG
1 GGTGGTAGCGG-AGTGGCGGAGGTGGAGGTGGTGGCAGTGGAGAAGGGTCGGGATATGGGTCCGG
* * *
22890194 ATCCGGATACGGAAGTGGGTCTGGATATGGA-AGTGGAAGTGGTAG-CGGTGAAGGAGGA-GGCG
65 ATCCGGATACGGAAGTGGGTCTGGATACGGATA-CGGAAGTGG-AGTCGGTGAAGGA-AACGGCG
*
22890256 GAGGT
127 GAGGA
* * * *
22890261 GGTGGCAGTGGAAGTGGAGGAGGTGGAGGTGGAGGCAGTGG
1 GGTGGTAGCGG-AGTGGCGGAGGTGGAGGTGGTGGCAGTGG
22890302 TTCGGGCCAA
Statistics
Matches: 145, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
131 1 0.01
132 141 0.97
133 3 0.02
ACGTcount: A:0.18, C:0.10, G:0.53, T:0.18
Consensus pattern (131 bp):
GGTGGTAGCGGAGTGGCGGAGGTGGAGGTGGTGGCAGTGGAGAAGGGTCGGGATATGGGTCCGGA
TCCGGATACGGAAGTGGGTCTGGATACGGATACGGAAGTGGAGTCGGTGAAGGAAACGGCGGAGG
A
Found at i:22890286 original size:15 final size:15
Alignment explanation
Indices: 22890246--22890295 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
22890236 TAGCGGTGAA
*
22890246 GGAGGAGGCGGAGGT
1 GGAGGAGGTGGAGGT
* *
22890261 GGTGGCA-GTGGAAGT
1 GGAGG-AGGTGGAGGT
22890276 GGAGGAGGTGGAGGT
1 GGAGGAGGTGGAGGT
22890291 GGAGG
1 GGAGG
22890296 CAGTGGTTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.64, T:0.12
Consensus pattern (15 bp):
GGAGGAGGTGGAGGT
Found at i:22890301 original size:15 final size:15
Alignment explanation
Indices: 22890255--22890301 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
22890245 AGGAGGAGGC
*
22890255 GGAGGTGGTGGCAGT
1 GGAGGTGGAGGCAGT
*
22890270 GGAAGTGGAGG-AGGT
1 GGAGGTGGAGGCA-GT
22890285 GGAGGTGGAGGCAGT
1 GGAGGTGGAGGCAGT
22890300 GG
1 GG
22890302 TTCGGGCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 25 0.93
16 1 0.04
ACGTcount: A:0.19, C:0.04, G:0.62, T:0.15
Consensus pattern (15 bp):
GGAGGTGGAGGCAGT
Found at i:22890785 original size:22 final size:20
Alignment explanation
Indices: 22890749--22890807 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
22890739 GGCCTGGCCT
22890749 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
22890771 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
22890792 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
22890808 TTTTTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:22890855 original size:17 final size:17
Alignment explanation
Indices: 22890814--22890855 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
22890804 AATATTTTTT
*
22890814 AAATATTTTAAAATTAA
1 AAATATTTTAAAAATAA
*
22890831 AAAAATTTTAAAAATAA
1 AAATATTTTAAAAATAA
*
22890848 ATATATTT
1 AAATATTT
22890856 ATTATATCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATATTTTAAAAATAA
Found at i:22892357 original size:913 final size:913
Alignment explanation
Indices: 22890875--22892701 Score: 3654
Period size: 913 Copynumber: 2.0 Consensus size: 913
22890865 TGTCGGGCCG
22890875 GGCCGGGCCGCCTAGCCCATGAGCACCTCTAATGCTTTACCATCTTGACAAAAAAATTTATATTT
1 GGCCGGGCCGCCTAGCCCATGAGCACCTCTAATGCTTTACCATCTTGACAAAAAAATTTATATTT
22890940 TTAGTAGGAGATTAATTGATCTAGATTTATAAATCAATGTATTTTGTGTGTGTCTGTGCGCATTT
66 TTAGTAGGAGATTAATTGATCTAGATTTATAAATCAATGTATTTTGTGTGTGTCTGTGCGCATTT
22891005 TCTCATGTCATATTTGTGCTTATATTATTTTACATTTGTTAAAGTTTGAGAAATTAATAATATTC
131 TCTCATGTCATATTTGTGCTTATATTATTTTACATTTGTTAAAGTTTGAGAAATTAATAATATTC
22891070 CGCTATAAAGTTTTTGACATGTTTATGTATCCATGTCATGTATTCATTTTTTTTACTCTCTTCGT
196 CGCTATAAAGTTTTTGACATGTTTATGTATCCATGTCATGTATTCATTTTTTTTACTCTCTTCGT
22891135 CTCGTGTTTTTCGTGTATTTTAGTGTAATGTTCGTGTATTTGGTTTGTTTAAAATCGCTTGTTGC
261 CTCGTGTTTTTCGTGTATTTTAGTGTAATGTTCGTGTATTTGGTTTGTTTAAAATCGCTTGTTGC
22891200 AAAAGAAAAATTGCAATATAATAATCTCTTCATCTCTTTATTTTTTAGGGTAAACAACAGAACTA
326 AAAAGAAAAATTGCAATATAATAATCTCTTCATCTCTTTATTTTTTAGGGTAAACAACAGAACTA
22891265 GTCACTAAACTATTAGCATGTTTCTTTTTTGGTCACCCAATTATGAAAATTTTCAATTTAGTCAC
391 GTCACTAAACTATTAGCATGTTTCTTTTTTGGTCACCCAATTATGAAAATTTTCAATTTAGTCAC
22891330 TAACATTTTAGATCATTTCTATTTTGGTCACTCACATTTTATATCGTTTTTGTTTTTGCCACAGC
456 TAACATTTTAGATCATTTCTATTTTGGTCACTCACATTTTATATCGTTTTTGTTTTTGCCACAGC
22891395 CGTTAAATGGTTAAAGGAAGTGATAATGTGGCTATTTTTCTAATTGGTATATAACACATTAAGTC
521 CGTTAAATGGTTAAAGGAAGTGATAATGTGGCTATTTTTCTAATTGGTATATAACACATTAAGTC
22891460 CTTAATACTTGCACATTCTATCAATTTGATCCTAATTCTAAATAATTCAATAAAGTTGATCATCC
586 CTTAATACTTGCACATTCTATCAATTTGATCCTAATTCTAAATAATTCAATAAAGTTGATCATCC
22891525 ACATTTACGAATTCTATCAATTTGATCCTCAAGCGTATATAATTAAATATAATTATATTTAAGCA
651 ACATTTACGAATTCTATCAATTTGATCCTCAAGCGTATATAATTAAATATAATTATATTTAAGCA
22891590 CATATAATTAAATCTTGAGTCTCATATTCAGTGTAGATATCTTTTTCTCCTTGTCGGTAGATTAT
716 CATATAATTAAATCTTGAGTCTCATATTCAGTGTAGATATCTTTTTCTCCTTGTCGGTAGATTAT
22891655 TAGATGCAACGAAGAAGATGGAACAAAGATTTGCGAGAGAAAAACTAAAACTGAGTGAAGGAAAG
781 TAGATGCAACGAAGAAGATGGAACAAAGATTTGCGAGAGAAAAACTAAAACTGAGTGAAGGAAAG
22891720 TAAGAAGTGCAGATATTGAACTGAAATACTGATAATTTCACTTATAATTTTTAAGAAAAGCGTAG
846 TAAGAAGTGCAGATATTGAACTGAAATACTGATAATTTCACTTATAATTTTTAAGAAAAGCGTAG
22891785 ATT
911 ATT
22891788 GGCCGGGCCGCCTAGCCCATGAGCACCTCTAATGCTTTACCATCTTGACAAAAAAATTTATATTT
1 GGCCGGGCCGCCTAGCCCATGAGCACCTCTAATGCTTTACCATCTTGACAAAAAAATTTATATTT
22891853 TTAGTAGGAGATTAATTGATCTAGATTTATAAATCAATGTATTTTGTGTGTGTCTGTGCGCATTT
66 TTAGTAGGAGATTAATTGATCTAGATTTATAAATCAATGTATTTTGTGTGTGTCTGTGCGCATTT
22891918 TCTCATGTCATATTTGTGCTTATATTATTTTACATTTGTTAAAGTTTGAGAAATTAATAATATTC
131 TCTCATGTCATATTTGTGCTTATATTATTTTACATTTGTTAAAGTTTGAGAAATTAATAATATTC
22891983 CGCTATAAAGTTTTTGACATGTTTATGTATCCATGTCATGTATTCATTTTTTTTACTCTCTTCGT
196 CGCTATAAAGTTTTTGACATGTTTATGTATCCATGTCATGTATTCATTTTTTTTACTCTCTTCGT
22892048 CTCGTGTTTTTCGTGTATTTTAGTGTAATGTTCGTGTATTTGGTTTGTTTAAAATCGCTTGTTGC
261 CTCGTGTTTTTCGTGTATTTTAGTGTAATGTTCGTGTATTTGGTTTGTTTAAAATCGCTTGTTGC
22892113 AAAAGAAAAATTGCAATATAATAATCTCTTCATCTCTTTATTTTTTAGGGTAAACAACAGAACTA
326 AAAAGAAAAATTGCAATATAATAATCTCTTCATCTCTTTATTTTTTAGGGTAAACAACAGAACTA
22892178 GTCACTAAACTATTAGCATGTTTCTTTTTTGGTCACCCAATTATGAAAATTTTCAATTTAGTCAC
391 GTCACTAAACTATTAGCATGTTTCTTTTTTGGTCACCCAATTATGAAAATTTTCAATTTAGTCAC
22892243 TAACATTTTAGATCATTTCTATTTTGGTCACTCACATTTTATATCGTTTTTGTTTTTGCCACAGC
456 TAACATTTTAGATCATTTCTATTTTGGTCACTCACATTTTATATCGTTTTTGTTTTTGCCACAGC
22892308 CGTTAAATGGTTAAAGGAAGTGATAATGTGGCTATTTTTCTAATTGGTATATAACACATTAAGTC
521 CGTTAAATGGTTAAAGGAAGTGATAATGTGGCTATTTTTCTAATTGGTATATAACACATTAAGTC
22892373 CTTAATACTTGCACATTCTATCAATTTGATCCTAATTCTAAATAATTCAATAAAGTTGATCATCC
586 CTTAATACTTGCACATTCTATCAATTTGATCCTAATTCTAAATAATTCAATAAAGTTGATCATCC
22892438 ACATTTACGAATTCTATCAATTTGATCCTCAAGCGTATATAATTAAATATAATTATATTTAAGCA
651 ACATTTACGAATTCTATCAATTTGATCCTCAAGCGTATATAATTAAATATAATTATATTTAAGCA
22892503 CATATAATTAAATCTTGAGTCTCATATTCAGTGTAGATATCTTTTTCTCCTTGTCGGTAGATTAT
716 CATATAATTAAATCTTGAGTCTCATATTCAGTGTAGATATCTTTTTCTCCTTGTCGGTAGATTAT
22892568 TAGATGCAACGAAGAAGATGGAACAAAGATTTGCGAGAGAAAAACTAAAACTGAGTGAAGGAAAG
781 TAGATGCAACGAAGAAGATGGAACAAAGATTTGCGAGAGAAAAACTAAAACTGAGTGAAGGAAAG
22892633 TAAGAAGTGCAGATATTGAACTGAAATACTGATAATTTCACTTATAATTTTTAAGAAAAGCGTAG
846 TAAGAAGTGCAGATATTGAACTGAAATACTGATAATTTCACTTATAATTTTTAAGAAAAGCGTAG
22892698 ATT
911 ATT
22892701 G
1 G
22892702 ATCTTCAGAA
Statistics
Matches: 914, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
913 914 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (913 bp):
GGCCGGGCCGCCTAGCCCATGAGCACCTCTAATGCTTTACCATCTTGACAAAAAAATTTATATTT
TTAGTAGGAGATTAATTGATCTAGATTTATAAATCAATGTATTTTGTGTGTGTCTGTGCGCATTT
TCTCATGTCATATTTGTGCTTATATTATTTTACATTTGTTAAAGTTTGAGAAATTAATAATATTC
CGCTATAAAGTTTTTGACATGTTTATGTATCCATGTCATGTATTCATTTTTTTTACTCTCTTCGT
CTCGTGTTTTTCGTGTATTTTAGTGTAATGTTCGTGTATTTGGTTTGTTTAAAATCGCTTGTTGC
AAAAGAAAAATTGCAATATAATAATCTCTTCATCTCTTTATTTTTTAGGGTAAACAACAGAACTA
GTCACTAAACTATTAGCATGTTTCTTTTTTGGTCACCCAATTATGAAAATTTTCAATTTAGTCAC
TAACATTTTAGATCATTTCTATTTTGGTCACTCACATTTTATATCGTTTTTGTTTTTGCCACAGC
CGTTAAATGGTTAAAGGAAGTGATAATGTGGCTATTTTTCTAATTGGTATATAACACATTAAGTC
CTTAATACTTGCACATTCTATCAATTTGATCCTAATTCTAAATAATTCAATAAAGTTGATCATCC
ACATTTACGAATTCTATCAATTTGATCCTCAAGCGTATATAATTAAATATAATTATATTTAAGCA
CATATAATTAAATCTTGAGTCTCATATTCAGTGTAGATATCTTTTTCTCCTTGTCGGTAGATTAT
TAGATGCAACGAAGAAGATGGAACAAAGATTTGCGAGAGAAAAACTAAAACTGAGTGAAGGAAAG
TAAGAAGTGCAGATATTGAACTGAAATACTGATAATTTCACTTATAATTTTTAAGAAAAGCGTAG
ATT
Found at i:22893076 original size:24 final size:24
Alignment explanation
Indices: 22893031--22893081 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
22893021 AAACTATCAA
*
22893031 AATTTTTAAAATTTTCACTTTTTT
1 AATTTTTAAAATTTTCACTTTTAT
* *
22893055 AATTTTTAATATTTAT-ATTTTTAT
1 AATTTTTAAAATTT-TCACTTTTAT
22893079 AAT
1 AAT
22893082 GCCACGTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (24 bp):
AATTTTTAAAATTTTCACTTTTAT
Found at i:22899771 original size:4 final size:4
Alignment explanation
Indices: 22899762--22899811 Score: 82
Period size: 4 Copynumber: 12.5 Consensus size: 4
22899752 GTAATAGTTG
* *
22899762 CATA CATA CATA CATA CATG CATA CATA CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
22899810 CA
1 CA
22899812 CACACACACA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:22899785 original size:20 final size:20
Alignment explanation
Indices: 22899760--22899811 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
22899750 GAGTAATAGT
22899760 TGCATACATACATACATACA
1 TGCATACATACATACATACA
22899780 TGCATACATACATACATACA
1 TGCATACATACATACATACA
22899800 TGCATACATACA
1 TGCATACATACA
22899812 CACACACACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (20 bp):
TGCATACATACATACATACA
Found at i:22908305 original size:36 final size:36
Alignment explanation
Indices: 22908254--22908327 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
22908244 CCAGTTCCAG
*
22908254 TCCCTACAGAGTGAAAAGTCCTCACTTCTGGTTCTT
1 TCCCTACAGAATGAAAAGTCCTCACTTCTGGTTCTT
*
22908290 TCCCTATAGAATGAAAAGTCCTCACTTCTGGTTCTT
1 TCCCTACAGAATGAAAAGTCCTCACTTCTGGTTCTT
22908326 TC
1 TC
22908328 TTCTTCTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (36 bp):
