Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 50 of 325
Found at i:12807755 original size:54 final size:54
Alignment explanation
Indices: 12807687--12807882 Score: 243
Period size: 54 Copynumber: 3.6 Consensus size: 54
12807677 TTGATTGTGA
* * *
12807687 AATTACTAAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * *
12807741 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* *
12807795 AATTA-TCGAAATTA-CCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAA-TACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * * * *
12807849 AATTACCGAGATACCCTTATGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
12807883 ATTTTGCCCT
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
53 3 0.02
54 116 0.96
55 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
Found at i:12807791 original size:81 final size:81
Alignment explanation
Indices: 12807687--12807880 Score: 230
Period size: 81 Copynumber: 2.4 Consensus size: 81
12807677 TTGATTGTGA
* * * *
12807687 AATTACTAAAATACCCCTGTAGGGTAGAATT-TCCGAAA-TACCCCTATAGGGTAGAATTACTGA
1 AATTACCAAAATACCCCTATAGGGTAGAATTAT-CGAAATTA-CCCTATAGGGTAGAAATACCGA
*
12807750 AATACCCTTATAGGATAG
64 AATACCCCTATAGGATAG
* *
12807768 AATTACCAAAATACCCCTATAGGGTAGAATTATCGAAATTACCTTGTAGGGTAGAAATACCGAAA
1 AATTACCAAAATACCCCTATAGGGTAGAATTATCGAAATTACCCTATAGGGTAGAAATACCGAAA
* *
12807833 TACCCCTGTAGGGTAG
66 TACCCCTATAGGATAG
* * * * *
12807849 AATTACCGAGATACCCTTATGGGGTAAAATTA
1 AATTACCAAAATACCCCTATAGGGTAGAATTA
12807881 CCATTTTGCC
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
81 94 0.97
82 3 0.03
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (81 bp):
AATTACCAAAATACCCCTATAGGGTAGAATTATCGAAATTACCCTATAGGGTAGAAATACCGAAA
TACCCCTATAGGATAG
Found at i:12808119 original size:27 final size:26
Alignment explanation
Indices: 12808081--12808163 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
12808071 CGGAGGAAGC
*
12808081 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
12808108 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
12808134 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
12808161 GTT
1 GTT
12808164 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:12808283 original size:22 final size:22
Alignment explanation
Indices: 12808251--12808309 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
12808241 CCCGTTATTA
*
12808251 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
12808273 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
12808295 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
12808310 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:12808526 original size:26 final size:26
Alignment explanation
Indices: 12808473--12808545 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
12808463 TTAGTGGGTT
* *
12808473 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACAATATCTG-TTCTGGTGACTC
12808500 TGCCACAATAT-TGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
* *
12808526 TGTCACGATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
12808546 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 1 0.03
26 26 0.65
27 13 0.32
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:12808672 original size:6 final size:6
Alignment explanation
Indices: 12808663--12808848 Score: 147
Period size: 6 Copynumber: 30.8 Consensus size: 6
12808653 TTGCATTCAC
* * *
12808663 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTTTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
12808712 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATT-TG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
12808759 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
*
12808808 ATTCTG ATTCTT ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
12808849 CATTTTGGTT
Statistics
Matches: 145, Mismatches: 16, Indels: 38
0.73 0.08 0.19
Matches are distributed among these distances:
5 17 0.12
6 114 0.79
7 10 0.07
8 4 0.03
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:12808732 original size:30 final size:30
Alignment explanation
Indices: 12808663--12808848 Score: 228
Period size: 30 Copynumber: 6.4 Consensus size: 30
12808653 TTGCATTCAC
*
12808663 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
12808694 ATTTTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
12808724 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
12808748 ATTCTGATT-TGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
12808778 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
* *
12808808 ATTCTGATTCTTATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
12808838 ATTCTGATTCT
1 ATTCTGATTCT
12808849 CATTTTGGTT
Statistics
Matches: 136, Mismatches: 7, Indels: 25
0.81 0.04 0.15
Matches are distributed among these distances:
23 8 0.06
24 11 0.08
26 1 0.01
27 2 0.01
28 1 0.01
29 2 0.01
30 79 0.58
31 32 0.24
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:12808802 original size:84 final size:85
Alignment explanation
Indices: 12808663--12808848 Score: 338
Period size: 84 Copynumber: 2.2 Consensus size: 85
12808653 TTGCATTCAC
* *
12808663 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTTTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
12808728 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
12808748 ATTCTGATT-TGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
*
12808812 TGATTCTTATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
12808832 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
12808849 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
84 81 0.84
85 16 0.16
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
TGATTCTGATTCTGTTACTG
Found at i:12808866 original size:30 final size:30
Alignment explanation
Indices: 12808663--12808869 Score: 191
Period size: 30 Copynumber: 7.1 Consensus size: 30
12808653 TTGCATTCAC
* *
12808663 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTCATTCTGTTAC-TAATTCTG
* *
12808694 ATTTTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTCATTCTGTTACTAAT-TCTG
*
12808724 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTCATTCTGTTACTAATTCTG
* *
12808748 ATTCTGATT-TGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTCATTCTGTTA-CTAATTCTG
*
12808778 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTCATTCTGTTACTAAT-TCTG
* *
12808808 ATTCTGATTCTTATTCTGTTACTGATTCTG
1 ATTCTGATTCTCATTCTGTTACTAATTCTG
* *
12808838 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTCATTCT-GTTACTAATTCTG
12808868 AT
1 AT
12808870 AATGTTTCTT
Statistics
Matches: 152, Mismatches: 11, Indels: 27
0.80 0.06 0.14
Matches are distributed among these distances:
23 8 0.05
24 11 0.07
26 1 0.01
27 2 0.01
28 1 0.01
29 2 0.01
30 92 0.61
31 35 0.23
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTCATTCTGTTACTAATTCTG
Found at i:12810911 original size:27 final size:27
Alignment explanation
Indices: 12810860--12811293 Score: 513
Period size: 27 Copynumber: 16.2 Consensus size: 27
12810850 AAAGTACTCC
12810860 CGATTTACAGAATTA-CGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
12810886 TGATTTATAGAAGTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
12810913 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
12810940 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
12810967 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
12810994 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
12811021 CGATTTGTAAAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
12811048 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
12811075 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
12811102 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
12811129 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
12811156 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
12811183 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
12811210 TGATTTACAGAATTACTGGTTTA-CCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
12811236 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
12811263 CGATTTACAGAATTACC-TTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
12811289 TGATT
1 CGATT
12811294 GTGAAATTAC
Statistics
Matches: 343, Mismatches: 55, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
25 1 0.00
26 47 0.14
27 291 0.85
28 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:12811017 original size:108 final size:107
Alignment explanation
Indices: 12810863--12811288 Score: 565
Period size: 108 Copynumber: 4.0 Consensus size: 107
12810853 GTACTCCCGA
* * * * *
12810863 TTTACAGAATTAC-GTTTTACCCTTGATTTATAGAAGTACCGTTTTACCCTCGATTTGTAAAATT
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-ATTTGTAAAATT
*
12810927 ACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAG
65 ACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAG
12810970 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-ATTTGTAAAATT
* *
12811035 ATCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
65 ACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAG
*
12811078 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTT-TACAGAAT
1 TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCATTTGTA-A-AAT
*
12811142 TACTATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTC-G
64 TACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAG
* * ** * * * **
12811185 ATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGGTTTA-CCTCAGTTTACAAAAT
1 -TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCA-TTTGTAAAAT
* * *
12811249 TATCGTTTTACCCTCGATTTACAGAATTACC-TTTTACCCT
64 TACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCT
12811289 TGATTGTGAA
Statistics
Matches: 288, Mismatches: 25, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
106 11 0.04
107 52 0.18
108 224 0.78
109 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (107 bp):
TTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCATTTGTAAAATTA
CCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAG
Found at i:12811339 original size:27 final size:27
Alignment explanation
Indices: 12811305--12811490 Score: 196
Period size: 27 Copynumber: 7.0 Consensus size: 27
12811295 TGAAATTACT
* *
12811305 AAATACCCCTGTAGGGTAGAATTTCCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
12811332 AAATACCCCTATAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
12811359 AAATACCCTTATA-GATAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
12811385 AAATA-CCCTATAGGATAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
12811411 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
12811438 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
12811465 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
12811491 ATTTTGCCCC
Statistics
Matches: 133, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
25 6 0.05
26 30 0.23
27 97 0.73
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:12811366 original size:79 final size:79
Alignment explanation
Indices: 12811305--12811473 Score: 187
Period size: 79 Copynumber: 2.1 Consensus size: 79
12811295 TGAAATTACT
* * * **
12811305 AAATACCCCTGTAGGGTAGAATT-TCCAAAATACCCCTATAGGGTAGAATTATTGAAATACCCTT
1 AAATA-CCCTATAGGATAGAATTAT-CAAAATACCCCTATAGGGTAGAAATACCGAAATACCCTT
12811369 ATAGATAGAATTACCA
64 ATAGATAGAATTACCA
* * * * *
12811385 AAATACCCTATAGGATAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGT
1 AAATACCCTATAGGATAGAATTATCAAAATACCCCTATAGGGTAGAAATACCGAAATACCCTTAT
* *
12811450 AGGGTAGAATTACCG
66 A-GATAGAATTACCA
*
12811465 AGATACCCT
1 AAATACCCT
12811474 TGTGGGGTAA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
79 49 0.66
80 25 0.34
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (79 bp):
AAATACCCTATAGGATAGAATTATCAAAATACCCCTATAGGGTAGAAATACCGAAATACCCTTAT
AGATAGAATTACCA
Found at i:12811750 original size:27 final size:26
Alignment explanation
Indices: 12811689--12811771 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
12811679 CGGAGGAAGC
* *
12811689 GTTCTGGTGGCTATGCCACAAATATTT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
12811716 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
12811742 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
12811769 GTT
1 GTT
12811772 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 9 0.18
27 41 0.82
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:12812104 original size:27 final size:27
Alignment explanation
Indices: 12812082--12812155 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
12812072 TAGGTGGGTT
*
12812082 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
12812109 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
12812136 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
12812156 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:12812282 original size:6 final size:6
Alignment explanation
Indices: 12812273--12812526 Score: 211
Period size: 6 Copynumber: 41.8 Consensus size: 6
12812263 TTGCATTCAC
* * *
12812273 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTTTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
12812322 ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTA
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
12812371 ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
12812419 -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* *
12812468 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTT ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
12812516 ATTCTG ATTCT
1 ATTCTG ATTCT
12812527 CATTTTGGTT
Statistics
Matches: 199, Mismatches: 28, Indels: 42
0.74 0.10 0.16
Matches are distributed among these distances:
5 14 0.07
6 168 0.84
7 13 0.07
8 4 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:12812344 original size:30 final size:30
Alignment explanation
Indices: 12812308--12812526 Score: 265
Period size: 30 Copynumber: 7.4 Consensus size: 30
12812298 ATTCTGATTT
12812308 TGATTCTGATTCTGATTCTGTTACTAATAC
1 TGATTCTGATTCTGATTCTGTTACTAATAC
* *
12812338 TGATTCTGATTCTGATTTTGATT-CT-GTCACC
1 TGATTCTGATTCTGATTCTG-TTACTAAT-A-C
*
12812369 TAATTCTGATTCTGATTCTGTTACTAATAC
1 TGATTCTGATTCTGATTCTGTTACTAATAC
12812399 TGATTCTGATTCTGATTCTG----T--TAC
1 TGATTCTGATTCTGATTCTGTTACTAATAC
* *
12812423 TGATTCTGATTCTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGATTCTGTTA-CTAATAC
*
12812454 TGATTCTGATTCTGATTCTGTTACTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAATAC
* * *
12812484 TGATTCTGATTCTTATTCTGTTACTGATTC
1 TGATTCTGATTCTGATTCTGTTACTAATAC
12812514 TGATTCTGATTCT
1 TGATTCTGATTCT
12812527 CATTTTGGTT
Statistics
Matches: 163, Mismatches: 14, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
24 23 0.14
26 1 0.01
29 2 0.01
30 88 0.54
31 48 0.29
32 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
TGATTCTGATTCTGATTCTGTTACTAATAC
Found at i:12812386 original size:73 final size:73
Alignment explanation
Indices: 12812273--12812473 Score: 271
Period size: 79 Copynumber: 2.7 Consensus size: 73
12812263 TTGCATTCAC
* *
12812273 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTTTGATTCTGATTCTGATTCTG-TTACTAATA
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGATTCTGATT-CTAATA
12812337 CTGATT-CTG
65 CTG-TTACTG
*
12812346 ATTCTGATTTTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG--A-T--T-CTGATTCTGATTC
* *
12812411 TGATTCTGTTACTG
60 TAATACTGTTACTG
12812425 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTG
12812474 TTACTAATAT
Statistics
Matches: 114, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
73 43 0.38
74 1 0.01
75 1 0.01
76 2 0.02
77 1 0.01
78 3 0.03
79 61 0.54
80 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (73 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGATTCTGATTCTAATAC
TGTTACTG
Found at i:12812424 original size:85 final size:85
Alignment explanation
Indices: 12812313--12812526 Score: 290
Period size: 85 Copynumber: 2.5 Consensus size: 85
12812303 GATTTTGATT
** * ** *
12812313 CTGATTCTGATTCTG-TTACTAATACTGATTCTGATTCTGATTTTGATTC-TGTCA-CCTAATTC
1 CTGATTCTGATTCTGATT-CTGTTACTGATTCTGATTCTGATTCTG--TCACCTAATCCTAATTC
12812375 TGATTCTGATTCTGTTACTAATA
63 TGATTCTGATTCTGTTACTAATA
* *
12812398 CTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGA
1 CTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTAATCCTAATTCTGA
12812463 TTCTGATTCTGTTACTAATA
66 TTCTGATTCTGTTACTAATA
* *
12812483 TTGATTCTGATTCTTATTCTGTTACTGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCT
12812527 CATTTTGGTT
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
83 2 0.02
84 2 0.02
85 110 0.95
86 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (85 bp):
CTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTAATCCTAATTCTGA
TTCTGATTCTGTTACTAATA
Found at i:12813643 original size:26 final size:27
Alignment explanation
Indices: 12813607--12813659 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
12813597 TGTCAGCTAG
* *
12813607 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
12813633 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
12813660 CAAAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:12814994 original size:48 final size:48
Alignment explanation
Indices: 12814930--12815077 Score: 215
Period size: 48 Copynumber: 3.1 Consensus size: 48
12814920 TTGATGTACA
* *
12814930 AGATATATATATGTGGTAAAGTCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
12814978 AGATATATATATGTGGTAAAGCCGAAAGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** ** * *
12815026 AGCCATGCATATGTGGTAAAGCCAAATGGTTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
12815074 AGAT
1 AGAT
12815078 GTGTATATAT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:12817521 original size:28 final size:28
Alignment explanation
Indices: 12817465--12817581 Score: 157
Period size: 28 Copynumber: 4.2 Consensus size: 28
12817455 CAGCATGGCT
* *
12817465 ACCAG-AACAGAT-ATTGTGACAGAGTC
1 ACCAGAAACAGATAATTGTGGCAGAGCC
* *
12817491 ACCAGATACAGATAATTGTGGCAGGGCC
1 ACCAGAAACAGATAATTGTGGCAGAGCC
* *
12817519 ACCAGAAACAGATATTTGTGGTAGAGCC
1 ACCAGAAACAGATAATTGTGGCAGAGCC
*
12817547 ACCAGAAACAGATATTTGTGGCAGAGCC
1 ACCAGAAACAGATAATTGTGGCAGAGCC
12817575 ACCAGAA
1 ACCAGAA
12817582 TGCTTCCTCC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 5 0.06
27 6 0.08
28 69 0.86
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (28 bp):
ACCAGAAACAGATAATTGTGGCAGAGCC
Found at i:12817716 original size:25 final size:26
Alignment explanation
Indices: 12817688--12817746 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
12817678 ATCAACCCTA
*
12817688 AGGGTATAATGGTCATTTTGCAT-C-T
1 AGGGTATAATGGTAATTTT-CATACTT
12817713 AGGGGTATAATGGTAATTTTCATACTT
1 A-GGGTATAATGGTAATTTTCATACTT
12817740 AGGGTAT
1 AGGGTAT
12817747 TTTAGTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.13
26 24 0.80
27 2 0.07
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.39
Consensus pattern (26 bp):
AGGGTATAATGGTAATTTTCATACTT
Found at i:12818858 original size:18 final size:18
Alignment explanation
Indices: 12818811--12818867 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
12818801 AGCTATAAAG
12818811 GAAAAGAAGAAGA-AGAA
1 GAAAAGAAGAAGAGAGAA
* * *
12818828 AAAATAGATGAAGAGAGGA
1 GAAA-AGAAGAAGAGAGAA
*
12818847 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
12818865 GAA
1 GAA
12818868 TTGTCAGAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 3 0.10
18 22 0.71
19 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:12819884 original size:12 final size:12
Alignment explanation
Indices: 12819867--12819896 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12819857 TAAACCTATG
12819867 AAATAATAATAA
1 AAATAATAATAA
12819879 AAATAATAATAA
1 AAATAATAATAA
*
12819891 CAATAA
1 AAATAA
