Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 18 of 187
Found at i:6161970 original size:7 final size:7
Alignment explanation
Indices: 6161958--6161982 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6161948 TTAGTTATAT
6161958 ATACTAA
1 ATACTAA
6161965 ATACTAA
1 ATACTAA
6161972 ATACTAA
1 ATACTAA
6161979 ATAC
1 ATAC
6161983 CAATTGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACTAA
Found at i:6163097 original size:14 final size:15
Alignment explanation
Indices: 6163080--6163109 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6163070 TTTACGATCT
6163080 AAAA-AAAATTCAAA
1 AAAATAAAATTCAAA
6163094 AAAATAAAATTCAAA
1 AAAATAAAATTCAAA
6163109 A
1 A
6163110 CTTTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAATTCAAA
Found at i:6163141 original size:28 final size:29
Alignment explanation
Indices: 6163099--6163154 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
6163089 TCAAAAAAAT
6163099 AAAATTCAAAACTTTTTTAAAAATAATTA
1 AAAATTCAAAACTTTTTTAAAAATAATTA
*
6163128 AAAATT-AAAGCTTTTTTAAAAATAATT
1 AAAATTCAAAACTTTTTTAAAAATAATT
6163155 TGAGAGGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (29 bp):
AAAATTCAAAACTTTTTTAAAAATAATTA
Found at i:6163216 original size:10 final size:10
Alignment explanation
Indices: 6163151--6163227 Score: 100
Period size: 11 Copynumber: 7.2 Consensus size: 10
6163141 TTTTAAAAAT
6163151 AATTTGAGAGG
1 AATTTGAGA-G
6163162 AATTTGAGAGG
1 AATTTGAGA-G
6163173 AATTTGAGAAG
1 AATTTGAG-AG
6163184 AATTTGAGAG
1 AATTTGAGAG
6163194 AATATTAGAGAG
1 AAT-TT-GAGAG
*
6163206 AATTTGGGAG
1 AATTTGAGAG
6163216 AATTTGAGAG
1 AATTTGAGAG
6163226 AA
1 AA
6163228 AGGATTAAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
10 20 0.33
11 32 0.52
12 9 0.15
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:6165401 original size:60 final size:59
Alignment explanation
Indices: 6165335--6165465 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 59
6165325 AGCCAGCTAG
* * * *
6165335 TGACCAAACAAGACAA-AATTGAATAGTTGGGTGACTATTTTGTAACTTTTCATAGTTGGA
1 TGACCAAAAAAGA-AATAATT-AATAGTTGAGTGACCATTTTATAACTTTTCATAGTTGGA
* *
6165395 TGACCAAAAAAGAAATTTATTAATAGTTGAGTGACCATTTTATAACTTTTCATGGTT-GA
1 TGACCAAAAAAGAAA-TAATTAATAGTTGAGTGACCATTTTATAACTTTTCATAGTTGGA
*
6165454 CTGACAAAAAAA
1 -TGACCAAAAAA
6165466 AAAAACCCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
59 4 0.07
60 54 0.89
61 3 0.05
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (59 bp):
TGACCAAAAAAGAAATAATTAATAGTTGAGTGACCATTTTATAACTTTTCATAGTTGGA
Found at i:6166167 original size:153 final size:153