TCCCTACAGAATGAAAAGTCCTCACTTCTGGTTCTT
Found at i:22908472 original size:54 final size:54
Alignment explanation
Indices: 22908387--22908492 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
22908377 TGTTGACGTT
*
22908387 GTTGATCTCCTGAAATGGAGTTTCCTGGAACTGGGATTCTT-GAACACGTCCACC
1 GTTGATCTCCTGAAACGGAGTTTCCTGGAACTGGGATTCTTGGAA-ACGTCCACC
* *
22908441 GTTGATCTCCTGAAACGGAGTTTCGTTGAACTGGGATTCTTGGAAACGTCCA
1 GTTGATCTCCTGAAACGGAGTTTCCTGGAACTGGGATTCTTGGAAACGTCCA
22908493 GTCTCTTCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
54 45 0.94
55 3 0.06
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (54 bp):
GTTGATCTCCTGAAACGGAGTTTCCTGGAACTGGGATTCTTGGAAACGTCCACC
Found at i:22914109 original size:152 final size:153
Alignment explanation
Indices: 22913929--22914238 Score: 613
Period size: 152 Copynumber: 2.0 Consensus size: 153
22913919 AGTTTTTATA
22913929 TTTCACAAATAAATTTTATTATTAAAATAAATAAATATTTAAAAAAACATAAAATATTTTTTAAG
1 TTTCACAAATAAATTTTATTATTAAAATAAATAAATATTTAAAAAAACATAAAATATTTTTTAAG
22913994 ATTATTTGTAAAATAAAAAAATTACTATCAACTAATCCTTCCTATAATGTTAATTATTGGATATT
66 ATTATTTGTAAAATAAAAAAATTACTATCAACTAATCCTTCCTATAATGTTAATTATTGGATATT
22914059 TTTCGGTAGCCAATTGATGCTGT
131 TTTCGGTAGCCAATTGATGCTGT
22914082 TTTCACAAAT-AATTTTATTATTAAAATAAATAAATATTTAAAAAAACATAAAATATTTTTTAAG
1 TTTCACAAATAAATTTTATTATTAAAATAAATAAATATTTAAAAAAACATAAAATATTTTTTAAG
22914146 ATTATTTGTAAAATAAAAAAATTACTATCAACTAATCCTTCCTATAATGTTAATTATTGGATATT
66 ATTATTTGTAAAATAAAAAAATTACTATCAACTAATCCTTCCTATAATGTTAATTATTGGATATT
22914211 TTTCGGTAGCCAATTGATGCTGT
131 TTTCGGTAGCCAATTGATGCTGT
22914234 TTTCA
1 TTTCA
22914239 ACATTTTGAG
Statistics
Matches: 157, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
152 147 0.94
153 10 0.06
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (153 bp):
TTTCACAAATAAATTTTATTATTAAAATAAATAAATATTTAAAAAAACATAAAATATTTTTTAAG
ATTATTTGTAAAATAAAAAAATTACTATCAACTAATCCTTCCTATAATGTTAATTATTGGATATT
TTTCGGTAGCCAATTGATGCTGT
Found at i:22920612 original size:17 final size:17
Alignment explanation
Indices: 22920590--22920624 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22920580 AAAACCCTTA
22920590 ATAATAGAGAAGAGAAG
1 ATAATAGAGAAGAGAAG
22920607 ATAATAGAGAAGAGAAG
1 ATAATAGAGAAGAGAAG
22920624 A
1 A
22920625 AGAAAAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (17 bp):
ATAATAGAGAAGAGAAG
Found at i:22921709 original size:19 final size:19
Alignment explanation
Indices: 22921685--22921724 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22921675 CTCCTCCTCA
22921685 TTTTCTCCTTCTTTTTCTC
1 TTTTCTCCTTCTTTTTCTC
** *
22921704 TTTTCTTTTTTTTTTTCTC
1 TTTTCTCCTTCTTTTTCTC
22921723 TT
1 TT
22921725 CTTAAGCCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTCCTTCTTTTTCTC
Found at i:22924288 original size:126 final size:125
Alignment explanation
Indices: 22924046--22924335 Score: 420
Period size: 126 Copynumber: 2.3 Consensus size: 125
22924036 TTGTTAATTT
* * * * *
22924046 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTCAGAAAATAATTTTGAGTAAAG
1 AAAGAAACTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTCAAAAAATAATTTCGAATAAAG
* *
22924111 TTTTTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGTTTTGTCAGCAGAAGTACTGA
66 TTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTA-TGA
** * * *
22924172 AAA-AAGTTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAATAGAC
1 AAAGAAACTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTCAAAAAATAATTTCGAATA-AA
* *
22924236 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAGAAGTATTA
65 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATGA
*
22924297 AAAGAAACTCCCACGTGAACGCGCTTTTGCTACAGTAGC
1 AAAGAAACTCCCACGTGGACGCGCTTTTGCTACAGTAGC
22924336 GCATGGCCTG
Statistics
Matches: 146, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
125 56 0.38
126 90 0.62
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (125 bp):
AAAGAAACTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTCAAAAAATAATTTCGAATAAAG
TTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATGA
Found at i:22928244 original size:15 final size:14
Alignment explanation
Indices: 22928224--22928267 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
22928214 TATATTTTAA
*
22928224 TAATTTAATGATTTT
1 TAATTT-ATAATTTT
*
22928239 TAATTTTTAATTTT
1 TAATTTATAATTTT
*
22928253 TAATTTTTAATTTT
1 TAATTTATAATTTT
22928267 T
1 T
22928268 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 21 0.78
15 6 0.22
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (14 bp):
TAATTTATAATTTT
Found at i:22928246 original size:7 final size:7
Alignment explanation
Indices: 22928234--22928267 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
22928224 TAATTTAATG
22928234 ATTTTTA
1 ATTTTTA
22928241 ATTTTTA
1 ATTTTTA
22928248 ATTTTTA
1 ATTTTTA
22928255 ATTTTTA
1 ATTTTTA
22928262 ATTTTT
1 ATTTTT
22928268 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTA
Found at i:22928870 original size:17 final size:18
Alignment explanation
Indices: 22928836--22928870 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22928826 ACCGGCGGTC
22928836 CAATAATTGTTTAAATTT
1 CAATAATTGTTTAAATTT
*
22928854 CAATAATT-TTTATATTT
1 CAATAATTGTTTAAATTT
22928871 TTATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (18 bp):
CAATAATTGTTTAAATTT
Found at i:22928880 original size:20 final size:20
Alignment explanation
Indices: 22928855--22928892 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22928845 TTTAAATTTC
*
22928855 AATAATTTTTATATTTTTAT
1 AATAATTTTAATATTTTTAT
22928875 AATAATTTTAATATTTTT
1 AATAATTTTAATATTTTT
22928893 TTGTCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
AATAATTTTAATATTTTTAT
Found at i:22935099 original size:30 final size:30
Alignment explanation
Indices: 22935020--22935091 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
22935010 TATATTTCAA
22935020 CCCTAAACTTT-TTGAAATTACATTTTGAC
1 CCCTAAACTTTCTTGAAATTACATTTTGAC
*
22935049 CCCTTAACTTTCTTGAAATTACATTTTGAC
1 CCCTAAACTTTCTTGAAATTACATTTTGAC
22935079 CCCTAAACTTTCT
1 CCCTAAACTTTCT
22935092 CAAAATTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 10 0.25
30 30 0.75
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (30 bp):
CCCTAAACTTTCTTGAAATTACATTTTGAC
Found at i:22935418 original size:3 final size:3
Alignment explanation
Indices: 22935410--22935459 Score: 57
Period size: 3 Copynumber: 16.0 Consensus size: 3
22935400 GCTAGACTTT
*
22935410 GAA GAA GAA GAA GGAA GAA GAAA GAA GAA -AA GAG GAA GAA GAA GGAA
1 GAA GAA GAA GAA -GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA -GAA
22935457 GAA
1 GAA
22935460 AAAAAAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 2 0.05
3 30 0.73
4 9 0.22
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22935428 original size:10 final size:10
Alignment explanation
Indices: 22935413--22935459 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
22935403 AGACTTTGAA
22935413 GAAGAAGAAG
1 GAAGAAGAAG
*
22935423 GAAGAAGAAA
1 GAAGAAGAAG
*
22935433 GAAGAAAAGAG
1 GAAGAAGA-AG
22935444 GAAGAAGAAG
1 GAAGAAGAAG
22935454 GAAGAA
1 GAAGAA
22935460 AAAAAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 24 0.75
11 8 0.25
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:22935469 original size:21 final size:21
Alignment explanation
Indices: 22935424--22935477 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
22935414 AAGAAGAAGG
* **
22935424 AAGAAGAAAGAAGAAAAGAGG
1 AAGAAGAAAGAAGAAAAAAAA
*
22935445 AAGAAGAAGGAAGAAAAAAAA
1 AAGAAGAAAGAAGAAAAAAAA
*
22935466 AAGAAAAAAGAA
1 AAGAAGAAAGAA
22935478 ATTTTTTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
AAGAAGAAAGAAGAAAAAAAA
Found at i:22935610 original size:22 final size:22
Alignment explanation
Indices: 22935562--22935611 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
22935552 CCAACAGTAG
22935562 CAAAGAGCAGCCCCAAAAAAAAC
1 CAAAGAGCAG-CCCAAAAAAAAC
*
22935585 CAAAGAGCAG-CCAAAAAATAAT
1 CAAAGAGCAGCCCAAAAAA-AAC
22935607 CAAAG
1 CAAAG
22935612 CAGAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 8 0.32
22 7 0.28
23 10 0.40
ACGTcount: A:0.58, C:0.24, G:0.14, T:0.04
Consensus pattern (22 bp):
CAAAGAGCAGCCCAAAAAAAAC
Found at i:22936108 original size:15 final size:16
Alignment explanation
Indices: 22936078--22936110 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22936068 AAAATATTCA
*
22936078 AAATTCCTCGTTTTTT
1 AAATTCCTCGTGTTTT
22936094 AAATT-CTCGTGTTTT
1 AAATTCCTCGTGTTTT
22936109 AA
1 AA
22936111 TAGAGTCACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (16 bp):
AAATTCCTCGTGTTTT
Found at i:22936291 original size:17 final size:17
Alignment explanation
Indices: 22936269--22936373 Score: 75
Period size: 17 Copynumber: 5.8 Consensus size: 17
22936259 AATTTTTTTC
*
22936269 CCGTGTTTCATAAATTT
1 CCGTGTTTCAAAAATTT
*
22936286 CCGTGTTTCCAAGAAATTC
1 CCGTGTTT-CAA-AAATTT
* *
22936305 CCGTCTTTTAAAAATTT
1 CCGTGTTTCAAAAATTT
* * *
22936322 TCTTGTTTTCAAGAAAATTGA
1 CCGTG-TTTC-A-AAAATT-T
*
22936343 CCGTGTTTCATAAATTT
1 CCGTGTTTCAAAAATTT
*
22936360 TCGTGTTTCAAAAA
1 CCGTGTTTCAAAAA
22936374 ATCCTCGTGT
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
17 27 0.41
18 12 0.18
19 14 0.21
20 10 0.15
21 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (17 bp):
CCGTGTTTCAAAAATTT
Found at i:22936308 original size:19 final size:17
Alignment explanation
Indices: 22936266--22936386 Score: 53
Period size: 17 Copynumber: 6.7 Consensus size: 17
22936256 AAAAATTTTT
*
22936266 TTCCCGTGTTTCATAAA
1 TTCCCGTGTTTCAGAAA
*
22936283 TTTCCGTGTTTCCAAGAAA
1 TTCCCGTGTTT-C-AGAAA
* * *
22936302 TTCCCGTCTTTTAAAAA
1 TTCCCGTGTTTCAGAAA
** *
22936319 TTTTCTTGTTTTCAAGAAAA
1 TTCCCGTG-TTTC-AG-AAA
* *
22936339 TTGACCGTGTTTCATAAA
1 TT-CCCGTGTTTCAGAAA
** *
22936357 TTTTCGTGTTTCAAAAA
1 TTCCCGTGTTTCAGAAA
*
