Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 140 of 295
Found at i:43134164 original size:22 final size:22
Alignment explanation
Indices: 43134139--43134185 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
43134129 TTTTCTTGAT
43134139 CTATAATATCACATTTAGCCTA
1 CTATAATATCACATTTAGCCTA
43134161 CTATAATATCACATTTAGCCTA
1 CTATAATATCACATTTAGCCTA
43134183 CTA
1 CTA
43134186 ATTAGTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.36
Consensus pattern (22 bp):
CTATAATATCACATTTAGCCTA
Found at i:43136952 original size:27 final size:27
Alignment explanation
Indices: 43136913--43136978 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
43136903 TGCCTCTCAA
* * *
43136913 AGAGGTGGTACTAATGACCCCTCTTAG
1 AGAGGCGGCACTAATGACCCCTATTAG
* * *
43136940 -GTAGGCGGCACTAGTGGCCCCTATTTG
1 AG-AGGCGGCACTAATGACCCCTATTAG
43136967 AGAGGCGGCACT
1 AGAGGCGGCACT
43136979 GGACTAGCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 29 0.94
28 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (27 bp):
AGAGGCGGCACTAATGACCCCTATTAG
Found at i:43138841 original size:20 final size:20
Alignment explanation
Indices: 43138816--43138855 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43138806 TAGGGACTAA
*
43138816 AATAAAAAGTTGTAAAATTT
1 AATAAAAAGTTCTAAAATTT
*
43138836 AATAAAAATTTCTAAAATTT
1 AATAAAAAGTTCTAAAATTT
43138856 TATGAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
AATAAAAAGTTCTAAAATTT
Found at i:43140470 original size:28 final size:29
Alignment explanation
Indices: 43140366--43140473 Score: 123
Period size: 28 Copynumber: 3.8 Consensus size: 29
43140356 ACATACCTAT
* * * *
43140366 ATATGGCCCACTAAGCCC-AATCTCTTTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
43140394 ATATGGCCCATTAGGCCC-ATTCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
43140422 ATGTGGCCCATTAAGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
43140451 ATATGG-CCATTAGGCCCAAATCA
1 ATATGGCCCATTAGGCCCAAATCA
43140474 TATTTACAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 54 0.81
29 13 0.19
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:43144324 original size:27 final size:27
Alignment explanation
Indices: 43144294--43144471 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43144284 ATATTGAGCC
* * * *
43144294 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43144321 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43144348 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43144376 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43144403 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43144430 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43144457 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43144472 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43144433 original size:82 final size:81
Alignment explanation
Indices: 43144315--43144470 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43144305 TGCTATATAA
* *
43144315 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43144380 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43144397 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43144461 CACTTAGTGC
65 CACTTAGTGC
43144471 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43152260 original size:27 final size:27
Alignment explanation
Indices: 43152230--43152407 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
43152220 ATATTGAGCC
* * **
43152230 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
43152257 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
43152284 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-AAT
* ** ** *
43152312 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
43152339 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
43152366 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
43152393 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
43152408 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:43152369 original size:82 final size:81
Alignment explanation
Indices: 43152256--43152406 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
43152246 TATAATCATC
* * * *
43152256 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACTCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCACCCTT
43152321 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
43152338 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
43152402 AGTGC
65 AGTGC
43152407 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 17 0.28
82 44 0.72
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTTA
GTGCCGCATGGTCAAT
Found at i:43160240 original size:26 final size:27
Alignment explanation
Indices: 43160210--43160386 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
43160200 ATATTGAGCC
* * *
43160210 CGCACACTCAGTGCTATATAATC-ACT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
43160236 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
43160263 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-AAT
* ** ** *
43160291 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
43160318 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
43160345 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
43160372 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
43160387 GTACAATTTA
Statistics
Matches: 123, Mismatches: 24, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
26 19 0.15
27 81 0.66
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:43160272 original size:27 final size:27
Alignment explanation
Indices: 43160235--43160385 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
43160225 ATATAATCAC
* *
43160235 TCGCACACTTAGTGCCACGTAATCAAA
1 TCGCACACTTAGTGCCACATAGTCAAA
* *
43160262 TCGCACACTTAGTGCTACATAGTCAGAC
1 TCGCACACTTAGTGCCACATAGTCA-AA
* * * *
43160290 TCGCACTCTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTGCCACATAGTCAAA
* **
43160317 TCGCACACTTAGTG-CATCATATTCATT
1 TCGCACACTTAGTGCCA-CATAGTCAAA
*
43160344 TCGCACACTTAGTGCAACATAGTCAAA
1 TCGCACACTTAGTGCCACATAGTCAAA
*
43160371 TCGCACCCTTAGTGC
1 TCGCACACTTAGTGC
43160386 TGTACAATTT
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 78 0.76
28 23 0.23
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (27 bp):
TCGCACACTTAGTGCCACATAGTCAAA
Found at i:43160303 original size:55 final size:54
Alignment explanation
Indices: 43160210--43160386 Score: 196
Period size: 55 Copynumber: 3.3 Consensus size: 54
43160200 ATATTGAGCC
* * * *
43160210 CGCACACTCAGTGCTATATAATC-ACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * * * *
43160263 CGCACACTTAGTGCTACATAGTCAGACTCGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
43160318 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
*
43160372 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
43160387 GTACAATTTA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
53 20 0.20
54 37 0.36
55 45 0.44
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:43160326 original size:82 final size:81
Alignment explanation
Indices: 43160235--43160385 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
43160225 ATATAATCAC
* * * *
43160235 TCGCACACTTAGTGCCA-CGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACTCT
1 TCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCACCCT
43160299 TAGTGCCGCATGGTCAAT
64 TAGTGCCGCATGGTCAAT
* **
43160317 TCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACCCTTA
1 TCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTTA
43160382 GTGC
66 GTGC
43160386 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 17 0.28
82 44 0.72
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTTA
GTGCCGCATGGTCAAT
Found at i:43168227 original size:27 final size:27
Alignment explanation
Indices: 43168197--43168374 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
43168187 ATATTGAGCC
* *
43168197 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
43168224 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
43168251 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
43168279 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43168306 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
43168333 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
43168360 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
43168375 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43168336 original size:82 final size:81
Alignment explanation
Indices: 43168218--43168373 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
43168208 TGCTATATAA
* * *
43168218 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
43168283 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
43168300 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43168364 CCCTTAGTGC
65 CCCTTAGTGC
43168374 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:43176215 original size:27 final size:27
Alignment explanation
Indices: 43176185--43176362 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
43176175 ATATTGAGCC
* *
43176185 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
43176212 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
43176239 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
43176267 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43176294 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
43176321 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
43176348 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
43176363 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43176324 original size:82 final size:81
Alignment explanation
Indices: 43176206--43176361 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
43176196 TGCTATATAA
* * * *
43176206 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
43176271 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43176288 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
43176352 CCCTTAGTGC
65 CACTTAGTGC
43176362 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43217941 original size:43 final size:43
Alignment explanation
Indices: 43217855--43218007 Score: 139
Period size: 43 Copynumber: 3.6 Consensus size: 43
