Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 95 of 218
Found at i:27420954 original size:41 final size:41
Alignment explanation
Indices: 27420897--27420978 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
27420887 AACCTAATTG
* * *
27420897 GGAAAATAATTCCCTTATTCTAATAAGCTACTTAAAGATAA
1 GGAAAATAATACCCTTATTCTAATAAACTACTAAAAGATAA
27420938 GGAAAATAATACCCTTATTCTAATAAACTACTAAAAGATAA
1 GGAAAATAATACCCTTATTCTAATAAACTACTAAAAGATAA
27420979 AATAAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.29
Consensus pattern (41 bp):
GGAAAATAATACCCTTATTCTAATAAACTACTAAAAGATAA
Found at i:27424805 original size:41 final size:41
Alignment explanation
Indices: 27424760--27424840 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
27424750 AATCTAATTG
* *
27424760 GGAAAATAATTTCCTTATTCTAATAAACTACTAAAAGATAA
1 GGAAAATAATTCCCTTATTCTAAAAAACTACTAAAAGATAA
*
27424801 GGAAAATGATTCCCTTATTCTAAAAAACTACTAAAAGATA
1 GGAAAATAATTCCCTTATTCTAAAAAACTACTAAAAGATA
27424841 TAATAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.30
Consensus pattern (41 bp):
GGAAAATAATTCCCTTATTCTAAAAAACTACTAAAAGATAA
Found at i:27424854 original size:41 final size:41
Alignment explanation
Indices: 27424761--27424854 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
27424751 ATCTAATTGG
* * *
27424761 GAAAATAATTTCCTTATTCTAATAAACTACTAAAAGATAAG
1 GAAAATAATTCCCTTATTCTAAAAAACTACTAAAAGATAAA
*
27424802 GAAAATGATTCCCTTATTCTAAAAAACTACTAAAAGATATAA
1 GAAAATAATTCCCTTATTCTAAAAAACTACTAAAAGATA-AA
*
27424844 TAAAAT-ATTCC
1 GAAAATAATTCC
27424855 TAGAATATCT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 41 0.87
42 6 0.13
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (41 bp):
GAAAATAATTCCCTTATTCTAAAAAACTACTAAAAGATAAA
Found at i:27435765 original size:165 final size:165
Alignment explanation
Indices: 27435493--27435988 Score: 920
Period size: 165 Copynumber: 3.0 Consensus size: 165
27435483 GAAAGTTGAT
*
27435493 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATACGAAAGGTA
1 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATATGAAAGGTA
27435558 ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGGACAATAGCAAATAGGTGAAATGGGG
66 ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGGACAATAGCAAATAGGTGAAATGGGG
27435623 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
131 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
* *
27435658 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCCGAAGTGCTACAATATGAAAGGTA
1 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATATGAAAGGTA
* * * *
27435723 ACTCGAAAAAAGCAGCTGTTGATGCCAATCAAATCACAGGACAATAGCAAATAGGTGAAATGGGG
66 ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGGACAATAGCAAATAGGTGAAATGGGG
27435788 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
131 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
27435823 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATATGAAAGGTA
1 ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATATGAAAGGTA
*
27435888 ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGAACAATAGCAAATAGGTGAAATGGGG
66 ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGGACAATAGCAAATAGGTGAAATGGGG
27435953 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
131 TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
27435988 A
1 A
27435989 CAAGCTGATT
Statistics
Matches: 317, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 317 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.24
Consensus pattern (165 bp):
ATTCCTCTCAATTGACAAATACTAGAAAACTAAAGTGGGGCTGAAGTGCCACAATATGAAAGGTA
ACTCAAAAAAAGTAGCTGTTGATGCTAATCAGATCACAGGACAATAGCAAATAGGTGAAATGGGG
TGAAAAATTTTGGTCTAAGCTGAAAATCAGATTTA
Found at i:27443046 original size:17 final size:18
Alignment explanation
Indices: 27443013--27443047 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27443003 CTTGTCAATA
*
27443013 TTTTTAAATTATAAAAAG
1 TTTTCAAATTATAAAAAG
27443031 TTTTCAAATTATAAAAA
1 TTTTCAAATTATAAAAA
27443048 AAAATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TTTTCAAATTATAAAAAG
Found at i:27443269 original size:24 final size:26
Alignment explanation
Indices: 27443224--27443277 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
27443214 CTCGACTTTT
*
27443224 TTTTTTAATTTTTGATAAGGTTAGGG
1 TTTTTTAATTTTTGATAAGGTTAGGA
**
27443250 TTTTTTAA-TTTTG-TTGGGTTAGGA
1 TTTTTTAATTTTTGATAAGGTTAGGA
27443274 TTTT
1 TTTT
27443278 ATGAGCGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.48
25 5 0.20
26 8 0.32
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (26 bp):
TTTTTTAATTTTTGATAAGGTTAGGA
Found at i:27455980 original size:40 final size:40
Alignment explanation
Indices: 27455936--27456144 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
27455926 GTACAAACAG
27455936 GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
* * * *
27455976 GTGCATTCAAGGGTACTGAAGTACAAACAAGAGCATTTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
* * * *
27456016 GTGCATGCAAGGGTATCGAAGTACAAACAAGGGGACTTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
* *
27456056 ATGCATTCAGGGGTACCGAAGTACAAA-TAGAGGCACTTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAAG-GGCACTTAT
* * * * *
27456096 GTGTATTCAGGAGTACCGAAGTACAAATACGGGCACCTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
27456136 GTGCATTCA
1 GTGCATTCA
27456145 TATATATATA
Statistics
Matches: 144, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
39 2 0.01
40 141 0.98
41 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (40 bp):
GTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACTTAT
Found at i:27456006 original size:20 final size:20
Alignment explanation
Indices: 27455946--27456006 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
27455936 GTGCATTCAG
*
27455946 GGGTACCGAAGTACAAACAA
1 GGGTACTGAAGTACAAACAA
* * * * **
27455966 GGGCACTTATGTGCATTCAA
1 GGGTACTGAAGTACAAACAA
27455986 GGGTACTGAAGTACAAACAA
1 GGGTACTGAAGTACAAACAA
27456006 G
1 G
27456007 AGCATTTATG
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (20 bp):
GGGTACTGAAGTACAAACAA
Found at i:27457518 original size:25 final size:25
Alignment explanation
Indices: 27457490--27457539 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
27457480 TAGATAATAT
*
27457490 GCCAC-AAGGTCTTTACAGAATATGC
1 GCCACAAAGG-CTTTACAAAATATGC
27457515 GCCACAAAGGCTTTACAAAATATGC
1 GCCACAAAGGCTTTACAAAATATGC
27457540 CATGACAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (25 bp):
GCCACAAAGGCTTTACAAAATATGC
Found at i:27461680 original size:27 final size:27
Alignment explanation
Indices: 27461650--27462127 Score: 356
Period size: 27 Copynumber: 17.8 Consensus size: 27
27461640 TCATTTCCTA
**
27461650 AGGGTATAACAGTCATTTTACCCTATG
1 AGGGTATTTCAGTCATTTTACCCTATG
27461677 AGGGTATTTC-GTTCATTTTACCCTATG
1 AGGGTATTTCAG-TCATTTTACCCTATG
** *
27461704 AGGGTATTTTGGTCATTTCACCCTATG
1 AGGGTATTTCAGTCATTTTACCCTATG
* ** *
27461731 GGGGTATTTTGGTCATTTTACCTTAT-
1 AGGGTATTTCAGTCATTTTACCCTATG
*
27461757 AGGGATATTTCAGTTATTTTACCCTAT-
1 AGGG-TATTTCAGTCATTTTACCCTATG
27461784 AGGGGTATTTC-GATCATTTTACCCTATG
1 A-GGGTATTTCAG-TCATTTTACCCTATG
* * *
27461812 GGGGTAATTC-GATTATTTTACCCTATG
1 AGGGTATTTCAG-TCATTTTACCCTATG
* *
27461839 -GGGTATTTCAATCATTTTATCCTATG
1 AGGGTATTTCAGTCATTTTACCCTATG
* **
27461865 AGAGTATTTCAGTCATTCTT-TTCTAT-
1 AGGGTATTTCAGTCATT-TTACCCTATG
* *
27461891 AGGGGTATTTAAGT-TTTTCTACCCTATG
1 A-GGGTATTTCAGTCATTT-TACCCTATG
* * * *
27461919 GGGGTATTTCGGTCATTCTACCATATG
1 AGGGTATTTCAGTCATTTTACCCTATG
* *
27461946 AGGCTATTTC-GATCATTCTACCCTATG
1 AGGGTATTTCAG-TCATTTTACCCTATG
* * *
27461973 -GGGTTATTTCGGTCATTCTATCCTATG
1 AGGG-TATTTCAGTCATTTTACCCTATG
* * *
27462000 -GGGTATTTCGGTCATTCTACCTTAT-
1 AGGGTATTTCAGTCATTTTACCCTATG
* *
27462025 AGGGGTATTTCAGTTATTTTACCTTATG
1 A-GGGTATTTCAGTCATTTTACCCTATG
* * *
27462053 GGGGTATTTC-GATCATTTAATCCTATG
1 AGGGTATTTCAG-TCATTTTACCCTATG
* * *
27462080 GGGGTATTTAAGCCATTTTACCCT-TG
1 AGGGTATTTCAGTCATTTTACCCTATG
* **
27462106 GGGGTATTTTGGTCATTTTACC
1 AGGGTATTTCAGTCATTTTACC
27462128 TATTTTGGGA
Statistics
Matches: 373, Mismatches: 56, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.00
26 75 0.20
27 287 0.77
28 10 0.03
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
AGGGTATTTCAGTCATTTTACCCTATG
Found at i:27461708 original size:54 final size:54
Alignment explanation
Indices: 27461650--27462127 Score: 395
Period size: 54 Copynumber: 8.9 Consensus size: 54
27461640 TCATTTCCTA
** *
27461650 AGGGTATAACAGTCATTTTACCCTATGAGGGTATTTCGTTCATTTTACCCTATG
1 AGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
** * * * * *
27461704 AGGGTATTTTGGTCATTTCACCCTATGGGGGTATTTTGGTCATTTTACCTTAT-
1 AGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
*
27461757 AGGGATATTTCAGTTATTTTACCCTAT-AGGGGTATTTCGATCATTTTACCCTATG
1 AGGG-TATTTCAGTCATTTTACCCTATGA-GGGTATTTCGATCATTTTACCCTATG
* * * * *
27461812 GGGGTAATTC-GATTATTTTACCCTATG-GGGTATTTCAATCATTTTATCCTATG
1 AGGGTATTTCAG-TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
* ** * *
27461865 AGAGTATTTCAGTCATTCTT-TTCTAT-AGGGGTATTT-AAGT-TTTTCTACCCTATG
1 AGGGTATTTCAGTCATT-TTACCCTATGA-GGGTATTTCGA-TCATTT-TACCCTATG
* * * * * *
27461919 GGGGTATTTCGGTCATTCTACCATATGAGGCTATTTCGATCATTCTACCCTATG
1 AGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
* * * * * *
27461973 -GGGTTATTTCGGTCATTCTATCCTATG-GGGTATTTCGGTCATTCTACCTTAT-
1 AGGG-TATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
* * * * *
27462025 AGGGGTATTTCAGTTATTTTACCTTATGGGGGTATTTCGATCATTTAATCCTATG
1 A-GGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
* * * * * *
27462080 GGGGTATTTAAGCCATTTTACCCT-TGGGGGTATTTTGGTCATTTTACC
1 AGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACC
27462128 TATTTTGGGA
Statistics
Matches: 340, Mismatches: 64, Indels: 41
0.76 0.14 0.09
Matches are distributed among these distances:
53 113 0.33
54 220 0.65
55 7 0.02
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (54 bp):
AGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG
Found at i:27461914 original size:107 final size:105
Alignment explanation
Indices: 27461659--27462114 Score: 355
Period size: 107 Copynumber: 4.2 Consensus size: 105
27461649 AAGGGTATAA
* * * * * * * * *
27461659 CAGTCATTTTACCCTATGAGGGTATTT-CGTTCATTTTACCCTATGAGGGTATTTTGGTCATTTC
1 CAGTCATTCTATCCTATG-GGGTATTTAAG-TCATTCTACCCTATGGGGGTATTTCGATTATTTT
* * * *
27461723 ACCCTATGGGGGTATTTTGGTCATTTTA-CCTTATAGGGATATTT
64 ACCATAT-GGGGTATTTCGATCATTTTATCC-TAT-GGGGTATTT
* * * * * *
27461767 CAGTTATTTTACCCTATAGGGGTATTT-CGATCATTTTACCCTATGGGGGTAATTCGATTATTTT
1 CAGTCATTCTATCCTAT-GGGGTATTTAAG-TCATTCTACCCTATGGGGGTATTTCGATTATTTT
* * *
27461831 ACCCTATGGGGTATTTCAATCATTTTATCCTATGAGAGTATTT
64 ACCATATGGGGTATTTCGATCATTTTATCCTATG-GGGTATTT
* * ** * * *
27461874 CAGTCATTCTTTTCTATAGGGGTATTTAAGTTTTTCTACCCTATGGGGGTATTTCGGTCATTCTA
1 CAGTCATTCTATCCTAT-GGGGTATTTAAGTCATTCTACCCTATGGGGGTATTTCGATTATTTTA
* * *
27461939 CCATATGAGGCTATTTCGATCATTCTACCCTATGGGGTTATTT
65 CCATATG-GGGTATTTCGATCATTTTATCCTATGGGG-TATTT
* ** * *
27461982 CGGTCATTCTATCCTATGGGGTATTTCGGTCATTCTACCTTATAGGGGTATTTC-AGTTATTTTA
1 CAGTCATTCTATCCTATGGGGTATTTAAGTCATTCTACCCTATGGGGGTATTTCGA-TTATTTTA
* *
27462046 CCTTATGGGGGTATTTCGATCATTTAATCCTATGGGGGTATTT
65 CCATAT-GGGGTATTTCGATCATTTTATCCTAT-GGGGTATTT
* * * *
27462089 AAGCCATTTTACCCT-TGGGGGTATTT
1 CAGTCATTCTATCCTAT-GGGGTATTT
27462115 TGGTCATTTT
Statistics
Matches: 284, Mismatches: 54, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
106 2 0.01
107 171 0.60
108 110 0.39
109 1 0.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (105 bp):
CAGTCATTCTATCCTATGGGGTATTTAAGTCATTCTACCCTATGGGGGTATTTCGATTATTTTAC
CATATGGGGTATTTCGATCATTTTATCCTATGGGGTATTT
Found at i:27462088 original size:134 final size:133
Alignment explanation
Indices: 27461662--27462130 Score: 552
Period size: 134 Copynumber: 3.5 Consensus size: 133
27461652 GGTATAACAG
* * * *
27461662 TCATTTTACCCTATGAGGGTATTTCGTTCATTTTACCCTATGAGGGTATTTTGGTCATTTCACCC
1 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATG-GGGTATTTCGGTCATTTTATCC
* * * *
27461727 TATGGGGGTATTTTGGTCATTTTACCTTATAGGGATATTTCAGTTATTTTACCCTATAGGGGTAT
65 TAT-GGGGTATTTCGGTCATTCTACCTTATAGGGGTATTTCAGTTATTTTACCCTATGGGGGTAT
27461792 TTCGA
129 TTCGA
* * * **
27461797 TCATTTTACCCTATGGGGGTAATTCGATTATTTTACCCTATGGGGTATTTCAATCATTTTATCCT
1 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGTATTTCGGTCATTTTATCCT
* * ** *
27461862 ATGAGAGTATTTCAGTCATTCT-TTTCTATAGGGGTATTTAAGTT-TTTCTACCCTATGGGGGTA
66 ATG-GGGTATTTCGGTCATTCTACCT-TATAGGGGTATTTCAGTTATTT-TACCCTATGGGGGTA