12819897 CATCCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:12830060 original size:20 final size:20
Alignment explanation
Indices: 12830037--12830078 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
12830027 AAAATTAATT
12830037 ATTTTATAATTAAAGTATGA
1 ATTTTATAATTAAAGTATGA
12830057 ATTTTATAATTAAAGTATGA
1 ATTTTATAATTAAAGTATGA
12830077 AT
1 AT
12830079 CTCGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (20 bp):
ATTTTATAATTAAAGTATGA
Found at i:12836400 original size:39 final size:39
Alignment explanation
Indices: 12836356--12836483 Score: 145
Period size: 39 Copynumber: 3.3 Consensus size: 39
12836346 CGGAATATAA
12836356 CCGGATATAACATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACATGTGCACAAATGCCTTCGGGTCTTAGC
* *
12836395 CCGGATA-GA-ATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACATG--T-GCACAAATGCCTTCGGGTCTTAGC
* * * *
12836435 CCGGATATAGCCA-CTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACATGTGCACAAATGCCTTCGGGTCTTAGC
12836474 CCGGATATAA
1 CCGGATATAA
12836484 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
37 3 0.04
38 1 0.01
39 38 0.51
40 31 0.42
43 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CCGGATATAACATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:12836504 original size:79 final size:78
Alignment explanation
Indices: 12836370--12836520 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 78
12836360 ATATAACATG
*
12836370 TGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 TGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGC
12836435 CCGGATATAGCCAC
65 CCGGATATAGCCAC
* * ** * *
12836449 TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAG
1 TGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAG
12836512 CCCGGATAT
64 CCCGGATAT
12836521 CATTCAATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 46 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (78 bp):
TGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCC
CGGATATAGCCAC
Found at i:12836516 original size:39 final size:38
Alignment explanation
Indices: 12836371--12836520 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 38
12836361 TATAACATGT
* * * *
12836371 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-TA-GCCAC
12836411 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCAC
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCCAC
* *
12836449 TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA-
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-A--GCCAC
* *
12836490 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
12836521 CATTCAATTT
Statistics
Matches: 96, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
38 5 0.05
39 42 0.44
40 44 0.46
41 2 0.02
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (38 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCCAC
Found at i:12844410 original size:40 final size:40
Alignment explanation
Indices: 12844365--12844531 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
12844355 CGGAATATAA
*
12844365 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
12844405 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
12844445 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
12844485 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
12844524 CCGGATAT
1 CCGGATAT
12844532 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:12844515 original size:80 final size:79
Alignment explanation
Indices: 12844381--12844531 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
12844371 ATAACCATGT
*
12844381 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
12844446 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
12844461 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
12844524 CCGGATAT
64 CCGGATAT
12844532 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:12846872 original size:26 final size:27
Alignment explanation
Indices: 12846798--12846881 Score: 84
Period size: 26 Copynumber: 3.1 Consensus size: 27
12846788 CAGAAATAGT
* * *
12846798 ATCAAGT-GGCTTTAGCCCATTAACAGA
1 ATCAAGTGGGC-TAAGCCCAATAACAAA
*
12846825 ATCAGGTGGGCCTAAGCCCAATAA-AAA
1 ATCAAGTGGG-CTAAGCCCAATAACAAA
*
12846852 ATCAAGTGGGCTAAGCCCAAT-ACAGA
1 ATCAAGTGGGCTAAGCCCAATAACAAA
12846878 ATCA
1 ATCA
12846882 GTATTAGATG
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 1 0.02
26 17 0.35
27 17 0.35
28 12 0.25
29 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (27 bp):
ATCAAGTGGGCTAAGCCCAATAACAAA
Found at i:12847051 original size:22 final size:22
Alignment explanation
Indices: 12847023--12847065 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12847013 CACTAAGTCA
*
12847023 ACAGAACGGCTCAACGCCATAG
1 ACAGAACGGCTAAACGCCATAG
* *
12847045 ACAGAACTGCTAAAGGCCATA
1 ACAGAACGGCTAAACGCCATA
12847066 AATATTATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.28, G:0.21, T:0.12
Consensus pattern (22 bp):
ACAGAACGGCTAAACGCCATAG
Found at i:12851886 original size:54 final size:54
Alignment explanation
Indices: 12851782--12851889 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
12851772 AATAGTACCA
* * *
12851782 GTGGCCTTAGCCCATTAACAGAATTAGGTGGCCTTAGCCCATTAACAGAATCAG
1 GTGGCCTTAGCCCATTAACAGAATCAGGTGGCCTAAGCCCAGTAACAGAATCAG
* * *
12851836 GTGGCCTTAGCCTATTAATAGAATCAGGTGGGCCTAAGCCCAGT-AGAGAATCAG
1 GTGGCCTTAGCCCATTAACAGAATCAGGT-GGCCTAAGCCCAGTAACAGAATCAG
12851890 TATCAGATGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 35 0.74
55 12 0.26
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (54 bp):
GTGGCCTTAGCCCATTAACAGAATCAGGTGGCCTAAGCCCAGTAACAGAATCAG
Found at i:12851889 original size:27 final size:27
Alignment explanation
Indices: 12851782--12851877 Score: 147
Period size: 27 Copynumber: 3.5 Consensus size: 27
12851772 AATAGTACCA
*
12851782 GTGGCCTTAGCCCATTAACAGAATTAG
1 GTGGCCTTAGCCCATTAACAGAATCAG
12851809 GTGGCCTTAGCCCATTAACAGAATCAG
1 GTGGCCTTAGCCCATTAACAGAATCAG
* *
12851836 GTGGCCTTAGCCTATTAATAGAATCAG
1 GTGGCCTTAGCCCATTAACAGAATCAG
*
12851863 GTGGGCCTAAGCCCA
1 GT-GGCCTTAGCCCA
12851878 GTAGAGAATC
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
27 53 0.84
28 10 0.16
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (27 bp):
GTGGCCTTAGCCCATTAACAGAATCAG
Found at i:12853487 original size:16 final size:16
Alignment explanation
Indices: 12853466--12853497 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12853456 AAATTCAGCC
*
12853466 AAAGAAGAAATTAAGG
1 AAAGAAGAAAATAAGG
12853482 AAAGAAGAAAATAAGG
1 AAAGAAGAAAATAAGG
12853498 CTTTTAAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.25, T:0.09
Consensus pattern (16 bp):
AAAGAAGAAAATAAGG
Found at i:12855648 original size:19 final size:19
Alignment explanation
Indices: 12855624--12855660 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12855614 CATAAGGCTG
*
12855624 AAGAGTTTCGAGCTACAAA
1 AAGAGTTCCGAGCTACAAA
12855643 AAGAGTTCCGAGCTACAA
1 AAGAGTTCCGAGCTACAA
12855661 CGAATGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (19 bp):
AAGAGTTCCGAGCTACAAA
Found at i:12856949 original size:31 final size:30
Alignment explanation
Indices: 12856892--12856971 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
12856882 GTCTCAACAT
* *
12856892 ACACTGGGCTGGAGCC-TTTCATAATTCATA
1 ACACTGGGCTGAAGCCTTTTCAAAATTCA-A
*
12856922 ACACTGGGCCGAAGCCTTTTCAAAATTCAA
1 ACACTGGGCTGAAGCCTTTTCAAAATTCAA
*
12856952 ATCACTGGGCTGAAACCTTT
1 A-CACTGGGCTGAAGCCTTT
12856972 ACTGTAAGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 16 0.37
31 27 0.63
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (30 bp):
ACACTGGGCTGAAGCCTTTTCAAAATTCAA
Found at i:12857259 original size:25 final size:25
Alignment explanation
Indices: 12857190--12857259 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
12857180 CTCTTTTAAT
*
12857190 AACTGGGGCAAAGCCCTTTCCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
12857215 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
12857240 AACTGGGGCAAAGCCGTTTT
1 AACTGGGGCAAAGCCCTTTT
12857260 TGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:12857332 original size:21 final size:21
Alignment explanation
Indices: 12857307--12857357 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
12857297 TATAATGAGT
*
12857307 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
* **
12857328 ATATCACGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
12857349 ATATCATGT
1 ATATCATGT
12857358 ATATCAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:12860280 original size:13 final size:13
Alignment explanation
Indices: 12860262--12860287 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12860252 GGACTTCCTT
12860262 ACACGGCCGTGTC
1 ACACGGCCGTGTC
12860275 ACACGGCCGTGTC
1 ACACGGCCGTGTC
12860288 TCTTTAGAAG
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGGCCGTGTC
Found at i:12869132 original size:40 final size:40
Alignment explanation
Indices: 12869077--12869293 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
12869067 CGGATGATAA
* *
12869077 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
12869117 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
12869157 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
12869197 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
12869237 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
12869277 -C-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
12869294 TACTTGGTTT
Statistics
Matches: 167, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
38 15 0.09
39 3 0.02
40 148 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:12873901 original size:33 final size:33
Alignment explanation
Indices: 12873882--12873946 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
12873872 TGTGTTAATA
12873882 AATATTTTTAATATTTAAAAATGATGTTTAAGT
1 AATATTTTTAATATTTAAAAATGATGTTTAAGT
12873915 AATATTTTTAATATTTAAAAATGATGTTTAAG
1 AATATTTTTAATATTTAAAAATGATGTTTAAG