43217845 CTGGCACCTC
* * * * * *
43217855 AATGCATCATCGGATAAACCAAAGCGAATATACTGGTACACAT
1 AATGCATCATCGGACAAATCAAAGCAAATATATTGGCATACAT
* * * *
43217898 AGTGCATCATCGGACGAATCGAAGCAAAT-TCATTGGCGTACAT
1 AATGCATCATCGGACAAATCAAAGCAAATAT-ATTGGCATACAT
* * *
43217941 AATGCA-CAATCAGACAAATCAAAGCAAATATATTGGTATACAC
1 AATGCATC-ATCGGACAAATCAAAGCAAATATATTGGCATACAT
* *
43217984 AATGCATCATCGGATAAACCAAAG
1 AATGCATCATCGGACAAATCAAAG
43218008 TATAAACCAT
Statistics
Matches: 86, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
42 2 0.02
43 82 0.95
44 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (43 bp):
AATGCATCATCGGACAAATCAAAGCAAATATATTGGCATACAT
Found at i:43220132 original size:56 final size:56
Alignment explanation
Indices: 43219983--43220134 Score: 241
Period size: 56 Copynumber: 2.7 Consensus size: 56
43219973 GAAGTATATG
* * *
43219983 TGGCATCGATATATGATTTCGATACATGTGTGCGAATAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
*
43220039 TGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGTCCATGTTTCATACGT
1 TGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
* * *
43220095 TGGCATCGATATGCGATTCCGATATATGTGTGTGAGTAAG
1 TGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAG
43220135 ACCCTATCTG
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 89 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (56 bp):
TGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
Found at i:43220155 original size:56 final size:56
Alignment explanation
Indices: 43219983--43220168 Score: 185
Period size: 56 Copynumber: 3.3 Consensus size: 56
43219973 GAAGTATATG
* * * * * ** * *
43219983 TGGCATCGATATATGATTTCGATACATGTGTGCGAATAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCATATCTCAGACGT
* * * * *
43220039 TGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGTCCATGTTTCATACGT
1 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCATATCTCAGACGT
* * * **
43220095 TGGCATCGATATGCGATTCCGATATATGTGTGTGAGTAAGACCCTATCTGGGACAG-
1 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCATATCTCAGAC-GT
43220151 TGGCATCGATATGTGATT
1 TGGCATCGATATGTGATT
43220169 ACATGTAAGA
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
56 113 0.99
57 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCATATCTCAGACGT
Found at i:43224139 original size:15 final size:16
Alignment explanation
Indices: 43224119--43224148 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43224109 CTAAAAACTT
43224119 ATATGT-ATGAGCTTG
1 ATATGTGATGAGCTTG
43224134 ATATGTGATGAGCTT
1 ATATGTGATGAGCTT
43224149 TTGGTAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (16 bp):
ATATGTGATGAGCTTG
Found at i:43228961 original size:31 final size:31
Alignment explanation
Indices: 43228923--43228986 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43228913 CCTTTTCATA
*
43228923 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
43228954 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
43228985 TT
1 TT
43228987 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:43229233 original size:24 final size:24
Alignment explanation
Indices: 43229180--43229349 Score: 211
Period size: 25 Copynumber: 7.0 Consensus size: 24
43229170 GCTTTATCAT
*
43229180 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* *
43229204 AGTAACTGGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
43229229 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
* *
43229254 GTAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
43229279 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
43229304 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
43229327 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43229350 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
23 20 0.15
24 34 0.26
25 76 0.58
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:43229421 original size:9 final size:9
Alignment explanation
Indices: 43229407--43229463 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
43229397 ATCTCATGTG
43229407 CATATCATA
1 CATATCATA
*
43229416 CATATCATGTG
1 CATATCA--TA
43229427 CATATCATA
1 CATATCATA
* *
43229436 CATGTCATGTG
1 CATATCA--TA
43229447 CATATCATA
1 CATATCATA
43229456 CATATCAT
1 CATATCAT
43229464 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:43229423 original size:20 final size:20
Alignment explanation
Indices: 43229395--43229465 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
43229385 GCATTTATGA
*
43229395 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
43229415 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
43229435 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
43229455 ACATATCATGT
1 ACATATCATGT
43229466 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:43229430 original size:11 final size:11
Alignment explanation
Indices: 43229400--43229454 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
43229390 TATGAACATC
43229400 TCATGTGCATA
1 TCATGTGCATA
*
43229411 TCA--TACATA
1 TCATGTGCATA
43229420 TCATGTGCATA
1 TCATGTGCATA
* *
43229431 TCA--TACATG
1 TCATGTGCATA
43229440 TCATGTGCATA
1 TCATGTGCATA
43229451 TCAT
1 TCAT
43229455 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:43230797 original size:27 final size:27
Alignment explanation
Indices: 43230711--43230789 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
43230701 TATTCGTTAT
*
43230711 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCAC
*
43230738 TTTACCCTACAAGGGCTTTACGGTCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
*
43230765 TGTACCCTACAGGGGCTTTACGGTC
1 TTTACCCTACAGGGGCTTTACGGTC
43230790 TTTTTACCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
27 46 0.98
28 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.29
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCAC
Found at i:43231031 original size:81 final size:81
Alignment explanation
Indices: 43230939--43231133 Score: 250
Period size: 81 Copynumber: 2.4 Consensus size: 81
43230929 TTTGTAAATC
*
43230939 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATATCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATATAGGTAATTTCACAAACCAAG-GGTATTT
***
43231003 TGGTAATTTTACAAACT
65 TAACAATTTTACAAACT
* * *
43231020 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTATGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATATAGGTAATTTCACAAACCAAGGGTATTTT
*
43231085 AACAATTTTACAGACT
66 AACAATTTTACAAACT
* * ** *
43231101 A-GGGTATTCTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
43231134 AAATAGTAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 27 0.27
81 71 0.71
82 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATATAGGTAATTTCACAAACCAAGGGTATTTT
AACAATTTTACAAACT
Found at i:43231091 original size:27 final size:27
Alignment explanation
Indices: 43230828--43231119 Score: 162
Period size: 27 Copynumber: 10.8 Consensus size: 27
43230818 TTTCATCCTA
* * * *
43230828 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * **
43230855 CAAAGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * * *
43230882 CAATGGTATTTCCA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-C
* ** *
43230911 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAC
* * *
43230938 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** * ** *
43230965 TGAGGGTATATCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
*
43230992 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTACAAAC
* * * *
43231019 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
**
43231046 TGAGGGTA-TTTATGTAATTTTACAAAC
1 CAAGGGTATTTTA-GTAATTTTACAAAC
** *
43231073 CAAGGGTATTTTAACAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
43231099 CTAGGGTATTCTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
43231120 GTAAATCGAG
Statistics
Matches: 208, Mismatches: 48, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
26 23 0.11
27 151 0.73
28 20 0.10
29 14 0.07
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:43231140 original size:27 final size:27
Alignment explanation
Indices: 43231112--43231295 Score: 217
Period size: 27 Copynumber: 6.8 Consensus size: 27
43231102 GGGTATTCTA
* *
43231112 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
43231139 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
43231166 GTACTTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
43231193 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
43231220 GTAATTATGTAAATCG-GGGTTAAAATG
1 GTAATTCTGTAAATCGAGGG-TAAAATG
* * *
43231247 GTAATTATATAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
43231274 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
43231296 CTTTGGTAAT
Statistics
Matches: 137, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.02
27 131 0.96
28 3 0.02
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:43231157 original size:80 final size:81
Alignment explanation
Indices: 43230939--43231160 Score: 209
Period size: 81 Copynumber: 2.8 Consensus size: 81
43230929 TTTGTAAATC
* * * * **
43230939 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATATCGGTAATT-TCACAAACC-AGTGGTATT
1 AGGGGTATTCTAGTAATTTTACAAATCGAGGGTAAATATGTAATTCT-ACAAACCAAG-GGTATT
***
43231002 TTGGTAATTTTACAAACT
64 TTAACAATTTTACAAACT
* * * ** *
43231020 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTATGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTCTAGTAATTTTACAAATCGAGGGTAAATATGTAATTCTACAAACCAAGGGTATTTT
*
43231085 AACAATTTTACAGACT
66 AACAATTTTACAAACT
** * *
43231101 A-GGGTATTCTAGTAATTTTGTAAATCGAGGGTAAA-ATAGTAATTCTATAAATCAAGGGTA
1 AGGGGTATTCTAGTAATTTTACAAATCGAGGGTAAATAT-GTAATTCTACAAACCAAGGGTA
43231161 AAACGGTACT
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.02
80 46 0.38
81 70 0.58
82 3 0.02
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (81 bp):
AGGGGTATTCTAGTAATTTTACAAATCGAGGGTAAATATGTAATTCTACAAACCAAGGGTATTTT
AACAATTTTACAAACT
Found at i:43231306 original size:54 final size:54
Alignment explanation
Indices: 43231112--43231295 Score: 244
Period size: 54 Copynumber: 3.4 Consensus size: 54
43231102 GGGTATTCTA
* *
43231112 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACG
* * * *
43231166 GTACTTCTGTAAGTCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACG
* * ** *
43231220 GTAATTATGTAAATCG-GGGTTAAAATGGTAATTATATAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGG-TAAAATGGTAATTCTATAAATCAAGGGTAAAACG
*
43231274 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
43231296 CTTTGGTAAT
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 3 0.03
54 106 0.95
55 3 0.03
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACG
Found at i:43231322 original size:27 final size:27
Alignment explanation
Indices: 43231301--43231390 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
43231291 GGGTACTTTG
*
43231301 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
43231328 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
43231355 GTATTTTTACAAA-CTAAGCGTATTTCG
1 GTAATTTTACAAATCGAAG-GTATTTCA
43231382 GTAATTTTA
1 GTAATTTTA
43231391 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:43231342 original size:54 final size:54
Alignment explanation
Indices: 43231284--43231390 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
43231274 GTAATTCTGT
* * *
43231284 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAAG-GTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGCGTATTTCAGTAATTTTAC
* * *
43231338 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGCGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGCGTATTTCAGTAATTTTA
43231391 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGCGTATTTCAGTAATTTTAC
Found at i:43231404 original size:27 final size:27
Alignment explanation
Indices: 43231301--43231405 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
43231291 GGGTACTTTG
* *
43231301 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
43231328 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
43231355 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
43231382 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
43231406 CTAAACAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.03
27 54 0.84
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:43243979 original size:213 final size:213
Alignment explanation
Indices: 43243612--43244037 Score: 843
Period size: 213 Copynumber: 2.0 Consensus size: 213
43243602 AGAATAAAAT
43243612 TCATTTATTATCATGTCAATTTTACATGCGTACAAGAGTTCACTAATATCGTCACACCAATAACC
1 TCATTTATTATCATGTCAATTTTACATGCGTACAAGAGTTCACTAATATCGTCACACCAATAACC
*
43243677 CATCACTTGCACCAATGCAAGCTCAAGCACTATGCAATCACACAAAAAATTTTAAATTTTTTGAA
66 CATCACTTGCACCAATGCAAGCTCAAGCACCATGCAATCACACAAAAAATTTTAAATTTTTTGAA
43243742 AATTTTGCAATTAAAGTTAAACATTCAAAAGCATAAACCACACAAACAAAACAATATGTAAAACC
131 AATTTTGCAATTAAAGTTAAACATTCAAAAGCATAAACCACACAAACAAAACAATATGTAAAACC
43243807 CAACACTTTAGAGTGCAC
196 CAACACTTTAGAGTGCAC
43243825 TCATTTATTATCATGTCAATTTTACATGCGTACAAGAGTTCACTAATATCGTCACACCAATAACC
1 TCATTTATTATCATGTCAATTTTACATGCGTACAAGAGTTCACTAATATCGTCACACCAATAACC
43243890 CATCACTTGCACCAATGCAAGCTCAAGCACCATGCAATCACACAAAAAATTTTAAATTTTTTGAA
66 CATCACTTGCACCAATGCAAGCTCAAGCACCATGCAATCACACAAAAAATTTTAAATTTTTTGAA
43243955 AATTTTGCAATTAAAGTTAAACATTCAAAAGCATAAACCACACAAACAAAACAATATGTAAAACC
131 AATTTTGCAATTAAAGTTAAACATTCAAAAGCATAAACCACACAAACAAAACAATATGTAAAACC
43244020 CAACACTTTAGAGTGCAC
196 CAACACTTTAGAGTGCAC
43244038 ATTGTCCTCA
Statistics
Matches: 212, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
213 212 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (213 bp):
TCATTTATTATCATGTCAATTTTACATGCGTACAAGAGTTCACTAATATCGTCACACCAATAACC
CATCACTTGCACCAATGCAAGCTCAAGCACCATGCAATCACACAAAAAATTTTAAATTTTTTGAA
AATTTTGCAATTAAAGTTAAACATTCAAAAGCATAAACCACACAAACAAAACAATATGTAAAACC
CAACACTTTAGAGTGCAC
Found at i:43244062 original size:20 final size:20
Alignment explanation
Indices: 43244037--43244079 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
43244027 TTAGAGTGCA
43244037 CATTGTCCTCAATGTATTCC
1 CATTGTCCTCAATGTATTCC
43244057 CATTGTCCTCAATGTATTCC
1 CATTGTCCTCAATGTATTCC
43244077 CAT
1 CAT
43244080 CCTAATAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.40
Consensus pattern (20 bp):
CATTGTCCTCAATGTATTCC
Found at i:43246684 original size:18 final size:18
Alignment explanation
Indices: 43246656--43246690 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
43246646 ACAAAACTAA
43246656 ATTTAAAAAATCTAATTTT
1 ATTTAAAAAATC-AATTTT
43246675 ATTT-AAAAATCAATTT
1 ATTTAAAAAATCAATTT
43246691 ATTATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTAAAAAATCAATTTT
Found at i:43250461 original size:6 final size:6
Alignment explanation
Indices: 43250450--43250478 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
43250440 GCAAATGACT
43250450 CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTT
43250479 GGAAACCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
CATTTC
Found at i:43256278 original size:33 final size:33
Alignment explanation
Indices: 43256235--43256300 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
43256225 CCTTTGAGGA
43256235 GAAGCCAATTGTCTTTTTAGACTACCCATTTTT
1 GAAGCCAATTGTCTTTTTAGACTACCCATTTTT
*
43256268 GAAGCTAATTGTCTTTTTAGACTACCCATTTTT
1 GAAGCCAATTGTCTTTTTAGACTACCCATTTTT
43256301 TTTTACCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (33 bp):
GAAGCCAATTGTCTTTTTAGACTACCCATTTTT
Found at i:43261894 original size:197 final size:197
Alignment explanation
Indices: 43261546--43261940 Score: 727
Period size: 197 Copynumber: 2.0 Consensus size: 197
43261536 GGCATTCCAG
43261546 TGGCCAGTAAATGGTCGGTGGTGATGGGTTTTCGGTGGGTGAGCAATGGAAGAATTACACTCCTA
1 TGGCCAGTAAATGGTCGGTGGTGATGGGTTTTCGGTGGGTGAGCAATGGAAGAATTACACTCCTA
*
43261611 CTGAGACTATACTAGAAAATTTGGTATCAGAGTAACTATTTCAAAAATAATATTATTTTAATAAA
66 CTGAGACTATACTAGAAAATTTGGTATCAGAGTAACTATTCCAAAAATAATATTATTTTAATAAA
*
43261676 TTTAATATTAAATTAAATTTAATACTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
131 TTTAATATTAAATTAAATTTAATACTTACCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
43261741 TA
196 TA
*
43261743 TGGCCGGTAAATGGTCGGTGGTGATGGGTTTTCGGTGGGTGAGCAATGGAAGAATTACACTCCTA
1 TGGCCAGTAAATGGTCGGTGGTGATGGGTTTTCGGTGGGTGAGCAATGGAAGAATTACACTCCTA
* * *
43261808 TTGAGACTCTACTAGAAAATTTGGTATCAGAGTAACTATTCCAAAAATAATATTATTTTAATAGA
66 CTGAGACTATACTAGAAAATTTGGTATCAGAGTAACTATTCCAAAAATAATATTATTTTAATAAA
*
43261873 TTTAATATTAAATTGAATTTAATACTTACCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
131 TTTAATATTAAATTAAATTTAATACTTACCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
43261938 TA
196 TA
43261940 T
1 T
43261941 CCTAATATTT
Statistics
Matches: 191, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
197 191 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.38
Consensus pattern (197 bp):
TGGCCAGTAAATGGTCGGTGGTGATGGGTTTTCGGTGGGTGAGCAATGGAAGAATTACACTCCTA
CTGAGACTATACTAGAAAATTTGGTATCAGAGTAACTATTCCAAAAATAATATTATTTTAATAAA
TTTAATATTAAATTAAATTTAATACTTACCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
TA
Found at i:43261973 original size:16 final size:17
Alignment explanation
Indices: 43261943--43261981 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
43261933 GTGATTATCC
*
43261943 TAATATTTAATTTAATT
1 TAATATTTAATTTAATA
43261960 TAATATTT-ATTTAATA
1 TAATATTTAATTTAATA
43261976 TAATAT
1 TAATAT
43261982 AATCTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATATTTAATTTAATA
Found at i:43263809 original size:20 final size:20
Alignment explanation
Indices: 43263734--43263809 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
43263724 CTTGTACGGG
* * *
43263734 TTTGCACTTTAGTGTCTCTG
1 TTTGCACTTCAGTGCCTCTA
*
43263754 TTTGCAC-TCTGATGCCTCTA
1 TTTGCACTTCAG-TGCCTCTA
* * *
43263774 ATTGTACAATCA-TGCCTCTA
1 TTTGCAC-TTCAGTGCCTCTA
43263794 TTTGCACTTCAGTGCC
1 TTTGCACTTCAGTGCC
43263810 CTAATAGCAC
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
19 5 0.12
20 35 0.83
22 2 0.05
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.41
Consensus pattern (20 bp):
TTTGCACTTCAGTGCCTCTA
Found at i:43264112 original size:47 final size:47
Alignment explanation
Indices: 43264058--43264155 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
43264048 ATTACTTGTT
43264058 TAAATTTCAGCTACGTGATTGAGGAAACTTGGTTTAAAATTTCATTA
1 TAAATTTCAGCTACGTGATTGAGGAAACTTGGTTTAAAATTTCATTA
43264105 TAAATTTCAGCTACGTGATTGAGGAAACTTGGTTTAAAATTTCATTA
1 TAAATTTCAGCTACGTGATTGAGGAAACTTGGTTTAAAATTTCATTA
43264152 TAAA
1 TAAA
43264156 CTTACTAAGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (47 bp):
TAAATTTCAGCTACGTGATTGAGGAAACTTGGTTTAAAATTTCATTA
Found at i:43266954 original size:55 final size:56
Alignment explanation
Indices: 43266889--43267003 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
43266879 AGCATGGCTG
* *
43266889 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
43266945 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
43267000 CCAG
1 CCAG
43267004 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:43266966 original size:27 final size:27
Alignment explanation
Indices: 43266914--43267003 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
43266904 GTGACAGAGT
43266914 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
43266943 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
43266970 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
43266998 CACCAG
1 CACCAG
43267004 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:43267156 original size:28 final size:28
Alignment explanation
Indices: 43267109--43267174 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
43267099 AAATTAACCC
*
43267109 TAGGGGTATATAGGTCATTTTGCATACA
1 TAGGGGTATATAGGTAATTTTGCATACA
43267137 TAGGGGTAT-TATGGTAATTTTGCATACA
1 TAGGGGTATATA-GGTAATTTTGCATACA
*
43267165 TAGGGATATA
1 TAGGGGTATA
43267175 ATAGTACATC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.06
28 32 0.94
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (28 bp):
TAGGGGTATATAGGTAATTTTGCATACA
Found at i:43272800 original size:118 final size:118
Alignment explanation
Indices: 43272592--43272827 Score: 472
Period size: 118 Copynumber: 2.0 Consensus size: 118
43272582 GTAAAATTGA
43272592 CCACATAACTAGTATATGTATATAAGGCGACATGGTGATACCTAGGTAAATGTATTTGGGATGGT