Alignment explanation
Indices: 6165939--6166244 Score: 603
Period size: 153 Copynumber: 2.0 Consensus size: 153
6165929 CAAATAAAAT
6165939 ATTAGACCTATTATTTTATATAGATAACTATGATTATTGATAATTAAACAAAGCTTAATTAGTTT
1 ATTAGACCTATTATTTTATATAGATAACTATGATTATTGATAATTAAACAAAGCTTAATTAGTTT
6166004 AATCTTTAATTAATTAGTGTTAATTATGGTATATAAGTTAAAATAAAAAGAAAAGATGACATTGT
66 AATCTTTAATTAATTAGTGTTAATTATGGTATATAAGTTAAAATAAAAAGAAAAGATGACATTGT
6166069 CATCATATTTTCATCTTTTCCTC
131 CATCATATTTTCATCTTTTCCTC
*
6166092 ATTAGACCTATTATTTTATATAGATAGCTATGATTATTGATAATTAAACAAAGCTTAATTAGTTT
1 ATTAGACCTATTATTTTATATAGATAACTATGATTATTGATAATTAAACAAAGCTTAATTAGTTT
6166157 AATCTTTAATTAATTAGTGTTAATTATGGTATATAAGTTAAAATAAAAAGAAAAGATGACATTGT
66 AATCTTTAATTAATTAGTGTTAATTATGGTATATAAGTTAAAATAAAAAGAAAAGATGACATTGT
6166222 CATCATATTTTCATCTTTTCCTC
131 CATCATATTTTCATCTTTTCCTC
6166245 TCCTCTTTGA
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 152 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (153 bp):
ATTAGACCTATTATTTTATATAGATAACTATGATTATTGATAATTAAACAAAGCTTAATTAGTTT
AATCTTTAATTAATTAGTGTTAATTATGGTATATAAGTTAAAATAAAAAGAAAAGATGACATTGT
CATCATATTTTCATCTTTTCCTC
Found at i:6171279 original size:2 final size:2
Alignment explanation
Indices: 6171272--6171306 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6171262 CCAAATATTC
6171272 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6171307 CACACACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6172921 original size:3 final size:3
Alignment explanation
Indices: 6172913--6172954 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
6172903 GTCTCATTCC
6172913 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6172955 CAAACCAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6180021 original size:265 final size:263
Alignment explanation
Indices: 6179308--6181412 Score: 1474
Period size: 265 Copynumber: 8.0 Consensus size: 263
6179298 ACTAAACACA
* * * ** ** ***
6179308 GCTAACCGATAACTAAAGCCCCTTAAAAGGCCCCATTGACACCATTCAGGAAGAAGTCAAACACG
1 GCTAA-CGATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTTG
* * * * * * *
6179373 AGCACCTAGTCTATCAAGTTAATTCCTCCATCGCTCAAACCAGTCAATCTCACCGATGTTATCC-
65 AGCACCTAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAAAG-TATCCT
* * * *
6179437 ATAT-GGCTACTAGTTACATATGCAGAGTCAACAC--AGTATTTCAC----A---AGCAAAGAAA
129 ACATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAAA
* * *
6179492 CAGAGGAAACACAATTAATAGTTTACTAAACTCACCAAGAGGCTT-AACTCCCCTCC-ATTGACA
194 CAGAGGAAACACAATTACTAGTTCAC-AAACTCACCAAGAGGATTGAACTCCCCTCCAATTGACA