22936374 ATCCTCGTGTTTC
1 TTCC-CGTGTTTC
22936387 GTATTTTATC
Statistics
Matches: 75, Mismatches: 22, Indels: 13
0.68 0.20 0.12
Matches are distributed among these distances:
17 31 0.41
18 17 0.23
19 15 0.20
20 9 0.12
21 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (17 bp):
TTCCCGTGTTTCAGAAA
Found at i:22936320 original size:36 final size:36
Alignment explanation
Indices: 22936266--22936368 Score: 98
Period size: 36 Copynumber: 2.8 Consensus size: 36
22936256 AAAAATTTTT
* *
22936266 TTCCCGTGTTTCATAAATTTCCGTGTTTCCAAGAAA
1 TTCCCGTCTTTCAAAAATTTCCGTGTTTCCAAGAAA
* * * *
22936302 TTCCCGTCTTTTAAAAATTTTCTTGTTTTCAAGAAAA
1 TTCCCGTCTTTCAAAAATTTCCGTGTTTCCAAG-AAA
* * * *
22936339 TTGACCGTGTTTCATAAATTTTCGTGTTTC
1 TT-CCCGTCTTTCAAAAATTTCCGTGTTTC
22936369 AAAAAATCCT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 27 0.51
37 5 0.09
38 21 0.40
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (36 bp):
TTCCCGTCTTTCAAAAATTTCCGTGTTTCCAAGAAA
Found at i:22936466 original size:20 final size:19
Alignment explanation
Indices: 22936441--22936494 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 19
22936431 CTTAAAAATT
22936441 TTCGTGTTTCAAAAAGAAAA
1 TTCGTGTTTCAAAAA-AAAA
*
22936461 TTCGTGTTTTAAAAAAAAA
1 TTCGTGTTTCAAAAAAAAA
22936480 TCTCGTGTTTCAAAA
1 T-TCGTGTTTCAAAA
22936495 TTTGCGTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (19 bp):
TTCGTGTTTCAAAAAAAAA
Found at i:22936546 original size:36 final size:34
Alignment explanation
Indices: 22936457--22936566 Score: 116
Period size: 37 Copynumber: 3.1 Consensus size: 34
22936447 TTTCAAAAAG
22936457 AAAATTCGTGTTTTAAAAAAAAATCTCGTGTTTC
1 AAAATTCGTGTTTTAAAAAAAAATCTCGTGTTTC
* * *
22936491 AAAATTTGCGTGTTCTTAAAAAAAAGTTTTGTGTTTC
1 AAAA-TT-CGTGTT-TTAAAAAAAAATCTCGTGTTTC
*
22936528 TAAAATTCTTGTATTTAAAAAAAAAT-T-GTGTTTTC
1 -AAAATTCGTGT-TTTAAAAAAAAATCTCGTG-TTTC
22936563 AAAA
1 AAAA
22936567 AAAAAGAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
34 11 0.17
35 7 0.11
36 21 0.32
37 22 0.34
38 4 0.06
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (34 bp):
AAAATTCGTGTTTTAAAAAAAAATCTCGTGTTTC
Found at i:22940533 original size:16 final size:16
Alignment explanation
Indices: 22940507--22940550 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
22940497 TTTTGGTATT
22940507 TTTTATATTTTTTAAAA
1 TTTTATA-TTTTTAAAA
22940524 TTTT-TATTTTTAAAA
1 TTTTATATTTTTAAAA
* *
22940539 TTCTATGTTTTT
1 TTTTATATTTTT
22940551 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 8 0.33
17 4 0.17
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTTATATTTTTAAAA
Found at i:22944897 original size:25 final size:25
Alignment explanation
Indices: 22944851--22944898 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22944841 CGTTATCCTA
*
22944851 ATTTTATTCACAATTTCGTGGTTAT
1 ATTTTATTCACAATTTCATGGTTAT
* *
22944876 ATTTTGTTCACAATTTTATGGTT
1 ATTTTATTCACAATTTCATGGTT
22944899 GTCTGTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.54
Consensus pattern (25 bp):
ATTTTATTCACAATTTCATGGTTAT
Found at i:22947289 original size:24 final size:23
Alignment explanation
Indices: 22947252--22947301 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 23
22947242 AGCCAAAGAA
22947252 AGAAGAAGAAGAAAACA-AGGAAG
1 AGAAGAAGAAGAAAA-AGAGGAAG
22947275 AGAAGAAAGAAGAAAAAGAGGAAG
1 AGAAG-AAGAAGAAAAAGAGGAAG
22947299 AGA
1 AGA
22947302 CACCTGCTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (23 bp):
AGAAGAAGAAGAAAAAGAGGAAG
Found at i:22952986 original size:33 final size:33
Alignment explanation
Indices: 22952944--22953009 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
22952934 TGGCTTTCTT
22952944 TATGCCAATATTACCTATTTTGTAAGATATAAA
1 TATGCCAATATTACCTATTTTGTAAGATATAAA
22952977 TATGCCAATATTACCTATTTTGTAAGATATAAA
1 TATGCCAATATTACCTATTTTGTAAGATATAAA
22953010 AAACATACCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (33 bp):
TATGCCAATATTACCTATTTTGTAAGATATAAA
Found at i:22959654 original size:40 final size:37
Alignment explanation
Indices: 22959563--22959641 Score: 86
Period size: 40 Copynumber: 2.0 Consensus size: 37
22959553 TGGCGTTTGG
* *
22959563 ATGACAAACGCCGCTAAAAATCGAGTATTAGCGGTGCA
1 ATGA-AAACGCCGCTAAAAATCGAGAATTAGCGGCGCA
* *
22959601 ATGAACTAGACGCCGCTAAAGATCTAGAATTAGCGGCGCA
1 ATGAA--A-ACGCCGCTAAAAATCGAGAATTAGCGGCGCA
22959641 A
1 A
22959642 CCTAGAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
37 1 0.03
38 4 0.12
39 1 0.03
40 28 0.82
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (37 bp):
ATGAAAACGCCGCTAAAAATCGAGAATTAGCGGCGCA
Found at i:22960110 original size:228 final size:229
Alignment explanation
Indices: 22959710--22960499 Score: 925
Period size: 228 Copynumber: 3.5 Consensus size: 229
22959700 AAAGAACATC
* * *
22959710 ATTAGCGGCG-TTTACAACAAAGCGCCGCAAAATCTCTTAACCAAAACGCAGCGTTTTC-GTCTT
1 ATTAGCGGCGCTTTGCAA-AAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTCGGTCTT
* * * *
22959773 GATGTATACAAGAATTAGTGGTGCTTA-GGAGAAAACGCCGCTAAAGC-G-T--T-TTAGCGGCG
64 GAGGTATACTAGAATTAGTGGCGCTTATAG-GAAAACGCCGC-AAA-CAGATAATATTAGCGGCG
* * * * * *
22959832 TTTTGTGAGATGCGCTGCAAAATATCTTAACCAAAACGCATCGTTTTTGGTGTTGATGTATCCTA
126 CTTT-TGAAAAGCGCTGCAAAATATCTTAACCAAAACGCATC-ATTTTGGTATTGATGTATACTA
*
22959897 GAATTAGTGGCGCTTACCGGAAAACGCCGCTAACGCATAGT
189 GAATTAGTGGCGCTTACCGGAAAACGCCGCTAAAGCATAGT
*
22959938 ATTAGCGGCGCTTTGCAAAAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAG-TTCGGTCTTGA
1 ATTAGCGGCGCTTTGCAAAAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTCGGTCTTGA
**
22960002 GGTATGTTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAAACAGATAATATTAGCGGCGCTTTT
66 GGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAAACAGATAATATTAGCGGCGCTTTT
*
22960067 GAAAAGCGCCGCAAAATAT-TTGAACCAAAACGCATCATTTTGGTATTGATGTATACTAGAATTA
131 GAAAAGCGCTGCAAAATATCTT-AACCAAAACGCATCATTTTGGTATTGATGTATACTAGAATTA
*
22960131 GTGGCGTTTA-CGGTAAAACGCCGCTAAAGCATAGT
195 GTGGCGCTTACCGG-AAAACGCCGCTAAAGCATAGT
* * * * *
22960166 ATTAGCGGCGATTCTTTGC---TAGCGCCGCAAAATATCCTAACTAAAACGCAGCGTTTTGGTCT
1 ATTAGCGGCG---CTTTGCAAAAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTCGGTCT
* * ** * * *
22960228 TGATGTATACTAAAATTAGTGGCGCTTACGGGGAACCGCCGCTAA-AGA-ACAGTATTAGCGGCG
63 TGAGGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAAACAGATA-A-TATTAGCGGCG
* * ** *
22960291 CTTACTGAAAAGCGCTGCAAAATATCTTAAACAAAACGCAT-AGTTTTAATCTTGATGTATACTA
126 CTT-TTGAAAAGCGCTGCAAAATATCTTAACCAAAACGCATCA-TTTTGGTATTGATGTATACTA
** * *
22960355 GAATTAGTGGCGCTTACTAGAAAACGCCGTTAAATCATAGT
189 GAATTAGTGGCGCTTACCGGAAAACGCCGCTAAAGCATAGT
*
22960396 ATTAGCGGCGCTTTGCAAAAAGCGCCGCAACATATCTTAA-CAAAACGCAGAGTTT-GGTCTTGA
1 ATTAGCGGCGCTTTGCAAAAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTCGGTCTTGA
*
22960459 GGTATGCTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAA
66 GGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAA
22960500 CTGGATAGTG
Statistics
Matches: 481, Mismatches: 58, Indels: 46
0.82 0.10 0.08
Matches are distributed among these distances:
225 1 0.00
226 7 0.01
227 49 0.10
228 183 0.38
229 109 0.23
230 123 0.26
231 9 0.02
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (229 bp):
ATTAGCGGCGCTTTGCAAAAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTCGGTCTTGA
GGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAAACAGATAATATTAGCGGCGCTTTT
GAAAAGCGCTGCAAAATATCTTAACCAAAACGCATCATTTTGGTATTGATGTATACTAGAATTAG
TGGCGCTTACCGGAAAACGCCGCTAAAGCATAGT
Found at i:22960231 original size:115 final size:113
Alignment explanation
Indices: 22959728--22960587 Score: 786
Period size: 115 Copynumber: 7.7 Consensus size: 113
22959718 CGTTTACAAC
* * *
22959728 AAAGCGCCGCAAAATCTCTTAACCAAAACGCAGCGTTTTCGTCTTGATGTATACAAGAATTAGTG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTG
* * *
22959793 GTGCTTAGGAGAAAACGCCGCTAAAGC---GTTTTAGCGGCGTT-TTGTG
66 GCGCTTACG-GAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTT-TG
* * * * *
22959839 AGATGCGCTGCAAAATATCTTAACCAAAACGCATCGTTTTTGGTGTTGATGTATCCTAGAATTAG
1 A-AAGCGCCGCAAAATATCTTAACCAAAACGCAGCG-TTTTGGTCTTGATGTATACTAGAATTAG
*
22959904 TGGCGCTTACCGGAAAACGCCGCTAACGCATAGTATTAGCGGCG--CTTTG
64 TGGCGCTTA-CGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTTTG
* * * * **
22959953 CAAAAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAG-TTCGGTCTTGAGGTATGTTAGAATTA
1 ---AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTA
* * * *
22960017 GTGGCGCTTATAGGAAAACGCCGCAAACAG-ATAATATTAGCGGCGCT-TTTG
63 GTGGCGCTTA-CGGAAAACGCCGCTAA-AGCATAGTATTAGCGGCGTTCTTTG
* * *
22960068 AAAAGCGCCGCAAAATAT-TTGAACCAAAACGCATCATTTTGGTATTGATGTATACTAGAATTAG
1 -AAAGCGCCGCAAAATATCTT-AACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAG
*
22960132 TGGCGTTTACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTTTG
64 TGGCGCTTACGG-AAAACGCCGCTAAAGCATAGTATTAGCGGCG-TTCTTTG
** * * *
22960184 CTAGCGCCGCAAAATATCCTAACTAAAACGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGTG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTG
* * * *
22960249 GCGCTTACGGGGAACCGCCGCTAAAGAACAGTATTAGCGGCG--CTTACTG
66 GCGCTTAC-GGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTT--TG
* * ** **
22960298 AAAAGCGCTGCAAAATATCTTAAACAAAACGCATAGTTTTAATCTTGATGTATACTAGAATTAGT
1 -AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
* * *
22960363 GGCGCTTACTAGAAAACGCCGTTAAATCATAGTATTAGCGGCG--CTTTG
65 GGCGCTTAC-GGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTTTG
* * * *
22960411 CAAAAAGCGCCGCAACATATCTTAA-CAAAACGCAGAG-TTTGGTCTTGAGGTATGCTAGAATTA
1 ---AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTA
* * * **
22960474 GTGGCGCTTATAGGAAAACGCCGC--AA-C-T-GGA-TAGTGTAG--C---G
63 GTGGCGCTTA-CGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTTTG
* * * **