*
27461925 TTTCGG
128 TTTCGA
* * * * *
27461931 TCATTCTACCATATGAGGCTATTTCGATCATTCTACCCTATGGGGTTATTTCGGTCATTCTATCC
1 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGG-TATTTCGGTCATTTTATCC
*
27461996 TATGGGGTATTTCGGTCATTCTACCTTATAGGGGTATTTCAGTTATTTTACCTTATGGGGGTATT
65 TATGGGGTATTTCGGTCATTCTACCTTATAGGGGTATTTCAGTTATTTTACCCTATGGGGGTATT
27462061 TCGA
130 TCGA
* * * * * *
27462065 TCATTTAATCCTATGGGGGTATTT-AAGCCATTTTACCCT-TGGGGGTATTTTGGTCATTTTA-C
1 TCATTTTACCCTATGAGGGTATTTCGA-TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTATC
27462127 CTAT
64 CTAT
27462131 TTTGGGATCT
Statistics
Matches: 279, Mismatches: 47, Indels: 19
0.81 0.14 0.06
Matches are distributed among these distances:
132 5 0.02
133 21 0.08
134 191 0.68
135 62 0.22
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (133 bp):
TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGTATTTCGGTCATTTTATCCT
ATGGGGTATTTCGGTCATTCTACCTTATAGGGGTATTTCAGTTATTTTACCCTATGGGGGTATTT
CGA
Found at i:27476508 original size:23 final size:23
Alignment explanation
Indices: 27476472--27476522 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
27476462 AAAAATGGTT
27476472 AAAT-TACCATATAAATCCATTC
1 AAATATACCATATAAATCCATTC
*
27476494 AAATATACTATATAAATCCATTC
1 AAATATACCATATAAATCCATTC
27476517 AAATAT
1 AAATAT
27476523 GCATTCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATATACCATATAAATCCATTC
Found at i:27487122 original size:14 final size:14
Alignment explanation
Indices: 27487105--27487153 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
27487095 TTCATTTTCC
27487105 ACCTGCCATTACAT
1 ACCTGCCATTACAT
* *
27487119 ACCTCCACACTCTGCAT
1 ACCTGC-CA-T-TACAT
27487136 ACCTGCCATTACAT
1 ACCTGCCATTACAT
27487150 ACCT
1 ACCT
27487154 CCACACTCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 13 0.46
15 3 0.11
16 3 0.11
17 9 0.32
ACGTcount: A:0.27, C:0.41, G:0.06, T:0.27
Consensus pattern (14 bp):
ACCTGCCATTACAT
Found at i:27487138 original size:17 final size:17
Alignment explanation
Indices: 27487116--27487167 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
27487106 CCTGCCATTA
27487116 CATACCTCCACACTCTG
1 CATACCTCCACACTCTG
* *
27487133 CATACCTGC-CA-T-TA
1 CATACCTCCACACTCTG
27487147 CATACCTCCACACTCTG
1 CATACCTCCACACTCTG
27487164 CATA
1 CATA
27487168 TCATTCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 9 0.32
15 3 0.11
16 3 0.11
17 13 0.46
ACGTcount: A:0.27, C:0.42, G:0.06, T:0.25
Consensus pattern (17 bp):
CATACCTCCACACTCTG
Found at i:27487140 original size:31 final size:31
Alignment explanation
Indices: 27487105--27487167 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
27487095 TTCATTTTCC
27487105 ACCTGCCATTACATACCTCCACACTCTGCAT
1 ACCTGCCATTACATACCTCCACACTCTGCAT
27487136 ACCTGCCATTACATACCTCCACACTCTGCAT
1 ACCTGCCATTACATACCTCCACACTCTGCAT
27487167 A
1 A
27487168 TCATTCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.41, G:0.06, T:0.25
Consensus pattern (31 bp):
ACCTGCCATTACATACCTCCACACTCTGCAT
Found at i:27487659 original size:36 final size:36
Alignment explanation
Indices: 27487619--27487691 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
27487609 CTTATAAAGA
* *
27487619 GAAAGTTCTATAATTTAGTTACTTAGAATTACTGTT
1 GAAAGTTCTATAATTTAGTTACCTAGAATTACAGTT
* *
27487655 GAAAGTTTTATATTTTAGTTACCTAGAATTACAGTT
1 GAAAGTTCTATAATTTAGTTACCTAGAATTACAGTT
27487691 G
1 G
27487692 TACTTATCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (36 bp):
GAAAGTTCTATAATTTAGTTACCTAGAATTACAGTT
Found at i:27494397 original size:21 final size:21
Alignment explanation
Indices: 27494373--27494414 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27494363 TAACTTTTTC
*
27494373 TTCTTCAGCAACAACTTCCTT
1 TTCTGCAGCAACAACTTCCTT
*
27494394 TTCTGCAGCATCAACTTCCTT
1 TTCTGCAGCAACAACTTCCTT
27494415 CTCAACAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.38
Consensus pattern (21 bp):
TTCTGCAGCAACAACTTCCTT
Found at i:27509016 original size:51 final size:51
Alignment explanation
Indices: 27508894--27509136 Score: 239
Period size: 50 Copynumber: 4.8 Consensus size: 51
27508884 TATCATTCGA
* * ** *
27508894 TACACGTAGTAGCCTTCACATAGTTCTACACACGTGTTCA--AACTTTTCGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAAC-TTCCGG
* * *
27508944 TTCACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAA-TATCTGA
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAACT-TCCGG
*
27508995 TACACGTAGTAGCCTGCACATAGTACTACACACGTG---ATTGAAGCTATCCGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCATT-AA-CT-TCCGG
* * * * * * *
27509046 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTTTCA-TTCCGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAACTTCCGG
*
27509096 CACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
27509137 CACTTTCACT
Statistics
Matches: 159, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
48 3 0.02
49 2 0.01
50 75 0.47
51 74 0.47
52 2 0.01
53 1 0.01
54 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (51 bp):
TACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAACTTCCGG
Found at i:27509101 original size:101 final size:102
Alignment explanation
Indices: 27508895--27509132 Score: 300
Period size: 101 Copynumber: 2.4 Consensus size: 102
27508885 ATCATTCGAT
* * * * * *
27508895 ACACGTAGTAGCCTTCACATAGTTCTACACACGTG-TTCAAACTTTTCGGTTCACGTAGTAGCCT
1 ACACGTAGTAGCCTACACATAGTACTACACACGTGATTCAAACTATCCGGTACACATAGTAGCCT
* * *
27508959 ACACATAGTACTACACACGTGACCATTAATATCTGAT
66 ACACATAGTACTACACACGCGACCATTAATATCCGAC
* * * *
27508996 ACACGTAGTAGCCTGCACATAGTACTACACACGTGATTGAAGCTATCCGGTACGCATAGTAGCCT
1 ACACGTAGTAGCCTACACATAGTACTACACACGTGATTCAAACTATCCGGTACACATAGTAGCCT
* * * * *
27509061 GCACATAGTACTACACATGCGACCTTTCAT-TCCGGC
66 ACACATAGTACTACACACGCGACCATTAATATCCGAC
27509097 ACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 ACACGTAGTAGCCTACACATAGTACTACACACGTGA
27509133 CCATCACTTT
Statistics
Matches: 118, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
101 71 0.60
102 47 0.40
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (102 bp):
ACACGTAGTAGCCTACACATAGTACTACACACGTGATTCAAACTATCCGGTACACATAGTAGCCT
ACACATAGTACTACACACGCGACCATTAATATCCGAC
Found at i:27514816 original size:26 final size:27
Alignment explanation
Indices: 27514787--27514851 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
27514777 TTTAAATTAT
*
27514787 TAATTATTTTAAATTAA-TTAAAAATC
1 TAATTATCTTAAATTAATTTAAAAATC
* * * *
27514813 TAATCATCCTAACTTAATTTAAAATTC
1 TAATTATCTTAAATTAATTTAAAAATC
27514840 TAATTATCTTAA
1 TAATTATCTTAA
27514852 CTAAAATCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 13 0.42
27 18 0.58
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (27 bp):
TAATTATCTTAAATTAATTTAAAAATC
Found at i:27514883 original size:53 final size:53
Alignment explanation
Indices: 27514735--27515164 Score: 169
Period size: 53 Copynumber: 8.3 Consensus size: 53
27514725 CTAAACTCCG
* * *
27514735 AATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTGATTTAAATTATT
1 AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTTAAATTACT
* * * * ** *
27514788 AATTATTTTAAATTAATTAAAAATCTAATCATCCTAA-C--TTAATTTAAAATT-CT
1 AATTATCTTAACTAAAATCTAAAT-T-ATTAT-CTAATCTATTAATTT-AAATTACT
*
27514841 AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAA-TTAAATTCCT
1 AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTTAAATTACT
* * * * *
27514893 AATTTTATTATCT-AAAT-TAAAACTCTAATTATCCTAA--T-TCAATTTAAACT-CAT
1 AATTATCTTAACTAAAATCT-AAA-T-T-ATTAT-CTAATCTATTAATTTAAATTAC-T
* * * *
27514946 AATTATC-T-A-T---ATCTAAATTATTACCTAATATTTTAATTTAAATTATT
1 AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTTAAATTACT
* * * ** ***
27514993 AATCATC-TAAATAAATTAGAAATCTAATTATTCTAA--T-TTAATTTAAACCCCT
1 AATTATCTTAACTAAAATCTAAAT-T-ATTA-TCTAATCTATTAATTTAAATTACT
* * * * *
27515045 AATTACCTTAACTAAAATCAAAATTATTATCTAACCTGTTAA-TTAAATTCCT
1 AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTTAAATTACT
* * * *
27515097 AACTATCTT-ATTTAAAT-TAAAATTTCAATTATCCTAA--T-TTAATTTAAACT-CT
1 AATTATCTTAACTAAAATCT-AAA-TT--ATTAT-CTAATCTATTAATTTAAATTACT
27515149 AATTATCTTAACTAAA
1 AATTATCTTAACTAAA
27515165 TTAAATCTCT
Statistics
Matches: 283, Mismatches: 55, Indels: 78
0.68 0.13 0.19
Matches are distributed among these distances:
44 4 0.01
45 4 0.01
46 2 0.01
47 19 0.07
48 6 0.02
49 2 0.01
50 11 0.04
51 30 0.11
52 75 0.27
53 90 0.32
54 20 0.07
55 16 0.06
56 4 0.01
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.43
Consensus pattern (53 bp):
AATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTTAAATTACT
Found at i:27514938 original size:105 final size:103
Alignment explanation
Indices: 27514726--27515164 Score: 437
Period size: 105 Copynumber: 4.2 Consensus size: 103
27514716 TGAGGAACCC
* * *
27514726 TAAACTCCGAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTGATTTAAATTATTAAT
1 TAAACT-CTAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATT-AATTAAATTACTAAT
* * *
27514791 TATT-TTAAATTAATTAAAAATCTAATCATCCTAACTTAATT
64 T-TTATTAAATAAATT-AAAATCTAATTATCCTAATTTAATT
* * *
27514832 TAAAATTCTAATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAATTAAATTCCTAATT
1 T-AAACTCTAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTAATTAAATTACTAATT
** *
27514897 TTATTATCTAAATTAAAACTCTAATTATCCTAATTCAATT
65 TTATTAAATAAATTAAAA-TCTAATTATCCTAATTTAATT
* * *
27514937 TAAACTCATAATTATC-T-A-T---ATCTAAATTATTACCTAATATTTTAATTTAAATTATTAA-
1 TAAACTC-TAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTAA-TTAAATTACTAAT
* *
27514995 -TCATCTAAATAAATTAGAAATCTAATTATTCTAATTTAATT
64 TTTAT-TAAATAAATTA-AAATCTAATTATCCTAATTTAATT
* * * * * * * *
27515036 TAAACCCCTAATTACCTTAACTAAAATCAAAATTATTATCTAACCTGTTAATTAAATTCCTAACT
1 TAAA-CTCTAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTAATTAAATTACTAATT
* * ** *
27515101 ATCTTATTTAAATTAAAATTTCAATTATCCTAATTTAATT
65 TTATTAAATAAATTAAAATCT-AATTATCCTAATTTAATT
27515141 TAAACTCTAATTATCTTAACTAAA
1 TAAACTCTAATTATCTTAACTAAA
27515165 TTAAATCTCT
Statistics
Matches: 275, Mismatches: 41, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
98 3 0.01
99 62 0.23
100 16 0.06
101 1 0.00
102 2 0.01
103 1 0.00
104 45 0.16
105 99 0.36
106 42 0.15
107 4 0.01
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.43
Consensus pattern (103 bp):
TAAACTCTAATTATCTTAACTAAAATCTAAATTATTACCTAATCTATTAATTAAATTACTAATTT
TATTAAATAAATTAAAATCTAATTATCCTAATTTAATT
Found at i:27515115 original size:26 final size:25
Alignment explanation
Indices: 27515085--27515186 Score: 80
Period size: 26 Copynumber: 3.9 Consensus size: 25
27515075 CTAACCTGTT
*
27515085 AATTAAATTCCTAACTATCTTATTTA
1 AATTAAATT-CTAATTATCTTATTTA
*
27515111 AATTAAAATT-TCAATTATCCTAATTTA
1 AATT-AAATTCT-AATTAT-CTTATTTA
* * **
27515138 ATTTAAACTCTAATTATCTTAACTA
1 AATTAAATTCTAATTATCTTATTTA
*
27515163 AATTAAATCTCTAATCATCGTTAT
1 AATTAAAT-TCTAATTATC-TTAT
27515187 ATATTTTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
25 12 0.20
26 28 0.47
27 19 0.32
ACGTcount: A:0.40, C:0.15, G:0.01, T:0.44
Consensus pattern (25 bp):
AATTAAATTCTAATTATCTTATTTA
Found at i:27515115 original size:204 final size:203
Alignment explanation
Indices: 27514751--27515167 Score: 577
Period size: 204 Copynumber: 2.0 Consensus size: 203
27514741 CTTAACTAAA
* * * * *
27514751 ATCTAAATTATTACCTAATCTATTGATTTAAATTATTAATTATTTTAAATTAATTAAAAATCTAA
1 ATCTAAATTATTACCTAATATATTAATTTAAATTATTAATCATTCTAAATAAATTAAAAATCTAA
** * * *
27514816 TCATCCTAACTTAATTTAAAATTCTAATTATCTTAACTAAAATCTAAATTATTATCTAATCTATT
66 TCATCCTAACTTAATTTAAAACCCTAATTACCTTAACTAAAATCAAAATTATTATCTAACCTATT
* *
27514881 AATTAAATTCCTAATTTTATTATCTAAATTAAAA-CTCTAATTATCCTAATTCAATTTAAACTCA
131 AATTAAATTCCTAACTATATTATCTAAATTAAAATCTC-AATTATCCTAATTCAATTTAAACTC-
27514945 TAATTATCTAT
194 TAATTATCT-T
* *
27514956 ATCTAAATTATTACCTAATATTTTAATTTAAATTATTAATCA-TCTAAATAAATTAGAAATCTAA
1 ATCTAAATTATTACCTAATATATTAATTTAAATTATTAATCATTCTAAATAAATTAAAAATCTAA
* * * * *
27515020 TTATTCTAATTTAATTTAAACCCCTAATTACCTTAACTAAAATCAAAATTATTATCTAACCTGTT
66 TCATCCTAACTTAATTTAAAACCCTAATTACCTTAACTAAAATCAAAATTATTATCTAACCTATT
* * * *
27515085 AATTAAATTCCTAACTATCTTATTTAAATTAAAATTTCAATTATCCTAATTTAATTTAAACTCTA
131 AATTAAATTCCTAACTATATTATCTAAATTAAAATCTCAATTATCCTAATTCAATTTAAACTCTA
27515150 ATTATCTT
196 ATTATCTT
*
27515158 AACTAAATTA
1 ATCTAAATTA
27515168 AATCTCTAAT
Statistics
Matches: 187, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
202 10 0.05
203 9 0.05
204 128 0.68
205 40 0.21
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.44
Consensus pattern (203 bp):