***
6179555 CATGGC
258 CACAAC
* * * * **
6179561 GCTAACCAATAACTAAAACCCCTTAAAAGGCTCCATTGACACCGTTGAACAAGAAGTCAAATTCA
1 GCTAA-CGATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTTG
* * * *
6179626 AGCACCTAGTCTCTAAAGTCAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAATGTTATCCT
65 AGCACCTAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAAAG-TATCCT
** *
6179691 ACATGGGCTACAACTTAAATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAAA
129 ACATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAAA
* *
6179756 CAAAGGAAACACGATTACTAGTTCACAGAACTCACCAAGAGGATTGAACT-CCCTCCAATTGACA
194 CAGAGGAAACACAATTACTAGTTCACA-AACTCACCAAGAGGATTGAACTCCCCTCCAATTGACA
*
6179820 CACAAT
258 CACAAC
* * * *
6179826 GCTAACTGATAACAAAAACCCCCTTAAAAGGCTCCTTTGACACTGTTCAACAATAAGTCAAATTT
1 GCTAAC-GATAACTAAAA-CCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTT
* * * * *
6179891 GAGCGTCC-AGTCTATTGAGTTAATTCTTCCTTTTCTCAAACTCGTCAATCTCATCAAAGTATCC
64 GAGC-ACCTAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAAAGTATCC
* * ** * * * **
6179955 TATATAAGC-AGCTACTGCCATATGCAAAGTCAACAGAAAGTATTTCCCAT-TCAGTTAGGGAAG
128 TACATAAGCTA-CAACTTACATATGCAGAGTCAACACAAAGTATTTCACATAT-AGTTAGCAAAG
* * *
6180018 AAACAGAGGAAACACAATTAAC-AGTTCACTAAACTCACCGAGATGATTGAACT-CCCT-GATCA
191 AAACAGAGGAAACACAATT-ACTAGTTCAC-AAACTCACCAAGAGGATTGAACTCCCCTCCA--A
6180080 TTGACACACAAC
252 TTGACACACAAC
* * * * * *
6180092 GCAAAGCCATAA-TAAAACCCCTTAAAAAGCCCCATTGACACCGCTCAACATGAAGTCAAATTTG
1 GCTAA-CGATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTTG
* * * ** * *
6180156 AGCACCTAGTCT-CTAAGGTCAAATTCTTCCCTCACTCAAACTAGTCAAGCTCACCAATGTCATC
65 AGCACCTAGTCTATTAA-GT-TAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAAAGT-ATC
**
6180220 CTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGA
127 CTACATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGA
*
6180285 AAC--A--AAAGA-AA--ACTAGTTCACAAAACTCACCAAGAGGATTGAACTCCCCTCCAATTGA
192 AACAGAGGAAACACAATTACTAGTTCAC-AAACTCACCAAGAGGATTGAACTCCCCTCCAATTGA
*
6180343 CACACAAT
256 CACACAAC
* * * *
6180351 GCTAACAGATAACTAAAA-CCCTTAAAAACCTCCATTGAGACTGCTCAACAAGAAGTCAAATCTG
1 GCTAAC-GATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTTG
* * *
6180415 AGCACCTAGTCTATTAAGTTAAGTCTTCCTTTGCTCAAACTAGTCAATCTCATCAACA-TATCCC
65 AGCACCTAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAA-AGTATCCT
* * * * * * * * **
6180479 AGATAAGCTACTACTTCCGTATGCATG-GTCAACAGAAAGAATTTCCCATTTAGTTAGTGAAGAA
129 ACATAAGCTACAACTTACATATGCA-GAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAA
* * *
6180543 ACAGGGGAAACACAATTAAC-AGTTCACTGAACTCACCAAGATGATTGAACTCCCCTCC-ATTG-
193 ACAGAGGAAACACAATT-ACTAGTTCAC-AAACTCACCAAGAGGATTGAACTCCCCTCCAATTGA
*
6180605 -ATACAAC
256 CACACAAC
* * * *
6180612 ACTAACGCATAATTAAAACCCCTTAAAAATCTCCATTGACACT-TCTCAACAAGAAGTCAAATTG
1 GCTAACG-ATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGT-TCAACAAGAAGTCAAATTT
* * * * *
6180676 GAGCACATAGTCTACTAAGCTAATTCTTCCATTGCTCAAACTAGTCAATCACACCAAAATGCCAA
64 GAGCACCTAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACC-AAA-G----
* * * * * **
6180741 ATTATCCTACAT--G-GACTACTTACACATGCAGAGTCAACAC--AGTATTTCACACACAACTAG
123 --TATCCTACATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAG
* * * *
6180801 CAGAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAAGATTGAACTCCCCTCC
186 CAAAGAAACAGAGGAAACACAATTACTAGTTCAC-AAACTCACCAAGAGGATTGAACTCCCCTCC
* * *
6180866 -ATTGAAACAAAAT
250 AATTGACACACAAC
* * * * * *
6180879 GCTAACCGATAATTAAAACCCCTT-AAAAGGTGCCATGGACACTGTTCAAGAACAAGTCAAATTC
1 GCTAA-CGATAACTAAAACCCCTTAAAAAGCT-CCATTGACACTGTTCAACAAGAAGTCAAATTT
* * * * *
6180943 AAGCACCTAGTGGTCCTAGTCT-A-CTAAGTTTTTCCTTTGCTCAAACT-GTTCAATCACATCAA
64 GAGCACCTA---GT-CTA-T-TAAGTTAA-TTCTTCCTTTGCTCAAACTAG-TCAATCTCACCAA
* * ** * * * * * ***
6181005 TGGGCTAATCCTATATGGGTTACTACTTACATATACAGAGCCAACACCAAGTATTTCACACGCAG
121 --AG-T-ATCCTACATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAG
* ** * * * * * * *
6181070 CTAGTGAAGAATCAGAGGAAACACGATTAATAATTCACTAAACCCGCCAAGAGGACTGAACTCCC
182 TTAGCAAAGAAACAGAGGAAACACAATTACTAGTTCAC-AAACTCACCAAGAGGATTGAACTCCC
* **
6181135 CTCC-ATTGACACATAGT
246 CTCCAATTGACACACAAC
* * * * * * ** *
6181152 GCTAGCTGATAATTAAAACCTCTT-ATAGGCGCCATTGACACCATTCAAGAAGAAGTC-AATTTC
1 GCTAAC-GATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTT-
* * ** * * * *
6181215 AAGCACCAGCTGGTCCTAGTCT-A-TTAAGGTT-TTGATTTGCTCAAACAAGTCGACCACACCAA
64 GAGCA-C--CTAGT-CTA-T-TAAGTTAA--TTCTTCCTTTGCTCAAACTAGTCAATCTCACCAA
* * * ** * * * * *
6181277 TGGGTTAATCTTAAATGAAG-TATTACTCACACATGCAGAGTCCATACAAAATATTTCACATATA
121 --AG-T-ATCCTACAT-AAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATA
* * ** *
6181341 GCTAGCTAAGAAACAGAGGAAACACAACCAATAGTTCACTAAAACTCACCAAGAGGATTGAACTC
181 GTTAGCAAAGAAACAGAGGAAACACAATTACTAGTTCAC--AAACTCACCAAGAGGATTGAACTC
*
6181406 TCCTCCA
244 CCCTCCA
6181413 TAGCCATCAA
Statistics
Matches: 1499, Mismatches: 262, Indels: 161
0.78 0.14 0.08
Matches are distributed among these distances:
253 111 0.07
254 3 0.00
255 27 0.02
257 66 0.04
258 35 0.02
259 102 0.07