22960515 -AAGCGCCGCAAAATATCTGAACCAAAACGCATCGTTTTGGTCTCGATGTATACTTCAATTAGTG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTG
*
22960579 GTGCTTACG
66 GCGCTTACG
22960588 TTGAAACGAC
Statistics
Matches: 622, Mismatches: 98, Indels: 68
0.79 0.12 0.09
Matches are distributed among these distances:
100 19 0.03
101 11 0.02
102 30 0.05
104 1 0.00
107 6 0.01
108 2 0.00
109 1 0.00
110 1 0.00
111 3 0.00
112 35 0.06
113 125 0.20
114 131 0.21
115 209 0.34
116 47 0.08
117 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (113 bp):
AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTG
GCGCTTACGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTTTG
Found at i:22961282 original size:29 final size:31
Alignment explanation
Indices: 22961207--22961287 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 31
22961197 TTTTGAGTGT
* *
22961207 AAGGTTACGGGTTTAGA-GTGTAAGGTTTGC
1 AAGGTTACGGGTTTAGAGGTGTAAAGTTTGA
*
22961237 AA-TTTA-GGGTTTAAGAGGT-TAAAGTTT-A
1 AAGGTTACGGGTTT-AGAGGTGTAAAGTTTGA
22961265 AAGGTTACGGGTTTAGA-GTGTAA
1 AAGGTTACGGGTTTAGAGGTGTAA
22961288 GGTTAGGGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
28 10 0.24
29 22 0.52
30 10 0.24
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (31 bp):
AAGGTTACGGGTTTAGAGGTGTAAAGTTTGA
Found at i:22962047 original size:23 final size:22
Alignment explanation
Indices: 22962019--22962091 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 22
22962009 CCCCACTCTG
*
22962019 ATTTCCCCAATTTCATTTCCCTA
1 ATTTCCCC-ATTTCATTTCCCCA
*
22962042 ATTT-CCCATTTCCTATTCCCCCA
1 ATTTCCCCATTT-C-ATTTCCCCA
*
22962065 ACTTCCCCGATTTCATTTCCCCCA
1 ATTTCCCC-ATTTCATTT-CCCCA
22962089 ATT
1 ATT
22962092 CCATTTCCCC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
21 4 0.10
22 4 0.10
23 17 0.43
24 11 0.28
25 4 0.10
ACGTcount: A:0.19, C:0.40, G:0.01, T:0.40
Consensus pattern (22 bp):
ATTTCCCCATTTCATTTCCCCA
Found at i:22962093 original size:23 final size:22
Alignment explanation
Indices: 22962021--22962093 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 22
22962011 CCACTCTGAT
*
22962021 TTCCCCAATTTCATTT-CCCTAA
1 TTCCCC-ATTTCATTTCCCCCAA
* *
22962043 TTTCCCATTTCCTATTCCCCCAA
1 TTCCCCATTTCAT-TTCCCCCAA
22962066 CTTCCCCGATTTCATTTCCCCCAA
1 -TTCCCC-ATTTCATTTCCCCCAA
22962090 TTCC
1 TTCC
22962094 ATTTCCCCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
21 6 0.14
22 7 0.17
23 9 0.21
24 14 0.33
25 6 0.14
ACGTcount: A:0.18, C:0.42, G:0.01, T:0.38
Consensus pattern (22 bp):
TTCCCCATTTCATTTCCCCCAA
Found at i:22962096 original size:15 final size:15
Alignment explanation
Indices: 22962078--22962106 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22962068 TCCCCGATTT
22962078 CATTTCCCCCAATTC
1 CATTTCCCCCAATTC
22962093 CATTTCCCCCAATT
1 CATTTCCCCCAATT
22962107 TCCCCGATTT
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:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (15 bp):
CATTTCCCCCAATTC
Found at i:22963592 original size:9 final size:9
Alignment explanation
Indices: 22963568--22963679 Score: 110
Period size: 9 Copynumber: 13.1 Consensus size: 9
22963558 NNNNNNNNNN
22963568 ACTTACATA
1 ACTTACATA
22963577 A--TACATA
1 ACTTACATA
*
22963584 ATTTACATA
1 ACTTACATA
22963593 ACTTACATA
1 ACTTACATA
*
22963602 A--GACATA
1 ACTTACATA
22963609 ACTTACATA
1 ACTTACATA
* *
22963618 AGTTTCATA
1 ACTTACATA
*
22963627 A--TACACA
1 ACTTACATA
*
22963634 ACTTACACA
1 ACTTACATA
22963643 ACTTACATA
1 ACTTACATA
*
22963652 ACTTACACA
1 ACTTACATA
*
22963661 ACTTATATA
1 ACTTACATA
22963670 ACTTACATA
1 ACTTACATA
22963679 A
1 A
22963680 GTTTCATAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
7 18 0.21
9 67 0.79
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:22963602 original size:25 final size:25
Alignment explanation
Indices: 22963568--22963679 Score: 134
Period size: 25 Copynumber: 4.4 Consensus size: 25
22963558 NNNNNNNNNN
* *
22963568 ACTTACATAATACATAATTTACATA
1 ACTTACATAATACACAACTTACATA
* *
22963593 ACTTACATAAGACATAACTTACATA
1 ACTTACATAATACACAACTTACATA
* * *
22963618 AGTTTCATAATACACAACTTACACA
1 ACTTACATAATACACAACTTACATA
*
22963643 ACTTACATAACTTACACAACTTATATA
1 ACTTACATAA--TACACAACTTACATA
22963670 ACTTACATAA
1 ACTTACATAA
22963680 GTTTCATAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
25 51 0.69
27 23 0.31
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (25 bp):
ACTTACATAATACACAACTTACATA
Found at i:22966833 original size:42 final size:43
Alignment explanation
Indices: 22966741--22966882 Score: 205
Period size: 42 Copynumber: 3.3 Consensus size: 43
22966731 TAGCGGCTAT
* *
22966741 AGCGCCGCTAAAGAACATGATCATTAGTGGCGTTTTTTTCCTG
1 AGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTA
22966784 AGCGCCGCTAAAGAACATGATCATTAGCGGCG-TTTTTTCCTA
1 AGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTA
* * * *
22966826 AGCGCCGCTAAAGAACATGACCTTTAGCGGTGTTTTTTTCTGTA
1 AGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTTC-CTA
*
22966870 AGCGCCGCAAAAG
1 AGCGCCGCTAAAG
22966883 TTAGCGACGT
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
42 38 0.42
43 38 0.42
44 14 0.16
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (43 bp):
AGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTA
Found at i:22974860 original size:14 final size:15
Alignment explanation
Indices: 22974834--22974867 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
22974824 ATTAAAATAT
22974834 TATATTGAATTTTGG
1 TATATTGAATTTTGG
22974849 TATATT-AATTTTGG
1 TATATTGAATTTTGG
22974863 T-TATT
1 TATATT
22974868 TAGAAAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 9 0.47
15 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (15 bp):
TATATTGAATTTTGG
Found at i:22980273 original size:41 final size:41
Alignment explanation
Indices: 22980228--22980323 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
22980218 TAGTATAGGC
* * ** * *
22980228 GTCTTATTTCACTTAATTAAATTAAGCTTGCCTTTCAAGGT
1 GTCTTATTTCACTTAACTAAATCAAGCTCACCTTTAAAGGA
* * * *
22980269 GTCTTATTTCGCTTTACTAAATCATGCTCACCTTTAAATGA
1 GTCTTATTTCACTTAACTAAATCAAGCTCACCTTTAAAGGA
22980310 GTCTTATTTCACTT
1 GTCTTATTTCACTT
22980324 TGTGAAATTC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (41 bp):
GTCTTATTTCACTTAACTAAATCAAGCTCACCTTTAAAGGA
Found at i:22985025 original size:20 final size:20
Alignment explanation
Indices: 22984973--22985025 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
22984963 AAATGTCTCT
22984973 AAAATAGTAACAATAACAAC
1 AAAATAGTAACAATAACAAC
*
22984993 --AAGAGTTATACAATAACAAC
1 AAAATAG-TA-ACAATAACAAC
22985013 AAAATAGTAACAA
1 AAAATAGTAACAA
22985026 CATAATAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 4 0.15
19 2 0.07
20 15 0.56
21 2 0.07
22 4 0.15
ACGTcount: A:0.62, C:0.13, G:0.08, T:0.17
Consensus pattern (20 bp):
AAAATAGTAACAATAACAAC
Found at i:22999492 original size:51 final size:50
Alignment explanation
Indices: 22999408--22999503 Score: 120
Period size: 51 Copynumber: 1.9 Consensus size: 50
22999398 TATACATACT
* * * *
22999408 TATATATTTTTATATATTTTACGATTTATATATACATATATATATCTACA
1 TATATATTTTTATATACTTTACAATTTACATATACATATACATATCTACA
* * *
22999458 TATATATTTTTTATATACTTTATAATTTCCATATATATATACATAT
1 TATATA-TTTTTATATACTTTACAATTTACATATACATATACATAT
22999504 TTATACTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 6 0.16
51 32 0.84
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (50 bp):
TATATATTTTTATATACTTTACAATTTACATATACATATACATATCTACA
Found at i:22999501 original size:43 final size:43
Alignment explanation
Indices: 22999445--22999528 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
22999435 ATATATACAT
* *
22999445 ATATATATCTACATATATAT-TTTTTATATACTTTATAATTTCC
1 ATATATATATACATATATATACTTTTATATA-TTTATAATTTCC
*
22999488 ATATATATATACATATTTATACTTTTATATATTTATAATTT
1 ATATATATATACATATATATACTTTTATATATTTATAATTT
22999529 TGTTCATGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 28 0.76
44 9 0.24
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (43 bp):
ATATATATATACATATATATACTTTTATATATTTATAATTTCC
Found at i:23014641 original size:135 final size:135
Alignment explanation
Indices: 23014399--23014782 Score: 590
Period size: 135 Copynumber: 2.8 Consensus size: 135
23014389 ATTAATAATC
* * * *
23014399 TAAAAATTAACAGTTCAACAATTTATATGTAATAAATTAATAAAAATCAACGGTTATAATTCATA
1 TAAAAATCAACCGTTCAACAATTTATATGTAATAAATTAATAAAAATCAACCGTTGTAATTCATA
23014464 TGCTTACTAATGACTAGATTAAATTCTTAGTTTTCATAGAATATAAATAA-GAAGACTAAATCCT
66 TGCTTACTAATGACTAGATTAAATTCTTAGTTTTCATAGAATATAAATAAGGAA-ACTAAATCCT
*
23014528 CGAAGT
130 CAAAGT
*
23014534 TAAAAATCAACCGTTCAACAATTTATATGTAATAAATCAATAAAAATCAACCGTTGTAATTCATA
1 TAAAAATCAACCGTTCAACAATTTATATGTAATAAATTAATAAAAATCAACCGTTGTAATTCATA
*
23014599 TGCTTACTAATGACTAGATTAAATTTTTAGTTTTCATAGAATATAAATAAGGAAACTAAATCCTC
66 TGCTTACTAATGACTAGATTAAATTCTTAGTTTTCATAGAATATAAATAAGGAAACTAAATCCTC
23014664 AAAGT
131 AAAGT
* * * *
23014669 TAAAAATCAACCGTTTAACCATTTATATGTAATAAATTAATAAAAATCAACCCTTGTACTTCATA
1 TAAAAATCAACCGTTCAACAATTTATATGTAATAAATTAATAAAAATCAACCGTTGTAATTCATA
* * * * * * *
23014734 TCCTTAGTAATGAATAAATTAAATTGTTAATTTTCACAGAATATAAATA
66 TGCTTACTAATGACTAGATTAAATTCTTAGTTTTCATAGAATATAAATA
23014783 TGAACAAGGA
Statistics
Matches: 229, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
135 226 0.99
136 3 0.01
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.34
Consensus pattern (135 bp):
TAAAAATCAACCGTTCAACAATTTATATGTAATAAATTAATAAAAATCAACCGTTGTAATTCATA
TGCTTACTAATGACTAGATTAAATTCTTAGTTTTCATAGAATATAAATAAGGAAACTAAATCCTC
AAAGT
Found at i:23015064 original size:15 final size:15
Alignment explanation
Indices: 23015046--23015075 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23015036 TTTTTAAAAG
23015046 TAAAAAATAATATAT
1 TAAAAAATAATATAT
23015061 TAAAAAATAATATAT
1 TAAAAAATAATATAT
23015076 CAAATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAAAATAATATAT
Found at i:23015412 original size:30 final size:30
Alignment explanation
Indices: 23015378--23015436 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
23015368 CTTTACAATT
*
23015378 TTTAAAGAATTAAATTAAAATTTTATTATA
1 TTTAAAGAATTAAAATAAAATTTTATTATA
* * **
23015408 TTTAAGGAGTTAAAATGTAATTTTATTAT
1 TTTAAAGAATTAAAATAAAATTTTATTAT
23015437 TATTAATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (30 bp):
TTTAAAGAATTAAAATAAAATTTTATTATA
Found at i:23018762 original size:24 final size:25
Alignment explanation
Indices: 23018734--23018784 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
23018724 CTGCTAAAAC
*
23018734 TTTTTTAGTTTGTGGG-CTGTTAGG
1 TTTTTTAATTTGTGGGCCTGTTAGG
* *
23018758 TTTTTTAATTTTTGGGCCTGTTGGG
1 TTTTTTAATTTGTGGGCCTGTTAGG
23018783 TT
1 TT
23018785 AGATTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.08, C:0.06, G:0.29, T:0.57
Consensus pattern (25 bp):
TTTTTTAATTTGTGGGCCTGTTAGG
Found at i:23021823 original size:15 final size:16
Alignment explanation
Indices: 23021800--23021855 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
23021790 TTTTTATGTT
*
23021800 TTATATATATTATTTTA
1 TTATATATA-TATTATA
*
23021817 TTATATAATATAATATA
1 TTATAT-ATATATTATA
*
23021834 TTATAT-TGTATTATA
1 TTATATATATATTATA
23021849 TTATATA
1 TTATATA
23021856 AATTAAATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 13 0.39
17 17 0.52
18 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTATATATATATTATA
Found at i:23021839 original size:5 final size:5
Alignment explanation
Indices: 23021800--23021854 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
23021790 TTTTTATGTT
* *
23021800 TTATA -TATA TTAT- TT-TA TTATA TAATATA ATATA TTATA TTGTA TTATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
23021849 TTATA T
1 TTATA T
23021855 AAATTAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 8 0.20
5 28 0.68
7 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:23021840 original size:27 final size:29
Alignment explanation
Indices: 23021801--23021856 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
23021791 TTTTATGTTT
*
23021801 TATATATATTATTTTATTATATAATATAA
1 TATATATATTATTGTATTATATAATATAA
*
23021830 TATAT-TA-TATTGTATTATATTATATAA
1 TATATATATTATTGTATTATATAATATAA
23021857 ATTAAATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 18 0.72
28 2 0.08
29 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
TATATATATTATTGTATTATATAATATAA
Found at i:23031847 original size:28 final size:28
Alignment explanation
Indices: 23031815--23031892 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 28
23031805 GAAGAGATAT
23031815 ATATGTATGTATATATGTATAAATAAAA
1 ATATGTATGTATATATGTATAAATAAAA
* *
23031843 ATATGTATGTATATGTGTGTATATATAAAA
1 ATATGTATGTATA--TATGTATAAATAAAA
* * *
23031873 A-ATGTGTGTATGTATATATA
1 ATATGTATGTATATATGTATA
23031893 TGTATATAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
27 6 0.14
28 13 0.31
29 9 0.21
30 14 0.33
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (28 bp):
ATATGTATGTATATATGTATAAATAAAA
Found at i:23034847 original size:45 final size:41
Alignment explanation
Indices: 23034788--23034897 Score: 107
Period size: 45 Copynumber: 2.6 Consensus size: 41
23034778 TTTGGTTCGC
* *
23034788 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
23034830 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
23034873 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
23034898 TAATGGGAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 21 0.38
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:23036869 original size:14 final size:14
Alignment explanation
Indices: 23036852--23036882 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
23036842 TGACTCATGA
23036852 CTCATGTTCAACTG
1 CTCATGTTCAACTG
23036866 CTCATGTTCAACTG
1 CTCATGTTCAACTG
23036880 CTC
1 CTC
23036883 GTGCAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (14 bp):
CTCATGTTCAACTG
Found at i:23042213 original size:45 final size:43
Alignment explanation
Indices: 23042113--23042215 Score: 152
Period size: 43 Copynumber: 2.3 Consensus size: 43
23042103 ACGGCTTGAG
* *
23042113 ACACGGGTGTGTCTCTCGACCGTGTGAGACACACAACCTAGCC
1 ACACAGGTGTGTCTCTAGACCGTGTGAGACACACAACCTAGCC
* *
23042156 ATACAGGTGTGTCTCTAGACCGTGTGAGACACACAGCCTAGCC
1 ACACAGGTGTGTCTCTAGACCGTGTGAGACACACAACCTAGCC
23042199 ACACAGGCGTGTGTCTC
1 ACACA-G-GTGTGTCTC
23042216 CTGCAACTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
43 43 0.81
44 1 0.02
45 9 0.17
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.20
Consensus pattern (43 bp):
ACACAGGTGTGTCTCTAGACCGTGTGAGACACACAACCTAGCC
Found at i:23044126 original size:31 final size:34
Alignment explanation
Indices: 23044086--23044168 Score: 82
Period size: 37 Copynumber: 2.4 Consensus size: 34
23044076 ATCATATCGA
23044086 AATTCTATATTTAT-TGAATATA-TATA-AAATTT
1 AATT-TATATTTATGTGAATATATTATATAAATTT
* *
23044118 AATTTATATGTTCTGTTAATATATTTTATATAAATTT
1 AATTTATAT-TTATGTGAATATA--TTATATAAATTT
23044155 ATATTTATATTTAT
1 A-ATTTATATTTAT
23044169 ATTTAAGGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
31 5 0.12
32 7 0.17
33 7 0.17
36 4 0.10
37 10 0.24
38 8 0.20
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (34 bp):
AATTTATATTTATGTGAATATATTATATAAATTT
Found at i:23044706 original size:14 final size:15
Alignment explanation
Indices: 23044673--23044708 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23044663 AATTTTAAAG
*
23044673 AAAAATGTATATTGT
1 AAAAATGAATATTGT
*
23044688 AAAAATGAATGTTGT
1 AAAAATGAATATTGT
23044703 AAAAAT
1 AAAAAT
23044709 CTTAGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:23055698 original size:29 final size:31
Alignment explanation
Indices: 23055656--23055717 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
23055646 TAGTAAAGGT
*
23055656 AAAATTTCACTTTACTCCCCTAAAAA-TATA
1 AAAATTTCACTTTAATCCCCTAAAAATTATA
* **
23055686 AAAATTTGA-TTTAATCCTTTAAAAATTATA
1 AAAATTTCACTTTAATCCCCTAAAAATTATA
23055716 AA
1 AA
23055718 GATATAGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.37
Consensus pattern (31 bp):
AAAATTTCACTTTAATCCCCTAAAAATTATA
Found at i:23063169 original size:3 final size:3
Alignment explanation
Indices: 23063161--23063197 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
23063151 TAGAGAGAGT
23063161 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
23063198 TATTATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:23063260 original size:52 final size:53
Alignment explanation
Indices: 23063198--23063306 Score: 166
Period size: 52 Copynumber: 2.1 Consensus size: 53
23063188 TATAATAATA
* * *
23063198 TATTATATATATATGTGTAGGCATAAGTTT-GGTAGTTAATATTATGTTAGGT
1 TATTATATATATAGGAGTAGGCATAAGTTTGGGGAGTTAATATTATGTTAGGT
*
23063250 TATTATATATATAGGAGTAGGTATAAGTTTGGGGGAGTTAATATTATGTTAGGT
1 TATTATATATATAGGAGTAGGCATAAGTTT-GGGGAGTTAATATTATGTTAGGT
23063304 TAT
1 TAT
23063307 CATCATCATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 27 0.53
54 24 0.47
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (53 bp):
TATTATATATATAGGAGTAGGCATAAGTTTGGGGAGTTAATATTATGTTAGGT
Found at i:23067487 original size:3 final size:3
Alignment explanation
Indices: 23067479--23067510 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
23067469 CTTAGATAGT
23067479 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23067511 GCATATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23068668 original size:28 final size:28
Alignment explanation
Indices: 23068610--23068669 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
23068600 GATCATCCGT
* *
23068610 AAGCATGAGTTTGTAAGGAATATTTTTC
1 AAGCATGAGTTTGTAAGGAATATATTAC
* * *
23068638 AAGCATGGGTTTGTAAGGACTCTATTAC
1 AAGCATGAGTTTGTAAGGAATATATTAC
23068666 AAGC
1 AAGC
23068670 TAAGGCAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (28 bp):
AAGCATGAGTTTGTAAGGAATATATTAC
Found at i:23078856 original size:31 final size:31
Alignment explanation
Indices: 23078818--23078879 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
23078808 ATCAGCTCTT
* *
23078818 ATGAGCTTCTGTTGACGATGTACTGTTACCC
1 ATGAGCTTCTGTTGACAATGTACTCTTACCC
23078849 ATGAGCTTCTGTTGACAATGTACTCTTACCC
1 ATGAGCTTCTGTTGACAATGTACTCTTACCC
23078880 GTAAGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (31 bp):
ATGAGCTTCTGTTGACAATGTACTCTTACCC
Found at i:23084345 original size:21 final size:20
Alignment explanation
Indices: 23084321--23084360 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
23084311 AAGTTTATAT
*
23084321 AAAAGACAAAAATAATTGAAA
1 AAAAAACAAAAAT-ATTGAAA
*
23084342 AAAAAACTAAAATATTGAA
1 AAAAAACAAAAATATTGAA
23084361 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.17
Consensus pattern (20 bp):
AAAAAACAAAAATATTGAAA
Found at i:23084586 original size:16 final size:18
Alignment explanation
Indices: 23084547--23084586 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
23084537 TCAGATGTAT
*
23084547 TTATTTTTGTATTTTGAA
1 TTATTTTTGTAATTTGAA
23084565 TT-TTTTT-TAATTTG-A
1 TTATTTTTGTAATTTGAA
23084580 TTATTTT
1 TTATTTT
23084587 ATATTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 3 0.15
16 10 0.50
17 5 0.25
18 2 0.10
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (18 bp):
TTATTTTTGTAATTTGAA
Found at i:23087225 original size:21 final size:21
Alignment explanation
Indices: 23087201--23087253 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
23087191 TATTGTTTCT
* *
23087201 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
23087222 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
23087243 AATCTCACCGC
1 AATCTCACCGC
23087254 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:23088336 original size:21 final size:21
Alignment explanation
Indices: 23088303--23088354 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