12873947 CTTGCTGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (33 bp):
AATATTTTTAATATTTAAAAATGATGTTTAAGT
Found at i:12876234 original size:27 final size:29
Alignment explanation
Indices: 12876184--12876239 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
12876174 TTTCCTATAA
12876184 TTTAGTTTTTCAATTTCTTCTTCA-TTCT
1 TTTAGTTTTTCAATTTCTTCTTCAGTTCT
12876212 TTTAG-TTTTCAGATTTCTT-TTCAGTTCT
1 TTTAGTTTTTCA-ATTTCTTCTTCAGTTCT
12876240 AATTAGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.14, C:0.16, G:0.07, T:0.62
Consensus pattern (29 bp):
TTTAGTTTTTCAATTTCTTCTTCAGTTCT
Found at i:12878540 original size:43 final size:43
Alignment explanation
Indices: 12878417--12878540 Score: 203
Period size: 43 Copynumber: 2.9 Consensus size: 43
12878407 GTTATCGAGA
** * *
12878417 TGTGATTACATGTAAGACCATGTCTGGAACATCGACATTGTAT
1 TGTGATTATGTGTAAGACCATGTCTGGGACATCGGCATTGTAT
12878460 TGTGATTATGTGTAAGACCATGTCTGGGACATCGGCATTGTAT
1 TGTGATTATGTGTAAGACCATGTCTGGGACATCGGCATTGTAT
*
12878503 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCAT
1 TGTGATTATGTGTAAGACCATGTCTGGGACATCGGCAT
12878541 CATTAATTAA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTGATTATGTGTAAGACCATGTCTGGGACATCGGCATTGTAT
Found at i:12878560 original size:43 final size:44
Alignment explanation
Indices: 12878416--12878609 Score: 159
Period size: 43 Copynumber: 4.5 Consensus size: 44
12878406 AGTTATCGAG
* * * * *
12878416 ATGTGATTACATGTAAGACCATGTCTGGAACATCGACAT-TGTA
1 ATGTAATTATATGTAAGACCATGTCTGGGACATTGGCATCTGTA
* * * *
12878459 TTGTGATTATGTGTAAGACCATGTCTGGGACATCGGCAT-TGTA
1 ATGTAATTATATGTAAGACCATGTCTGGGACATTGGCATCTGTA
* * *
12878502 TTGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA
1 ATGTAATTATATGTAAGACCATGTCTGGGACATTGGCATC-TGTA
* *
12878546 AT-TAATT-TCATGTAAGACCCTGTCTGGGACAGTGGCATC-G-A
1 ATGTAATTAT-ATGTAAGACCATGTCTGGGACATTGGCATCTGTA
* * *
12878587 TATGTGATAACATGTAAGACCAT
1 -ATGTAATTATATGTAAGACCAT
12878610 ATTTGGGATA
Statistics
Matches: 129, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 3 0.02
43 121 0.94
44 3 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (44 bp):
ATGTAATTATATGTAAGACCATGTCTGGGACATTGGCATCTGTA
Found at i:12881222 original size:14 final size:14
Alignment explanation
Indices: 12881181--12881222 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
12881171 TTTTGTTTCA
12881181 TATTTT-TTTTA-T
1 TATTTTATTTTATT
*
12881193 TACTTTAGTTTTATT
1 TATTTTA-TTTTATT
12881208 TATTTTATTTTATT
1 TATTTTATTTTATT
12881222 T
1 T
12881223 TACTTATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 5 0.20
14 13 0.52
15 7 0.28
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:12893164 original size:40 final size:40
Alignment explanation
Indices: 12893120--12893206 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
12893110 TGATGACATA
* * **
12893120 TCGGCTAAATATGGCACTTATTGTGCGGTTTG-GTATAGCT
1 TCGGCTAAATATGGCACTTAGTATGCAATTTGAG-ATAGCT
* *
12893160 TCGGCTAACTTTGGCACTTAGTATGCAATTTGAGATAGCT
1 TCGGCTAAATATGGCACTTAGTATGCAATTTGAGATAGCT
12893200 TCGGCTA
1 TCGGCTA
12893207 TGTACAGCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (40 bp):
TCGGCTAAATATGGCACTTAGTATGCAATTTGAGATAGCT
Found at i:12893269 original size:28 final size:28
Alignment explanation
Indices: 12893238--12893337 Score: 182
Period size: 28 Copynumber: 3.6 Consensus size: 28
12893228 GACATCAAAT
* *
12893238 ATGGCACTTAGTGTGGGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAGATATTGAGA
12893266 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAGATATTGAGA
12893294 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAGATATTGAGA
12893322 ATGGCACTTAGTGTGC
1 ATGGCACTTAGTGTGC
12893338 AAAATATCGA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAGATATTGAGA
Found at i:12899595 original size:4 final size:4
Alignment explanation
Indices: 12899586--12899612 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
12899576 GCAGCAATTA
12899586 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
12899613 AAACAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:12902527 original size:40 final size:40
Alignment explanation
Indices: 12902483--12902562 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
12902473 TGGAAGAGAA
* *
12902483 AATTAAGGTTTAAATCTTGACTATATAGATTAGGATTAAC
1 AATTAAGGTTGAAATCTTGACTAAATAGATTAGGATTAAC
*
12902523 AATTAAGGTTGAAATTTTGACTAAATAGATTAGGATTAAC
1 AATTAAGGTTGAAATCTTGACTAAATAGATTAGGATTAAC
12902563 TTCAGTAGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.36
Consensus pattern (40 bp):
AATTAAGGTTGAAATCTTGACTAAATAGATTAGGATTAAC
Found at i:12915515 original size:6 final size:6
Alignment explanation
Indices: 12915506--12915544 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
12915496 AATAAAATTG
*
12915506 AAATGA AAATAA AAATAA AAATAA AAATAAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AA
12915545 TTGAGATTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:12915527 original size:18 final size:19
Alignment explanation
Indices: 12915492--12915544 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
12915482 TTTCAAAAGA
** *
12915492 AAATAATAAAATTGAAATGA
1 AAATAA-AAAATAAAAATAA
12915512 AAAT-AAAAATAAAAATAA
1 AAATAAAAAATAAAAATAA
12915530 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
12915545 TTGAGATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 14 0.48
19 11 0.38
20 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (19 bp):
AAATAAAAAATAAAAATAA
Found at i:12930134 original size:43 final size:42
Alignment explanation
Indices: 12930087--12930199 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 42
12930077 TTAGACGTGG
*
12930087 TCTTACATGAAATCAAATATCGATGCC-ACTATCCCAGACAGGA
1 TCTTACACGAAATCAAATA-CGATGCCGA-TATCCCAGACAGGA
*
12930130 TCTTACACGAAATCAAATACGATGCCGATGTCCCAGACATGG-
1 TCTTACACGAAATCAAATACGATGCCGATATCCCAGACA-GGA
*
12930172 TTTTACACGTAAATCTCAAAT-CGATGCC
1 TCTTACACG-AAA--TCAAATACGATGCC
12930200 AACGTGTAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
42 25 0.40
43 24 0.39
44 7 0.11
45 6 0.10
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
TCTTACACGAAATCAAATACGATGCCGATATCCCAGACAGGA
Found at i:12930166 original size:42 final size:42
Alignment explanation
Indices: 12930079--12930200 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 42
12930069 CCAACGTCTT
* *
12930079 AGACGTGGTCTTACATGAAATCAAATATCGATGCCACTATCCC
1 AGACATGGTCTTACACGAAATCAAATA-CGATGCCACTATCCC
*
12930122 AGACA-GGATCTTACACGAAATCAAATACGATGCCGA-TGTCCC
1 AGACATGG-TCTTACACGAAATCAAATACGATGCC-ACTATCCC
*
12930164 AGACATGGTTTTACACGTAAATCTCAAAT-CGATGCCA
1 AGACATGGTCTTACACG-AAA--TCAAATACGATGCCA
12930201 ACGTGTAACG
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
42 27 0.39
43 29 0.42
44 7 0.10
45 6 0.09
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCAAATACGATGCCACTATCCC
Found at i:12933687 original size:4 final size:4
Alignment explanation
Indices: 12933678--12933721 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
12933668 TTGCTTGTCC
*
12933678 ATAA ATAA ATAA ATAAA ATGA A-AA ATAA AT-A ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
12933722 GGCTCATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 5 0.14
4 26 0.74
5 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:12935631 original size:16 final size:16
Alignment explanation
Indices: 12935607--12935637 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12935597 TTTTGGGCTG
*
12935607 AATTGAATAATTTAAC
1 AATTAAATAATTTAAC
12935623 AATTAAATAATTTAA
1 AATTAAATAATTTAA
12935638 ATTTCATATT
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:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (16 bp):
AATTAAATAATTTAAC
Found at i:12936489 original size:33 final size:31
Alignment explanation
Indices: 12936416--12936491 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
12936406 GCATTGAATC
* * *
12936416 CAACCAAAATCAACAAATATAGCATGAAATG
1 CAACCAAAAACAACAAATATAGCATAAAATA
*
12936447 CAACCAAAAACAACAAATTTAGCATAAAAAATA
1 CAACCAAAAACAACAAATATAGCAT--AAAATA
12936480 CAACCAAAAACA
1 CAACCAAAAACA
12936492 TTAATTCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 23 0.59
33 16 0.41
ACGTcount: A:0.61, C:0.21, G:0.05, T:0.13
Consensus pattern (31 bp):
CAACCAAAAACAACAAATATAGCATAAAATA
Found at i:12936739 original size:21 final size:21
Alignment explanation
Indices: 12936713--12936761 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
12936703 TTGCTCTCCT
12936713 CTGCCTCTCTCACTACTGTCG
1 CTGCCTCTCTCACTACTGTCG
* *
12936734 CTGCCTCTCTCGCTGCTGTCG
1 CTGCCTCTCTCACTACTGTCG
12936755 CTGCCTC
1 CTGCCTC
12936762 CCTATCTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.45, G:0.18, T:0.33
Consensus pattern (21 bp):
CTGCCTCTCTCACTACTGTCG
Found at i:12937212 original size:13 final size:14
Alignment explanation
Indices: 12937186--12937214 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
12937176 ACTAATGACG
12937186 AATTAAATCATTAT
1 AATTAAATCATTAT
12937200 AATTAAA-CATTAT
1 AATTAAATCATTAT
12937213 AA
1 AA
12937215 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAATCATTAT
Found at i:12940824 original size:7 final size:7
Alignment explanation
Indices: 12940799--12940845 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
12940789 TGTTTTAAAA
12940799 TTTAAGG
1 TTTAAGG
*
12940806 TTTAGGG
1 TTTAAGG
12940813 TTTAAGG
1 TTTAAGG
*
12940820 TTTAATG
1 TTTAAGG
*
12940827 TTTAAGA
1 TTTAAGG
12940834 TTTAAGGG
1 TTTAA-GG
12940842 TTTA
1 TTTA
12940846 CAGAAAGCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
7 28 0.85
8 5 0.15
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (7 bp):
TTTAAGG
Found at i:12941261 original size:41 final size:40
Alignment explanation
Indices: 12941127--12941657 Score: 581
Period size: 41 Copynumber: 13.1 Consensus size: 40
12941117 GCTGCTCAAC
* * * *
12941127 TTTTTA-TGGCATTTGGACCAAAAACGCTGCTATTGGTCAG