260 13 0.01
261 27 0.02
262 94 0.06
263 11 0.01
264 145 0.10
265 237 0.16
266 172 0.11
267 83 0.06
268 12 0.01
270 11 0.01
271 37 0.02
272 171 0.11
273 140 0.09
275 2 0.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (263 bp):
GCTAACGATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTTGA
GCACCTAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAAAGTATCCTAC
ATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAAACA
GAGGAAACACAATTACTAGTTCACAAACTCACCAAGAGGATTGAACTCCCCTCCAATTGACACAC
AAC
Found at i:6180568 original size:523 final size:523
Alignment explanation
Indices: 6179486--6180906 Score: 1755
Period size: 523 Copynumber: 2.7 Consensus size: 523
6179476 TTCACAAGCA
* * * *
6179486 AAGAAACAGAGGAAACACAATTAATAGTTTACTAAACTCACCAAGAGGCTT-AACTCCCCTCCAT
1 AAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGATGATTGAACTCCCCTCCAT
*** * * *
6179550 TGACACATGGCGCTAACCAATAACTAAAACCCCTTAAAAGGCTCCATTGACACCGTTGAACAAGA
66 TGACACACAACGCTAACC-ATAACTAAAACCCCTTAAAAAGCTCCATTGACACCGCTCAACAAGA
* *
6179615 AGTCAAATTCAAGCACCTAGTCTCTAAAGTCAATTCTTCCTTTGCTCAAACTAGTCAATCTCACC
130 AGTCAAATTCGAGCACCTAGTCTCT-AAGTCAATTCTTCCATTGCTCAAACTAGTCAATCTCACC
*
6179680 AATGTTATCCTACATGGGCTACAACTTAAATATGCAGAGTCAACACAAAGTATTTCACATATAGT
194 AATGTTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGT
*
6179745 TAGCAAAGAAACAAAGGAAACACGATTACTAGTTCACAGAACTCACCAAGAGGATTGAACT-CCC
259 TAGCAAAGAAACAAA--AAACA--A-TACTAGTTCACAAAACTCACCAAGAGGATTGAACTCCCC
* * ** * *
6179809 TCCAATTGACACACAATGCTAACTGATAACAAAAACCCCCTTAAAAGGCTCCTTTGACACTGTTC
319 TCCAATTGACACACAATGCTAACAGATAACTAAAA-CCCCTTAAAAACCTCCATTGACACTGCTC
* * * * * * *
6179874 AACAATAAGTCAAATTTGAGCGTCCAGTCTATTGAGTTAATTCTTCCTTTTCTCAAACTCGTCAA
383 AACAAGAAGTCAAATCTGAGCGACCAGTCTATTAAGTTAAGTCTTCCTTTGCTCAAACTAGTCAA
* * *
6179939 TCTCATCAAAGTATCCTATATAAGCAGCTACTGCCATATGCAAAGTCAACAGAAAGTATTTCCCA
448 TCTCATCAAAGTATCCCAGATAAGCAGCTACTGCCATATGCAAAGTCAACAGAAAGAATTTCCCA
6180004 TTCAGTTAGGG
513 TTCAGTTAGGG
* *
6180015 AAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCGAGATGATTGAACT-CCCTGATC
1 AAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGATGATTGAACTCCCCT--CC
* * *
6180079 ATTGACACACAACGCAAAGCCATAA-TAAAACCCCTTAAAAAGCCCCATTGACACCGCTCAACAT
64 ATTGACACACAACGCTAA-CCATAACTAAAACCCCTTAAAAAGCTCCATTGACACCGCTCAACAA
* * ** *
6180143 GAAGTCAAATTTGAGCACCTAGTCTCTAAGGTCAAATTCTTCCCTCACTCAAACTAGTCAAGCTC
128 GAAGTCAAATTCGAGCACCTAGTCTCTAA-GTC-AATTCTTCCATTGCTCAAACTAGTCAATCTC
*
6180208 ACCAATGTCATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATAT
191 ACCAATGTTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATAT
*
6180273 AGTTAGCAAAGAAACAAAAGA-AA-ACTAGTTCACAAAACTCACCAAGAGGATTGAACTCCCCTC
256 AGTTAGCAAAGAAACAAAAAACAATACTAGTTCACAAAACTCACCAAGAGGATTGAACTCCCCTC
*
6180336 CAATTGACACACAATGCTAACAGATAACTAAAA-CCCTTAAAAACCTCCATTGAGACTGCTCAAC
321 CAATTGACACACAATGCTAACAGATAACTAAAACCCCTTAAAAACCTCCATTGACACTGCTCAAC
6180400 AAGAAGTCAAATCTGAGC-ACCTAGTCTATTAAGTTAAGTCTTCCTTTGCTCAAACTAGTCAATC
386 AAGAAGTCAAATCTGAGCGACC-AGTCTATTAAGTTAAGTCTTCCTTTGCTCAAACTAGTCAATC
* * **
6180464 TCATCAACA-TATCCCAGATAAGCTA-CTACTTCCGTATGCATGGTCAACAGAAAGAATTTCCCA
450 TCATCAA-AGTATCCCAGATAAGC-AGCTACTGCCATATGCAAAGTCAACAGAAAGAATTTCCCA
* *
6180527 TTTAGTTAGTG
513 TTCAGTTAGGG
* *
6180538 AAGAAACAGGGGAAACACAATTAACAGTTCACTGAACTCACCAAGATGATTGAACTCCCCTCCAT
1 AAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGATGATTGAACTCCCCTCCAT
* * * * **
6180603 TG--ATACAACACTAACGCATAATTAAAACCCCTTAAAAATCTCCATTGACACTTCTCAACAAGA
66 TGACACACAACGCTAAC-CATAACTAAAACCCCTTAAAAAGCTCCATTGACACCGCTCAACAAGA
* * *
6180666 AGTCAAATTGGAGCACATAGTCTACTAAG-CTAATTCTTCCATTGCTCAAACTAGTCAATCACAC
130 AGTCAAATTCGAGCACCTAGTCT-CTAAGTC-AATTCTTCCATTGCTCAAACTAGTCAATCTCAC
* *
6180730 CAAAATGCCAAATTATCCTACAT-GG--ACTACTTACACATGCAGAGTCAACAC--AGTATTTCA
193 C--AATG-----TTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCA
* * ** * * * * *
6180790 CACACAACTAGCAGAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAAGATTG
251 CATATAGTTAGCAAAGAAACA-A--AAA-ACAA-TACTAGTTCACAAAACTCACCAAGAGGATTG
* * * *
6180855 AACTCCCCTCC-ATTGAAACAAAATGCTAACCGATAATTAAAACCCCTTAAAA
311 AACTCCCCTCCAATTGACACACAATGCTAACAGATAACTAAAACCCCTTAAAA
6180907 GGTGCCATGG
Statistics
Matches: 778, Mismatches: 85, Indels: 58
0.84 0.09 0.06
Matches are distributed among these distances:
519 1 0.00
520 44 0.06
521 58 0.07
522 40 0.05
523 195 0.25
524 63 0.08
525 38 0.05
526 4 0.01
527 12 0.02
528 28 0.04
529 100 0.13
530 66 0.08
531 127 0.16
532 2 0.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (523 bp):
AAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGATGATTGAACTCCCCTCCAT
TGACACACAACGCTAACCATAACTAAAACCCCTTAAAAAGCTCCATTGACACCGCTCAACAAGAA
GTCAAATTCGAGCACCTAGTCTCTAAGTCAATTCTTCCATTGCTCAAACTAGTCAATCTCACCAA
TGTTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTA
GCAAAGAAACAAAAAACAATACTAGTTCACAAAACTCACCAAGAGGATTGAACTCCCCTCCAATT
GACACACAATGCTAACAGATAACTAAAACCCCTTAAAAACCTCCATTGACACTGCTCAACAAGAA
GTCAAATCTGAGCGACCAGTCTATTAAGTTAAGTCTTCCTTTGCTCAAACTAGTCAATCTCATCA
AAGTATCCCAGATAAGCAGCTACTGCCATATGCAAAGTCAACAGAAAGAATTTCCCATTCAGTTA