1 CCACATAACTAGTATATGTATATAAGGCGACATGGTGATACCTAGGTAAATGTATTTGGGATGGT
43272657 TTTTATGAAATACCGAATGTGTGCAGATGTATCGAGGTGTTGCCTTATGTATG
66 TTTTATGAAATACCGAATGTGTGCAGATGTATCGAGGTGTTGCCTTATGTATG
43272710 CCACATAACTAGTATATGTATATAAGGCGACATGGTGATACCTAGGTAAATGTATTTGGGATGGT
1 CCACATAACTAGTATATGTATATAAGGCGACATGGTGATACCTAGGTAAATGTATTTGGGATGGT
43272775 TTTTATGAAATACCGAATGTGTGCAGATGTATCGAGGTGTTGCCTTATGTATG
66 TTTTATGAAATACCGAATGTGTGCAGATGTATCGAGGTGTTGCCTTATGTATG
43272828 AGTTTCATTG
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (118 bp):
CCACATAACTAGTATATGTATATAAGGCGACATGGTGATACCTAGGTAAATGTATTTGGGATGGT
TTTTATGAAATACCGAATGTGTGCAGATGTATCGAGGTGTTGCCTTATGTATG
Found at i:43273927 original size:47 final size:47
Alignment explanation
Indices: 43273868--43274167 Score: 420
Period size: 47 Copynumber: 6.4 Consensus size: 47
43273858 GATGTACAAG
* * *
43273868 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* *
43273915 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* *
43273962 GTGTGTATATATGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* *
43274009 GTGTATACATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * * * *
43274056 GTGTATATATGAGAGAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * * * *
43274103 GTGTATTTATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
*
43274150 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
43274168 TCCCGAAGGG
Statistics
Matches: 229, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 229 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
Found at i:43276076 original size:40 final size:40
Alignment explanation
Indices: 43276019--43276332 Score: 434
Period size: 40 Copynumber: 7.9 Consensus size: 40
43276009 TTCAGTATGT
43276019 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
*
43276059 TGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* * *
43276099 TATATCCGGACTAGGTCCCGAAGAGCATTCATGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* * *
43276139 TGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* * * *
43276179 TATACCCAGGCTAAGTTCTGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* * * * *
43276219 TACACCCGGACTAAGTCCCGAAGAGCATTCGTGTTGGTGG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* *
43276259 TATACCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
*
43276299 TGTATCCGGGCTAAG-CCTCGAAG-GCATTCGTGCT
1 TATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
43276333 TGGAAAAAAT
Statistics
Matches: 242, Mismatches: 31, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
39 13 0.05
40 229 0.95
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
Found at i:43281496 original size:41 final size:40
Alignment explanation
Indices: 43281326--43281503 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
43281316 AAGCCAAGTA
* * *
43281326 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
43281364 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43281404 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43281444 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
*
43281485 CCTCCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43281504 TTATCATCAA
Statistics
Matches: 126, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
38 12 0.10
39 18 0.14
40 69 0.55
41 23 0.18
42 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43289479 original size:40 final size:40
Alignment explanation
Indices: 43289397--43289614 Score: 248
Period size: 40 Copynumber: 5.5 Consensus size: 40
43289387 AAGCCAAGTA
* * * *
43289397 CCTTCGGGATTTA-ACCGGATATAGCT-ACTAGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
** *
43289435 CCTTCGGGAGATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43289475 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
43289515 CCTTCGAGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
43289555 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGTA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
*
43289596 CCTTCGAGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43289615 TTATCATCCA
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 12 0.08
39 16 0.10
40 103 0.66
41 23 0.15
42 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43291484 original size:47 final size:47
Alignment explanation
Indices: 43291403--43291701 Score: 397
Period size: 47 Copynumber: 6.4 Consensus size: 47
43291393 GATGTACAAG
* * * * *
43291403 GTGTGTATATGTGATAAGGCCTAATGACCGATGTGACGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* *
43291450 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
*
43291497 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* *
43291544 GTGTATACATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * * *
43291591 GTGTATACATGAGATAAGACCTAATGG-CAGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGACCTAATGGCCA-ATGTGATGAATGTGAAA
* * *
43291638 GTTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 G-TGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
*
43291686 --GTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
43291702 TCCCGAAGGG
Statistics
Matches: 230, Mismatches: 19, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
45 15 0.07
46 2 0.01
47 173 0.75
48 38 0.17
49 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
Found at i:43296690 original size:27 final size:27
Alignment explanation
Indices: 43296639--43296728 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
43296629 GTGACAGAGT
*
43296639 CACCAGATACATATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
43296668 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
43296695 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
43296723 CACCAG
1 CACCAG
43296729 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 24 0.44
28 23 0.43
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:43296882 original size:28 final size:28
Alignment explanation
Indices: 43296835--43296901 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
43296825 AAATTAACCC
*
43296835 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
43296863 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
43296891 TAGGGGTATAA
1 TAGGGGTATAA
43296902 TAGTACATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:43299419 original size:27 final size:29
Alignment explanation
Indices: 43299389--43299442 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
43299379 TTGAAGAATT
* *
43299389 TGAGTAATT-TGGG-CTAAATTGTGAAAA
1 TGAGTAATTGAGGGACTAAAATGTGAAAA
43299416 TGAGTAATTGAGGGACTAAAATGTGAA
1 TGAGTAATTGAGGGACTAAAATGTGAA
43299443 TTAAATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 3 0.13
29 11 0.48
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.30
Consensus pattern (29 bp):
TGAGTAATTGAGGGACTAAAATGTGAAAA
Found at i:43303665 original size:966 final size:966
Alignment explanation
Indices: 43301795--43303728 Score: 3868
Period size: 966 Copynumber: 2.0 Consensus size: 966
43301785 AGTGTGTAAA
43301795 CTCTTAAAGTATGGAAAGACTTCCGAATGAATTAATGTATTGAACGAGAGGTGAGAATGAAATGA
1 CTCTTAAAGTATGGAAAGACTTCCGAATGAATTAATGTATTGAACGAGAGGTGAGAATGAAATGA
43301860 ATAAATATAGGAAAGTACAGGTATGTATGATACCTATGATGATACTATGTGTATGAAGCTTGATG
66 ATAAATATAGGAAAGTACAGGTATGTATGATACCTATGATGATACTATGTGTATGAAGCTTGATG
43301925 AAATTGTATGAACATATTAAATGAGATGGAATAGAATTGATGGATGATTTGTGGACTACTAAGTG
131 AAATTGTATGAACATATTAAATGAGATGGAATAGAATTGATGGATGATTTGTGGACTACTAAGTG
43301990 TTATTATTTGATGTTTCATATTATATAAACTGTTGATTTTATTTGGTGCGAACTTACTAAGCTTC
196 TTATTATTTGATGTTTCATATTATATAAACTGTTGATTTTATTTGGTGCGAACTTACTAAGCTTC
43302055 AAAGCTGACTATGTGAAATGCTATCTGTTTTTATAGTGTTATAAAGCTAGCTCAGATATGGGGAT
261 AAAGCTGACTATGTGAAATGCTATCTGTTTTTATAGTGTTATAAAGCTAGCTCAGATATGGGGAT
43302120 CATTAGTGACTCATTCACAGTATTGGATATCTATTTTGGTACCATTTTGAAAGTTGTAAATATGG
326 CATTAGTGACTCATTCACAGTATTGGATATCTATTTTGGTACCATTTTGAAAGTTGTAAATATGG
43302185 TATATGGCATGTATAGGCTAGAAGTATTTGAATATGTTTAGTAATGTGTATATCATGCCATGTGA
391 TATATGGCATGTATAGGCTAGAAGTATTTGAATATGTTTAGTAATGTGTATATCATGCCATGTGA
43302250 TATGGCTAGATTATGGTTGAACTTATGGTTTGATTTTGATATATGATATGTGATGCAAAAATGAT
456 TATGGCTAGATTATGGTTGAACTTATGGTTTGATTTTGATATATGATATGTGATGCAAAAATGAT
43302315 ATGTTTGGTGTATTTATATGACCTAGTGAGAAATGGTCAATTTGGTAAGTTGGTAATGTGATTTA
521 ATGTTTGGTGTATTTATATGACCTAGTGAGAAATGGTCAATTTGGTAAGTTGGTAATGTGATTTA
43302380 GTTATAGAAATGATATGATTTTGGCATGAGATTGGATGTGAAATATTGAGATAAGGATATGTTAG
586 GTTATAGAAATGATATGATTTTGGCATGAGATTGGATGTGAAATATTGAGATAAGGATATGTTAG
43302445 AGTGTATGAATTTGTTCTGTGATTTTTGGTATGTTTGGAATTGGTTAAAAAGGATGAAATTTGTT
651 AGTGTATGAATTTGTTCTGTGATTTTTGGTATGTTTGGAATTGGTTAAAAAGGATGAAATTTGTT
43302510 GTTAATGAAATGACATGAATGATGTATGTTTTAGTTGTGAATTGGTTGAGAATTTGGTATTAAAT
716 GTTAATGAAATGACATGAATGATGTATGTTTTAGTTGTGAATTGGTTGAGAATTTGGTATTAAAT
43302575 GTTTAGTTTTGATCATGTAGGGAGGACCCAATATTAGGGTGGAAAATTGGCCTTATAAATGCCCA
781 GTTTAGTTTTGATCATGTAGGGAGGACCCAATATTAGGGTGGAAAATTGGCCTTATAAATGCCCA
43302640 ATTGTTTTCCACACGGGCGTGTGTCTCAGTTGTGTGTGACACACGGTTATGTTGCACGGCCGTGT
846 ATTGTTTTCCACACGGGCGTGTGTCTCAGTTGTGTGTGACACACGGTTATGTTGCACGGCCGTGT
43302705 GTCCCCCGGGGTACCCTACAAATTAAAGTCAGTATACCTTATAGTTTTGACATGGC
911 GTCCCCCGGGGTACCCTACAAATTAAAGTCAGTATACCTTATAGTTTTGACATGGC
43302761 CTCTTAAAGTATGGAAAGACTTCCGAATGAATTAATGTATTGAACGAGAGGTGAGAATGAAATGA
1 CTCTTAAAGTATGGAAAGACTTCCGAATGAATTAATGTATTGAACGAGAGGTGAGAATGAAATGA
43302826 ATAAATATAGGAAAGTACAGGTATGTATGATACCTATGATGATACTATGTGTATGAAGCTTGATG
66 ATAAATATAGGAAAGTACAGGTATGTATGATACCTATGATGATACTATGTGTATGAAGCTTGATG
43302891 AAATTGTATGAACATATTAAATGAGATGGAATAGAATTGATGGATGATTTGTGGACTACTAAGTG
131 AAATTGTATGAACATATTAAATGAGATGGAATAGAATTGATGGATGATTTGTGGACTACTAAGTG
43302956 TTATTATTTGATGTTTCATATTATATAAACTGTTGATTTTATTTGGTGCGAACTTACTAAGCTTC
196 TTATTATTTGATGTTTCATATTATATAAACTGTTGATTTTATTTGGTGCGAACTTACTAAGCTTC
43303021 AAAGCTGACTATGTGAAATGCTATCTGTTTTTATAGTGTTATAAAGCTAGCTCAGATATGGGGAT
261 AAAGCTGACTATGTGAAATGCTATCTGTTTTTATAGTGTTATAAAGCTAGCTCAGATATGGGGAT
43303086 CATTAGTGACTCATTCACAGTATTGGATATCTATTTTGGTACCATTTTGAAAGTTGTAAATATGG
326 CATTAGTGACTCATTCACAGTATTGGATATCTATTTTGGTACCATTTTGAAAGTTGTAAATATGG
43303151 TATATGGCATGTATAGGCTAGAAGTATTTGAATATGTTTAGTAATGTGTATATCATGCCATGTGA