1 TTTTTAGTGGCGTTTGGA-TAAAAACGCCGCTATTGATCAG
* * *
12941167 -TTTTAGTGGCGTTTGGACCAAAAACGCCG-TATTCATAAG
1 TTTTTAGTGGCGTTTGGA-TAAAAACGCCGCTATTGATCAG
12941206 TTTTTAGTGGCGTTTGAGATAAAAACGCCGCTATTGATCAG
1 TTTTTAGTGGCGTTTG-GATAAAAACGCCGCTATTGATCAG
*
12941247 TTTTTAGTGGCGTTTGGGATAAAAACGCCGCTATTGATAAG
1 TTTTTAGTGGCGTTT-GGATAAAAACGCCGCTATTGATCAG
* *
12941288 TTTTTAGTGGCGTTTGAGAT-AAAACGCCGCTATTGTTCAT
1 TTTTTAGTGGCGTTTG-GATAAAAACGCCGCTATTGATCAG
** * * *
12941328 TTTTTAGTGGCGTTTGGCCAAAAATGCTGCTATTCA-CAAG
1 TTTTTAGTGGCGTTTGGATAAAAACGCCGCTATTGATC-AG
* * ** *
12941368 TTTTTATTGGTGTTTTAAATAAAAACACCGCTATTGATCAG
1 TTTTTAGTGGCG-TTTGGATAAAAACGCCGCTATTGATCAG
* *
12941409 TTTTTAGTGGCGCTTGGGCA-AAAAATGCCGCTATTGATCAG
1 TTTTTAGTGGCG-TTTGG-ATAAAAACGCCGCTATTGATCAG
** *
12941450 TTTTTAGTGGCGTTTGGCCAAAAACGCCGCTATTGATTAG
1 TTTTTAGTGGCGTTTGGATAAAAACGCCGCTATTGATCAG
* *
12941490 TTTTTAGTTGTGTTTGGGATAAAAACGCCGCTATTGATCAG
1 TTTTTAGTGGCGTTT-GGATAAAAACGCCGCTATTGATCAG
* *
12941531 TTTTTAGTGGTGTTTGG-TGAAAAACGCCACTATTGATCAG
1 TTTTTAGTGGCGTTTGGAT-AAAAACGCCGCTATTGATCAG
* *
12941571 TTTTTAGTGGCGTTTTGGCTAAAAACGTCGCTATTGATCAG
1 TTTTTAGTGGCG-TTTGGATAAAAACGCCGCTATTGATCAG
** * *
12941612 TTTTTAGTGGCGTTTTGGCCAAAAATGCCGCTATTGTTCAG
1 TTTTTAGTGGCG-TTTGGATAAAAACGCCGCTATTGATCAG
12941653 TTTTT
1 TTTTT
12941658 TGCATTAAAC
Statistics
Matches: 420, Mismatches: 55, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.04
40 172 0.41
41 229 0.55
42 4 0.01
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (40 bp):
TTTTTAGTGGCGTTTGGATAAAAACGCCGCTATTGATCAG
Found at i:12941312 original size:81 final size:80
Alignment explanation
Indices: 12941146--12941657 Score: 561
Period size: 81 Copynumber: 6.3 Consensus size: 80
12941136 CATTTGGACC
* * * *
12941146 AAAAACGCTGCTATTGGTCAG-TTTTAGTGGCGTTT-GGACCAAAAACGCCG-TATTCATAAGTT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGA-TAAAAACGCCGCTATTGATAAGTT
12941208 TTTAGTGGCGTTTGAG
65 TTTAGTGGCGTTTGAG
12941224 ATAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGATAAAAACGCCGCTATTGATAAGT
1 --AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGATAAAAACGCCGCTATTGATAAGT
12941289 TTTTAGTGGCGTTTGAG
64 TTTTAGTGGCGTTTGAG
* * ** * * * *
12941306 ATAAAACGCCGCTATTGTTCATTTTTTAGTGGCGTTT-GGCCAAAAATGCTGCTATTCACAAGTT
1 A-AAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGATAAAAACGCCGCTATTGATAAGTT
* * * *
12941370 TTTATTGGTGTTTTAAAT
65 TTTAGTGGCG-TTT-GAG
* * * *
12941388 AAAAACACCGCTATTGATCAGTTTTTAGTGGCGCTTGGGCA-AAAAATGCCGCTATTGATCAGTT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGG-ATAAAAACGCCGCTATTGATAAGTT
12941452 TTTAGTGGCGTTTG-G
65 TTTAGTGGCGTTTGAG
* * * *
12941467 CCAAAAACGCCGCTATTGATTAGTTTTTAGTTGTGTTTGGGATAAAAACGCCGCTATTGATCAGT
1 --AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGATAAAAACGCCGCTATTGATAAGT
* *
12941532 TTTTAGTGGTGTTTGGTG
64 TTTTAGTGGCGTTT-GAG
* * * * *
12941550 AAAAACGCCACTATTGATCAGTTTTTAGTGGCGTTTTGGCTAAAAACGTCGCTATTGATCAGTTT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGATAAAAACGCCGCTATTGATAAGTTT
12941615 TTAGTGGCGTTTTG-G
66 TTAGTGGCG-TTTGAG
* *
12941630 CCAAAAATGCCGCTATTGTTCAGTTTTT
1 --AAAAACGCCGCTATTGATCAGTTTTT
12941658 TGCATTAAAC
Statistics
Matches: 369, Mismatches: 47, Indels: 30
0.83 0.11 0.07
Matches are distributed among these distances:
80 51 0.14
81 229 0.62
82 88 0.24
83 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (80 bp):
AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGATAAAAACGCCGCTATTGATAAGTTT
TTAGTGGCGTTTGAG
Found at i:12941413 original size:162 final size:161
Alignment explanation
Indices: 12941127--12941658 Score: 632
Period size: 162 Copynumber: 3.3 Consensus size: 161
12941117 GCTGCTCAAC
* * * *
12941127 TTTTTA-TGGCATTTGGACCAAAAACGCTGCTATTGGTCA-GTTTTAGTGGCGTTTGGACCAAAA
1 TTTTTAGTGGCGTTTGG--CAAAAACGCCGCTATTGTTCATTTTTTAGTGGCGTTTGG-CCAAAA
* * *
12941190 ACGCCG-TATTCATAAGTTTTTAGTGGCGTTTGAGATAAAAACGCCGCTATTGATCAGTTTTTAG
63 ACGCCGCTATTCACAAGTTTTTAGTGGTGTTTTAGATAAAAACGCCGCTATTGATCAGTTTTTAG
*
12941254 TGGCGTTTGGGATAAAAACGCCGCTATTGATAAG
128 TGGCGTTTGGGATAAAAACGCCGCTATTGATCAG
12941288 TTTTTAGTGGCGTTTGAG-ATAAAACGCCGCTATTGTTCATTTTTTAGTGGCGTTTGGCCAAAAA
1 TTTTTAGTGGCGTTTG-GCA-AAAACGCCGCTATTGTTCATTTTTTAGTGGCGTTTGGCCAAAAA
* * * * *
12941352 TGCTGCTATTCACAAGTTTTTATTGGTGTTTTAAATAAAAACACCGCTATTGATCAGTTTTTAGT
64 CGCCGCTATTCACAAGTTTTTAGTGGTGTTTTAGATAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
12941417 GGCGCTTGGGCA-AAAAATGCCGCTATTGATCAG
129 GGCGTTTGGG-ATAAAAACGCCGCTATTGATCAG
* * * **
12941450 TTTTTAGTGGCGTTTGGCCAAAAACGCCGCTATTGATT-AGTTTTTAGTTGTGTTTGGGATAAAA
1 TTTTTAGTGGCGTTTGG-CAAAAACGCCGCTATTG-TTCATTTTTTAGTGGCGTTT-GGCCAAAA
* * *
12941514 ACGCCGCTATTGATC-AGTTTTTAGTGGTG-TTT-GGTGAAAAACGCCACTATTGATCAGTTTTT
63 ACGCCGCTATTCA-CAAGTTTTTAGTGGTGTTTTAGAT-AAAAACGCCGCTATTGATCAGTTTTT
* * *
12941576 AGTGGCGTTTTGGCTAAAAACGTCGCTATTGATCAG
126 AGTGGCGTTTGGGATAAAAACGCCGCTATTGATCAG
*
12941612 TTTTTAGTGGCGTTTTGGCCAAAAATGCCGCTATTGTTCAGTTTTTT
1 TTTTTAGTGGCG-TTTGG-CAAAAACGCCGCTATTGTTCA-TTTTTT
12941659 GCATTAAACG
Statistics
Matches: 320, Mismatches: 35, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
160 1 0.00
161 35 0.11
162 221 0.69
163 57 0.18
164 6 0.02
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (161 bp):
TTTTTAGTGGCGTTTGGCAAAAACGCCGCTATTGTTCATTTTTTAGTGGCGTTTGGCCAAAAACG
CCGCTATTCACAAGTTTTTAGTGGTGTTTTAGATAAAAACGCCGCTATTGATCAGTTTTTAGTGG
CGTTTGGGATAAAAACGCCGCTATTGATCAG
Found at i:12950474 original size:30 final size:30
Alignment explanation
Indices: 12950438--12950498 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
12950428 TCGTTAACTC
12950438 AAACTTTGGAAAAGTTACAATTTTGCCCCT
1 AAACTTTGGAAAAGTTACAATTTTGCCCCT
* * * * *
12950468 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAGTTACAATTTTGCCCCT
12950498 A
1 A
12950499 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAGTTACAATTTTGCCCCT
Found at i:12952156 original size:19 final size:19
Alignment explanation
Indices: 12952132--12952170 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12952122 TGCTTATGGC
12952132 TTACTAAGCTAAGATAGTT
1 TTACTAAGCTAAGATAGTT
12952151 TTACTAAGCTAAGATAGTT
1 TTACTAAGCTAAGATAGTT
12952170 T
1 T
12952171 ACTCTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
TTACTAAGCTAAGATAGTT
Found at i:12958572 original size:22 final size:22
Alignment explanation
Indices: 12958530--12958573 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12958520 TGTTTTAGTA
* * *
12958530 TTATTTTTATTTTTTTTAATAT
1 TTATTTTTATGTTTCTAAATAT
12958552 TTATTTTTATGTTTCTAAATAT
1 TTATTTTTATGTTTCTAAATAT
12958574 ATTTGATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
TTATTTTTATGTTTCTAAATAT
Found at i:12958596 original size:26 final size:24
Alignment explanation
Indices: 12958548--12958607 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
12958538 ATTTTTTTTA
*
12958548 ATATTTATTTTTATGTTTCTAAAT
1 ATATTTATTTTTATATTTCTAAAT
*
12958572 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTCTAAAT
* *
12958598 TTTTTTATTT
1 ATATTTATTT
12958608 AATAAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 6 0.20
25 8 0.27
26 16 0.53
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (24 bp):
ATATTTATTTTTATATTTCTAAAT
Found at i:12960879 original size:40 final size:39
Alignment explanation
Indices: 12960714--12960897 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
12960704 AAATTGAATG
* * *
12960714 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
12960754 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
12960794 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
12960834 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
12960873 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
12960898 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:12960922 original size:80 final size:81
Alignment explanation
Indices: 12960754--12960942 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
12960744 GCTGGAAATT
* * * *
12960754 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
12960819 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
12960835 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
12960898 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
12960914 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
12960943 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:12968997 original size:40 final size:39
Alignment explanation
Indices: 12968832--12969015 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
12968822 AAATTGAATG
* * *
12968832 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
12968872 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
12968912 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
12968952 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
12968991 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
12969016 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:12969040 original size:80 final size:81
Alignment explanation
Indices: 12968872--12969060 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
12968862 GCTGGAAATT
* * * *
12968872 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
12968937 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
12968953 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
12969016 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
12969032 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
12969061 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:12971944 original size:40 final size:39
Alignment explanation
Indices: 12971779--12971962 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
12971769 AAATTGAATG
* * *
12971779 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
12971819 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
12971859 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