GGG
Found at i:6180837 original size:788 final size:781
Alignment explanation
Indices: 6179316--6180861 Score: 1705
Period size: 788 Copynumber: 2.0 Consensus size: 781
6179306 CAGCTAACCG
* * * **
6179316 ATAACTAAAGCCCCTTAAAAGGCCCCATTGACACCATTCAGGAAGAAGTCAAACACGAGCACCTA
1 ATAACTAAAACCCCTTAAAAAGCCCCATTGACACCACTCAACAAGAAGTCAAACACGAGCACCTA
* * * * * *
6179381 GTCTATCAAGTTAATTCCTCCATCGCTCAAACCAGTCAATCTCACCGATGTTATCCATATGGCTA
66 GTCTATCAAGTAAATTCCTCCATCACTCAAACCAGTCAAGCTCACCAATGTCATCCACATGGCTA
* * * * **
6179446 CTAGTTACATATGCAGAGTCAACACAGTATTTCACAAGCAAAGAAACAGAGGAAACACAATTAAT
131 CAACTTACATATGCAGAGTCAACACAGTATTTCACAAGCAAAGAAACAGAAGAAACAAAAAAAAT
* * * ***
6179511 AGTTTACTAAACTCACCAAGAGGCTTAACTCCCCTCCATTGACACATGGCGCTAACCAATAACTA
196 AGTTCACAAAACTCACCAAGAGGATTAACTCCCCTCCATTGACACACAACGCTAACCAATAACTA
** * * *
6179576 AAACCCCTTAAAAGGCTCCATTGACACCGTTGAACAAGAAGTCAAATTCAAGCACCTAGTCTCTA
261 AAACCCCTTAAAAACCTCCATTGACACCGCTCAACAAGAAGTCAAATTCAAGCACCTAGTCTATA
* ** * **
6179641 AAGTCAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAATGTTATCCTACATGGGCTACAACT
326 AAGTCAAGTCTTCCTTTGCTCAAACTAGTCAATCTCACCAATCATATCCCACATAAGCTACAACT
* *
6179706 TAAATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAAACAAAGGAAACACGAT
391 TAAATATGCAGAGTCAACACAAAGAATTTCACATATAGTTAGCAAAGAAACAAAGGAAACACAAT
6179771 TACTAGTTCACAGAACTCACCAAGAGGATTGAACTCCCTCCAATTGACACACAATGCTAACTGAT
456 TACTAGTTCACAGAACTCACCAAGAGGATTGAACTCCCTCCAATTGACACACAA-GCTAACTGAT
* * * * *
6179836 AACAAAAACCCCCTTAAAAGGCTCCTTTGACACTGTTCAACAATAAGTCAAATTTGAGCGTCCAG
520 AACAAAAACCCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTGGAGCGACCAG
* * * * * * * *
6179901 TCTATTGAGTTAATTCTTCCTTTTCTCAAACTCGTCAATCTCATCAAAGTATCCTATATAAGCAG
585 TCTACTAAGCTAATTCTTCCATTGCTCAAACTAGTCAATCCCATCAAAGTATCCTACAT-AGCAG
* * * ** ** *
6179966 CTACTGCCATATGCAAAGTCAACAGAAAGTATTTCCCATTCAGTTAGGGAAGAAACAGAGGAAAC
649 CTACTGACACATGCAAAGTCAACA-AAAGTATTTCACACACAACTAGAGAAGAAACAGAGGAAAC
* * *
6180031 ACAATTAACAGTTCACTAAACTCACCGAGATGATTGAACTCCCTGATCATTGACACACAACGCAA
713 ACAATTAACAATTCACTAAACTCACCAAGAAGATTGAACTCCCTGATCATTGACACACAACGCAA
6180096 AGCC
778 AGCC
* * ***
6180100 ATAA-TAAAACCCCTTAAAAAGCCCCATTGACACCGCTCAACATGAAGTCAAATTTGAGCACCTA
1 ATAACTAAAACCCCTTAAAAAGCCCCATTGACACCACTCAACAAGAAGTCAAACACGAGCACCTA
* * * *
6180164 GTCTCT-AAGGTCAAATTCTTCCCTCACTCAAACTAGTCAAGCTCACCAATGTCATCCTACATGG
66 GTCTATCAA-GT-AAATTCCTCCATCACTCAAACCAGTCAAGCTCACCAATGTCATCC-ACAT-G
* * * *
6180228 GCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCAC-A-TATAGTTAGCA-AAGAAACAA