23088293 AATTATGACA
* *
23088303 AAAAATTCTAAAGTTATATTAT
1 AAAAATT-AAAAGTTAAATTAT
*
23088325 AAATATTAAAAGTTAAATTAT
1 AAAAATTAAAAGTTAAATTAT
23088346 AAAAATTAA
1 AAAAATTAA
23088355 TTTATGTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAAATTAAAAGTTAAATTAT
Found at i:23089184 original size:18 final size:19
Alignment explanation
Indices: 23089147--23089194 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
23089137 AAATATTAAA
*
23089147 TTAAATTAATTATTAATTT
1 TTAAAATAATTATTAATTT
23089166 TTAAAATAA-TATT-ATTT
1 TTAAAATAATTATTAATTT
23089183 TTAGAAA-AATTA
1 TTA-AAATAATTA
23089195 ATTTGAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 9 0.35
18 9 0.35
19 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TTAAAATAATTATTAATTT
Found at i:23093280 original size:50 final size:50
Alignment explanation
Indices: 23093152--23093384 Score: 262
Period size: 50 Copynumber: 4.7 Consensus size: 50
23093142 GATAATAACA
* * * *
23093152 TGCCAAAGCCATGTCCCACACATGGTCTTACATGGGATGTT-TCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATCT-CGG
* * * *
23093201 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATCTCGG
* **
23093251 TGCCCATGCCATGTCCCAGACATGGTCTTAC--GGG-GACCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATCTCGG
* **
23093298 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATCTCGG
* *
23093348 TGTCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
23093385 TCTACCAAAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
47 39 0.25
48 7 0.04
49 39 0.25
50 71 0.46
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATCTCGG
Found at i:23102383 original size:16 final size:16
Alignment explanation
Indices: 23102359--23102409 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
23102349 TATTTATATG
*
23102359 ATATTTATACTAAATA
1 ATATATATACTAAATA
*
23102375 ATATATATAATAAA-A
1 ATATATATACTAAATA
* *
23102390 TTATATTATACTTAATA
1 ATATA-TATACTAAATA
23102407 ATA
1 ATA
23102410 CTTAAATCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 5 0.19
16 19 0.70
17 3 0.11
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATATACTAAATA
Found at i:23110887 original size:40 final size:39
Alignment explanation
Indices: 23110812--23110902 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
23110802 CACCAGACAG
* * *
23110812 AAGCTCATAAGAGTTGGTCCAATCGAAATATGCCAAACAA
1 AAGCTCATAAGAGTTGGTCCAATCAAAACACGCC-AACAA
* * *
23110852 AAGTTCATAAGAGTTGGTCC-ACCTAAAACACGCCAACAG
1 AAGCTCATAAGAGTTGGTCCAATC-AAAACACGCCAACAA
23110891 AAGCTCATAAGA
1 AAGCTCATAAGA
23110903 ACTGAACAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 17 0.40
40 26 0.60
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.19
Consensus pattern (39 bp):
AAGCTCATAAGAGTTGGTCCAATCAAAACACGCCAACAA
Found at i:23117176 original size:31 final size:32
Alignment explanation
Indices: 23117141--23117203 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
23117131 AAGTATTATG
*
23117141 AATTATTTATTGGTTT-TGGCTT-GTAATTTTT
1 AATTATTT-TTGGTTTGTGGCTTGGTAACTTTT
23117172 AATTATTTTTGGTTTGTGGCTTGGTAACTTTT
1 AATTATTTTTGGTTTGTGGCTTGGTAACTTTT
23117204 CTTTTAGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.24
31 14 0.48
32 8 0.28
ACGTcount: A:0.17, C:0.05, G:0.19, T:0.59
Consensus pattern (32 bp):
AATTATTTTTGGTTTGTGGCTTGGTAACTTTT
Found at i:23120748 original size:23 final size:23
Alignment explanation
Indices: 23120722--23120912 Score: 274
Period size: 23 Copynumber: 8.3 Consensus size: 23
23120712 AGTGTTATTG
*
23120722 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
23120745 ATCAGTGATAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
23120768 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
23120791 ATCAGTGGTAGCTTCGGATACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * **
23120814 TTCAGTGGTAGCTTTGAATACAT
1 ATCAGTGGTAGCTTCGGCTACAT
23120837 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
23120860 TTCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
23120883 ATTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
23120906 ATCAGTG
1 ATCAGTG
23120913 TGGCACTTAT
Statistics
Matches: 149, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 149 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:23124063 original size:20 final size:20
Alignment explanation
Indices: 23124038--23124085 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
23124028 TGTTTTAAGG
23124038 ATTAAATGTAGAGAAAAAAA
1 ATTAAATGTAGAGAAAAAAA
* * *
23124058 ATTAAATGTAGGGAAAATAC
1 ATTAAATGTAGAGAAAAAAA
23124078 ATTAAATG
1 ATTAAATG
23124086 CATGGAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.17, T:0.25
Consensus pattern (20 bp):
ATTAAATGTAGAGAAAAAAA
Found at i:23124100 original size:20 final size:20
Alignment explanation
Indices: 23124038--23124102 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
23124028 TGTTTTAAGG
* * * *
23124038 ATTAAATGTAGAGAAAAAAA
1 ATTAAATGCAGGGAAAAGAC
* *
23124058 ATTAAATGTAGGGAAAATAC
1 ATTAAATGCAGGGAAAAGAC
* *
23124078 ATTAAATGCATGGAAAAGCC
1 ATTAAATGCAGGGAAAAGAC
23124098 ATTAA
1 ATTAA
23124103 GTCATTAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (20 bp):
ATTAAATGCAGGGAAAAGAC
Found at i:23127994 original size:12 final size:12
Alignment explanation
Indices: 23127977--23128001 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23127967 GCTTTGGTGG
23127977 AGAAAAAGAAGA
1 AGAAAAAGAAGA
23127989 AGAAAAAGAAGA
1 AGAAAAAGAAGA
23128001 A
1 A
23128002 AGAGACTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAGA
Found at i:23132909 original size:5 final size:5
Alignment explanation
Indices: 23132866--23132890 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23132856 AACAAAGAGT
23132866 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
23132891 GATATAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:23137390 original size:42 final size:42
Alignment explanation
Indices: 23137331--23137411 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
23137321 GACAATGTCC
*
23137331 TTACATCATTCCCAATGAGTAGAATTTCATCAACATATAAAA
1 TTACATCATTCCCAATGAGTAGAATGTCATCAACATATAAAA
*
23137373 TTACATCATTCCCAATGAGTAGACTGTCATCAACATATA
1 TTACATCATTCCCAATGAGTAGAATGTCATCAACATATA
23137412 TATAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (42 bp):
TTACATCATTCCCAATGAGTAGAATGTCATCAACATATAAAA
Found at i:23139239 original size:31 final size:31
Alignment explanation
Indices: 23139203--23139264 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
23139193 CTTAATAGTC
*
23139203 TAGTGACTTAACTAAAAACTTTCAAATAATT
1 TAGTGACTTAAATAAAAACTTTCAAATAATT
* * *
23139234 TAGTGACTTAAATGACAACTTTCGAATAATT
1 TAGTGACTTAAATAAAAACTTTCAAATAATT
23139265 CAATGATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAACTTTCAAATAATT
Found at i:23139377 original size:2 final size:2
Alignment explanation
Indices: 23139370--23139401 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23139360 GTATTTGGAG
23139370 AT AT AT 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 AT AT AT
23139402 TTCCAAAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23139575 original size:14 final size:15
Alignment explanation
Indices: 23139556--23139588 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
23139546 GAACCGAAGA
*
23139556 TTAAAAATAAAA-AT
1 TTAAAAAAAAAATAT
23139570 TTAAAAAAAAAATAT
1 TTAAAAAAAAAATAT
23139585 TTAA
1 TTAA
23139589 TACACGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TTAAAAAAAAAATAT
Found at i:23140778 original size:24 final size:24
Alignment explanation
Indices: 23140751--23140796 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23140741 ATTTTATAAA
*
23140751 AAAATAAATAATTAAAAAATATTT
1 AAAATAAAAAATTAAAAAATATTT
* *
23140775 AAAATAAAAAATTCAATAATAT
1 AAAATAAAAAATTAAAAAATAT
23140797 AATGAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAATAAAAAATTAAAAAATATTT
Found at i:23141440 original size:57 final size:61
Alignment explanation
Indices: 23141328--23141450 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 61
23141318 TAACACTTTT
*
23141328 TTTTTCTTAATTTGGTACCTAAAATTTTTTTTGACTCAATTTGGCATTTGGACTTGAC-AC
1 TTTTTCTTAATTTGGTACCTAAAATTTTTTTTGACTCAATTTGGCATTTGAACTTGACAAC
* * * *
23141388 TTTTTC-TAATTTGGTACTTAAAA-TTTTTTTGTC-CAATTTGGTATTTGAACTTGGCAAC
1 TTTTTCTTAATTTGGTACCTAAAATTTTTTTTGACTCAATTTGGCATTTGAACTTGACAAC
23141446 TTTTT
1 TTTTT
23141451 TTTTTAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
57 19 0.33
58 16 0.28
59 16 0.28
60 6 0.11
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (61 bp):
TTTTTCTTAATTTGGTACCTAAAATTTTTTTTGACTCAATTTGGCATTTGAACTTGACAAC
Found at i:23142739 original size:13 final size:13
Alignment explanation
Indices: 23142721--23142745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23142711 GTATATATAA
23142721 TTTAAATAGAGAG
1 TTTAAATAGAGAG
23142734 TTTAAATAGAGA
1 TTTAAATAGAGA
23142746 AAAAAATAGA
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:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (13 bp):
TTTAAATAGAGAG
Found at i:23145049 original size:5 final size:6
Alignment explanation
Indices: 23145032--23145064 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
23145022 CCAGATTTAA
*
23145032 AAAAGT AAAATT -AAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
23145065 GAAGAGGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (6 bp):
AAAATT
Found at i:23145053 original size:11 final size:12
Alignment explanation
Indices: 23145032--23145064 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
23145022 CCAGATTTAA
*
23145032 AAAAGTAAAATT
1 AAAATTAAAATT
23145044 -AAATTAAAATT
1 AAAATTAAAATT
23145055 AAAATTAAAA
1 AAAATTAAAA
23145065 GAAGAGGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:23148052 original size:56 final size:56
Alignment explanation