ATCTAAATTATTACCTAATATATTAATTTAAATTATTAATCATTCTAAATAAATTAAAAATCTAA
TCATCCTAACTTAATTTAAAACCCTAATTACCTTAACTAAAATCAAAATTATTATCTAACCTATT
AATTAAATTCCTAACTATATTATCTAAATTAAAATCTCAATTATCCTAATTCAATTTAAACTCTA
ATTATCTT
Found at i:27516881 original size:29 final size:29
Alignment explanation
Indices: 27516839--27516926 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
27516829 AAGTGAACAT
* * * * *
27516839 CGATACAAAATACCTGATAATATGGTCAC
1 CGATACATAGTACCTAATAAAATAGTCAC
27516868 CGATACATAGTACCTAATAAAATAGTCAC
1 CGATACATAGTACCTAATAAAATAGTCAC
* * * *
27516897 TGGTACATAGCACCTAATAAATATAATCAC
1 CGATACATAGTACCTAATAAA-ATAGTCAC
27516927 TGGCACATAG
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 42 0.86
30 7 0.14
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.25
Consensus pattern (29 bp):
CGATACATAGTACCTAATAAAATAGTCAC
Found at i:27516929 original size:30 final size:29
Alignment explanation
Indices: 27516871--27516936 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
27516861 TGGTCACCGA
* *
27516871 TACATAGTACCTAATAAAATAGTCACTGG
1 TACATAGCACCTAATAAAATAATCACTGG
27516900 TACATAGCACCTAATAAATATAATCACTGG
1 TACATAGCACCTAATAAA-ATAATCACTGG
*
27516930 CACATAG
1 TACATAG
27516937 TGCTTGATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (29 bp):
TACATAGCACCTAATAAAATAATCACTGG
Found at i:27519903 original size:16 final size:16
Alignment explanation
Indices: 27519878--27519920 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
27519868 GCTCGCATAT
* * *
27519878 CATAGTTCACATTCAG
1 CATAGCTCACATGCAA
27519894 CATAGCTCACATGCAA
1 CATAGCTCACATGCAA
*
27519910 CATTGCTCACA
1 CATAGCTCACA
27519921 ATTATTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.26
Consensus pattern (16 bp):
CATAGCTCACATGCAA
Found at i:27521584 original size:25 final size:24
Alignment explanation
Indices: 27521556--27521614 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 24
27521546 ATGCTCATAT
27521556 GAGCTATGAATCGGTATGCTCTCAC
1 GAGCTAT-AATCGGTATGCTCTCAC
27521581 GAGCTATAGATCGGTATGCTCTCAC
1 GAGCTATA-ATCGGTATGCTCTCAC
27521606 GAGCTATAA
1 GAGCTATAA
27521615 ATCACTAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
24 2 0.06
25 31 0.94
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
GAGCTATAATCGGTATGCTCTCAC
Found at i:27529238 original size:25 final size:25
Alignment explanation
Indices: 27529210--27529258 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
27529200 TATGAATTGG
*
27529210 TATGCTCTCATGAGCTATAAATCGA
1 TATGCTCTCAGGAGCTATAAATCGA
* *
27529235 TATGCTTTTAGGAGCTATAAATCG
1 TATGCTCTCAGGAGCTATAAATCG
27529259 GTAACCCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (25 bp):
TATGCTCTCAGGAGCTATAAATCGA
Found at i:27530571 original size:27 final size:27
Alignment explanation
Indices: 27530541--27530595 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
27530531 GTTTGCACAT
27530541 AGAATAGTTTGCATAAGAACATAGCTC
1 AGAATAGTTTGCATAAGAACATAGCTC
27530568 AGAATAGTTTGCATAAGAACATAGCTC
1 AGAATAGTTTGCATAAGAACATAGCTC
27530595 A
1 A
27530596 CATAAATAAA
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:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (27 bp):
AGAATAGTTTGCATAAGAACATAGCTC
Found at i:27530619 original size:20 final size:21
Alignment explanation
Indices: 27530580--27530620 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
27530570 AATAGTTTGC
27530580 ATAAGAACATAGCTCACATAA
1 ATAAGAACATAGCTCACATAA
* *
27530601 ATAA-AACATAGTTCGCATAA
1 ATAAGAACATAGCTCACATAA
27530621 TCATAGTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.51, C:0.17, G:0.10, T:0.22
Consensus pattern (21 bp):
ATAAGAACATAGCTCACATAA
Found at i:27539189 original size:18 final size:18
Alignment explanation
Indices: 27539166--27539206 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
27539156 AAACATATAG
27539166 TCATGTACTCATCAATCA
1 TCATGTACTCATCAATCA
27539184 TCATGTACTCATCAATCA
1 TCATGTACTCATCAATCA
27539202 TCATG
1 TCATG
27539207 GCATAGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (18 bp):
TCATGTACTCATCAATCA
Found at i:27546407 original size:38 final size:38
Alignment explanation
Indices: 27546357--27546549 Score: 226
Period size: 38 Copynumber: 5.1 Consensus size: 38
27546347 GTAAATTTTC
* * * *
27546357 AATA-CACCGGCACAAAGCCTGCTAGGCACATAGCCCA
1 AATATCACTGGCACAAAGCCTGCTAGGCACACAGCTCG
* * * *
27546394 AATATCACTGGCACACAGCTTGCTAGACACACAGCTTG
1 AATATCACTGGCACAAAGCCTGCTAGGCACACAGCTCG
* *
27546432 AATATCACTGGAACAAAGCCTACTAGGCACACAGCTCG
1 AATATCACTGGCACAAAGCCTGCTAGGCACACAGCTCG
* * *
27546470 AATATCACTGGCACAAAGCTTGCTAGGCATACAGTTCG
1 AATATCACTGGCACAAAGCCTGCTAGGCACACAGCTCG
* * * *
27546508 AATATCACTAGCACAAAGCCTACTAGGCACATAGCCCG
1 AATATCACTGGCACAAAGCCTGCTAGGCACACAGCTCG
27546546 AATA
1 AATA
27546550 ACATTACATT
Statistics
Matches: 129, Mismatches: 26, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
37 4 0.03
38 125 0.97
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (38 bp):
AATATCACTGGCACAAAGCCTGCTAGGCACACAGCTCG
Found at i:27546494 original size:76 final size:76
Alignment explanation
Indices: 27546368--27546549 Score: 267
Period size: 76 Copynumber: 2.4 Consensus size: 76
27546358 ATACACCGGC
* * *
27546368 ACAAAGCCTGCTAGGCACATAGCCCAAATATCACTGGCACACAGCTTGCTAGACACACAGCTT-G
1 ACAAAGCCTACTAGGCACATAGCCCGAATATCACTGGCACAAAGCTTGCTAGACACACAG-TTCG
*
27546432 AATATCACTGGA
65 AATATCACTAGA
* * * *
27546444 ACAAAGCCTACTAGGCACACAGCTCGAATATCACTGGCACAAAGCTTGCTAGGCATACAGTTCGA
1 ACAAAGCCTACTAGGCACATAGCCCGAATATCACTGGCACAAAGCTTGCTAGACACACAGTTCGA
*
27546509 ATATCACTAGC
66 ATATCACTAGA
27546520 ACAAAGCCTACTAGGCACATAGCCCGAATA
1 ACAAAGCCTACTAGGCACATAGCCCGAATA
27546550 ACATTACATT
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 2 0.02
76 92 0.98
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (76 bp):
ACAAAGCCTACTAGGCACATAGCCCGAATATCACTGGCACAAAGCTTGCTAGACACACAGTTCGA
ATATCACTAGA
Found at i:27549370 original size:18 final size:17
Alignment explanation
Indices: 27549346--27549385 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 17
27549336 AAATTATTTT
27549346 TAAAATTTAGAAAATTATA
1 TAAAA-TTA-AAAATTATA
27549365 -AAAATTAAAAATTATA
1 TAAAATTAAAAATTATA
27549381 TAAAA
1 TAAAA
27549386 GTAGATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 9 0.45
17 7 0.35
18 4 0.20
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAATTAAAAATTATA
Found at i:27549377 original size:16 final size:17
Alignment explanation
Indices: 27549346--27549390 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
27549336 AAATTATTTT
*
27549346 TAAAATTTAGAAAATTA
1 TAAAAATTAGAAAATTA
27549363 TAAAAATTA-AAAATTA
1 TAAAAATTAGAAAATTA
*
27549379 TATAAAAGTAGA
1 TA-AAAATTAGA
27549391 TAAAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 14 0.58
18 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (17 bp):
TAAAAATTAGAAAATTA
Found at i:27549412 original size:19 final size:21
Alignment explanation
Indices: 27549370--27549413 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
27549360 TTATAAAAAT
* *
27549370 TAAAAATTATATAAAAGTAGA
1 TAAAAATTATATAAAAATAAA
27549391 TAAAAATT-T-TAAAAATAAA
1 TAAAAATTATATAAAAATAAA
27549410 TAAA
1 TAAA
27549414 GGGAGAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAAATTATATAAAAATAAA
Found at i:27555926 original size:79 final size:78
Alignment explanation
Indices: 27555826--27556050 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 78
27555816 GCTCCTCGTT
* *
27555826 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
27555891 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* *
27555906 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAGCCCG
*
27555969 GATTTAGTATCTCGCA
63 GATTTAGTAACTCGCA
* * * * *
27555985 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
27556049 GA
63 GA
27556051 CATCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
78 6 0.05
79 64 0.51
80 42 0.34
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:27556010 original size:119 final size:120
Alignment explanation
Indices: 27555826--27556050 Score: 291
Period size: 119 Copynumber: 1.9 Consensus size: 120
27555816 GCTCCTCGTT
27555826 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
27555891 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
27555945 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAAC
* *
27556006 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
62 CCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
27556051 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 8 0.09
119 63 0.68
120 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:27556050 original size:40 final size:39
Alignment explanation
Indices: 27555826--27556050 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 39
27555816 GCTCCTCGTT
* *
27555826 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
* * *
27555866 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
27555906 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAT-TCGCA
* *
27555945 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAT-TCGCA
* * *
27555985 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-A-TTCGCA
27556026 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27556051 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
38 3 0.02
39 30 0.18
40 117 0.72
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTATTCGCA
Found at i:27563940 original size:49 final size:49
Alignment explanation
Indices: 27563841--27563940 Score: 121
Period size: 49 Copynumber: 2.0 Consensus size: 49
27563831 TTATTTTATT
* * * * * *
27563841 TTAGAATAAGGTTTTTCAACTTTATTACACTTCATCTATTTGATATTGA
1 TTAGAATAAGGTGTTTCAACCTCACTACACTCCATCTATTAGATATTGA
*
27563890 TTAGAATAAGGTGTTTCAACCTCACTACACTCCTTCTATTAGA-ATATGA
1 TTAGAATAAGGTGTTTCAACCTCACTACACTCCATCTATTAGATAT-TGA
27563939 TT
1 TT
27563941 TTACAAGCCC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 2 0.05
49 41 0.95
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (49 bp):
TTAGAATAAGGTGTTTCAACCTCACTACACTCCATCTATTAGATATTGA
Found at i:27565028 original size:31 final size:32
Alignment explanation
Indices: 27564981--27565053 Score: 105
Period size: 31 Copynumber: 2.3 Consensus size: 32
27564971 ACAAAATTTC
*
27564981 ACATGAA-TTTTGGTTTAATTTGTAATATTAT
1 ACATGAACTTTTGGTTTAATTTGCAATATTAT
*
27565012 ACATGAGCTTTT-GTTTAATTTGCAATATTAT
1 ACATGAACTTTTGGTTTAATTTGCAATATTAT
*
27565043 GCATGAACTTT
1 ACATGAACTTT
27565054 GACTTTTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 33 0.89
32 4 0.11
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (32 bp):
ACATGAACTTTTGGTTTAATTTGCAATATTAT
Found at i:27565910 original size:21 final size:20
Alignment explanation
Indices: 27565876--27565916 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
27565866 TTAGTTTGAT
27565876 TTTTTTATATAATTT-ATAA
1 TTTTTTATATAATTTGATAA
27565895 TTTTTTATATTGAATTTGATAA
1 TTTTTTATA-T-AATTTGATAA
27565917 ATTAATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 1 0.05
21 5 0.26
22 4 0.21
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTTTATATAATTTGATAA
Found at i:27567915 original size:3 final size:3
Alignment explanation
Indices: 27567907--27567939 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
27567897 TTTGAGCCGT
27567907 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
27567940 GTTAGATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:27570594 original size:49 final size:46
Alignment explanation
Indices: 27570541--27570651 Score: 129
Period size: 49 Copynumber: 2.4 Consensus size: 46
27570531 ATCATATTCT
* *
27570541 AATAGAAAG-AGTGTAGTGAGGTTGAAACACCTTATTCTAATCAATATCA
1 AATAGAAAGAAGTGTAGTAAGGTTGAAAAACCTTATTCTAA--AATA--A
* *
27570590 AATAG-ATGAAGTGTAATAAGGTTGAAAAACCTTATTCTAAAATAA
1 AATAGAAAGAAGTGTAGTAAGGTTGAAAAACCTTATTCTAAAATAA
27570635 AATA-AAAGAAGTGTAGT
1 AATAGAAAGAAGTGTAGT
27570652 TCTATAGGGA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
45 15 0.28
47 4 0.07
48 2 0.04
49 33 0.61
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (46 bp):
AATAGAAAGAAGTGTAGTAAGGTTGAAAAACCTTATTCTAAAATAA
Found at i:27575500 original size:22 final size:22
Alignment explanation
Indices: 27575441--27575503 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 22
27575431 AAAGATTTCT
27575441 TTATAATTTATATCTTAAACTAAA
1 TTATAATTTAT-T-TTAAACTAAA
*
27575465 -TATAAAGTTGATTTTAAA-TAAA
1 TTAT-AA-TTTATTTTAAACTAAA
27575487 TTATATATTTATTTTAA
1 TTATA-ATTTATTTTAA
27575504 TATTTTACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 14 0.42