391 TATATGGCATGTATAGGCTAGAAGTATTTGAATATGTTTAGTAATGTGTATATCATGCCATGTGA
43303216 TATGGCTAGATTATGGTTGAACTTATGGTTTGATTTTGATATATGATATGTGATGCAAAAATGAT
456 TATGGCTAGATTATGGTTGAACTTATGGTTTGATTTTGATATATGATATGTGATGCAAAAATGAT
43303281 ATGTTTGGTGTATTTATATGACCTAGTGAGAAATGGTCAATTTGGTAAGTTGGTAATGTGATTTA
521 ATGTTTGGTGTATTTATATGACCTAGTGAGAAATGGTCAATTTGGTAAGTTGGTAATGTGATTTA
43303346 GTTATAGAAATGATATGATTTTGGCATGAGATTGGATGTGAAATATTGAGATAAGGATATGTTAG
586 GTTATAGAAATGATATGATTTTGGCATGAGATTGGATGTGAAATATTGAGATAAGGATATGTTAG
43303411 AGTGTATGAATTTGTTCTGTGATTTTTGGTATGTTTGGAATTGGTTAAAAAGGATGAAATTTGTT
651 AGTGTATGAATTTGTTCTGTGATTTTTGGTATGTTTGGAATTGGTTAAAAAGGATGAAATTTGTT
43303476 GTTAATGAAATGACATGAATGATGTATGTTTTAGTTGTGAATTGGTTGAGAATTTGGTATTAAAT
716 GTTAATGAAATGACATGAATGATGTATGTTTTAGTTGTGAATTGGTTGAGAATTTGGTATTAAAT
43303541 GTTTAGTTTTGATCATGTAGGGAGGACCCAATATTAGGGTGGAAAATTGGCCTTATAAATGCCCA
781 GTTTAGTTTTGATCATGTAGGGAGGACCCAATATTAGGGTGGAAAATTGGCCTTATAAATGCCCA
43303606 ATTGTTTTCCACACGGGCGTGTGTCTCAGTTGTGTGTGACACACGGTTATGTTGCACGGCCGTGT
846 ATTGTTTTCCACACGGGCGTGTGTCTCAGTTGTGTGTGACACACGGTTATGTTGCACGGCCGTGT
43303671 GTCCCCCGGGGTACCCTACAAATTAAAGTCAGTATACCTTATAGTTTTGACATGGC
911 GTCCCCCGGGGTACCCTACAAATTAAAGTCAGTATACCTTATAGTTTTGACATGGC
43303727 CT
1 CT
43303729 AGACACACGG
Statistics
Matches: 968, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
966 968 1.00
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (966 bp):
CTCTTAAAGTATGGAAAGACTTCCGAATGAATTAATGTATTGAACGAGAGGTGAGAATGAAATGA
ATAAATATAGGAAAGTACAGGTATGTATGATACCTATGATGATACTATGTGTATGAAGCTTGATG
AAATTGTATGAACATATTAAATGAGATGGAATAGAATTGATGGATGATTTGTGGACTACTAAGTG
TTATTATTTGATGTTTCATATTATATAAACTGTTGATTTTATTTGGTGCGAACTTACTAAGCTTC
AAAGCTGACTATGTGAAATGCTATCTGTTTTTATAGTGTTATAAAGCTAGCTCAGATATGGGGAT
CATTAGTGACTCATTCACAGTATTGGATATCTATTTTGGTACCATTTTGAAAGTTGTAAATATGG
TATATGGCATGTATAGGCTAGAAGTATTTGAATATGTTTAGTAATGTGTATATCATGCCATGTGA
TATGGCTAGATTATGGTTGAACTTATGGTTTGATTTTGATATATGATATGTGATGCAAAAATGAT
ATGTTTGGTGTATTTATATGACCTAGTGAGAAATGGTCAATTTGGTAAGTTGGTAATGTGATTTA
GTTATAGAAATGATATGATTTTGGCATGAGATTGGATGTGAAATATTGAGATAAGGATATGTTAG
AGTGTATGAATTTGTTCTGTGATTTTTGGTATGTTTGGAATTGGTTAAAAAGGATGAAATTTGTT
GTTAATGAAATGACATGAATGATGTATGTTTTAGTTGTGAATTGGTTGAGAATTTGGTATTAAAT
GTTTAGTTTTGATCATGTAGGGAGGACCCAATATTAGGGTGGAAAATTGGCCTTATAAATGCCCA
ATTGTTTTCCACACGGGCGTGTGTCTCAGTTGTGTGTGACACACGGTTATGTTGCACGGCCGTGT
GTCCCCCGGGGTACCCTACAAATTAAAGTCAGTATACCTTATAGTTTTGACATGGC
Found at i:43321698 original size:28 final size:29
Alignment explanation
Indices: 43321665--43321779 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
43321655 TACCTGTATC
* * *
43321665 TGGCCCATTAAGCCC-ATTCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
43321693 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
43321722 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
43321751 TGGCCCGTTAGGCCC-AGTTACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
43321779 T
1 T
43321780 TCATGCTTAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 48 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:43321730 original size:29 final size:29
Alignment explanation
Indices: 43321659--43321766 Score: 130
Period size: 29 Copynumber: 3.8 Consensus size: 29
43321649 TTCACATACC
* * * *
43321659 TGTATCTGGCCCATTAAGCCC-ATTCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
43321687 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
43321716 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
43321745 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
43321767 GTTACATTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.25
29 50 0.72
30 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:43326835 original size:18 final size:19
Alignment explanation
Indices: 43326814--43326849 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
43326804 CTTGGCGGCA
43326814 GCTGACCACC-CCTTGGTG
1 GCTGACCACCACCTTGGTG
*
43326832 GCTGAGCACCACCTTGGT
1 GCTGACCACCACCTTGGT
43326850 CTACTACTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.14, C:0.36, G:0.28, T:0.22
Consensus pattern (19 bp):
GCTGACCACCACCTTGGTG
Found at i:43329486 original size:29 final size:29
Alignment explanation
Indices: 43329421--43329522 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
43329411 TACCTGTATC
* * *
43329421 TGGCCCATTAAGCCC-ATTCATAT-TCATA
1 TGGCCCATTAGGCCCAAATCACATAT-ATA
*
43329449 TGGCCCATTAGGCCCAAATCACCTATATA
1 TGGCCCATTAGGCCCAAATCACATATATA
* *
43329478 TGGCCCATTAGGCCCAAATCACATTTATT
1 TGGCCCATTAGGCCCAAATCACATATATA
* *
43329507 TGACCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
43329523 GTCACGTTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 14 0.22
29 48 0.76
30 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATATATA
Found at i:43338924 original size:25 final size:25
Alignment explanation
Indices: 43338877--43338925 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
43338867 TGAATTCTTA
* * *
43338877 ATATACATGGAATTCTTAATTGTTG
1 ATATACATGCAAATCTCAATTGTTG
*
43338902 ATATACATGCAAATCTCACTTGTT
1 ATATACATGCAAATCTCAATTGTT
43338926 TCTTGCAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (25 bp):
ATATACATGCAAATCTCAATTGTTG
Found at i:43340172 original size:19 final size:19
Alignment explanation
Indices: 43340130--43340172 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
43340120 GCATGAACAA
*
43340130 AATGTTTAACTGAATGTTT
1 AATGATTAACTGAATGTTT
*
43340149 GATGATTAA-TGAATGTTTT
1 AATGATTAACTGAATG-TTT
43340168 AATGA
1 AATGA
43340173 GTTTTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (19 bp):
AATGATTAACTGAATGTTT
Found at i:43356097 original size:45 final size:45
Alignment explanation
Indices: 43356023--43356164 Score: 130
Period size: 45 Copynumber: 3.2 Consensus size: 45
43356013 GATATCGAAA
* * * *
43356023 GCCCGAATAGTATCTCACCGGCATTATAGCATGCTAGGCTCAAAG
1 GCCCGAATAGTATCTCACCAGCATCATAGCATACTAGGCACAAAG
* *
43356068 GCCCGAATAGTAT-TCCACCAGCATCATAGCCTACTAGGCACGAAG
1 GCCCGAATAGTATCT-CACCAGCATCATAGCATACTAGGCACAAAG
* * * * *
43356113 GCCCGAATA-CA-CATCACCGGCA-CAAAGCCTACTAGGCACGAAG
1 GCCCGAATAGTATC-TCACCAGCATCATAGCATACTAGGCACAAAG
*
43356156 GCCCAAATA
1 GCCCGAATA
43356165 TAATACCAGC
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
43 28 0.33
44 9 0.11
45 47 0.56
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.16
Consensus pattern (45 bp):
GCCCGAATAGTATCTCACCAGCATCATAGCATACTAGGCACAAAG
Found at i:43361522 original size:45 final size:45
Alignment explanation
Indices: 43361445--43361546 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
43361435 CCCGATATCA
* * * *
43361445 AAAGCCTGAATAGTATCTCACCGGTATTATAGCATGCTAGGC-TC
1 AAAGCCCGAATAGTATCTCACCAGCATCATAGCATGCTAGGCATC
* *
43361489 AAAGGCCCGAATAGTAT-TCCACCAGCATCATAGCCTGCTAGGCATG
1 AAA-GCCCGAATAGTATCT-CACCAGCATCATAGCATGCTAGGCATC
43361535 AAAGCCCGAATA
1 AAAGCCCGAATA
43361547 CACATCACCG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
44 4 0.08
45 41 0.84
46 4 0.08
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (45 bp):
AAAGCCCGAATAGTATCTCACCAGCATCATAGCATGCTAGGCATC
Found at i:43361581 original size:43 final size:43
Alignment explanation
Indices: 43361520--43361675 Score: 249
Period size: 43 Copynumber: 3.6 Consensus size: 43
43361510 CCAGCATCAT
*
43361520 AGCCTGCTAGGCATGAAAGCCCGAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGA
43361563 AGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGA
* * * *
43361606 AGCCTGCTAGGCATGAAGGCCCGAATACACATCAACGGCACAA
1 AGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGA
* *
43361649 AGCCTGCTAGGCACGAAGGCCCAAATA
1 AGCCTGCTAGGCACGAAAGCCCGAATA
43361676 TAATACCAGC
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.33, C:0.32, G:0.24, T:0.11
Consensus pattern (43 bp):
AGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGA
Found at i:43366025 original size:39 final size:39
Alignment explanation
Indices: 43365900--43366083 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
43365890 GCTACTTGTT
* *
43365900 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
*
43365940 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* *
43365980 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-ATTTAGTAACTCGCA
* * * * *
43366019 CAAATGCCTTC-GGATCTTAGTCCTGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCA
*
43366060 CAAA-GCCTTTGGGACTTAGCCCGA
1 CAAATGCCTTCGGGACTTAGCCCGA
43366084 ACATCATTCG
Statistics
Matches: 122, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
38 3 0.02
39 35 0.29
40 67 0.55
41 17 0.14
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:43366068 original size:79 final size:80
Alignment explanation
Indices: 43365900--43366084 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
43365890 GCTACTTGTT
* **
43365900 CAAATGCCTTCGGGACATAGCCCG-GTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGAAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
43365964 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* ** *
43365981 CAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCTG
1 CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
43366044 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
43366060 CAAAGCCTTTGGGACTTAGCCCGAA
1 CAAAGCCTTCGGGACTTAGCCCGAA
43366085 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 25 0.29
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:43375529 original size:55 final size:53
Alignment explanation
Indices: 43375442--43375696 Score: 220
Period size: 55 Copynumber: 4.8 Consensus size: 53
43375432 ATTAGGGTTT
*
43375442 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * *
43375497 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * * *
43375552 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTAGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* * *
43375605 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TAGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* * * *
43375654 ACGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAG
43375697 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 37 0.22
52 7 0.04