Indices: 23147966--23148079 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
23147956 TCACATGCAC
*
23147966 TTGAAATTTAAGTCAAAATGGATAACTAATTCCATAATGATATGGAAGGAGTTTTT
1 TTGAAATTTAAGTCAAAATGGATAACTAATTCCATAATAATATGGAAGGAGTTTTT
23148022 TTGAAATTTAAGTCAAAATGGATAACTAATTCCATAATAATATGGAAGGAGTTTTT
1 TTGAAATTTAAGTCAAAATGGATAACTAATTCCATAATAATATGGAAGGAGTTTTT
23148078 TT
1 TT
23148080 AGAGATATGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (56 bp):
TTGAAATTTAAGTCAAAATGGATAACTAATTCCATAATAATATGGAAGGAGTTTTT
Found at i:23157406 original size:43 final size:43
Alignment explanation
Indices: 23157306--23157435 Score: 133
Period size: 43 Copynumber: 3.0 Consensus size: 43
23157296 AAAGCTCGTA
* * * *
23157306 CAATGGCAACGTCTCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATAT
* *
23157349 CGATGTC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACATA-T
*
23157392 CAATGCCAACGTCCCAAACGTGGTCTTACACG-AAAGCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAAA-CACATAT
23157435 C
1 C
23157436 GAAGATCCTA
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
42 7 0.10
43 61 0.85
44 4 0.06
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATAT
Found at i:23158811 original size:21 final size:21
Alignment explanation
Indices: 23158787--23158891 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
23158777 GCTTGAAAGC
*
23158787 TGAACAGTAGCTCGTAAGAGT
1 TGAACAGAAGCTCGTAAGAGT
* * *
23158808 TGAACAGAAAC-CTATAAGGGT
1 TGAACAGAAGCTC-GTAAGAGT
* *
23158829 TGAACAGAAGCTCGAAAGAGC
1 TGAACAGAAGCTCGTAAGAGT
* * *
23158850 TGAACAGGAAACTCATATGAGT
1 TGAACA-GAAGCTCGTAAGAGT
*
23158872 TAAACAGAAGCTCGTAAGAG
1 TGAACAGAAGCTCGTAAGAG
23158892 CTAAACGGAA
Statistics
Matches: 63, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
20 1 0.02
21 46 0.73
22 16 0.25
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (21 bp):
TGAACAGAAGCTCGTAAGAGT
Found at i:23158848 original size:42 final size:43
Alignment explanation
Indices: 23158787--23158902 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 43
23158777 GCTTGAAAGC
* * *
23158787 TGAACAGTAGCTCGTAAGAGTTGAACA-GAAAC-CTATAAGGGT
1 TGAACAGAAGCTCGTAAGAGCTGAACAGGAAACTC-ATAAGAGT
* *
23158829 TGAACAGAAGCTCGAAAGAGCTGAACAGGAAACTCATATGAGT
1 TGAACAGAAGCTCGTAAGAGCTGAACAGGAAACTCATAAGAGT
* *
23158872 TAAACAGAAGCTCGTAAGAGCTAAAC-GGAAA
1 TGAACAGAAGCTCGTAAGAGCTGAACAGGAAA
23158903 GTAATACACG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 29 0.45
43 34 0.53
44 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.17
Consensus pattern (43 bp):
TGAACAGAAGCTCGTAAGAGCTGAACAGGAAACTCATAAGAGT
Found at i:23161244 original size:10 final size:10
Alignment explanation
Indices: 23161220--23161270 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 10
23161210 TCCTTTTCCA
23161220 TTTCTTTTCTC
1 TTTCTTTT-TC
23161231 TTTCTTTTTC
1 TTTCTTTTTC
23161241 TTTCTTGTTTTTCC
1 TTTC---TTTTT-C
23161255 TTTCTTTTTC
1 TTTCTTTTTC
23161265 -TTCTTT
1 TTTCTTT
23161271 GATTTCGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
9 6 0.17
10 7 0.19
11 13 0.36
13 5 0.14
14 5 0.14
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:23161264 original size:11 final size:11
Alignment explanation
Indices: 23161204--23161264 Score: 54
Period size: 11 Copynumber: 5.3 Consensus size: 11
23161194 AGTTAACGTA
*
23161204 TTCCTTTCCTT
1 TTCCTTTCTTT
23161215 TTCCATTTC-TT
1 TTCC-TTTCTTT
23161226 TTCTCTTTCTTT
1 TTC-CTTTCTTT
23161238 TT-CTTTCTTGTTT
1 TTCCTTTC---TTT
23161251 TTCCTTTCTTT
1 TTCCTTTCTTT
23161262 TTC
1 TTC
23161265 TTCTTTGATT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
10 5 0.12
11 19 0.44
12 9 0.21
13 5 0.12
14 5 0.12
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (11 bp):
TTCCTTTCTTT
Found at i:23162413 original size:14 final size:14
Alignment explanation
Indices: 23162373--23162415 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
23162363 TTGAGGTACC
23162373 AAAA-TAAATTTTAA
1 AAAATTAAATTTT-A
*
23162387 AAAATT-AAGTTTA
1 AAAATTAAATTTTA
23162400 AAAATTAAATTTTA
1 AAAATTAAATTTTA
23162414 AA
1 AA
23162416 TTAAACGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 7 0.28
14 17 0.68
15 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
AAAATTAAATTTTA
Found at i:23164352 original size:109 final size:105
Alignment explanation
Indices: 23164157--23164358 Score: 278
Period size: 108 Copynumber: 1.9 Consensus size: 105
23164147 AAAATTCAAG
* * *
23164157 AGGATATTTGGCTATTTGGTTAAACGAGAAATTGAAACCCAGCACATTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCAATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAA
*
23164222 TTACCAAACGCGAAACATTGCCTTATTTTGAAATTTTTGAA
66 TTACCAAACGCAAAACATTGCC-TATTTTGAAATTTTTGAA
* * * * *
23164263 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTC
*
23164328 GAATTTCCAAACGCAAAACATTGCCTATTTT
63 GAATTACCAAACGCAAAACATTGCCTATTTT
23164359 TTAGAAAAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
106 25 0.30
108 30 0.36
109 28 0.34
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (105 bp):
AGGATATTTAGCAATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAA
TTACCAAACGCAAAACATTGCCTATTTTGAAATTTTTGAA
Found at i:23167938 original size:35 final size:33
Alignment explanation
Indices: 23167885--23168040 Score: 102
Period size: 35 Copynumber: 4.6 Consensus size: 33
23167875 GACGGATAAG
* * *
23167885 ACCATGGTTGGACCATGGCAATGTTTATATGTAAA
1 ACCATAGTTGGGCTATGGCAAT-TTTA-ATGTAAA
*
23167920 ACCATAGTTGGGCTATGGC-ATTTTAATGAAAA
1 ACCATAGTTGGGCTATGGCAATTTTAATGTAAA
* * * * *
23167952 TACCATA-TCTGGGTTATGGCACTTTGAACGTAAG
1 -ACCATAGT-TGGGCTATGGCAATTTTAATGTAAA
* * * *
23167986 ACCATGGTTGGACCATGGCAGTATTTATAA-GTAAG
1 ACCATAGTTGGGCTATGGCA--ATTT-TAATGTAAA
*
23168021 ACCATAGCTGGGCTATGGCA
1 ACCATAGTTGGGCTATGGCA
23168041 TTCTGATGAT
Statistics
Matches: 94, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
32 7 0.07
33 34 0.36
34 11 0.12
35 40 0.43
36 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (33 bp):
ACCATAGTTGGGCTATGGCAATTTTAATGTAAA
Found at i:23167990 original size:33 final size:33
Alignment explanation
Indices: 23167913--23168106 Score: 110
Period size: 33 Copynumber: 5.8 Consensus size: 33
23167903 CAATGTTTAT
* *
23167913 ATGTAAAACCATAGT-TGGGCTATGGCA-TTTTA
1 ATGTAAGACCATA-TCTGGGCTATGGCACTTTGA
* * *
23167945 ATGAAAATACCATATCTGGGTTATGGCACTTTGA
1 ATG-TAAGACCATATCTGGGCTATGGCACTTTGA
* * * * * *
23167979 ACGTAAGACCATGGT-TGGACCATGGCAGTATTTA
1 ATGTAAGACCAT-ATCTGGGCTATGGCACT-TTGA
* *
23168013 TAAGTAAGACCATAGCTGGGCTATGGCA-TTCTG-
1 -ATGTAAGACCATATCTGGGCTATGGCACTT-TGA
* * **
23168046 ATGATAAGACCATAACTGGGTTATGGCACTACGA
1 ATG-TAAGACCATATCTGGGCTATGGCACTTTGA
** *
23168080 ATGTAAGACCATGGCTGGGCCATGGCA
1 ATGTAAGACCATATCTGGGCTATGGCA
23168107 ATGCATGTGT
Statistics
Matches: 123, Mismatches: 28, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
32 6 0.05
33 80 0.65
34 16 0.13
35 21 0.17
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (33 bp):
ATGTAAGACCATATCTGGGCTATGGCACTTTGA
Found at i:23168058 original size:101 final size:100
Alignment explanation
Indices: 23167881--23168140 Score: 333
Period size: 101 Copynumber: 2.6 Consensus size: 100
23167871 AATTGACGGA
* * *
23167881 TAAGACCATGGTTGGACCATGGCAATGTTTATATGTAAAACCATAGTTGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGC-ATATTTATATGTAAGACCATAGTTGGGCTATGGCATTCTAA
* * **
23167946 TGAAAATACCATATCTGGGTTATGGCACTTTGAACG
65 TGAAAAGACCATAACTGGGTTATGGCACTACGAACG
* * *
23167982 TAAGACCATGGTTGGACCATGGCAGTATTTATAAGTAAGACCATAGCTGGGCTATGGCATTCTGA
1 TAAGACCATGGTTGGACCATGGCA-TATTTATATGTAAGACCATAGTTGGGCTATGGCATTCTAA
* *
23168047 TGATAAGACCATAACTGGGTTATGGCACTACGAATG
65 TGAAAAGACCATAACTGGGTTATGGCACTACGAACG
* * ** * *
23168083 TAAGACCATGGCTGGGCCATGGCA-ATGCATGTGTAAGACCATAGTTGGACTATGGCAT
1 TAAGACCATGGTTGGACCATGGCATATTTATATGTAAGACCATAGTTGGGCTATGGCAT
23168141 AAAGAAAACG
Statistics
Matches: 138, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
99 28 0.20
100 1 0.01
101 109 0.79
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (100 bp):
TAAGACCATGGTTGGACCATGGCATATTTATATGTAAGACCATAGTTGGGCTATGGCATTCTAAT
GAAAAGACCATAACTGGGTTATGGCACTACGAACG
Found at i:23168137 original size:66 final size:66
Alignment explanation
Indices: 23168016--23168139 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
23168006 GTATTTATAA
* * **
23168016 GTAAGACCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCACTACGAA
1 GTAAGACCATAGCTGGGCCATGGCATGCTGATGATAAGACCATAACTGGACTATGGCACTACGAA
23168081 T
66 T
* **
23168082 GTAAGACCATGGCTGGGCCATGGCAATGCATG-TG-TAAGACCATAGTTGGACTATGGCA
1 GTAAGACCATAGCTGGGCCATGGC-ATGC-TGATGATAAGACCATAACTGGACTATGGCA
23168140 TAAAGAAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
66 42 0.86
67 5 0.10
68 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (66 bp):
GTAAGACCATAGCTGGGCCATGGCATGCTGATGATAAGACCATAACTGGACTATGGCACTACGAA
T
Found at i:23175197 original size:10 final size:10
Alignment explanation
Indices: 23175177--23175205 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
23175167 AATAAAAATC
23175177 AAAAATC-AA
1 AAAAATCAAA
23175186 AAAAATCAAA
1 AAAAATCAAA
23175196 AAAAATCAAA
1 AAAAATCAAA
23175206 GTCAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAATCAAA
Found at i:23176054 original size:10 final size:11
Alignment explanation
Indices: 23176029--23176079 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 11
23176019 TGACTCAAAC
*
23176029 AAAAAAATGATG
1 AAAAAAATGA-A
23176041 AAAAAAA-GAA
1 AAAAAAATGAA
23176051 AAAAAAATGAA
1 AAAAAAATGAA
23176062 AAAAATGAATGAA
1 AAAAA--AATGAA
23176075 AAAAA
1 AAAAA
23176080 TGAAAAATGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
10 7 0.20
11 10 0.29
12 7 0.20
13 11 0.31
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:23176057 original size:22 final size:21