12971899 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
12971938 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
12971963 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:12971987 original size:80 final size:81
Alignment explanation
Indices: 12971819--12972007 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
12971809 GCTGGAAATT
* * * *
12971819 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
12971884 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
12971900 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
12971963 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
12971979 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
12972008 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:12977309 original size:18 final size:17
Alignment explanation
Indices: 12977282--12977316 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12977272 TCTGGTGCTG
12977282 AATAGCAAGGGCGATGA
1 AATAGCAAGGGCGATGA
*
12977299 AATAGGCAAGGTCGATGA
1 AATA-GCAAGGGCGATGA
12977317 CGTGCCCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.11, G:0.34, T:0.14
Consensus pattern (17 bp):
AATAGCAAGGGCGATGA
Found at i:12985811 original size:49 final size:49
Alignment explanation
Indices: 12985747--12985871 Score: 153
Period size: 49 Copynumber: 2.6 Consensus size: 49
12985737 TGTGTGTCAG
* * * *
12985747 TGTAAGACTTTTCTGGGATATGGCATCGACAC-CGATATATGAGAGCCAA
1 TGTAAGACCTATCTGGGACATGGCATCGAC-CTCGATATATGAAAGCCAA
* * * *
12985796 TGTAATACCTATCTGGGACATGGCATCGACCTTGATATATGAAAGTCAG
1 TGTAAGACCTATCTGGGACATGGCATCGACCTCGATATATGAAAGCCAA
*
12985845 TGTAAGACCTTTCTGGGACATGGCATC
1 TGTAAGACCTATCTGGGACATGGCATC
12985872 AGTGTAAGAC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 1 0.02
49 64 0.98
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (49 bp):
TGTAAGACCTATCTGGGACATGGCATCGACCTCGATATATGAAAGCCAA
Found at i:12985901 original size:30 final size:29
Alignment explanation
Indices: 12985841--12985901 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
12985831 TATATGAAAG
* **
12985841 TCAGTGTAAGACCTTTCTGGGACATGGCA
1 TCAGTGTAAGACCTGTCTAAGACATGGCA
*
12985870 TCAGTGTAAGACCATGTCTAAGACATTGCA
1 TCAGTGTAAGACC-TGTCTAAGACATGGCA
12985900 TC
1 TC
12985902 GACATCTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (29 bp):
TCAGTGTAAGACCTGTCTAAGACATGGCA
Found at i:12988589 original size:54 final size:54
Alignment explanation
Indices: 12988399--12988665 Score: 286
Period size: 59 Copynumber: 4.9 Consensus size: 54
12988389 TTTCCTTTTT
* * * * * *
12988399 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* * * ** *
12988452 GAACTCACCAAAGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATA
* * *
12988506 GTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* * *
12988561 GAACTTATCAATGCCATGACTTGGCATGGTCTTGTCTTACATGATTTCCTTTCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCAT-G----GTCTTACATGATATCCTTGCCTTATA
*
12988620 GAACTTATCAATGCTATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
12988666 ATCTTACCAA
Statistics
Matches: 182, Mismatches: 23, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
52 2 0.01
53 42 0.23
54 42 0.23
55 43 0.24
56 2 0.01
58 1 0.01
59 50 0.27
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
Found at i:12988792 original size:47 final size:47
Alignment explanation
Indices: 12988690--12988854 Score: 135
Period size: 45 Copynumber: 3.5 Consensus size: 47
12988680 CATGTTCCAA
* * *
12988690 ACATGGTCTTACATGGTA-TCCTT-ACCTTAGTACCAATGCCATATCTTG
1 ACATGGTCTTACATGG-AGTCCTTAAGC--AATACCAATGCCATGTCTTG
** * * * *
12988738 ATGTGGTCGTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTG
1 ACATGGTCTTACATGGAGTCCTTAAGCAATACCAATGCCATGTCTTG
* **
12988785 ACATGGTCTTACACGG-GATCCTT--GCCTTACCAATGCCATGTCTTG
1 ACATGGTCTTACATGGAG-TCCTTAAGCAATACCAATGCCATGTCTTG
12988830 ACATGGTCTTACATGGTA-TCCTTAA
1 ACATGGTCTTACATGG-AGTCCTTAA
12988855 CCGTCATTTC
Statistics
Matches: 92, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
45 37 0.40
46 1 0.01
47 34 0.37
48 18 0.20
49 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (47 bp):
ACATGGTCTTACATGGAGTCCTTAAGCAATACCAATGCCATGTCTTG
Found at i:13005776 original size:55 final size:54
Alignment explanation
Indices: 13005626--13005839 Score: 220
Period size: 53 Copynumber: 4.0 Consensus size: 54
13005616 TTACTCGGGA
* * * * * * *
13005626 ACCTTTTCCTTTTTGAACTTATCATTGCCATGTCTTGACATGGTCTTACGTGGT
1 ACCTTTTCCTTATAGAACTCATCAATGCCATGCCTTGACATGGTCTTACATGGG
* * *
13005680 ATCC-TTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGG
1 A-CCTTTTCCTTATAGAACTCATCAATGCCATGCCTTGACATGGTCTTACATGGG
* *
13005733 ACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTAACATGGTCTTACAT--G
1 ACCTTTTCCTTATAG-AACTCATCAATGCCATGCCTTGACATGGTCTTACATGGG
** * *
13005786 ATTTTCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 ACCTT-TT-CCTTATAGAACTCATCAATGCCATGCCTTGACATGGTCTTACATG
13005840 ATATCCTTAT
Statistics
Matches: 133, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 46 0.35
54 43 0.32
55 42 0.32
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
ACCTTTTCCTTATAGAACTCATCAATGCCATGCCTTGACATGGTCTTACATGGG
Found at i:13009825 original size:43 final size:43
Alignment explanation
Indices: 13009778--13009969 Score: 276
Period size: 43 Copynumber: 4.4 Consensus size: 43
13009768 TTATTTGAAA
**
13009778 AAACGCCGCTAAAAATCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
* *
13009821 AAACGCCGCTAAAGGTCATGACATTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
* *
13009864 AAACGACGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
** * *
13009907 AAATACTGCTAAAGGTCATGACTTTTAGCGGCGTTTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCG-CTTTTCCCAC
*
13009951 AAACGCCGCTAAATGTCAT
1 AAACGCCGCTAAAGGTCAT
13009970 AAATTCAAAA
Statistics
Matches: 130, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
43 107 0.82
44 23 0.18
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
Found at i:13012906 original size:58 final size:58
Alignment explanation
Indices: 13012836--13012951 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
13012826 TATCATTGCA
13012836 TAGTCCCAGTAACATAAAGTTAGACCTTAAATGTTATTTAAACCATCCCACTGACAAT
1 TAGTCCCAGTAACATAAAGTTAGACCTTAAATGTTATTTAAACCATCCCACTGACAAT
13012894 TAGTCCCAGTAACATAAAGTTAGACCTTAAATGTTATTTAAACCATCCCACTGACAAT
1 TAGTCCCAGTAACATAAAGTTAGACCTTAAATGTTATTTAAACCATCCCACTGACAAT
13012952 GAGGAAAACT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (58 bp):
TAGTCCCAGTAACATAAAGTTAGACCTTAAATGTTATTTAAACCATCCCACTGACAAT
Found at i:13014952 original size:21 final size:21
Alignment explanation
Indices: 13014911--13014974 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
13014901 ATAAACACTA
* *
13014911 AACCCTAAACCTTTAACCCTT
1 AACCCCAAACCCTTAACCCTT
13014932 AACCCCAAACCCTT-ACACCTT
1 AACCCCAAACCCTTAAC-CCTT
*
13014953 AAACTCC-AACCC-TAACCCTT
1 -AACCCCAAACCCTTAACCCTT
13014973 AA
1 AA
13014975 ACCCTGAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.05
20 7 0.19
21 23 0.62
22 5 0.14
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCCAAACCCTTAACCCTT
Found at i:13015079 original size:46 final size:46
Alignment explanation
Indices: 13015026--13015119 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
13015016 CTTCAAATAC
* *
13015026 TAGTTAACTCCTAAACCTTAAACCCTAAACTATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
13015072 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
13015118 TA
1 TA
13015120 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:13015123 original size:21 final size:21
Alignment explanation
Indices: 13015042--13015123 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
13015032 ACTCCTAAAC
* *
13015042 CTTAAACCCTAAACTATATAT
1 CTTAAACCATAAACCATATAT
* *
13015063 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
13015088 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
13015109 CTTAAACCATAAACC
1 CTTAAACCATAAACC
13015124 TTAAACTATA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 29 0.59
22 3 0.06
24 3 0.06
25 14 0.29
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:13015134 original size:14 final size:14
Alignment explanation
Indices: 13015037--13015134 Score: 61
Period size: 14 Copynumber: 6.7 Consensus size: 14
13015027 AGTTAACTCC
* *
13015037 TAAACCTTAAACCC
1 TAAACCATAAACCT
* * *
13015051 TAAACTATATATCT
1 TAAACCATAAACCT
*
13015065 TAAACCATAGTTAACTCA
1 TAAACCATA---AAC-CT
* *
13015083 TAAACCTTAAACCC
1 TAAACCATAAACCT
* *
13015097 TAAACCATATATCT
1 TAAACCATAAACCT
13015111 TAAACCATAAACCT
1 TAAACCATAAACCT
*
13015125 TAAACTATAA
1 TAAACCATAA
13015135 TGACAATTAA
Statistics
Matches: 62, Mismatches: 18, Indels: 8
0.70 0.20 0.09
Matches are distributed among these distances:
14 49 0.79
15 3 0.05
17 1 0.02
18 9 0.15
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:13015349 original size:41 final size:41
Alignment explanation
Indices: 13015292--13015663 Score: 500
Period size: 41 Copynumber: 9.1 Consensus size: 41
13015282 GTTATATGAC
13015292 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGT
* * * *
13015333 TTTTAGCAGCATTTTACCAAAAGCGCCGCTAATGCTTTTAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGT
* * *
13015374 TTTTAGCGGCGTTTTACCAGAAGCGCCGTTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGT
* *
13015415 TTTTAGCGGCGTTTTACCAGAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGT
13015456 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGT
* * *
13015497 TTTTAGCGGCGTTTTACCAGAAGCGCCGCTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGT
* *
13015538 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTC-TAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGT
* * *
13015578 TTTTAGCGGCGTCTTTTACTAAAA-CGCCACTATTGCTCTT-T
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTTGT
* * *
13015619 TTTTAGCGGCGTTTTACCCAAAA-TGCCACTATTGCTCTGTGT