53 39 0.23
54 12 0.07
55 68 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:43375648 original size:108 final size:110
Alignment explanation
Indices: 43375449--43375649 Score: 302
Period size: 108 Copynumber: 1.8 Consensus size: 110
43375439 TTTAAGGATA
* *
43375449 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
43375514 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCATAGATAAGTTACTATAAGGCAAAGGTC
* *
43375559 CCATGTAAGACCATGCCAAGGCATGG-CATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
43375621 ACCATGTCGAGACATGGCAATAG-TAAGTT
65 ACCATGTCAAGACATGGC-ATAGATAAGTT
43375650 TCAAACGGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
107 3 0.04
108 45 0.54
109 9 0.11
110 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCATAGATAAGTTACTATAAGGCAAAGGTC
Found at i:43378292 original size:13 final size:13
Alignment explanation
Indices: 43378274--43378315 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
43378264 TGGCAGTTTT
43378274 CAGCCTGATAGAC
1 CAGCCTGATAGAC
43378287 CAGCCTGATAGAC
1 CAGCCTGATAGAC
43378300 CAGCCTGATAGAC
1 CAGCCTGATAGAC
43378313 CAG
1 CAG
43378316 AGTGTACCCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.14
Consensus pattern (13 bp):
CAGCCTGATAGAC
Found at i:43380259 original size:38 final size:38
Alignment explanation
Indices: 43380194--43380270 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
43380184 ATTGATTCAT
*
43380194 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAACATGGTGCTAAGTGGATATACCATGGTTAAACATG
* * *
43380232 TAACATGGTGCTAAGTGGTTATGCCATGGTTATACATG
1 TAACATGGTGCTAAGTGGATATACCATGGTTAAACATG
43380270 T
1 T
43380271 TAATTTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (38 bp):
TAACATGGTGCTAAGTGGATATACCATGGTTAAACATG
Found at i:43388815 original size:25 final size:25
Alignment explanation
Indices: 43388787--43388834 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43388777 TTATAATATG
* *
43388787 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACTATTATACCCCTAGGTA
43388812 AAAATGACTATTATACCCCTAGG
1 AAAATGACTATTATACCCCTAGG
43388835 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACTATTATACCCCTAGGTA
Found at i:43388895 original size:20 final size:19
Alignment explanation
Indices: 43388862--43388936 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
43388852 ATACGTGGGA
43388862 TATGATAT--ACATGATTG
1 TATGATATGCACATGATTG
*
43388879 ATATGATATGCACATGACATG
1 -TATGATATGCACATGA-TTG
43388900 TATGATATGCACATGATATG
1 TATGATATGCACATGAT-TG
*
43388920 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
43388937 GAATTCATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.16
20 40 0.80
21 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (19 bp):
TATGATATGCACATGATTG
Found at i:43389064 original size:52 final size:51
Alignment explanation
Indices: 43388986--43389115 Score: 228
Period size: 52 Copynumber: 2.6 Consensus size: 51
43388976 GAGGAAGTGC
43388986 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
43389038 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
*
43389089 GAAAGGGCTT-TGCCCCAGTTT-TTGAAA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAA
43389116 GAGGCTAGGC
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
49 6 0.08
50 11 0.14
51 24 0.31
52 36 0.47
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:43389083 original size:25 final size:26
Alignment explanation
Indices: 43388986--43389115 Score: 194
Period size: 26 Copynumber: 5.1 Consensus size: 26
43388976 GAGGAAGTGC
43388986 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
43389012 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
43389038 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
43389064 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
43389089 GAAAGGGCTT-TGCCCCAGTTT-TTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
43389113 AAA
1 AAA
43389116 GAGGCTAGGC
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
24 3 0.03
25 33 0.35
26 58 0.62
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:43394767 original size:5 final size:5
Alignment explanation
Indices: 43394757--43394820 Score: 78
Period size: 5 Copynumber: 12.6 Consensus size: 5
43394747 AACCTAAATT
43394757 AATAA AATAA AATAAA TAATAA AATAA AAT-- AATAA AATAA AATAAA
1 AATAA AATAA AAT-AA -AATAA AATAA AATAA AATAA AATAA AAT-AA
*
43394803 AATAA AACAA AATAA AAT
1 AATAA AATAA AATAA AAT
43394821 CTTTCTATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
3 3 0.06
5 37 0.71
6 9 0.17
7 3 0.06
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:43394786 original size:13 final size:13
Alignment explanation
Indices: 43394762--43394809 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
43394752 AAATTAATAA
43394762 AATAAAAT-AAAT
1 AATAAAATAAAAT
43394774 AATAAAATAAAAT
1 AATAAAATAAAAT
43394787 AATAAAATAAAAT
1 AATAAAATAAAAT
43394800 -A-AAAATAAAA
1 AATAAAATAAAA
43394810 CAAAATAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 9 0.26
12 9 0.26
13 17 0.49
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAAAATAAAAT
Found at i:43394791 original size:30 final size:29
Alignment explanation
Indices: 43394751--43394817 Score: 107
Period size: 30 Copynumber: 2.3 Consensus size: 29
43394741 TAGCTTAACC
*
43394751 TAAATTAATAAAATAAAATAAATAATAAAA
1 TAAAATAATAAAATAAAATAAA-AATAAAA
43394781 TAAAATAATAAAATAAAATAAAAATAAAA
1 TAAAATAATAAAATAAAATAAAAATAAAA
*
43394810 CAAAATAA
1 TAAAATAA
43394818 AATCTTTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 14 0.40
30 21 0.60
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.22
Consensus pattern (29 bp):
TAAAATAATAAAATAAAATAAAAATAAAA
Found at i:43412925 original size:21 final size:21
Alignment explanation
Indices: 43412899--43412944 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
43412889 TATAGGTTTA
43412899 TGTTTAAATTATTAAGTTCAT
1 TGTTTAAATTATTAAGTTCAT
43412920 TGTTTAAATTATTAAGTTCAT
1 TGTTTAAATTATTAAGTTCAT
43412941 TGTT
1 TGTT
43412945 GAAAATGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (21 bp):
TGTTTAAATTATTAAGTTCAT
Found at i:43414989 original size:23 final size:22
Alignment explanation
Indices: 43414929--43414989 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
43414919 ATACTTTTGA
43414929 TATTTTATTATATATAAACAATTT
1 TATTTTA-TATA-ATAAACAATTT
* * *
43414953 TATTTCAATGTAATAATCAATTT
1 TATTT-TATATAATAAACAATTT
43414976 TACTTTTATATAAT
1 TA-TTTTATATAAT
43414990 GATAATAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
23 18 0.60
24 11 0.37
25 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTTTATATAATAAACAATTT
Found at i:43416691 original size:20 final size:20
Alignment explanation
Indices: 43416668--43416718 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
43416658 GAAACTTAAG
43416668 AATATCGATACTTT-TAGAAA
1 AATATCGATA-TTTATAGAAA
*
43416688 AATATCGATATTTATATAAA
1 AATATCGATATTTATAGAAA
*
43416708 AATATAGATAT
1 AATATCGATAT
43416719 CACTAGGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (20 bp):
AATATCGATATTTATAGAAA
Found at i:43422506 original size:17 final size:16
Alignment explanation
Indices: 43422479--43422511 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
43422469 CTATGTAAGC
43422479 AAAAATTTTAAAAATT
1 AAAAATTTTAAAAATT
43422495 AAAAATTATTAAAAATT
1 AAAAATT-TTAAAAATT
43422512 CAATTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAATTTTAAAAATT
Found at i:43426576 original size:49 final size:49
Alignment explanation
Indices: 43426494--43426591 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
43426484 CATGTTGCTG
* * * *
43426494 TATTTCATCCGGGTAACTTACATGAGCTGTTTGTTGCCACCTTTTAACA
1 TATTTCATCCGGATAACGTACATCAGCTATTTGTTGCCACCTTTTAACA
43426543 TATTTCATCCGGATAACGTACA-CATGCTATTTGTTGCCACCTTTTAACA
1 TATTTCATCCGGATAACGTACATCA-GCTATTTGTTGCCACCTTTTAACA
43426592 CTCCTCCTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.02
49 43 0.98
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (49 bp):
TATTTCATCCGGATAACGTACATCAGCTATTTGTTGCCACCTTTTAACA
Found at i:43430219 original size:80 final size:80
Alignment explanation
Indices: 43430086--43430336 Score: 423
Period size: 80 Copynumber: 3.1 Consensus size: 80
43430076 ATTTGAATGA
43430086 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
43430151 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
*
43430166 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
43430231 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
* * * *
43430246 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
* * *
43430311 TTGTGCTTGTGGTTA
66 TTGTGCTAGTGATTT
43430326 TATCC-GGCTAA
1 TATCCGGGCTAA
43430337 ATTCCGAAGA
Statistics
Matches: 162, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 6 0.04
80 156 0.96
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
TTGTGCTAGTGATTT
Found at i:43430328 original size:40 final size:40
Alignment explanation
Indices: 43430085--43430336 Score: 308
Period size: 40 Copynumber: 6.3 Consensus size: 40
43430075 CATTTGAATG
* *
43430085 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
43430125 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * *
43430165 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
43430205 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * *
43430245 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
**
43430285 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
43430325 ATATCC-GGCTAA
1 ATATCCGGGCTAA
43430337 ATTCCGAAGA
Statistics
Matches: 174, Mismatches: 38, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
39 6 0.03
40 168 0.97
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
Found at i:43433081 original size:40 final size:40
Alignment explanation
Indices: 43433012--43433197 Score: 295
Period size: 40 Copynumber: 4.7 Consensus size: 40
43433002 ATTTGAATGA
43433012 TATCCGGGCTAAGT-CCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
43433051 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
43433091 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
* * * *
43433131 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTT
* *