Alignment explanation
Indices: 23176029--23176086 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
23176019 TGACTCAAAC
23176029 AAAAAAATGATGAAAAAAAGAA-
1 AAAAAAATGA--AAAAAAAGAAG
*
23176051 AAAAAAATGAAAAAAATGAATG
1 AAAAAAATGAAAAAAAAGAA-G
23176073 AAAAAAATGAAAAA
1 AAAAAAATGAAAAA
23176087 TGAAAAAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 9 0.27
22 24 0.73
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAAAATGAAAAAAAAGAAG
Found at i:23177315 original size:46 final size:46
Alignment explanation
Indices: 23177239--23177612 Score: 482
Period size: 46 Copynumber: 8.1 Consensus size: 46
23177229 ACAGATCAAT
* * * **
23177239 GAAGATAGCATATCTTGTCTTCTTGCATTTGGCAGCGGAGAAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * * *
23177285 GAAGATAGCAGATCTTATTTTCATGTATTTGGCAGCGGAAGAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * *
23177331 GAGGATAGCAGATCTTGTCTTCCTGTAATTGGCAGCAGACGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
23177377 GAAGATAGCAGATCTTGTCTTCATGTATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* *
23177423 GAAGATAGTAGATCTTGTCTTCCTGTAATTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
23177469 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGTAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * *
23177515 GAAGATGGCAGATCTTGTCTTCCTGGTATTTGGC-GCAGATGGGATC
1 GAAGATAGCAGATCTTGTCTTCCT-GTATTTGGCAGCGGAGGGGATC
* * * * *
23177561 GAATATAGCAGATCTTATCTTCATGTATTTAGCAACGGAGGAGG-TC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGG-GGATC
23177607 GAAGAT
1 GAAGAT
23177613 GGTGAATCTT
Statistics
Matches: 286, Mismatches: 39, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
45 8 0.03
46 268 0.94
47 10 0.03
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (46 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
Found at i:23178521 original size:44 final size:44
Alignment explanation
Indices: 23178458--23178654 Score: 134
Period size: 44 Copynumber: 4.5 Consensus size: 44
23178448 NNNNNNNNNN
* *
23178458 GTAGTGGAGCAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCA
1 GTAGTGGAGCAGATTGAAGATTGCAGATTCTATCACCCTAAGCA
* ** * * *
23178502 GTAGTGGAGCAGATCGAAGA-TGGTGAATCTTATCTTCCC-AATACA
1 GTAGTGGAGCAGATTGAAGATTGCAGATTC-TATC-ACCCTAA-GCA
* * * * *
23178547 GTGGAGAAGCAGATTTAAGCCATT--AG-TCCTATCACCCTAAGCA
1 GTAGTGGAGCAGATTGAAG--ATTGCAGATTCTATCACCCTAAGCA
* * * * * *
23178590 GCAGTGGGGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGTA
1 GTAGTGGAGCAGATTGAAGATTGCAGATTCTATCACCCTAAGCA
*
23178634 GTAGTGGAGCAGATCGAAGAT
1 GTAGTGGAGCAGATTGAAGAT
23178655 GGTGACTTTT
Statistics
Matches: 109, Mismatches: 34, Indels: 20
0.67 0.21 0.12
Matches are distributed among these distances:
41 3 0.03
43 24 0.22
44 59 0.54
45 20 0.18
46 1 0.01
47 1 0.01
48 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (44 bp):
GTAGTGGAGCAGATTGAAGATTGCAGATTCTATCACCCTAAGCA
Found at i:23178701 original size:132 final size:132
Alignment explanation
Indices: 23178468--23178788 Score: 516
Period size: 132 Copynumber: 2.4 Consensus size: 132
23178458 GTAGTGGAGC
23178468 AGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTT
1 AGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTT
* *
23178533 ATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGCAGTGGG
66 ATCTTCCCAATACAGCGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGCAGTGGA
*
23178598 GT
131 AT
* * *
23178600 AGGTTGAAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGACTTTT
1 AGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTT
* *
23178665 ATCTTCCCAATACAGCGGAGAAGCAGATTTATGCCATTAGTCCTATCACCCTAAGCAGTAGTGGA
66 ATCTTCCCAATACAGCGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGCAGTGGA
23178730 AT
131 AT
* * * * *
23178732 AGGTTAAAGATTGCAGTTTCTGTCCCCCATAAGCAGTAGAGGAGCAGATCAAAGATG
1 AGGTTGAAGATTGCAGATTCTGTCACCC-TAAGCAGTAGTGGAGCAGATCGAAGATG
23178789 TGGAGTAGAC
Statistics
Matches: 174, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
132 149 0.86
133 25 0.14
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
AGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTT
ATCTTCCCAATACAGCGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGCAGTGGA
AT
Found at i:23182435 original size:27 final size:24
Alignment explanation
Indices: 23182372--23182424 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
23182362 TTTTCGAGTA
*
23182372 TTTTATATATTAAAATTAATATAC
1 TTTTAAATATTAAAATTAATATAC
* * *
23182396 TTATAATTTATTAAAATTAATATAT
1 TTTTAA-ATATTAAAATTAATATAC
23182421 TTTT
1 TTTT
23182425 TTAAATAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTAAATATTAAAATTAATATAC
Found at i:23184635 original size:43 final size:43
Alignment explanation
Indices: 23184574--23184656 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
23184564 TTTTTCAAAA
* *
23184574 TAGGCATTTAAAATGGGGACATACGGACGTGTCCCAGCCCGTG
1 TAGGCATTCAAAATGGGGACACACGGACGTGTCCCAGCCCGTG
*
23184617 TAGGCATTCAAAATGGGGACACACGGCCGTGTCCCAGCCC
1 TAGGCATTCAAAATGGGGACACACGGACGTGTCCCAGCCC
23184657 ATGTCCATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.18
Consensus pattern (43 bp):
TAGGCATTCAAAATGGGGACACACGGACGTGTCCCAGCCCGTG
Found at i:23195080 original size:18 final size:20
Alignment explanation
Indices: 23195045--23195086 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
23195035 AAATGTTTAA
23195045 AAAATTTATTAAAAAA-TTT
1 AAAATTTATTAAAAAATTTT
*
23195064 AAAATTTA-TACAAAATTTT
1 AAAATTTATTAAAAAATTTT
23195083 AAAA
1 AAAA
23195087 AAAACAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATTTATTAAAAAATTTT
Found at i:23195201 original size:20 final size:21
Alignment explanation
Indices: 23195172--23195213 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
23195162 TGTATTTTAT
23195172 TTTTATAAACACTATTAAAAA
1 TTTTATAAACACTATTAAAAA
*
23195193 TTTTA-AAACATTATTAAAAA
1 TTTTATAAACACTATTAAAAA
23195213 T
1 T
23195214 AAAAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTATAAACACTATTAAAAA
Found at i:23199668 original size:16 final size:16
Alignment explanation
Indices: 23199631--23199672 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23199621 TTAATCATAT
*
23199631 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
23199647 TT-AAATATATTATAA
1 TTAAAATATATTATAA
23199662 TTAAAATATAT
1 TTAAAATATAT
23199673 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:23199679 original size:14 final size:15
Alignment explanation
Indices: 23199640--23199681 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23199630 TTTAAACATA
*
23199640 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23199655 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
23199669 A-TATAATTTAATA
1 ATTATAATTAAATA
23199682 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23199893 original size:24 final size:25
Alignment explanation
Indices: 23199847--23199894 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
23199837 TATGAATTTG
23199847 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
23199873 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
23199895 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:23199898 original size:92 final size:92
Alignment explanation
Indices: 23199802--23200030 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
23199792 TGATTTAATA
* * *
23199802 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
23199864 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
23199894 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
23199959 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
23199984 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
23200031 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:23202591 original size:15 final size:16
Alignment explanation
Indices: 23202571--23202601 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
23202561 GCAATACAAA
23202571 CATACAAAACA-AAAC
1 CATACAAAACAGAAAC
23202586 CATACAAAACAGAAAC
1 CATACAAAACAGAAAC
23202602 AACAAAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.65, C:0.26, G:0.03, T:0.06
Consensus pattern (16 bp):
CATACAAAACAGAAAC
Found at i:23204133 original size:80 final size:82
Alignment explanation
Indices: 23204017--23204169 Score: 222
Period size: 80 Copynumber: 1.9 Consensus size: 82
23204007 AGTTAAAATG
* * * *
23204017 TAATTTTACTATATATTACTTTATAATTTTTCTATTTATAAGAAGACTGAATTGAAAATTTTTAT
1 TAATTTCACTATATATTAATTTATAATTTTTCTATTTATAAGAAGAATGAATTGAAAATTTTCAT
23204082 TTTAAGGGACTAGAATA
66 TTTAAGGGACTAGAATA
*
23204099 TAATTTCACTA-A-ATTAATTTATAGATTTTT-TATTTATAATAAGAATGAATTGAAAATTTTCA
1 TAATTTCACTATATATTAATTTATA-ATTTTTCTATTTATAAGAAGAATGAATTGAAAATTTTCA
*
23204161 TTTTGAGGG
65 TTTTAAGGG
23204170 GACCAAAGTC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 47 0.73
81 7 0.11
82 10 0.16
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (82 bp):
TAATTTCACTATATATTAATTTATAATTTTTCTATTTATAAGAAGAATGAATTGAAAATTTTCAT
TTTAAGGGACTAGAATA
Found at i:23205302 original size:88 final size:86
Alignment explanation
Indices: 23205185--23205346 Score: 290
Period size: 88 Copynumber: 1.9 Consensus size: 86
23205175 ATAAAAGTAG
23205185 GGGCTTAATTGTTTTTTTTTTAAGTTTGAGGG-TCTTTTTGATGCATTTTGAAAGTTCAAGTACC
1 GGGCTTAATTGTTTTTTTTTTAAGTTTGAGGGCT-TTTTTGATGCATTTTGAAAGTTCAAGTACC
23205249 CAATTGAGTGTAAAAATTGTAA
65 CAATTGAGTGTAAAAATTGTAA
23205271 GGGCTTAATTGCTTTTTTTTTTAAGATTTGAGGGCTTTTTTGATGCATTTTGAAAGTTCAAGTAC
1 GGGCTTAATTG-TTTTTTTTTTAAG-TTTGAGGGCTTTTTTGATGCATTTTGAAAGTTCAAGTAC
23205336 CCAATTGAGTG
64 CCAATTGAGTG
23205347 AAACAAAAAG
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
86 11 0.15
87 13 0.18
88 48 0.66
89 1 0.01
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (86 bp):
GGGCTTAATTGTTTTTTTTTTAAGTTTGAGGGCTTTTTTGATGCATTTTGAAAGTTCAAGTACCC
AATTGAGTGTAAAAATTGTAA
Done.