1 TTTTAGCGGCGTTTTA-CCAAAAGCGCCGCTAATGCTCT-TGT
13015661 TTT
1 TTT
13015664 ATAATTTTTG
Statistics
Matches: 297, Mismatches: 28, Indels: 11
0.88 0.08 0.03
Matches are distributed among these distances:
39 5 0.02
40 30 0.10
41 247 0.83
42 15 0.05
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGT
Found at i:13018683 original size:17 final size:18
Alignment explanation
Indices: 13018654--13018694 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
13018644 CTCATAAAAT
13018654 TTGAATAAAATTTTA-GTA
1 TTGAATAAAA-TTTAGGTA
13018672 TTGAAT-AAATTTAGGTA
1 TTGAATAAAATTTAGGTA
13018689 TTGAAT
1 TTGAAT
13018695 TTGCAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.18
17 12 0.55
18 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (18 bp):
TTGAATAAAATTTAGGTA
Found at i:13019618 original size:2 final size:2
Alignment explanation
Indices: 13019611--13019642 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13019601 CAAACCATAG
13019611 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13019643 GAAACCTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13022838 original size:26 final size:27
Alignment explanation
Indices: 13022801--13022852 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13022791 AAAGTTGGTA
*
13022801 AAAAAAAATTTTGGGCCCTTAAAAGCT
1 AAAAAATATTTTGGGCCCTTAAAAGCT
* *
13022828 AAAAAATTTTTTGGGTCCTTAAAAG
1 AAAAAATATTTTGGGCCCTTAAAAG
13022853 TTGGTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (27 bp):
AAAAAATATTTTGGGCCCTTAAAAGCT
Found at i:13027417 original size:29 final size:29
Alignment explanation
Indices: 13027389--13027491 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 29
13027379 CCTTCGAGCT
** * * *
13027389 CGCACACCCAGTGCCGTATTTTTTCAGCT
1 CGCACACATAGTGCCATATTTTTCCAGCA
* *
13027418 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACATAGTGCCATATTTTTCCAGCA
* *
13027447 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACATAGTGCCATATTTTTCCAGCA
*
13027476 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
13027492 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (29 bp):
CGCACACATAGTGCCATATTTTTCCAGCA
Found at i:13035505 original size:29 final size:29
Alignment explanation
Indices: 13035444--13035545 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 29
13035434 CCTTCGAGCT
** * *
13035444 CGCACACCCAGTGCCGTATTTTT-CAGCT
1 CGCACACTTAGTGCCATATTTTTCCAGCA
* * *
13035472 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTTCCAGCA
*
13035501 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATTTTTCCAGCA
13035530 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
13035546 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 18 0.29
29 45 0.71
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATTTTTCCAGCA
Found at i:13041304 original size:37 final size:37
Alignment explanation
Indices: 13041221--13041321 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 37
13041211 TCGTTTAATT
*
13041221 AATGCCATAATCC-AACTATGGTCTTAC-TCATATCAC
1 AATGCCAT-AGCCTAACTATGGTCTTACATCATATCAC
* * *
13041257 AATGCTATAGCCTAGCTATGGTCTTACAT-GTCATCAC
1 AATGCCATAGCCTAACTATGGTCTTACATCAT-ATCAC
*
13041294 GATGCCATAGCCTAACTATGGTCTTACA
1 AATGCCATAGCCTAACTATGGTCTTACA
13041322 CGAAGTCTCA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
35 3 0.05
36 21 0.38
37 31 0.56
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (37 bp):
AATGCCATAGCCTAACTATGGTCTTACATCATATCAC
Found at i:13041357 original size:42 final size:42
Alignment explanation
Indices: 13041310--13041403 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
13041300 ATAGCCTAAC
* *
13041310 TATGGTCTTACACGAAGTCTCATATCAATACCATATCCCAGA
1 TATGGTCTTACACGAAATCACATATCAATACCATATCCCAGA
* **
13041352 TATGGTCTTACACGAAATCACATATCGATGTCATATCCCAGA
1 TATGGTCTTACACGAAATCACATATCAATACCATATCCCAGA
13041394 TATGGTCTTA
1 TATGGTCTTA
13041404 TATGGGATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (42 bp):
TATGGTCTTACACGAAATCACATATCAATACCATATCCCAGA
Found at i:13041447 original size:48 final size:48
Alignment explanation
Indices: 13041335--13041514 Score: 221
Period size: 48 Copynumber: 3.9 Consensus size: 48
13041325 AGTCTCATAT
* * **
13041335 CAATACCATATCCCAGATATGGTCTTACACGAAATCACATATCGATG-
1 CAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGC
* *
13041382 ---T--CATATCCCAGATATGGTCTTATATGGGATCACATATTGAAT-C
1 CAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG-ATGC
* * *
13041425 CAATGCCATCTCCCAGACATGGTGTTACATGGGATCACATATCGATGC
1 CAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGC
13041473 CAATGCCATATCCCAGATATGGTCTTACATGGGATCACATAT
1 CAATGCCATATCCCAGATATGGTCTTACATGGGATCACATAT
13041515 ATTACCATGG
Statistics
Matches: 112, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
42 33 0.29
43 2 0.02
44 1 0.01
46 1 0.01
47 2 0.02
48 73 0.65
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (48 bp):
CAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGC
Found at i:13045046 original size:13 final size:13
Alignment explanation
Indices: 13045030--13045062 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13045020 TTTGATTAAA
*
13045030 TTAGTTAATTAGT
1 TTAGATAATTAGT
13045043 TTAGATAATTAGT
1 TTAGATAATTAGT
13045056 TTA-ATAA
1 TTAGATAA
13045063 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:13045383 original size:13 final size:13
Alignment explanation
Indices: 13045367--13045391 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13045357 TTATTATTTA
13045367 TTAATTTACTTTG
1 TTAATTTACTTTG
13045380 TTAATTTACTTT
1 TTAATTTACTTT
13045392 TTCTTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (13 bp):
TTAATTTACTTTG
Found at i:13048519 original size:21 final size:21
Alignment explanation
Indices: 13048495--13048535 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13048485 ATTCAGCCGT
*
13048495 GTACAACAATACACGGGTGTG
1 GTACAACAACACACGGGTGTG
* *
13048516 GTACCATAACACACGGGTGT
1 GTACAACAACACACGGGTGT
13048536 AGGAGAAGCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
GTACAACAACACACGGGTGTG
Found at i:13050474 original size:6 final size:6
Alignment explanation
Indices: 13050447--13050487 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
13050437 TCCTCTTATT
* * *
13050447 TTTTTA TTTCTA TTTCTA TTTTTA TTTTTA TGTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
13050488 CGTTATAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:13053349 original size:13 final size:13
Alignment explanation
Indices: 13053333--13053365 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13053323 TTTGATTAAA
*
13053333 TTAGTTAATTAGT
1 TTAGATAATTAGT
13053346 TTAGATAATTAGT
1 TTAGATAATTAGT
13053359 TTA-ATAA
1 TTAGATAA
13053366 ACAAAACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:13064548 original size:12 final size:12
Alignment explanation
Indices: 13064531--13064555 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13064521 TTGCACAAAC
13064531 TCAACATTCAAG
1 TCAACATTCAAG
13064543 TCAACATTCAAG
1 TCAACATTCAAG
13064555 T
1 T
13064556 TAGTATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (12 bp):
TCAACATTCAAG
Found at i:13076103 original size:26 final size:26
Alignment explanation
Indices: 13076074--13076123 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
13076064 CATATACATA
* *
13076074 GTTTGCTCGCATGAGCTGTGAAATAG
1 GTTTGCTCACACGAGCTGTGAAATAG
* *
13076100 GTTTTCTTACACGAGCTGTGAAAT
1 GTTTGCTCACACGAGCTGTGAAAT
13076124 GGTCCTGATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (26 bp):
GTTTGCTCACACGAGCTGTGAAATAG
Found at i:13078916 original size:46 final size:46
Alignment explanation
Indices: 13078866--13079041 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
13078856 TGGTTGAGCA
13078866 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13078912 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
13078957 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
** *
13079005 -CCTGAGTTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13079042 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13079022 original size:93 final size:93
Alignment explanation
Indices: 13078863--13079034 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
13078853 GGATGGTTGA
*
13078863 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
13078928 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* **
13078956 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGTTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
13079020 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
13079035 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13080484 original size:31 final size:31
Alignment explanation
Indices: 13080425--13080484 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
13080415 TTGCCTAGCA
* *
13080425 ATGATGACCTACCACCCTGGATTGCCCAACG
1 ATGATGACCTACCACCATAGATTGCCCAACG
* * *
13080456 ATGATGGCTTACCACCATAGATTTCCCAA
1 ATGATGACCTACCACCATAGATTGCCCAA
13080485 AAACGATGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (31 bp):
ATGATGACCTACCACCATAGATTGCCCAACG
Found at i:13082152 original size:24 final size:24
Alignment explanation
Indices: 13082125--13082174 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
13082115 ATTTTTAAAA
13082125 TTAAAATATTAAAAAATATATTTT
1 TTAAAATATTAAAAAATATATTTT
* ** *
13082149 TTAAAATTTTTTAGAATATATTTT
1 TTAAAATATTAAAAAATATATTTT
13082173 TT
1 TT
13082175 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TTAAAATATTAAAAAATATATTTT
Found at i:13083975 original size:38 final size:38
Alignment explanation
Indices: 13083864--13083978 Score: 185
Period size: 38 Copynumber: 3.0 Consensus size: 38
13083854 TTTCAAATTA
* * * *
13083864 ACATGTATAATCGTGGCATATCCACTTAGCACCACATT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
*
13083902 ACATATTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