43433171 TATCCAGGCTAAGACCCGAAGGCATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTT
43433198 GTGCGAGTTG
Statistics
Matches: 140, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.10
40 123 0.88
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
Found at i:43433198 original size:40 final size:40
Alignment explanation
Indices: 43433011--43433256 Score: 291
Period size: 40 Copynumber: 6.2 Consensus size: 40
43433001 CATTTGAATG
*
43433011 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* *
43433050 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* *
43433090 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* * *
43433130 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATT
* * * *
43433170 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATT
* * * * * *
43433210 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
43433250 ATATCCG
1 ATATCCG
43433257 ACTAAATTCC
Statistics
Matches: 188, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.08
40 170 0.90
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
Found at i:43437776 original size:49 final size:49
Alignment explanation
Indices: 43437719--43437816 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
43437709 CATGTTGCTG
* * * *
43437719 TATTTCATCCGGGTAACTTACATGTGCTGTTTGTTGCAACCTTTTAACA
1 TATTTCATCCGGATAACGTACATATGCTGTTTGTTACAACCTTTTAACA
*
43437768 TATTTCATCCGGATAACGTACATATGCTGTTTGTTACCACCTTTTAACA
1 TATTTCATCCGGATAACGTACATATGCTGTTTGTTACAACCTTTTAACA
43437817 AAGGTGAAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (49 bp):
TATTTCATCCGGATAACGTACATATGCTGTTTGTTACAACCTTTTAACA
Found at i:43438097 original size:17 final size:17
Alignment explanation
Indices: 43438078--43438110 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43438068 TTATGTAAGA
43438078 AAAAATT-TTAAAAATT
1 AAAAATTATTAAAAATT
43438094 AAAAATTATTAAAAATT
1 AAAAATTATTAAAAATT
43438111 CAATTCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATTATTAAAAATT
Found at i:43438771 original size:12 final size:12
Alignment explanation
Indices: 43438754--43438792 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
43438744 CATAAAATGT
43438754 AAAAAAAGAAAA
1 AAAAAAAGAAAA
*
43438766 AAAAAAGGAAAA
1 AAAAAAAGAAAA
*
43438778 AGAAAAAGAAGAA
1 AAAAAAAGAA-AA
43438791 AA
1 AA
43438793 CATGATGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 19 0.86
13 3 0.14
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:43439271 original size:16 final size:16
Alignment explanation
Indices: 43439250--43439291 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
43439240 CAACACGAAT
* *
43439250 TTAGAATTTTCTAAGG
1 TTAGAATTTTCGAAGC
43439266 TTAGAACTTTTCGAAGC
1 TTAGAA-TTTTCGAAGC
43439283 TTA-AATTTT
1 TTAGAATTTT
43439292 TTCGAGCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 11 0.48
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (16 bp):
TTAGAATTTTCGAAGC
Found at i:43439510 original size:2 final size:2
Alignment explanation
Indices: 43439503--43439565 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
43439493 GCATAGTCAA
43439503 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
43439545 AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC A
43439566 TATTCAGACA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:43440273 original size:22 final size:21
Alignment explanation
Indices: 43440210--43440273 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 21
43440200 CACGTCCATA
* *
43440210 TGAAGGAGGCACATGCCCTTG
1 TGAAGGAGGCACATGGCCGTG
* *
43440231 TGAA-GAAGAACAT-GCCTGTG
1 TGAAGGAGGCACATGGCC-GTG
43440251 TGAGAGGAGGCACATGGCCGTG
1 TGA-AGGAGGCACATGGCCGTG
43440273 T
1 T
43440274 AACTATGACA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 2 0.06
20 12 0.36
21 5 0.15
22 11 0.33
23 3 0.09
ACGTcount: A:0.27, C:0.19, G:0.36, T:0.19
Consensus pattern (21 bp):
TGAAGGAGGCACATGGCCGTG
Found at i:43441002 original size:17 final size:16
Alignment explanation
Indices: 43440965--43441008 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
43440955 TTTTTTTTTC
43440965 AAATAAAAA-AATAAA
1 AAATAAAAATAATAAA
*
43440980 ATATAAAAATAATTAAA
1 AAATAAAAATAA-TAAA
43440997 AAATAAAAATAA
1 AAATAAAAATAA
43441009 ATATTTAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 8 0.32
16 2 0.08
17 15 0.60
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAAAATAATAAA
Found at i:43443607 original size:15 final size:14
Alignment explanation
Indices: 43443573--43443616 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
43443563 TTGAATGAAT
*
43443573 AATTTTGTATACAA
1 AATTTTGTATATAA
43443587 AA-TTTGTATATATA
1 AATTTTGTATATA-A
*
43443601 AATTTTGAATATAA
1 AATTTTGTATATAA
43443615 AA
1 AA
43443617 ATTATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 9 0.35
14 8 0.31
15 9 0.35
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTTTGTATATAA
Found at i:43448481 original size:46 final size:46
Alignment explanation
Indices: 43448307--43448481 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
43448297 GGTTGAGCAT
* * * *
43448307 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATTGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* * * *
43448353 CCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC
* *
43448398 TTCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* *
43448446 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43448482 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 3 0.03
46 59 0.57
47 26 0.25
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:43451444 original size:15 final size:15
Alignment explanation
Indices: 43451424--43451492 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
43451414 GTATCTTGGG
43451424 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
43451439 TCTCTTTATTCTAGA
1 TTTCTTTATCCTGGA
* *
43451454 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
43451469 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
43451484 TTTCTTTAT
1 TTTCTTTAT
43451493 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.13, C:0.17, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:43451486 original size:30 final size:30
Alignment explanation
Indices: 43451415--43451502 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
43451405 CATAATATCG
* * * *
43451415 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
43451445 TAT-TCTAGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
43451475 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
43451503 TATTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:43451503 original size:14 final size:14
Alignment explanation
Indices: 43451424--43451503 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
43451414 GTATCTTGGG
*
43451424 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
43451439 TCTCTTTATTCTAGA
1 TTTCTTTATTC-GGA
*
43451454 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
43451469 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
43451484 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
43451498 TTTCTT
1 TTTCTT
43451504 ATTATCTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:43467835 original size:25 final size:25
Alignment explanation
Indices: 43467807--43467857 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
43467797 AAGAATAATT
**
43467807 TGAATATTTGATATTGCCTACTAAA
1 TGAATATCCGATATTGCCTACTAAA
* *
43467832 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTACTAAA
43467857 T
1 T
43467858 TTCAAGCCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTACTAAA
Found at i:43473584 original size:47 final size:47
Alignment explanation
Indices: 43473431--43473600 Score: 158
Period size: 47 Copynumber: 3.7 Consensus size: 47
43473421 CACATTATGA
* * *
43473431 GAGCCAGTGTAAGACCATTTCTGGGACATGGGATCGGCA-TTGAGACGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC--CACTTGAGACAT
* ** *
43473479 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GCA-CGGC-T-ACGAGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCCACTTGA-GACAT
* * * *
43473522 GA--TAGTGTAAAACCATGTCTGGGACACGGCATCCACTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCCACTTGAGACAT
43473567 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
43473601 TGACACTTTA
Statistics
Matches: 96, Mismatches: 17, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
41 8 0.08
42 14 0.15
43 8 0.08
44 2 0.02
45 8 0.08
46 3 0.03
47 40 0.42
48 13 0.14
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCCACTTGAGACAT
Found at i:43479588 original size:30 final size:30
Alignment explanation
Indices: 43479554--43479614 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43479544 TCCTTAACTC
*
43479554 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
* * * *
43479584 AAACTTTTGCATATTTACACTTTTACCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
43479614 A
1 A
43479615 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:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTACCCCT
Found at i:43484215 original size:47 final size:47
Alignment explanation
Indices: 43484105--43484225 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 47
43484095 TTGTGTGTGC
* *
43484105 GCTAGTGCAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTACGAGA
* * *
43484151 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-TA-TTGGTACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACAT--TACGAGA
*
43484199 GCTAGTGTAAGACATGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
43484226 ATTCGACCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
46 11 0.17
47 29 0.45
48 24 0.38
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTACGAGA
Found at i:43484261 original size:46 final size:46
Alignment explanation
Indices: 43484202--43484318 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 46
43484192 TACGAGAGCT
*
43484202 AGTGTAAGACATGTCTAGGACATGATTCGACCT-CGAGA-CATAAGCC
1 AGTGTAAGACATGTCTGGGACATGATTCG-CCTACGAGATCAT-AGCC
* * * *
43484248 AGTGTAAGACATGTCTGGGATATGATTCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGATTCGCCTACGAGATCATAGCC
43484294 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