23 12 0.36
24 3 0.09
25 4 0.12
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (22 bp):
TTATAATTTATTTTAAACTAAA
Found at i:27576719 original size:20 final size:20
Alignment explanation
Indices: 27576690--27576739 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
27576680 CATATATCCT
* *
27576690 AATTTTATTTTATTCCAATC
1 AATTTGATTTGATTCCAATC
**
27576710 AATTTGATTTGATTTTAATC
1 AATTTGATTTGATTCCAATC
*
27576730 AAATTGATTT
1 AATTTGATTT
27576740 AATTGCTCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (20 bp):
AATTTGATTTGATTCCAATC
Found at i:27582992 original size:15 final size:15
Alignment explanation
Indices: 27582969--27583006 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
27582959 CATTGAAAAA
*
27582969 GAAATTGAAAGAA-AT
1 GAAAATGAAA-AAGAT
27582984 GAAAATGAAAAAGAT
1 GAAAATGAAAAAGAT
27582999 GAAAATGA
1 GAAAATGA
27583007 GATTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (15 bp):
GAAAATGAAAAAGAT
Found at i:27584444 original size:46 final size:46
Alignment explanation
Indices: 27584368--27584465 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 46
27584358 CATTAATAAG
* * **
27584368 TTAAGTTAATTAATTTGTCTAAATTACTACAGGAATTTAAGTTGTC
1 TTAAGCTAATTAATTTGTCTAAATTACTACAGCAATTTAAAATGTC
*** *
27584414 TTAAGCTAATTTAATTTGTCTTTGTT-CTACAGCCATTTAAAATGTC
1 TTAAGCTAA-TTAATTTGTCTAAATTACTACAGCAATTTAAAATGTC
27584460 TTAAGC
1 TTAAGC
27584466 CAAGACAACT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 30 0.70
47 13 0.30
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (46 bp):
TTAAGCTAATTAATTTGTCTAAATTACTACAGCAATTTAAAATGTC
Found at i:27585703 original size:22 final size:21
Alignment explanation
Indices: 27585671--27585714 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
27585661 GTCATTGTGA
*
27585671 AAAAAAATCAATAAAAAATTTT
1 AAAAAAATCAA-AAAAAAGTTT
*
27585693 AAAAAATTCAAAAAAAAGTTT
1 AAAAAAATCAAAAAAAAGTTT
27585714 A
1 A
27585715 TTTTATATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAAAAATCAAAAAAAAGTTT
Found at i:27586873 original size:13 final size:12
Alignment explanation
Indices: 27586855--27586896 Score: 54
Period size: 10 Copynumber: 3.7 Consensus size: 12
27586845 TGTGAGCGAG
27586855 AAAAGAACATTGA
1 AAAAGAA-ATTGA
27586868 AAAAGAAATTG-
1 AAAAGAAATTGA
27586879 -AAAGAAA-TGA
1 AAAAGAAATTGA
27586889 AAAAGAAA
1 AAAAGAAA
27586897 AAGATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 7 0.26
11 7 0.26
12 4 0.15
13 7 0.26
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:27586941 original size:36 final size:34
Alignment explanation
Indices: 27586888--27586955 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 34
27586878 GAAAGAAATG
* *
27586888 AAAAAGAAAAAGATGAAAATG-AAAATGAGATTTC
1 AAAAACAAAAAGATGAAAA-GCAAAAAGAGATTTC
27586922 AAAAACAAAAGAGAGTGAAAAGCAAAAAGAGATT
1 AAAAACAAAA-AGA-TGAAAAGCAAAAAGAGATT
27586956 GAAAAAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 9 0.31
35 4 0.14
36 16 0.55
ACGTcount: A:0.63, C:0.04, G:0.19, T:0.13
Consensus pattern (34 bp):
AAAAACAAAAAGATGAAAAGCAAAAAGAGATTTC
Found at i:27586962 original size:12 final size:12
Alignment explanation
Indices: 27586945--27587020 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 12
27586935 AGTGAAAAGC
27586945 AAAAAGAGATTG
1 AAAAAGAGATTG
*
27586957 AAAAAGAAATTG
1 AAAAAGAGATTG
*
27586969 --AAAGAGA-AG
1 AAAAAGAGATTG
*
27586978 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
27586993 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
27587005 AAAGAGAGCTTG
1 AAAAAGAGATTG
27587017 AAAA
1 AAAA
27587021 GAAATCGAGA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 1 0.02
10 6 0.12
11 4 0.08
12 25 0.52
13 5 0.10
15 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.25, T:0.12
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:27586986 original size:15 final size:15
Alignment explanation
Indices: 27586968--27587001 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27586958 AAAAGAAATT
27586968 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
27586983 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
27586998 GAAA
1 GAAA
27587002 TTGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:27589598 original size:72 final size:72
Alignment explanation
Indices: 27589475--27589660 Score: 282
Period size: 72 Copynumber: 2.6 Consensus size: 72
27589465 GTACATGGAT
* *
27589475 GGCAATTAAAGAGAAAGGTTGCTGCTGCATTTTTCCAAGCTGCCGAATTTAATGTGTGCATGGGA
1 GGCATTTAAAGAG-AAGGTTGCTGCTGCATTTTTCCAAGCTGCCAAATTTAATGTGTGCATGGGA
27589540 CTTGGGAC
65 CTTGGGAC
*
27589548 GGCATTTAAAGAGAAGGTTGCTGCTGCCTTTTTCCAAGCTGCCAAATTTAATGTGTGCATGGGAC
1 GGCATTTAAAGAGAAGGTTGCTGCTGCATTTTTCCAAGCTGCCAAATTTAATGTGTGCATGGGAC
27589613 TTGGGAC
66 TTGGGAC
* * * * * *
27589620 GACATTAAAAGAGGAGGCTGCTGTTGCATTTTTCTAAGCTG
1 GGCATTTAAAGAGAAGGTTGCTGCTGCATTTTTCCAAGCTG
27589661 ATTATTCAGC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 91 0.88
73 12 0.12
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (72 bp):
GGCATTTAAAGAGAAGGTTGCTGCTGCATTTTTCCAAGCTGCCAAATTTAATGTGTGCATGGGAC
TTGGGAC
Found at i:27590512 original size:43 final size:42
Alignment explanation
Indices: 27590408--27590618 Score: 142
Period size: 43 Copynumber: 4.8 Consensus size: 42
27590398 CAAATCCATT
*
27590408 TAGAACATAACCTTTAGC-GACGTTT-CTCACAAAAAAATGCCACTA
1 TAGAACATAACCTTTAGCGGAC-TTTCCTCAC----AAACGCCACTA
* * * *
27590453 TATAACATCACATTTAGCGGAACTTTCCTCACAAACGCCGCTA
1 TAGAACATAACCTTTAGCGG-ACTTTCCTCACAAACGCCACTA
*
27590496 TAGAACATAACCTTTAGC-GACGTTT-CTCACAAAAAAATGCCACTA
1 TAGAACATAACCTTTAGCGGAC-TTTCCTCAC----AAACGCCACTA
* * * ** *
27590541 TATAACATGACATTTAATGGCACTTTCCTCACAAACGCCGCTA
1 TAGAACATAACCTTTAGCGG-ACTTTCCTCACAAACGCCACTA
* * *
27590584 AAGAACATGACCTTTAGCGGCACTTTCCCCACAAA
1 TAGAACATAACCTTTAGCGG-ACTTTCCTCACAAA
27590619 AACATCGCTA
Statistics
Matches: 132, Mismatches: 23, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
41 7 0.05
42 4 0.03
43 62 0.47
45 37 0.28
46 8 0.06
47 14 0.11
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (42 bp):
TAGAACATAACCTTTAGCGGACTTTCCTCACAAACGCCACTA
Found at i:27590548 original size:45 final size:45
Alignment explanation
Indices: 27590411--27590548 Score: 169
Period size: 45 Copynumber: 3.1 Consensus size: 45
27590401 ATCCATTTAG
27590411 AACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATAT
1 AACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATAT
* * * * *
27590456 AACATCACATTTAGCGGAAC-TTTCCTCAC----AAACGCCGCTATAG
1 AACATAACCTTTAGC-G-ACGTTT-CTCACAAAAAAATGCCACTATAT
27590499 AACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATAT
1 AACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATAT
27590544 AACAT
1 AACAT
27590549 GACATTTAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
41 7 0.09
42 4 0.05
43 24 0.32
45 29 0.39
46 4 0.05
47 7 0.09
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.25
Consensus pattern (45 bp):
AACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATAT
Found at i:27590620 original size:88 final size:88
Alignment explanation
Indices: 27590409--27590696 Score: 339
Period size: 88 Copynumber: 3.2 Consensus size: 88
27590399 AAATCCATTT
* * *
27590409 AGAACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATATAACATCACATTTAGCGGA
1 AGAACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATATAACATGACATTTAGTGGC
*
27590474 ACTTTCCTCACAAACGCCGCTAT
66 ACTTTCCTCACAAACGCCGCTAA
*
27590497 AGAACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATATAACATGACATTTAATGGC
1 AGAACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATATAACATGACATTTAGTGGC
27590562 ACTTTCCTCACAAACGCCGCTAA
66 ACTTTCCTCACAAACGCCGCTAA
* * * * * * *
27590585 AGAACATGACCTTTAGCGGCAC-TTTCCCCACAAAAACAT--CGCTATAAAACATGCCCTTTAGT
1 AGAACATAACCTTTAGC-G-ACGTTT-CTCACAAAAAAATGCCACTATATAACATGACATTTAGT
* * *
27590647 GACGCTTTCCCCACAAACGTCGCTAGCTAA
63 GGCACTTTCCTCACAAACG-C-C--GCTAA
* *
27590677 AGAGCATGACCTTTAGCGAC
1 AGAACATAACCTTTAGCGAC
27590697 ACTTTCCCCA
Statistics
Matches: 176, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
88 133 0.76
89 5 0.03
90 16 0.09
91 1 0.01
92 21 0.12
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (88 bp):
AGAACATAACCTTTAGCGACGTTTCTCACAAAAAAATGCCACTATATAACATGACATTTAGTGGC
ACTTTCCTCACAAACGCCGCTAA
Found at i:27590643 original size:45 final size:45
Alignment explanation
Indices: 27590491--27590710 Score: 157
Period size: 45 Copynumber: 4.9 Consensus size: 45
27590481 TCACAAACGC
* * * * *
27590491 CGCTATAGAACATAACCTTTAGCGAC-GTTT-CTCACAAAAAAAT
1 CGCTATAAAACATGACCTTTAGCGACACTTTCCCCACAAAAACAT
* * * ** * * **
27590534 GCCACTATATAACATGACATTTAATGGCACTTTCCTCAC--AAACGC
1 --CGCTATAAAACATGACCTTTAGCGACACTTTCCCCACAAAAACAT
*
27590579 CGCTA-AAGAACATGACCTTTAGCGGCACTTTCCCCACAAAAACAT
1 CGCTATAA-AACATGACCTTTAGCGACACTTTCCCCACAAAAACAT
* * * *
27590624 CGCTATAAAACATGCCCTTTAGTGACGCTTTCCCCAC--AAACGT
1 CGCTATAAAACATGACCTTTAGCGACACTTTCCCCACAAAAACAT
27590667 CGCTAGCTAAAGAGCATGACCTTTAGCGACACTTTCCCCACAAA
1 CGCTA--TAAA-A-CATGACCTTTAGCGACACTTTCCCCACAAA
27590711 CGCCACTACT
Statistics
Matches: 136, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
42 1 0.01
43 39 0.29
45 60 0.44
46 6 0.04
47 29 0.21
49 1 0.01
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.24
Consensus pattern (45 bp):
CGCTATAAAACATGACCTTTAGCGACACTTTCCCCACAAAAACAT
Found at i:27590703 original size:47 final size:46
Alignment explanation
Indices: 27590561--27590712 Score: 165
Period size: 47 Copynumber: 3.4 Consensus size: 46
27590551 CATTTAATGG
* *
27590561 CACTTTCCTCACAAACG-C-C--GCTAAAGAACATGACCTTTAGCGG
1 CACTTTCCCCACAAACGTCGCTAGCTAAAG-ACATGACCTTTAGCGA
* * *
27590604 CACTTTCCCCACAAAAACATCGCTA--TAAA-ACATGCCCTTTAGTGA
1 CACTTTCCCCAC--AAACGTCGCTAGCTAAAGACATGACCTTTAGCGA
*
27590649 CGCTTTCCCCACAAACGTCGCTAGCTAAAGAGCATGACCTTTAGCGA
1 CACTTTCCCCACAAACGTCGCTAGCTAAAGA-CATGACCTTTAGCGA
27590696 CACTTTCCCCACAAACG
1 CACTTTCCCCACAAACG
27590713 CCACTACTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
43 21 0.24
45 32 0.36
46 2 0.02
47 34 0.38
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.22
Consensus pattern (46 bp):
CACTTTCCCCACAAACGTCGCTAGCTAAAGACATGACCTTTAGCGA
Found at i:27595325 original size:36 final size:36
Alignment explanation
Indices: 27595278--27595348 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
27595268 ATCATTCCCG
27595278 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGATT
1 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGATT
27595314 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGAT
1 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGAT
27595349 AAAAGAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (36 bp):
AGACCTTTCTCTTCAGCGATAATCATAGGTAAGATT
Found at i:27596768 original size:36 final size:36
Alignment explanation
Indices: 27596727--27596803 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
27596717 ATCCAAAGTT
*
27596727 TTATGTAAGTTATGATATGATATATATTTATGTAAG
1 TTATGTAAGTTATGATATAATATATATTTATGTAAG
27596763 TTATGTAAGTTATGATATAATATATATTTATGTAAG
1 TTATGTAAGTTATGATATAATATATATTTATGTAAG
27596799 TTATG
1 TTATG
27596804 ATCCAAAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (36 bp):
TTATGTAAGTTATGATATAATATATATTTATGTAAG
Found at i:27604324 original size:41 final size:41
Alignment explanation
Indices: 27604194--27604370 Score: 223
Period size: 41 Copynumber: 4.4 Consensus size: 41
27604184 AAAAAGATAC
* * *
27604194 TTTGCGGCTTTTTTCTCAT-AGCGCCGCTAATGCTTGACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* *
27604234 TTTGTGGCGTTTTTCTCAT-AGCGCCGTTAATGCTTGACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* * * *
27604274 TTTGCGGCGTTTTTCTCATAAACACTGCTAGTGCTTGACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* *
27604315 TTTGTGGCGTTTTTCTCATAAACGCCGCTACTGCTTTACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* *
27604356 ATTGTGGCATTTTTC
1 TTTGTGGCGTTTTTC
27604371 CGTTAGCGTC
Statistics
Matches: 120, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
40 55 0.46
41 65 0.54
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (41 bp):
TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
Found at i:27604328 original size:81 final size:81
Alignment explanation
Indices: 27604194--27604370 Score: 230
Period size: 81 Copynumber: 2.2 Consensus size: 81
27604184 AAAAAGATAC
* * * *
27604194 TTTGCGGCTTTTTTCTCATAGCGCCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCAT-AGCGC
1 TTTGCGGCATTTTTCTCATAACACCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCATAAACGC
*
27604258 CGTTAATGCTTGACCT
66 CGCTAATGCTTGACCT
* * *
27604274 TTTGCGGCGTTTTTCTCATAAACACTGCTAGTGCTTGACCTTTTGTGGCGTTTTTCTCATAAACG
1 TTTGCGGCATTTTTCTCAT-AACACCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCATAAACG
* *
27604339 CCGCTACTGCTTTACCT
65 CCGCTAATGCTTGACCT
* *
27604356 ATTGTGGCATTTTTC
1 TTTGCGGCATTTTTC
27604371 CGTTAGCGTC
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 18 0.22
81 36 0.43
82 29 0.35
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (81 bp):
TTTGCGGCATTTTTCTCATAACACCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCATAAACGC
CGCTAATGCTTGACCT
Found at i:27605637 original size:16 final size:16
Alignment explanation
Indices: 27605616--27605646 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27605606 ATATTTAGTC
27605616 ATATAATAAATTATTA
1 ATATAATAAATTATTA
*
27605632 ATATAATTAATTATT
1 ATATAATAAATTATT
27605647 TTTAATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:27608206 original size:17 final size:17
Alignment explanation
Indices: 27608172--27608206 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27608162 ATATAATTAT
* *
27608172 ATTAAATAAGAAGTTAA
1 ATTAAATAAAAAGATAA
27608189 ATTAAATAAAAAGATAA
1 ATTAAATAAAAAGATAA
27608206 A
1 A
27608207 AACTAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
ATTAAATAAAAAGATAA
Found at i:27611284 original size:17 final size:17
Alignment explanation
Indices: 27611264--27611332 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
27611254 TTTGTTTTAA
27611264 AAAATAAAAAAATAAAT
1 AAAATAAAAAAATAAAT
* *
27611281 AAAA-ACAACAAATATAT
1 AAAATA-AAAAAATAAAT
*
27611298 ATAAATAAAAACTAATTAA-
1 A-AAATAAAAA--AATAAAT
27611317 AAAATAAAAGAAATAA
1 AAAATAAAA-AAATAA
27611333 TTACATTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
16 1 0.03
17 18 0.45
18 14 0.35
19 3 0.08
20 4 0.10
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (17 bp):
AAAATAAAAAAATAAAT
Found at i:27611953 original size:22 final size:21
Alignment explanation
Indices: 27611918--27611975 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
27611908 AAAGGGTATC
* *
27611918 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
27611939 TACAAAATCATATCTTGTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
27611962 TACATATCATATCT
1 TACAAATCATATCT
27611976 AAGATTGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:27611963 original size:23 final size:22
Alignment explanation
Indices: 27611933--27611975 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
27611923 ATTAAATCTC
27611933 TAAGATTACAAAATCATATCTTG
1 TAAGATTAC-AAATCATATCTTG
*
27611956 TAAGATTACATATCATATCT
1 TAAGATTACAAATCATATCT
27611976 AAGATTGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAGATTACAAATCATATCTTG
Found at i:27611980 original size:19 final size:19
Alignment explanation
Indices: 27611931--27612028 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
27611921 AAATTAAATC
*
27611931 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
27611951 TCTTGTAAGATTACATATCATA
1 TC---TAAGATTACATATCATA
*
27611973 TCTAAGATTGCCTATATCATA
1 TCTAAGATT-AC-ATATCATA
*
27611994 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
27612013 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
27612029 CTCGAAGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
19 31 0.44
20 4 0.06
21 17 0.24
22 9 0.13
23 9 0.13
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:27611991 original size:21 final size:20
Alignment explanation
Indices: 27611964--27612028 Score: 107
Period size: 19 Copynumber: 3.3 Consensus size: 20
27611954 TGTAAGATTA
27611964 CATATCATATCTAAGATTGC
1 CATATCATATCTAAGATTGC
27611984 CTATATCATATCTAAGATTG-
1 C-ATATCATATCTAAGATTGC
27612004 CATATCATATCTAAGATTG-
1 CATATCATATCTAAGATTGC
27612023 CATATC
1 CATATC
27612029 CTCGAAGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
19 24 0.55
20 2 0.05
21 18 0.41
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (20 bp):
CATATCATATCTAAGATTGC
Found at i:27612038 original size:17 final size:18
Alignment explanation
Indices: 27611957--27612038 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 18
27611947 CATATCTTGT
* *
27611957 AAGATTACATATCATATCT
1 AAGATTGCATATCA-ATCG
*
27611976 AAGATTGCCTATATCATATCT
1 AAGATTG-C-ATATCA-ATCG
*
27611997 AAGATTGCATATCATATCT
1 AAGATTGCATATCA-ATCG
*
27612016 AAGATTGCATATC-CTCG
1 AAGATTGCATATCAATCG
27612033 AAGATT
1 AAGATT
27612039 ATGTTTCCAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.14
19 30 0.52
20 2 0.03
21 18 0.31
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (18 bp):
AAGATTGCATATCAATCG
Found at i:27612561 original size:44 final size:44
Alignment explanation
Indices: 27612338--27612670 Score: 200
Period size: 44 Copynumber: 7.6 Consensus size: 44
27612328 CTCTAATCCA
* *
27612338 CTCCACTACAACTT-AGGGAGA-CAGAATTTGTTTATTTAGTATG
1 CTCCACTACAACTTCAGGGAGATAAG-ATTTGTTTATTTAGTCTG
* * * * ** * *
27612381 CCCCACTGCAATTTCAGGGGGATAAGGCTTGCTTTCTTGAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGATTTG-TTTATTTAGTCTG
* * *
27612426 CTCCACTACAACTTCAGGGAGATAAGACTTG---ATGT-GATCTA
1 CTCCACTACAACTTCAGGGAGATAAGATTTGTTTATTTAG-TCTG
* * * * * * *
27612467 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT-TTTAATCCG
1 CTCCACTACAACTTCAGGGAGATAAGATTTGT-TTATTTAGTCTG
* *
27612511 CTCCACTACAACTTCAGGGAGACAAGATTTGTTTATTTAGTATG
1 CTCCACTACAACTTCAGGGAGATAAGATTTGTTTATTTAGTCTG
* * * * **
27612555 CCCCACTGCAACTTCAGGGAGATAGGATTCG-CCATCTTCAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGATTTGTTTAT-TT-AGTCTG
* * * * * *
27612600 C-CTCATTGCAACTTCA-GGAGGATAAGACTTGATTACTTAGTCTA
1 CTC-CACTACAACTTCAGGGA-GATAAGATTTGTTTATTTAGTCTG
* *
27612644 CTCCACTGCAACTTCAAGGAGATAAGA
1 CTCCACTACAACTTCAGGGAGATAAGA
27612671 CTAGATGTGA
Statistics
Matches: 219, Mismatches: 54, Indels: 33
0.72 0.18 0.11
Matches are distributed among these distances:
40 1 0.00
41 30 0.14
43 14 0.06
44 103 0.47
45 70 0.32
46 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTACAACTTCAGGGAGATAAGATTTGTTTATTTAGTCTG
Found at i:27612600 original size:174 final size:176
Alignment explanation
Indices: 27612331--27612670 Score: 462
Period size: 174 Copynumber: 1.9 Consensus size: 176
27612321 TCCATCACTC
*
27612331 TAATCCACTCCACTACAACTTAGGGAGACAGAATTTGTTTATTTAGTATGCCCCACTGCAATTTC
1 TAATCCACTCCACTACAACTTAGGGAGACAGAATTTGTTTATTTAGTATGCCCCACTGCAACTTC
* * ** *
27612396 AGGGGGATAAGGCTTGCTTTCTTGAGTCTG-CTCCACTACAACTTCAGG-GAGATAAGACTTGA-
66 AGGGAGATAAGGATTGCCATCTTCAGTCTGCCT-CACTACAACTTCAGGAG-GATAAGACTTGAT
* *
27612458 T-GTGA-TCTACTCTACTGCAACTTC-AGAGAGATAAGATCTGTGGTTT
129 TACTGAGTCTACTCCACTGCAACTTCAAG-GAGATAAGATCTGTGGTTT
*
27612504 TAATCCGCTCCACTACAACTTCAGGGAGACA-AGATTTGTTTATTTAGTATGCCCCACTGCAACT
1 TAATCCACTCCACTACAACTT-AGGGAGACAGA-ATTTGTTTATTTAGTATGCCCCACTGCAACT
* *
27612568 TCAGGGAGAT-AGGATTCGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGATAAGACTTGA
64 TCAGGGAGATAAGGATT-GCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGA
*
27612632 TTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGA
128 TTACTGAGTCTACTCCACTGCAACTTCAAGGAGATAAGA
27612671 CTAGATGTGA
Statistics
Matches: 146, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
173 26 0.18
174 85 0.58
175 4 0.03
176 2 0.01
177 27 0.18
178 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (176 bp):
TAATCCACTCCACTACAACTTAGGGAGACAGAATTTGTTTATTTAGTATGCCCCACTGCAACTTC
AGGGAGATAAGGATTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGATTA
CTGAGTCTACTCCACTGCAACTTCAAGGAGATAAGATCTGTGGTTT
Found at i:27612671 original size:44 final size:43
Alignment explanation
Indices: 27612373--27613237 Score: 387
Period size: 44 Copynumber: 19.9 Consensus size: 43
27612363 ATTTGTTTAT
* * * * * *
27612373 TTAGTATGCCCCACTGCAATTTCAGGGGGATAAGGCTTGCTTTC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-ATTC
* *
27612417 TTGAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGA-TG
1 TT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
* * * * *
27612460 TGA-TCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTC
* * * * * * *
27612503 TTAATCCGCTCCACTACAACTTCAGGGAGACAAGATTTGTTTAT
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATT-C
* * *
27612547 TTAGTATGCCCCACTGCAACTTCAGGGAGATAGGA-TTCGCCA-TC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G--ATTC
*
27612591 TTCAGTCTGC-CTCATTGCAACTTCA-GGAGGATAAGACTTGATTAC
1 TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGATT-C
* * * *
27612636 TTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGA-TG
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
* * * * *
27612678 TGA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTT-
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTC
* ** * ** * *
27612720 TTAATCCACTCCACTGTAACTTCAGTAAGATAGGA-TT-ATCGGC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGAT--TC
* *
27612763 TTTA-ACTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA-TC
1 -TTAGTC-TGCTCCACTGCAACTTCAGGGAGATAAGACTTG--ATTC
* *
27612808 TTCAGTCTGC-CTCACTGTAACTTCA-GGAGGATAAGACTTGATGC
1 TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTC
* * * * * *
27612852 -GA-TCTACT-CTCTACAACTTCAGAGAGATAAGA-TTCAAGGTT-
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT---GATTC
* ** * * *
27612893 TTAATCCACTCCACTGCAACTTCAGGAAGATAGGA-TT-ATCGGC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGAT--TC
** * *
27612936 TTTAACCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCA-TC
1 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG--ATTC
*
27612981 TTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTGC
1 TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGATT-C
* * *
27613026 TTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGA-TG
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
* * *
27613068 TGA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATT-
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTC
* * * *
27613110 TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTG-TCGGC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGAT--TC
* * * *
27613153 TTTAATCTGCTCCACTGCAACCTCAGGGAGATAATATTTGCCA-TC
1 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG--ATTC
* *
27613198 TTCAGTCTGC-CTCACTGCAACTTCAGGGAGACAAGGCTTG
1 TT-AGTCTGCTC-CACTGCAACTTCAGGGAGATAAGACTTG
27613238 GTGGCTTAAA
Statistics
Matches: 625, Mismatches: 121, Indels: 149
0.70 0.14 0.17
Matches are distributed among these distances:
39 2 0.00
40 62 0.10
41 50 0.08
42 25 0.04
43 30 0.05
44 288 0.46
45 163 0.26
46 3 0.00
48 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
Found at i:27612743 original size:217 final size:219
Alignment explanation
Indices: 27612379--27612849 Score: 635
Period size: 217 Copynumber: 2.2 Consensus size: 219
27612369 TTATTTAGTA
* * * * * * * *
27612379 TGCCCCACTGCAATTTCAGGGGGATAAGGCTTGCTTTCTTGAGTCTGCTCCACTACAACTTCAGG
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTACTCCACTACAACTTCAAG
* **
27612444 GAGATAAGACTTGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
66 GAGATAAGACTAGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
* * ** * *
27612509 CGCTCCACTACAACTTCAGGGAGACAAGATT-T-GTTTATTTAGTATGCCCCACTGCAACTTCAG
131 CACTCCACTACAACTTCAGGAAGACAAGATTATCGGCT-TTAACT-TGCCCCACTGCAACTTCAG
*
27612572 GGAGATAGGATTCGCCATCTTCAGTC
194 GGAGATAAGATTCGCCATCTTCAGTC
* *
27612598 TGCCTCATTGCAACTTCAGGAGGATAAGACTTGATTACTT-AGTCTACTCCACTGCAACTTCAAG
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTACTCCACTACAACTTCAAG
*
27612662 GAGATAAGACTAGATGTGATCTGCTCT-CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
66 GAGATAAGACTAGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
** * * * *
27612726 CACTCCACTGTAACTTCAGTAAGATAGGATTATCGGCTTTAACTTGCTCCACTGCAACTTCAGGG
131 CACTCCACTACAACTTCAGGAAGACAAGATTATCGGCTTTAACTTGCCCCACTGCAACTTCAGGG
*
27612791 AGATAAGATTTGCCATCTTCAGTC
196 AGATAAGATTCGCCATCTTCAGTC
*
27612815 TGCCTCACTGTAACTTCAGGAGGATAAGACTTGAT
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
27612850 GCGATCTACT
Statistics
Matches: 220, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
217 134 0.61
218 51 0.23
219 35 0.16
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (219 bp):
TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTACTCCACTACAACTTCAAG
GAGATAAGACTAGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
CACTCCACTACAACTTCAGGAAGACAAGATTATCGGCTTTAACTTGCCCCACTGCAACTTCAGGG
AGATAAGATTCGCCATCTTCAGTC
Found at i:27612912 original size:217 final size:214