13083940 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
13083978 A
1 A
13083979 ATGAATCAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 71 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:13084056 original size:48 final size:46
Alignment explanation
Indices: 13083942--13084072 Score: 172
Period size: 48 Copynumber: 2.8 Consensus size: 46
13083932 ACCACGTTAC
*
13083942 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAAT
1 ATGTGTAA-CGTGGTATATCCACTTAGCACCACGTTAATGAATCAAT
* * * *
13083989 ATATGTAACTATGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAAC-GTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
*
13084037 ATGTGTAATCGTGGTATATCTACTTAGCACCACGTT
1 ATGTGTAA-CGTGGTATATCCACTTAGCACCACGTT
13084073 GCACGTATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.01
47 31 0.43
48 39 0.54
49 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (46 bp):
ATGTGTAACGTGGTATATCCACTTAGCACCACGTTAATGAATCAAT
Found at i:13099965 original size:716 final size:714
Alignment explanation
Indices: 13098491--13099904 Score: 2612
Period size: 716 Copynumber: 2.0 Consensus size: 714
13098481 TTTTATTGTG
* ** **
13098491 TAAAACCTAAAGTAACTAAGGCCTATTTATAGGATGAAATTCATAGCATATATGACTACAACAAC
1 TAAAACATAAAGTAACTAACCCCTAAATATAGGA-GAAATTCATAGCATATATGACTACAACAAC
*
13098556 CCTAAATTAATCAGAGTTTAAGTGGGAAACTAAAAACAGAGTTTAATTAGGAGAAGAAAAGAAAA
65 CCTAAATTAATCAGAGTTTAAGTGGGAAACTAAAAACAGAGTTTAACTAGGAGAAGAAAAGAAAA
13098621 AATAAAATTTGGTCAAAATAAAAGGCATTCTCCCACAAATCTCCAACTTGACCTGTATTTGGACC
130 AATAAAATTTGGTCAAAATAAAAGGCATTCTCCCACAAATCTCCAACTTGACCTGTATTTGGACC
*
13098686 AACTCCCTTGCTGAGCCCTGTTATGGGCTTAATTAATTCTTCATCGGATGCTTACTGAGTCCAAT
195 AACTCCCTTGCTGAGCCCTGTTATGGGCTTAATTAATTCTTCATCGGATGCTTACTGAGTCCAAG
*
13098751 CTATGGTCGAACTTTGAAACTAGAAGGCTCTTTGTCAATATGTCAGTCAGATTGTGTTCTGTGTC
260 CAATGGTCGAACTTTGAAACTAGAAGGCTCTTTGTCAATATGTCAGTCAGATTGTGTTCTGTGTC
13098816 AATATTAAGAATTTGAACATCCCTTTGAATGATCACCTCTCAAACAAAATGATAACAAATGTCTA
325 AATATTAAGAATTTGAACATCCCTTTGAATGATCACCTCTCAAACAAAATGATAACAAATGTCTA
13098881 TGTGCTTCGTTCTCTCGTGATGAATTTGATCTTTGGTGAGATGTATGACACTTTGACTATCACCA
390 TGTGCTTCGTTCTCTCGTGATGAATTTGATCTTTGGTGAGATGTATGACACTTTGACTATCACCA
13098946 TATACGACAGTTGCCCCTTTTTCACTTAACAGTTCACTGAACAAGCCCCTCAACCAAATTGTTTT
455 TATACGACAGTTGCCCCTTTTTCACTTAACAGTTCACTGAACAAGCCCCTCAACCAAATTGTTTT
13099011 TTTACTACTTCTGTAATTGCCATGTATTTTGCTTCAGTAGTTAACAAAGCCAATGTAGTTTGAAG
520 TTTACTACTTCTGTAATTGCCATGTATTTTGCTTCAGTAGTTAACAAAGCCAATGTAGTTTGAAG
*
13099076 TGTCACTTTCCAACTAATGGCACAATTCCCAAAAGTAAATAGGTAACTTGTGAGAGACCTTTTCG
585 TGTCACTTTCCAACTAATGGCACAATTACCAAAAGTAAATAGGTAACTTGTGAGAGACCTTTTCG
* ***
13099141 ATCTAAGTCTCCTGCATAATCAGAATCGACATATCTGACTAAACCATCTAAATAATTTTTATTGT
650 ATCTAAGTCTCCTGCATAATCAGAATCGACATATCTGACTAAACCATCT-AATAATTTTCAAACT
*
13099206 G
714 C
* ** **
13099207 TAAAACCTAAAGTAACTAAGGCCTATTTATAGGATGAAATTCATAGCATATATGACTACAACAAC
1 TAAAACATAAAGTAACTAACCCCTAAATATAGGA-GAAATTCATAGCATATATGACTACAACAAC
13099272 CCTAAATTAATCAGAGTTTAAGTGGGAAACTAAAAACAGAGTTTAACTAGGAGAAGAAAAGAAAA
65 CCTAAATTAATCAGAGTTTAAGTGGGAAACTAAAAACAGAGTTTAACTAGGAGAAGAAAAGAAAA
13099337 AATAAAATTTGGTCAAAATAAAAGGCATTCTCCCACAAATCTCCAACTTGACCTGTATTTGGACC
130 AATAAAATTTGGTCAAAATAAAAGGCATTCTCCCACAAATCTCCAACTTGACCTGTATTTGGACC
13099402 AACTCCCTTGCTGAGCCCTGTTATGGGCTTAATTAATTCTTCATCGGATGCTTACTGAGTCCAAG
195 AACTCCCTTGCTGAGCCCTGTTATGGGCTTAATTAATTCTTCATCGGATGCTTACTGAGTCCAAG
13099467 CAATGGTCGAACTTTGAAACTAGAAGGCTCTTTGTCAATATGTCAGTCAGATTGTGTTCTGTGTC
260 CAATGGTCGAACTTTGAAACTAGAAGGCTCTTTGTCAATATGTCAGTCAGATTGTGTTCTGTGTC
13099532 AATATTAAGAATTTGAACATCCCTTTGAATGATCACCTCTCAAACAAAATGATAACAAATGTCTA
325 AATATTAAGAATTTGAACATCCCTTTGAATGATCACCTCTCAAACAAAATGATAACAAATGTCTA
13099597 TGTGCTTCGTTCTCTCGTGATGAATTTGATCTTTGGTGAGATGTATGACACTTTGACTATCACCA
390 TGTGCTTCGTTCTCTCGTGATGAATTTGATCTTTGGTGAGATGTATGACACTTTGACTATCACCA
13099662 TATACGACAGTTGCCCCTTTTTCACTTAACAGTTCACTGAACAAGCCCCTCAACCAAATTGTTTT
455 TATACGACAGTTGCCCCTTTTTCACTTAACAGTTCACTGAACAAGCCCCTCAACCAAATTG-TTT
13099727 TTTTACTACTTCTGTAATTGCCATGTATTTTGCTTCAGTAGTTAACAAAGCCAATGTAGTTTGAA
519 TTTTACTACTTCTGTAATTGCCATGTATTTTGCTTCAGTAGTTAACAAAGCCAATGTAGTTTGAA
*
13099792 GTGTCACTTTCCAACTAATGGCACAATTATCAAAAGTAAATAGGTAACTTGTGAGAGACCTTTTC
584 GTGTCACTTTCCAACTAATGGCACAATTACCAAAAGTAAATAGGTAACTTGTGAGAGACCTTTTC
13099857 GATCTAAGTCTCCTGCATAATCAGAATCGACATATCTGACTAAACCAT
649 GATCTAAGTCTCCTGCATAATCAGAATCGACATATCTGACTAAACCAT
13099905 TTTAAGTTCT
Statistics
Matches: 692, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
716 513 0.74
717 179 0.26
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (714 bp):
TAAAACATAAAGTAACTAACCCCTAAATATAGGAGAAATTCATAGCATATATGACTACAACAACC
CTAAATTAATCAGAGTTTAAGTGGGAAACTAAAAACAGAGTTTAACTAGGAGAAGAAAAGAAAAA
ATAAAATTTGGTCAAAATAAAAGGCATTCTCCCACAAATCTCCAACTTGACCTGTATTTGGACCA
ACTCCCTTGCTGAGCCCTGTTATGGGCTTAATTAATTCTTCATCGGATGCTTACTGAGTCCAAGC
AATGGTCGAACTTTGAAACTAGAAGGCTCTTTGTCAATATGTCAGTCAGATTGTGTTCTGTGTCA
ATATTAAGAATTTGAACATCCCTTTGAATGATCACCTCTCAAACAAAATGATAACAAATGTCTAT
GTGCTTCGTTCTCTCGTGATGAATTTGATCTTTGGTGAGATGTATGACACTTTGACTATCACCAT
ATACGACAGTTGCCCCTTTTTCACTTAACAGTTCACTGAACAAGCCCCTCAACCAAATTGTTTTT
TTACTACTTCTGTAATTGCCATGTATTTTGCTTCAGTAGTTAACAAAGCCAATGTAGTTTGAAGT
GTCACTTTCCAACTAATGGCACAATTACCAAAAGTAAATAGGTAACTTGTGAGAGACCTTTTCGA
TCTAAGTCTCCTGCATAATCAGAATCGACATATCTGACTAAACCATCTAATAATTTTCAAACTC
Found at i:13104654 original size:24 final size:21
Alignment explanation
Indices: 13104607--13104648 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13104597 AATAAAATCC
13104607 ATTTCTTAATAATAACTTAAA
1 ATTTCTTAATAATAACTTAAA
* *
13104628 ATTTTTTAATAATAATTTAAA
1 ATTTCTTAATAATAACTTAAA
13104649 TTAATTACAA
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:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTCTTAATAATAACTTAAA
Found at i:13109294 original size:12 final size:12
Alignment explanation
Indices: 13109277--13109305 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
13109267 TTACTTTTCA
13109277 TGTTTTTTTT-T
1 TGTTTTTTTTAT
13109288 TGTTTTTTTTAT
1 TGTTTTTTTTAT
13109300 TGTTTT
1 TGTTTT
13109306 ATTTGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.86
Consensus pattern (12 bp):
TGTTTTTTTTAT
Found at i:13111407 original size:12 final size:12
Alignment explanation
Indices: 13111386--13111421 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
13111376 ATGTTTGAAT
13111386 ATAG-TGTTCAA
1 ATAGTTGTTCAA
13111397 ATAGTTGTTCAA
1 ATAGTTGTTCAA
13111409 ATAGTTGTTCAA
1 ATAGTTGTTCAA
13111421 A
1 A
13111422 CAAACAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (12 bp):
ATAGTTGTTCAA
Found at i:13113224 original size:44 final size:45
Alignment explanation
Indices: 13113134--13113262 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
13113124 GACAGAACGA
*
13113134 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
13113180 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
13113224 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
13113263 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:13119378 original size:2 final size:2
Alignment explanation
Indices: 13119373--13119398 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13119363 AGGGTAAAAA
13119373 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13119399 TATTATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13120619 original size:44 final size:45
Alignment explanation
Indices: 13120529--13120657 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
13120519 GACAGAACGA
*
13120529 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
13120575 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
13120619 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
13120658 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:13122148 original size:39 final size:39
Alignment explanation
Indices: 13122087--13122166 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
13122077 AACTATCAAA
* *
13122087 TAAAGCCTCCTTTTTATCGATTAAGATGCTCAAGATGAG
1 TAAAGCCTCCCTTCTATCGATTAAGATGCTCAAGATGAG
* *
13122126 TAAAGCCTCCCTTCTATTGATTAATATGCTCAAGATGAG
1 TAAAGCCTCCCTTCTATCGATTAAGATGCTCAAGATGAG
13122165 TA
1 TA
13122167 GATTGAATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (39 bp):
TAAAGCCTCCCTTCTATCGATTAAGATGCTCAAGATGAG
Found at i:13129138 original size:33 final size:35
Alignment explanation
Indices: 13129088--13129152 Score: 107
Period size: 33 Copynumber: 1.9 Consensus size: 35
13129078 AAAGTTCTTA
*
13129088 ATGAAGAAAAAATAATCGACCGGCC-ATTTTGGTT
1 ATGAAGAAAAAAGAATCGACCGGCCAATTTTGGTT
13129122 ATGAAG-AAAAAGAATCGACCGGCCAATTTTG
1 ATGAAGAAAAAAGAATCGACCGGCCAATTTTG
13129153 CAAGGTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 17 0.59
34 12 0.41
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (35 bp):
ATGAAGAAAAAAGAATCGACCGGCCAATTTTGGTT
Found at i:13129424 original size:3 final size:3
Alignment explanation
Indices: 13129414--13129445 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
13129404 TTTTTTCTAA
13129414 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13129446 ATTTTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:13129713 original size:3 final size:3
Alignment explanation
Indices: 13129707--13129736 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
13129697 AAAAAAAAGG
13129707 AGA AGA AGA AGA AGAA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AG-A AGA AGA AGA AGA AG
13129737 GTTAGTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13129727 original size:13 final size:13
Alignment explanation
Indices: 13129709--13129735 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13129699 AAAAAAGGAG
13129709 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
13129722 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
13129735 A
1 A
13129736 GGTTAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAGA
Done.