43484319 GCATCGACTT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
45 2 0.03
46 44 0.71
47 16 0.26
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGATTCGCCTACGAGATCATAGCC
Found at i:43484333 original size:47 final size:47
Alignment explanation
Indices: 43484153--43484373 Score: 160
Period size: 47 Copynumber: 4.7 Consensus size: 47
43484143 TTATGAGAGC
* * *
43484153 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTA-TTG-GTACGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTCGAG-ATGATAGT
* * *
43484200 CTAGTGTAAGA-CATGTCTAGGACAT-G-ATTCGACCTCGAGA-CATAAGC
1 C-AGTGTAAGACCATGTCTGGGACATGGCA-TCGA-CTCGAGATGAT-AGT
* *
43484247 CAGTGTAAGA-CATGTCTGGGATAT-G-ATTCGGCTACGAGATGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCA-TCGACT-CGAGATGATAGT
*
43484293 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAT-AT-GAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGATAG-T
* *
43484339 CCAATGCAAGACCATGTCTGGGACATGGCATCGAC
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGAC
43484374 ACTTTACCCA
Statistics
Matches: 146, Mismatches: 14, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
44 1 0.01
45 6 0.04
46 55 0.38
47 68 0.47
48 15 0.10
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGATAGT
Found at i:43485388 original size:83 final size:83
Alignment explanation
Indices: 43485249--43485425 Score: 354
Period size: 83 Copynumber: 2.1 Consensus size: 83
43485239 GTGTGTGCCT
43485249 TGGCCGTGTGACATCTTAAGCATGCTGACGTCAGAAATAGAATGTCCATGTTTTTGCACACGGGC
1 TGGCCGTGTGACATCTTAAGCATGCTGACGTCAGAAATAGAATGTCCATGTTTTTGCACACGGGC
43485314 TAGGACACGGGCGTGTTG
66 TAGGACACGGGCGTGTTG
43485332 TGGCCGTGTGACATCTTAAGCATGCTGACGTCAGAAATAGAATGTCCATGTTTTTGCACACGGGC
1 TGGCCGTGTGACATCTTAAGCATGCTGACGTCAGAAATAGAATGTCCATGTTTTTGCACACGGGC
43485397 TAGGACACGGGCGTGTTG
66 TAGGACACGGGCGTGTTG
43485415 TGGCCGTGTGA
1 TGGCCGTGTGA
43485426 GGGACACGGG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 94 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (83 bp):
TGGCCGTGTGACATCTTAAGCATGCTGACGTCAGAAATAGAATGTCCATGTTTTTGCACACGGGC
TAGGACACGGGCGTGTTG
Found at i:43485926 original size:6 final size:6
Alignment explanation
Indices: 43485911--43485979 Score: 93
Period size: 6 Copynumber: 11.0 Consensus size: 6
43485901 AGTTCATTTC
* *
43485911 TTTTAT TTTTAG TTTTAT TTTTAT TTTTAT CTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
43485959 TTTTAGTT GTTTTAT TTTTAT
1 TTTTA--T -TTTTAT TTTTAT
43485980 GTCCTTAAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
6 49 0.88
7 1 0.02
8 1 0.02
9 5 0.09
ACGTcount: A:0.16, C:0.01, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:43490536 original size:93 final size:93
Alignment explanation
Indices: 43490425--43490610 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
43490415 GAATTATAAG
43490425 TTGAGAAAGATTAATTTTAATGTGAGTTGAGGATTTTGCTTGAGGACAAGCAAATGCTTAAGTGT
1 TTGAGAAAGATTAATTTTAATGTGAGTTGAGGATTTTGCTTGAGGACAAGCAAATGCTTAAGTGT
*
43490490 GGGGATATTTGATAAATGATAAAACTAA
66 CGGGATATTTGATAAATGATAAAACTAA
43490518 TTGAGAAAGATTAATTTTAATGTGAGTTGAGGATTTTGCTTGAGGACAAGCAAATGCTTAAGTGT
1 TTGAGAAAGATTAATTTTAATGTGAGTTGAGGATTTTGCTTGAGGACAAGCAAATGCTTAAGTGT
43490583 CGGGATATTTGATAAATGATAAAACTAA
66 CGGGATATTTGATAAATGATAAAACTAA
43490611 CATATTTTAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (93 bp):
TTGAGAAAGATTAATTTTAATGTGAGTTGAGGATTTTGCTTGAGGACAAGCAAATGCTTAAGTGT
CGGGATATTTGATAAATGATAAAACTAA
Found at i:43492336 original size:27 final size:27
Alignment explanation
Indices: 43492306--43492483 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
43492296 ATATTGAGCC
* *
43492306 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
43492333 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
43492360 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
43492388 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43492415 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
43492442 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
43492469 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43492484 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43492418 original size:55 final size:54
Alignment explanation
Indices: 43492306--43492483 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
43492296 ATATTGAGCC
* * * * *
43492306 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
43492360 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
43492415 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
43492469 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43492484 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:43500340 original size:27 final size:27
Alignment explanation
Indices: 43500310--43500487 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
43500300 ATATTGAGCC
* *
43500310 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
43500337 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
43500364 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
43500392 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43500419 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
43500446 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
43500473 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43500488 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43500422 original size:55 final size:54
Alignment explanation
Indices: 43500310--43500487 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
43500300 ATATTGAGCC
* * * * *
43500310 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
43500364 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
43500419 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
43500473 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43500488 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:43505502 original size:17 final size:17
Alignment explanation
Indices: 43505482--43505529 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
43505472 ATGAAAAATT
43505482 AAAATAAAAATAAAAAC
1 AAAATAAAAATAAAAAC
* * *
43505499 AAAAGAGAAAGAAAAAC
1 AAAATAAAAATAAAAAC
* *
43505516 AAAGTGAAAATAAA
1 AAAATAAAAATAAA
43505530 TAGACTCAAA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.77, C:0.04, G:0.10, T:0.08
Consensus pattern (17 bp):
AAAATAAAAATAAAAAC
Found at i:43511747 original size:16 final size:16
Alignment explanation
Indices: 43511726--43511761 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
43511716 TAATGGTAGC
43511726 GCCTAAATCAGCTAGT
1 GCCTAAATCAGCTAGT
43511742 GCCTAAATCAGCTAGT
1 GCCTAAATCAGCTAGT
43511758 GCCT
1 GCCT
43511762 TTTCAACGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (16 bp):
GCCTAAATCAGCTAGT
Found at i:43515292 original size:20 final size:20
Alignment explanation
Indices: 43515267--43515306 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
43515257 AACCTAGAGT
43515267 TAGTTGTTTTTACTCTTGAA
1 TAGTTGTTTTTACTCTTGAA
43515287 TAGTTGTTTTTACTCTTGAA
1 TAGTTGTTTTTACTCTTGAA
43515307 AGGGATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.55
Consensus pattern (20 bp):
TAGTTGTTTTTACTCTTGAA
Found at i:43519040 original size:18 final size:20
Alignment explanation
Indices: 43519000--43519040 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
43518990 TTGCAAAAGG
*
43519000 TGTAAAATATGTGGAAGAAA
1 TGTAAAATAAGTGGAAGAAA
43519020 TGTAAAATAAG-GGAA-AAA
1 TGTAAAATAAGTGGAAGAAA
43519038 TGT
1 TGT
43519041 GGGATGCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 4 0.20
20 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (20 bp):
TGTAAAATAAGTGGAAGAAA
Found at i:43520320 original size:6 final size:6
Alignment explanation
Indices: 43520311--43520423 Score: 72
Period size: 6 Copynumber: 18.3 Consensus size: 6
43520301 TTGCATTCAC
* * * *
43520311 ATTCTG ATTCTG ATTTTG -TTACCTA ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
43520361 ATTCTG ATTCTG ATTCT- ATCACCTG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
43520410 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
43520424 AATGTTTATT
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
5 7 0.09
6 64 0.78
7 6 0.07
8 5 0.06
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:43520342 original size:25 final size:25
Alignment explanation
Indices: 43520311--43520402 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
43520301 TTGCATTCAC
*
43520311 ATTCTGATTCTGATTTTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTA
*
43520336 ATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTA
* * *
43520361 ATTCTGATTCTGATTCTATCACCTG
1 ATTCTGATTCTGATTCTGTTACCTA
43520386 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
43520403 CATTTTGATT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTA
Found at i:43522520 original size:27 final size:27
Alignment explanation
Indices: 43522484--43522678 Score: 266
Period size: 27 Copynumber: 7.2 Consensus size: 27
43522474 AATTTACAAA
* *
43522484 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
43522511 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
43522538 AATTACTGAAATACCCTTGTAGGCTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
43522565 AAATACCGAAATACCCTTGTAGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
43522592 AATTACTGAAATACCCCTT-TAGGGTAG
1 AATTACTGAAATA-CCCTTGTAGGGTAG
* * *
43522619 AATTACTGAAATACCCCTATATGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
43522646 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
43522673 AATTAC
1 AATTAC
43522679 CATTTTGTTC
Statistics
Matches: 148, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 4 0.03
27 139 0.94
28 5 0.03
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:43523095 original size:22 final size:22
Alignment explanation
Indices: 43523067--43523126 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
43523057 TTATTATGAT
*
43523067 TATGGCTTTGTGCCAACCT-ACA
1 TATGGCTCTGTGCCAACCTGA-A
* *
43523089 TATGGCTCTATGCCAACCTGAT
1 TATGGCTCTGTGCCAACCTGAA
*
43523111 TATGGCTGTGTGCCAA
1 TATGGCTCTGTGCCAA
43523127 ACATATTTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTGAA
Done.