Alignment explanation
Indices: 27612466--27613228 Score: 701
Period size: 217 Copynumber: 3.5 Consensus size: 214
27612456 GATGTGATCT
* ** * *
27612466 ACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGA
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGA
* ** * * *
27612531 GACAAGATTTGTTTATTTAGTATGCCCCACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAG
66 GATAAGATTTGCCTATTAAGTATG-CCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
* * *
27612596 TCTGCCTCATTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCTACTCCACTGCAACTTCA-
130 TCTGCCTCATTGCAACTTCAGGAGGATAAGACTTGA-TGC-GA-TCTACT-CTCTGCAACTTCAG
* * * *
27612660 AGGAGATAAGA-CTA-GATGTGATCT
191 A-GAGATAAGATC-AGGTTTTAATCC
* * * **
27612684 GCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGTAACTTCAGTAA
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGA
* * *
27612748 GATAGGATTATCGGCT-TTAACT-TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
66 GATAAGATT-T-GCCTATTAAGTATGC-CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
* * *
27612811 AGTCTGCCTCACTGTAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTCTACAACTTCAGAG
128 AGTCTGCCTCATTGCAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTCTGCAACTTCAGAG
27612876 AGATAAGATTCAAGGTTTTAATCC
193 AGATAAGA-TC-AGGTTTTAATCC
* * *
27612900 ACTCCACTGCAACTTCAG-GAAGATAGGAT-TATCGGCTTTAA-CCTACTCCACTGCAACTTCAG
1 ACTCCACTGCAACTTCAGAG-AGATAAGATCTA-AGGTTTTAATCC-ACTCCACTGCAACTTCAG
* * * * *
27612962 GGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA-GGAGGATAAGACTTG-CTTG
63 GGAGATAAGATTTGCC-TATTAAGTATGCC-CACTGCAACTTCAGGGA-GATAAGATTTGCCAT-
* * *
27613025 CTT-AGTCTG-CTCCATTGCAACTTCAGG-GAGATAAGACTAGATGTGATCTGCTCTCTGCAACT
124 CTTCAGTCTGCCT-CATTGCAACTTCAGGAG-GATAAGACTTGATGCGATCTACTCTCTGCAACT
*
27613087 TCAGAGAGATAAGATCTGTGATTTTAATCC
187 TCAGAGAGATAAGATCAG-G-TTTTAATCC
* * * ** * ** *
27613117 GCTCCACTGCAACTTCAGGGAGATAGGAT-TGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGG
1 ACTCCACTGCAACTTCAGAGAGATAAGATCT-AAGGTTTTAATCCACTCCACTGCAACTTCAGGG
* * * *
27613181 AGATAATATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGGAGA
65 AGATAAGATTTGCC-TATTAAGTATGCC-CACTGCAACTTCAGGGAGA
27613229 CAAGGCTTGG
Statistics
Matches: 464, Mismatches: 56, Indels: 51
0.81 0.10 0.09
Matches are distributed among these distances:
213 20 0.04
214 7 0.02
215 6 0.01
216 24 0.05
217 364 0.78
218 41 0.09
219 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (214 bp):
ACTCCACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGA
GATAAGATTTGCCTATTAAGTATGCCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGT
CTGCCTCATTGCAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTCTGCAACTTCAGAGAGA
TAAGATCAGGTTTTAATCC
Found at i:27612915 original size:390 final size:391
Alignment explanation
Indices: 27612383--27613237 Score: 1204
Period size: 390 Copynumber: 2.2 Consensus size: 391
27612373 TTAGTATGCC
* * ** ** * *
27612383 CCACTGCAATTTCAGGGGGATAAGGCTTGCTTTCTTGAGTCTG-CTCCACTACAACTTCAGGGAG
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT-CACTGCAACTTCAGGGAG
* * ** *
27612447 ATAAGACTTGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGC
65 ATAAGACTTGATGCGATCTACTCTACTACAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCAC
* ** * *
27612512 TCCACTACAACTTCAGGGAGACAAGATT-T-GTTTATTTA-GTATGCCCCACTGCAACTTCAGGG
130 TCCACTACAACTTCAGGAAGACAAGATTATCGGCT-TTAACCTA--CCCCACTGCAACTTCAGGG
* *
27612574 AGATAGGATTCGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGATAAGACTTGATTACTTA
192 AGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTA
27612639 GTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGA
257 GTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGA
* * *
27612704 GATAAGATCTAAGGTTTTAATCCACTCCACTGTAACTTCAGTAAGATAGGATTATCGGCTTTAA-
322 GATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAAT
27612768 CTTGCT
387 C-TGCT
*
27612774 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTTCA-GGAGG
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGGA-G
27612838 ATAAGACTTGATGCGATCTACTCT-CTACAACTTCAGAGAGATAAGAT-TCAAGGTTTTAATCCA
65 ATAAGACTTGATGCGATCTACTCTACTACAACTTCAGAGAGATAAGATCT-AAGGTTTTAATCCA
* * * *
27612901 CTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTACTCCACTGCAACTTCAGGGAG
129 CTCCACTACAACTTCAGGAAGACAAGATTATCGGCTTTAACCTACCCCACTGCAACTTCAGGGAG
* * *
27612966 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTGCTTAGT
194 ATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAGT
* * *
27613031 CTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGA
259 CTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGA
** * * *
27613096 TAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCT
324 TAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCT
27613161 GCT
389 GCT
* *
27613164 CCACTGCAACCTCAGGGAGATAATATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGGAGA
* *
27613229 CAAGGCTTG
66 TAAGACTTG
27613238 GTGGCTTAAA
Statistics
Matches: 412, Mismatches: 44, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
389 1 0.00
390 326 0.79
391 79 0.19
392 6 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (391 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGGAGA
TAAGACTTGATGCGATCTACTCTACTACAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACT
CCACTACAACTTCAGGAAGACAAGATTATCGGCTTTAACCTACCCCACTGCAACTTCAGGGAGAT
AAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCT
ACTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATA
AGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCTGC
T
Found at i:27613019 original size:173 final size:173
Alignment explanation
Indices: 27612647--27613020 Score: 635
Period size: 173 Copynumber: 2.2 Consensus size: 173
27612637 TAGTCTACTC
* * * *
27612647 CACTGCAACTTCAAGGA-GATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTC-AGGAGGATAAGACTTGATGCGATCTACTCTCTACAACTTCAGAGAGATAAGA
* * * *
27612711 TCTAAGGTTTTAATCCACTCCACTGTAACTTCAGTAAGATAGGATTATCGGCTTTAACTTGCTCC
65 TCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTACTCC
27612776 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
130 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
*
27612820 CACTGTAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTCTACAACTTCAGAGAGATAAGAT
1 CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTCTACAACTTCAGAGAGATAAGAT
27612885 -TCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTACTCC
66 CT-AAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTACTCC
27612949 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
130 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
27612993 CACTGCAACTTCAGGAGGATAAGACTTG
1 CACTGCAACTTCAGGAGGATAAGACTTG
27613021 CTTGCTTAGT
Statistics
Matches: 189, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
172 5 0.03
173 184 0.97
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (173 bp):
CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTCTACAACTTCAGAGAGATAAGAT
CTAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTACTCCA
CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
Found at i:27613124 original size:173 final size:172
Alignment explanation
Indices: 27612647--27613146 Score: 575
Period size: 173 Copynumber: 2.9 Consensus size: 172
27612637 TAGTCTACTC
* * * *
27612647 CACTGCAACTTCAAGGA-GATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTC-AGGAGGATAAGACTTGATGCGATCTACTCTCTACAACTTCAGAGAGATAAGA
* * * * * * *
27612711 TCTAAGGTTTTAATCCACTCCACTGTAACTTCAGTAAGATAGGATTATCGGCTTTAACTTGCTCC
65 TC-AAGGATGTAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATCGACTTTAACCTGCTCC
27612776 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
129 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
*
27612820 CACTGTAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTCTACAACTTCAGAGAGATAAGAT
1 CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTCTACAACTTCAGAGAGATAAGA-
* * * * *
27612885 TCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTACTCCA
65 TCAAGGATGTAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATCGACTTTAACCTGCTCCA
27612950 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
130 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
* * * * *
27612993 CACTGCAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTGCTC-CATTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGAGGATAAGACTTG-ATGC-GA-TCTACTCTC--TACAACTTCAGAGAGAT
* * ** * * *
27613057 AAGA-CTA-GATGTGATCTGCT-CTCTGCAACTTCA-GAGAGATAAGATCTGT-GATTTTAATCC
61 AAGATCAAGGATGTAATCCACTCCACTGCAACTTCAGGA-AGATAAGAT-TATCGACTTTAA-CC
*
27613117 -GCTCCACTGCAACTTCAGGGAGATAGGATT
123 TGCTCCACTGCAACTTCAGGGAGATAAGATT
27613147 GTCGGCTTTA
Statistics
Matches: 289, Mismatches: 28, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
172 6 0.02
173 237 0.82
174 17 0.06
175 4 0.01
176 6 0.02
177 19 0.07
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (172 bp):
CACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTACTCTCTACAACTTCAGAGAGATAAGAT
CAAGGATGTAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATCGACTTTAACCTGCTCCAC
TGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
Found at i:27613128 original size:84 final size:87
Alignment explanation
Indices: 27612771--27613141 Score: 243
Period size: 84 Copynumber: 4.3 Consensus size: 87
27612761 GCTTTAACTT
* * * *
27612771 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTTCAGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAG-CATCGTCAGTCTGCCTCACTGCAACTTCAGGA
* * *
27612836 GGATAAGACTTGATGC--GATCT
65 GGATAAGACTTGATTCTTAATCC
* * * * * * * * *
27612857 ACT-CTCTACAACTTCAGAGAGATAAGATTCAAG-GT-TTTAATC--CACTCCACTGCAACTTCA
1 GCTCCACTGCAACTTCAGGGAGATAAGA--CTAGCATCGTCAGTCTGC-CT-CACTGCAACTTCA
* * *
27612917 GGAAGATAGGA-TT-ATCGGCTTTAA-CC
62 GGAGGATAAGACTTGAT--TC-TTAATCC
* * * *
27612943 TACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGG
1 -GCTCCACTGCAACTTCAGGGAGATAAGACTAG-CATCGTCAGTCTGCCTCACTGCAACTTCAGG
* * *
27613008 AGGATAAGACTTGCTTGCTTAGTCT
64 AGGATAAGACTTGATT-CTTAATCC
* * *
27613033 GCTCCATTGCAACTTCAGGGAGATAAGACTAG-AT-GTGA-TCTG-CTCTCTGCAACTTCA-GAG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGCATCGTCAGTCTGCCTCACTGCAACTTCAGGAG
27613093 AGATAAGATCTGTGATT-TTAATCC
66 -GATAAGA-CT-TGATTCTTAATCC
27613117 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
27613142 GGATTGTCGG
Statistics
Matches: 221, Mismatches: 41, Indels: 48
0.71 0.13 0.15
Matches are distributed among these distances:
82 3 0.01
83 7 0.03
84 78 0.35
85 28 0.13
86 10 0.05
87 7 0.03
88 22 0.10
89 58 0.26
90 6 0.03
91 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (87 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTAGCATCGTCAGTCTGCCTCACTGCAACTTCAGGAG
GATAAGACTTGATTCTTAATCC
Found at i:27613378 original size:132 final size:132
Alignment explanation
Indices: 27613220--27613632 Score: 673
Period size: 132 Copynumber: 3.1 Consensus size: 132
27613210 CACTGCAACT
*
27613220 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATATGATTTGTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
* *
27613285 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
27613350 GC
131 GC
* *
27613352 TCAGTGAGACAAGGCTTGGTGGCTTAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTTGTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
* * * *
27613417 TCTTCAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTATTCCACTGCT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
27613482 GC
131 GC
* *
27613484 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTTTTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
* * * * * *
27613549 TCCTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCATTGTT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
27613614 GC
131 GC
27613616 TCAGGGAGACAAGGCTT
1 TCAGGGAGACAAGGCTT
27613633 ATTGTTTCAC
Statistics
Matches: 259, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 259 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
GC
Found at i:27628942 original size:928 final size:928
Alignment explanation
Indices: 27627146--27629001 Score: 3577
Period size: 928 Copynumber: 2.0 Consensus size: 928
27627136 CCGAAGAAGG
27627146 GATGACATACTCCCTACGACGTCAACCGGTGAGGGGACCTCGTACGCTGCAGATGATTGTAGGTT
1 GATGACATACTCCCTACGACGTCAACCGGTGAGGGGACCTCGTACGCTGCAGATGATTGTAGGTT
* *
27627211 AGAAGATGAGTCCGATGTGGATCCACCTCGAGAGCCCGGGCTGGATGGTGTAGAAGTTGGCTTAT
66 AGAAGATGAGTCCGATGTGGATCCACCTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTAT
27627276 TTTCTAAACCGGAGCCTATTCCAACAGAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAA
131 TTTCTAAACCGGAGCCTATTCCAACAGAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAA
27627341 AATCCATAATTCAGAGCATACTCACCTCCAGCCCACATGCATAACGTCGATCTCTCTGCAGATGA
196 AATCCATAATTCAGAGCATACTCACCTCCAGCCCACATGCATAACGTCGATCTCTCTGCAGATGA
27627406 TGCGTTAGAGTTTCTAGATCTACCACACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTG
261 TGCGTTAGAGTTTCTAGATCTACCACACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTG
27627471 CTGAATTTGAAGGTGGTAATCAGTTTACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACAT
326 CTGAATTTGAAGGTGGTAATCAGTTTACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACAT
27627536 AGCATCAAAAACGGCGTTAACTACCACGTCGTTAAATCCAAATCTGATAAGTTTGAGGCGAAGTG
391 AGCATCAAAAACGGCGTTAACTACCACGTCGTTAAATCCAAATCTGATAAGTTTGAGGCGAAGTG
* *
27627601 TGCGGTGCAAGACGGCACATGTTCATGGAAAATCTACGCCTCGTTAAGGAAAAGGACAGGGTTGT
456 TGCGGTGCAAGACGGCACATGTTCATGGAAAATCTACGCCTCGTTAAGGAAAAGAACAGAGTTGT
27627666 GGGAGATAAAAAAGTACAAAGGTCCACATACATGTGCTGCAGGTACAGTATTAACGGTATATGAA
521 GGGAGATAAAAAAGTACAAAGGTCCACATACATGTGCTGCAGGTACAGTATTAACGGTATATGAA
27627731 TAATACTTTTATTATGTAATGTTGCATTATTTAATGTACTCCGTTAATAGGTGTTTCACAAGATC
586 TAATACTTTTATTATGTAATGTTGCATTATTTAATGTACTCCGTTAATAGGTGTTTCACAAGATC
27627796 ATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCTACGGTAAGAGCAGATCCTAGG
651 ATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCTACGGTAAGAGCAGATCCTAGG
27627861 ACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGGGTACACTCCCTCTTACCGTAA
716 ACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGGGTACACTCCCTCTTACCGTAA
*
27627926 GGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTGGGTGGGATGCCTTGTAACACC
781 GGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTGGGTGGGACGCCTTGTAACACC
*
27627991 CCGACCCGAGTCCGTCACCGGATTAGAGTTACGAGGCATTATCAATCAAAATCTGACCCAAAATT
846 CCGACCCGAGTCCGTCACCGGATTAGAGTTACGAGGCATTACCAATCAAAATCTGACCCAAAATT
27628056 ATTATTACCAAAATTAGT
911 ATTATTACCAAAATTAGT
*
27628074 GATGACATACTCCCTACGACGTCAACCGGTGAGGGGACCTCGTACGCTGCAGATGATTGTGGGTT
1 GATGACATACTCCCTACGACGTCAACCGGTGAGGGGACCTCGTACGCTGCAGATGATTGTAGGTT
27628139 AGAAGATGAGTCCGATGTGGATCCACCTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTAT
66 AGAAGATGAGTCCGATGTGGATCCACCTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTAT
*
27628204 TTTCTGAACCGGAGCCTATTCCAACAGAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAA
131 TTTCTAAACCGGAGCCTATTCCAACAGAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAA
*
27628269 AATCCATAATTCAGAGCATACTCACCTCCGGCCCACATGCATAACGTCGATCTCTCTGCAGATGA
196 AATCCATAATTCAGAGCATACTCACCTCCAGCCCACATGCATAACGTCGATCTCTCTGCAGATGA
*
27628334 TGCGTTAGAGTTTCTAGATCTACCACACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTT
261 TGCGTTAGAGTTTCTAGATCTACCACACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTG
*
27628399 CTGAATTTGAAGGTGGTAATCAGTTTACCAACAAGGATAGTTTTATTGGTGCTTTGAAACAACAT
326 CTGAATTTGAAGGTGGTAATCAGTTTACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACAT
27628464 AGCATCAAAAACGGCGTTAACTACCACGTCGTTAAATCCAAATCTGATAAGTTTGAGGCGAAGTG
391 AGCATCAAAAACGGCGTTAACTACCACGTCGTTAAATCCAAATCTGATAAGTTTGAGGCGAAGTG
*
27628529 TGCGGTGCAAGACGGCACATGTTCATGGAAAATCTATGCCTCGTTAAGGAAAAGAACAGAGTTGT
456 TGCGGTGCAAGACGGCACATGTTCATGGAAAATCTACGCCTCGTTAAGGAAAAGAACAGAGTTGT
*
27628594 GGGAGATAAAAAAGTACAAAGGTCCACATACATGTGCTGCAGGTACAGTATTGACGGTATATGAA
521 GGGAGATAAAAAAGTACAAAGGTCCACATACATGTGCTGCAGGTACAGTATTAACGGTATATGAA
27628659 TAATACTTTTATTATGTAATGTTGCATTATTTAATGTACTCCGTTAATAGGTGTTTCACAAGATC
586 TAATACTTTTATTATGTAATGTTGCATTATTTAATGTACTCCGTTAATAGGTGTTTCACAAGATC
27628724 ATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCTACGGTAAGAGCAGATCCTAGG
651 ATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCTACGGTAAGAGCAGATCCTAGG
27628789 ACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGGGTACACTCCCTCTTACCGTAA
716 ACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGGGTACACTCCCTCTTACCGTAA
*
27628854 GGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAATATGCATAGTGGGTGGGACGCCTTGTAACACC
781 GGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTGGGTGGGACGCCTTGTAACACC
*
27628919 CCGACCCGAGTCCGTCGCCGGATTAGAGTTACGAGGCATTACCAATCAAAATCTGACCCAAAATT
846 CCGACCCGAGTCCGTCACCGGATTAGAGTTACGAGGCATTACCAATCAAAATCTGACCCAAAATT
27628984 ATTATTACCAAAATTAGT
911 ATTATTACCAAAATTAGT
27629002 CAACAATTTA
Statistics
Matches: 913, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
928 913 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (928 bp):
GATGACATACTCCCTACGACGTCAACCGGTGAGGGGACCTCGTACGCTGCAGATGATTGTAGGTT
AGAAGATGAGTCCGATGTGGATCCACCTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTAT
TTTCTAAACCGGAGCCTATTCCAACAGAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAA
AATCCATAATTCAGAGCATACTCACCTCCAGCCCACATGCATAACGTCGATCTCTCTGCAGATGA
TGCGTTAGAGTTTCTAGATCTACCACACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTG
CTGAATTTGAAGGTGGTAATCAGTTTACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACAT
AGCATCAAAAACGGCGTTAACTACCACGTCGTTAAATCCAAATCTGATAAGTTTGAGGCGAAGTG
TGCGGTGCAAGACGGCACATGTTCATGGAAAATCTACGCCTCGTTAAGGAAAAGAACAGAGTTGT
GGGAGATAAAAAAGTACAAAGGTCCACATACATGTGCTGCAGGTACAGTATTAACGGTATATGAA
TAATACTTTTATTATGTAATGTTGCATTATTTAATGTACTCCGTTAATAGGTGTTTCACAAGATC
ATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCTACGGTAAGAGCAGATCCTAGG
ACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGGGTACACTCCCTCTTACCGTAA
GGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTGGGTGGGACGCCTTGTAACACC
CCGACCCGAGTCCGTCACCGGATTAGAGTTACGAGGCATTACCAATCAAAATCTGACCCAAAATT
ATTATTACCAAAATTAGT
Found at i:27629918 original size:41 final size:41
Alignment explanation
Indices: 27629856--27629990 Score: 216
Period size: 41 Copynumber: 3.3 Consensus size: 41
27629846 AATTTAACAT
* *
27629856 ATTCAGATCACCAGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
* * * *
27629897 ATTCATATCACCGGCATTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
27629938 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
27629979 ATTCAGATCACC
1 ATTCAGATCACC
27629991 AATTCCAAAC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
Found at i:27630217 original size:41 final size:41
Alignment explanation
Indices: 27630160--27630254 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
27630150 TTCGTTCCTT
*
27630160 TGATTCAGATCACCGGCACTTAGCCTGTTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
27630201 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
27630242 TGATTCAGATCAC
1 TGATTCAGATCAC
27630255 AAATTTCAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (41 bp):
TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
Found at i:27633790 original size:23 final size:23
Alignment explanation
Indices: 27633760--27634030 Score: 452
Period size: 23 Copynumber: 11.8 Consensus size: 23
27633750 GTTTTTAAGT
27633760 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
*
27633783 TTAGGTTAGAGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
27633806 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
* *
27633829 ATAGGTTAGGGTTTTTAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
*
27633852 ATAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
27633875 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
* * *
27633898 ATAGGTTAGGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
27633921 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
*
27633944 TTAGGTTAAGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
* *
27633967 TTAGGTTAGGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
27633990 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
27634013 TTAGGTTAGGGTTTTCAA
1 TTAGGTTAGGGTTTTCAA
27634031 TTTTTATCAC
Statistics
Matches: 230, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 230 1.00
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (23 bp):
TTAGGTTAGGGTTTTCAACTTAA
Found at i:27634067 original size:25 final size:25
Alignment explanation
Indices: 27634032--27634339 Score: 174
Period size: 25 Copynumber: 12.9 Consensus size: 25
27634022 GGTTTTCAAT
*
27634032 TTTTATCACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
27634057 TTTTATTACATCAAATAAATTTCTA
1 TTTTATTACATCAAATAAACTTCTA
27634082 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * * * **
27634105 --AAATAAC-TCAAAAAAATTTAAA
1 TTTTATTACATCAAATAAACTTCTA
27634127 TTTTTATTACATC-AATAAAACTTCTA
1 -TTTTATTACATCAAAT-AAACTTCTA
27634153 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
27634178 TTTTATTACATAAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * **
27634201 --AAATAAC-TCAAA-AAA-TTAAA
1 TTTTATTACATCAAATAAACTTCTA
*
27634221 TTTTTATTACATCAAATAAATTTCTA
1 -TTTTATTACATCAAATAAACTTCTA
27634247 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * * * **
27634270 --AAATAAC-TCAAAAAAATTTAAA
1 TTTTATTACATCAAATAAACTTCTA
*
27634292 TTTTTTTACATC-AATAAAACTTCTA
1 TTTTATTACATCAAAT-AAACTTCTA
*
27634317 TTTTATTACATCAAACAAACTTC
1 TTTTATTACATCAAATAAACTTC
27634340 AAAATATTCA
Statistics
Matches: 215, Mismatches: 40, Indels: 56
0.69 0.13 0.18
Matches are distributed among these distances:
19 1 0.00
20 18 0.08
21 18 0.08
22 4 0.02
23 10 0.05
24 22 0.10
25 126 0.59
26 16 0.07
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:27634122 original size:45 final size:46
Alignment explanation
Indices: 27634082--27634239 Score: 153
Period size: 44 Copynumber: 3.4 Consensus size: 46
27634072 TAAATTTCTA
27634082 TTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTAAAT
1 TTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTAAAT
* ** * * * **
27634128 TTTTATTACATC-AATAAAACTTCTATTTTATTACATCAAATAAACTTCTA-
1 TTTTATTACATCAAATAATA--TC-A--AAATAAC-TCAAAAAAATTTAAAT
*
27634178 TTTTATTACATAAAATAATATCAAAATAACTC-AAAAAA-TTAAAT
1 TTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTAAAT
27634222 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
27634240 ATTTCTATTT
Statistics
Matches: 87, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
43 3 0.03
44 22 0.25
45 8 0.09
46 16 0.18
47 2 0.02
48 2 0.02
49 2 0.02
50 15 0.17
51 17 0.20
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (46 bp):
TTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTAAAT
Found at i:27634194 original size:96 final size:94
Alignment explanation
Indices: 27634029--27634264 Score: 402
Period size: 96 Copynumber: 2.5 Consensus size: 94
27634019 TAGGGTTTTC
* * *
27634029 AATTTTTATCACATCAAATAAACTTCTATTTTATTACATCAAATAAATTTCTATTTTATTACATC
1 AATTTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATA
27634094 AAATAATATCAAAATAACTCAAAAAAATTTA
66 AAATAATATCAAAATAACTC-AAAAAA-TTA
27634125 AATTTTTATTACATC-AATAAAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACAT
1 AATTTTTATTACATCAAAT-AAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACAT
27634189 AAAATAATATCAAAATAACTCAAAAAATTA
65 AAAATAATATCAAAATAACTCAAAAAATTA
*
27634219 AATTTTTATTACATCAAATAAATTTCTATTTTATTACATCAAATAA
1 AATTTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAA
27634265 TATCAAAATA
Statistics
Matches: 134, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
94 44 0.33
95 12 0.09
96 78 0.58
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.41
Consensus pattern (94 bp):
AATTTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATA
AAATAATATCAAAATAACTCAAAAAATTA
Found at i:27634264 original size:69 final size:71
Alignment explanation
Indices: 27634153--27634331 Score: 303
Period size: 69 Copynumber: 2.6 Consensus size: 71
27634143 AAAACTTCTA
*
27634153 TTTTATTACATCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAACTC-AAAAAA-
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAAT
27634216 TTAAAT
66 TTAAAT
*
27634222 TTTTATTACATCAAATAAATTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAAT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAAT
27634287 TTAAAT
66 TTAAAT
27634293 TTTT-TTACATC-AATAAAACTTCTATTTTATTACATCAAA
1 TTTTATTACATCAAAT-AAACTTCTATTTTATTACATCAAA
27634332 CAAACTTCAA
Statistics
Matches: 104, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
69 58 0.56
70 36 0.35
71 10 0.10
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (71 bp):
TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAAT
TTAAAT
Found at i:27634787 original size:18 final size:18
Alignment explanation
Indices: 27634764--27634803 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
27634754 GACTCGGAAA
*
27634764 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGAT
27634782 AGGATACATATAAGGGAT
1 AGGATACATATAAGGGAT
27634800 AGGA
1 AGGA
27634804 AACGCACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGAT
Found at i:27635457 original size:7 final size:7
Alignment explanation
Indices: 27635447--27635478 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
27635437 TTATATACAT
27635447 AATACTA
1 AATACTA
27635454 AATACTA
1 AATACTA
27635461 AATACTA
1 AATACTA
27635468 AATACTA
1 AATACTA
27635475 AATA
1 AATA
27635479 TCTATTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:27636660 original size:51 final size:51
Alignment explanation
Indices: 27636590--27636715 Score: 182
Period size: 51 Copynumber: 2.5 Consensus size: 51
27636580 TATTTTAAAA
* *
27636590 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGCTTTGA-GAGATTTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTT-ATGAGAATTTTGG
* * * *
27636641 AATGATATTGAGAGGAAATTAAAATTAAATATGGATTTATGAGAATTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
27636692 AAGGAAATTGAGAGAAAATTGAAA
1 AAGGAAATTGAGAGAAAATTGAAA
27636716 GGAAATTGAG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 63 0.98
ACGTcount: A:0.45, C:0.01, G:0.24, T:0.30
Consensus pattern (51 bp):
AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
Found at i:27636712 original size:11 final size:11
Alignment explanation
Indices: 27636693--27636732 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
27636683 GAATTTTGGA
27636693 AGGAAATTGAG
1 AGGAAATTGAG
* *
27636704 AGAAAATTGAA
1 AGGAAATTGAG
27636715 AGGAAATTGAG
1 AGGAAATTGAG
27636726 AGGAAAT
1 AGGAAAT
27636733 ATAAGAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:27638492 original size:17 final size:17
Alignment explanation
Indices: 27638440--27638492 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
27638430 TATGGAAATA
* *
27638440 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
27638457 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
27638476 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
27638493 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:27638492 original size:22 final size:23
Alignment explanation
Indices: 27638464--27638508 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
27638454 ATGCAATCTT
27638464 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
27638486 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
27638509 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:27638518 original size:22 final size:23
Alignment explanation
Indices: 27638474--27638518 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
27638464 AGATATGATA
*
27638474 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
27638497 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
27638519 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:27639161 original size:23 final size:21
Alignment explanation
Indices: 27639119--27639184 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 21
27639109 AATTATTTCT
*
27639119 TTTATTTTTTTAATTAGTTTTTA
1 TTTATTTATTT-ATT-GTTTTTA
*
27639142 TTTATATATATTTGTTGTTTTTA
1 TTTAT-T-TATTTATTGTTTTTA
27639165 TTTATTTATTTATT-TTTTTA
1 TTTATTTATTTATTGTTTTTA
27639185 AAACAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 6 0.16
21 7 0.18
22 1 0.03
23 17 0.45
24 3 0.08
25 4 0.11
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTATTTATTTATTGTTTTTA
Found at i:27639258 original size:22 final size:20
Alignment explanation
Indices: 27639207--27639246 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
27639197 TTATATGTAC
*
27639207 GTATATTTATTTTTTAATATT
1 GTATA-TTATTATTTAATATT
27639228 GTA-ATTATTATTTAATATT
1 GTATATTATTATTTAATATT
27639247 TTTATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 1 0.06
21 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
GTATATTATTATTTAATATT
Found at i:27644515 original size:18 final size:17
Alignment explanation
Indices: 27644494--27644527 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27644484 TTAACATGGG
27644494 AAATTATAAAATTTTGAT
1 AAATT-TAAAATTTTGAT
*
27644512 AAATTTAGAATTTTGA
1 AAATTTAAAATTTTGA
27644528 GTTTAAAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
AAATTTAAAATTTTGAT
Found at i:27650163 original size:2 final size:2
Alignment explanation
Indices: 27650156--27650197 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
27650146 ATGGTAAAGC
27650156 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
27650198 TGAAAAGAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27652751 original size:25 final size:24
Alignment explanation
Indices: 27652723--27652774 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
27652713 ATATGGAAAG
27652723 AAATAAGAAACATATTTATACTAAT
1 AAATAAGAAACATA-TTATACTAAT
*** *
27652748 AAATGTTAAATATATTATACTAAT
1 AAATAAGAAACATATTATACTAAT
27652772 AAA
1 AAA
27652775 AACTAAATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAGAAACATATTATACTAAT
Found at i:27652781 original size:24 final size:23
Alignment explanation
Indices: 27652734--27652782 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
27652724 AATAAGAAAC
***
27652734 ATATTTATACTAATAAATGTTAA
1 ATATTTATACTAATAAAAACTAA
27652757 ATATATTATACTAATAAAAACTAA
1 ATAT-TTATACTAATAAAAACTAA
27652781 AT
1 AT
27652783 CTTCTAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATTTATACTAATAAAAACTAA
Found at i:27657892 original size:13 final size:13
Alignment explanation
Indices: 27657874--27657899 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27657864 TGTTCAATTT
27657874 TTTACTAGAAAAC
1 TTTACTAGAAAAC
27657887 TTTACTAGAAAAC
1 TTTACTAGAAAAC
27657900 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:27659690 original size:9 final size:9
Alignment explanation
Indices: 27659658--27659716 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
27659648 GTATATATCC
27659658 AAATATTTA
1 AAATATTTA
*
27659667 AATATATGTA
1 AA-ATATTTA
*
27659677 CAATATTTA
1 AAATATTTA
* *
27659686 AAATAATAA
1 AAATATTTA
27659695 AAATATTTA
1 AAATATTTA
*
27659704 TAATGATTTA
1 AAAT-ATTTA
27659714 AAA
1 AAA
27659717 ATATGAAAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
9 24 0.63
10 14 0.37
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (9 bp):
AAATATTTA
Found at i:27663460 original size:10 final size:10
Alignment explanation
Indices: 27663447--27663471 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27663437 AATTTTTTTA
27663447 ATTTTAAAAT
1 ATTTTAAAAT
27663457 ATTTTAAAAT
1 ATTTTAAAAT
27663467 ATTTT
1 ATTTT
27663472 TTTTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:27663481 original size:20 final size:20
Alignment explanation
Indices: 27663458--27663502 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27663448 TTTTAAAATA
** *
27663458 TTTTAAAATATTTTTTTTAT
1 TTTTAAAATAAATTTTTAAT
27663478 TTTTAAAATAAATTTTTAAT
1 TTTTAAAATAAATTTTTAAT
27663498 TTTTA
1 TTTTA
27663503 TTAAAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTAAAATAAATTTTTAAT
Found at i:27664932 original size:31 final size:31
Alignment explanation
Indices: 27664841--27664917 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
27664831 TATAATTTGA
* * *
27664841 TCACTAAACTATTTGAAAGT-TTTCATTTAAG
1 TCACTAAACTA-TTAAAAATATTTTATTTAAG
27664872 TCACTAAACTATTAAAAATATTTTATTTAAG
1 TCACTAAACTATTAAAAATATTTTATTTAAG
*
27664903 TCACTAGACTATTAA
1 TCACTAAACTATTAA
27664918 GTTTTTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 6 0.15
31 35 0.85
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (31 bp):
TCACTAAACTATTAAAAATATTTTATTTAAG
Found at i:27671394 original size:15 final size:15
Alignment explanation
Indices: 27671374--27671403 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27671364 ACCAATTTGG
27671374 TTAATTTGATTAATT
1 TTAATTTGATTAATT
*
27671389 TTAATTTGGTTAATT
1 TTAATTTGATTAATT
27671404 CGGTTAAATG
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:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
TTAATTTGATTAATT
Found at i:27676561 original size:24 final size:24
Alignment explanation
Indices: 27676529--27676575 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
27676519 ATGAATATTC
*
27676529 TTTATTTTGGTTAATTCGATTAAT
1 TTTAATTTGGTTAATTCGATTAAT
*
27676553 TTTAATTTGGTTAATTCGGTTAA
1 TTTAATTTGGTTAATTCGATTAA
27676576 ATGAACATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (24 bp):
TTTAATTTGGTTAATTCGATTAAT
Found at i:27682324 original size:18 final size:18
Alignment explanation
Indices: 27682298--27682344 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
27682288 CGTGTCGTTC
27682298 ATTTCCAAAACCTTATT-A
1 ATTT-CAAAACCTTATTCA
* *
27682316 ATTTACAAATCGTTATTCA
1 ATTT-CAAAACCTTATTCA
27682335 ATTTCAAAAC
1 ATTTCAAAAC
27682345 ATTTCCTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTTCAAAACCTTATTCA
Found at i:27688822 original size:21 final size:22
Alignment explanation
Indices: 27688785--27688827 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
27688775 CCAATTAACC
27688785 TAGCCCAAACACTAAACCCAAT
1 TAGCCCAAACACTAAACCCAAT
*
27688807 TAGCCTAAAC-CTAAACCCAAT
1 TAGCCCAAACACTAAACCCAAT
27688828 ACCCTGGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (22 bp):
TAGCCCAAACACTAAACCCAAT
Found at i:27690463 original size:10 final size:10
Alignment explanation
Indices: 27690419--27690466 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
27690409 TCACATTTTT
27690419 AATTTATTTC
1 AATTTATTTC
*
27690429 AACTTATTTC
1 AATTTATTTC
27690439 AATATTA-TT-
1 AAT-TTATTTC
*
27690448 AATTTATTTA
1 AATTTATTTC
27690458 AATTTATTT
1 AATTTATTT
27690467 TAACATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 22 0.67
11 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTTATTTC
Found at i:27693180 original size:41 final size:41
Alignment explanation
Indices: 27693123--27693208 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
27693113 AAAAAGAGAA
27693123 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
1 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
27693164 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
1 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
27693205 TGAA
1 TGAA
27693209 CCAGCCAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (41 bp):
TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
Found at i:27694591 original size:25 final size:25
Alignment explanation
Indices: 27694545--27694617 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
27694535 AATCAAAATT
* *
27694545 AAAATCAAAATCAAAAAG-AAAAGGA
1 AAAATCAAAGTC-AAAAGTAAAAGAA
27694570 AAAATCAAAGTCAAAAGTAAAA-AA
1 AAAATCAAAGTCAAAAGTAAAAGAA
27694594 AATCAATCAAAGTCAAAA-TAAAAG
1 AA--AATCAAAGTCAAAAGTAAAAG
27694618 TATGAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 8 0.19
25 20 0.48
26 14 0.33
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.12
Consensus pattern (25 bp):
AAAATCAAAGTCAAAAGTAAAAGAA
Found at i:27695485 original size:19 final size:20
Alignment explanation
Indices: 27695457--27695505 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
27695447 CCTTGATTCC
27695457 AAAA-AAAAAAAAAAGA-AA
1 AAAATAAAAAAAAAAGAGAA
27695475 AAAATAAAAAAAAAAGAGAA
1 AAAATAAAAAAAAAAGAGAA
27695495 AAAATAAAAAA
1 AAAATAAAAAA
27695506 GATGAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.14
19 12 0.41
20 13 0.45
ACGTcount: A:0.90, C:0.00, G:0.06, T:0.04
Consensus pattern (20 bp):
AAAATAAAAAAAAAAGAGAA
Found at i:27695485 original size:20 final size:21
Alignment explanation
Indices: 27695460--27695505 Score: 78
Period size: 19 Copynumber: 2.3 Consensus size: 21
27695450 TGATTCCAAA
27695460 AAAAAAAAAAAGA-AAAAAAT
1 AAAAAAAAAAAGAGAAAAAAT
27695480 -AAAAAAAAAAGAGAAAAAAT
1 AAAAAAAAAAAGAGAAAAAAT
27695500 AAAAAA
1 AAAAAA
27695506 GATGAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.50
20 7 0.29
21 5 0.21
ACGTcount: A:0.89, C:0.00, G:0.07, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAAGAGAAAAAAT
Found at i:27695512 original size:17 final size:15
Alignment explanation
Indices: 27695461--27695514 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
27695451 GATTCCAAAA
* *
27695461 AAAAAAAAAAGAAAAA
1 AAAAAAAAAA-AAGAG
27695477 AATAAAAAAAAAAGAG
1 AA-AAAAAAAAAAGAG
27695493 AAAAAATAAAAAAGATG
1 AAAAAA-AAAAAAGA-G
27695510 AAAAA
1 AAAAA
27695515 TGAAAATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 4 0.12
16 15 0.45
17 14 0.42
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (15 bp):
AAAAAAAAAAAAGAG
Done.