127 GCTACAACTTACATATGCAGAGTCAACAC--AGTATTTCACAAGCAAAG-AAACAGAAGAAACAA
*
6180290 AAGAAAACTAGTTCACAAAACTCACCAAGAGGATTGAACTCCCCTCCAATTGACACACAATGCTA
189 AA-AAAA-TAGTTCACAAAACTCACCAAGAGGATT-AACTCCCCTCC-ATTGACACACAACGCTA
* * *
6180355 A-CAGATAACTAAAA-CCCTTAAAAACCTCCATTGAGACTGCTCAACAAGAAGTCAAA-TCTGAG
250 ACCA-ATAACTAAAACCCCTTAAAAACCTCCATTGACACCGCTCAACAAGAAGTCAAATTC-AAG
* * * *
6180417 CACCTAGTCTATTAAGTTAAGTCTTCCTTTGCTCAAACTAGTCAATCTCATCAA-CATATCCCAG
313 CACCTAGTCTATAAAGTCAAGTCTTCCTTTGCTCAAACTAGTCAATCTCACCAATCATATCCCAC
* *** * * * **
6180481 ATAAGCTACTACTTCCGTATGCATG-GTCAACAGAAAGAATTTCCCATTTAGTTAGTGAAGAAAC
378 ATAAGCTACAACTTAAATATGCA-GAGTCAACACAAAGAATTTCACATATAGTTAGCAAAGAAAC
** * * *
6180545 AGGGGAAACACAATTAAC-AGTTCACTGAACTCACCAAGATGATTGAACTCCCCTCC-ATTGATA
442 AAAGGAAACACAATT-ACTAGTTCACAGAACTCACCAAGAGGATTGAACT-CCCTCCAATTGACA
** *
6180608 CA-ACA-CTAAC-GCATAATTAAAA-CCCCTTAAAAATCTCCATTGACACT-TCTCAACAAGAAG
505 CACA-AGCTAACTG-ATAACAAAAACCCCCTTAAAAAGCTCCATTGACACTGT-TCAACAAGAAG
*
6180668 TCAAATTGGAGC-ACATAGTCTACTAAGCTAATTCTTCCATTGCTCAAACTAGTCAATCACACCA
567 TCAAATTGGAGCGAC-CAGTCTACTAAGCTAATTCTTCCATTGCTCAAACTAGTCAAT--C-CC-
* * * * *
6180732 AAATGCCAAATTATCCTACAT-GGA-CTACTTACACATGCAGAGTCAAC-ACAGTATTTCACACA
627 --AT--CAAAGTATCCTACATAGCAGCTACTGACACATGCAAAGTCAACAAAAGTATTTCACACA
*
6180794 CAACTAGCAG-AGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAAGATTGAAC
688 CAACTAG-AGAAGAAACAGAGGAAACACAATTAACAATTCACTAAACTCACCAAGAAGATTGAAC
6180858 TCCC
752 TCCC
6180862 CTCCATTGAA
Statistics
Matches: 628, Mismatches: 105, Indels: 54
0.80 0.13 0.07
Matches are distributed among these distances:
782 2 0.00
783 57 0.09
784 43 0.07
785 82 0.13
786 53 0.08
787 8 0.01
788 213 0.34
789 110 0.18
790 43 0.07
791 4 0.01
793 13 0.02
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (781 bp):
ATAACTAAAACCCCTTAAAAAGCCCCATTGACACCACTCAACAAGAAGTCAAACACGAGCACCTA
GTCTATCAAGTAAATTCCTCCATCACTCAAACCAGTCAAGCTCACCAATGTCATCCACATGGCTA
CAACTTACATATGCAGAGTCAACACAGTATTTCACAAGCAAAGAAACAGAAGAAACAAAAAAAAT
AGTTCACAAAACTCACCAAGAGGATTAACTCCCCTCCATTGACACACAACGCTAACCAATAACTA
AAACCCCTTAAAAACCTCCATTGACACCGCTCAACAAGAAGTCAAATTCAAGCACCTAGTCTATA
AAGTCAAGTCTTCCTTTGCTCAAACTAGTCAATCTCACCAATCATATCCCACATAAGCTACAACT
TAAATATGCAGAGTCAACACAAAGAATTTCACATATAGTTAGCAAAGAAACAAAGGAAACACAAT
TACTAGTTCACAGAACTCACCAAGAGGATTGAACTCCCTCCAATTGACACACAAGCTAACTGATA
ACAAAAACCCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTGGAGCGACCAGT
CTACTAAGCTAATTCTTCCATTGCTCAAACTAGTCAATCCCATCAAAGTATCCTACATAGCAGCT
ACTGACACATGCAAAGTCAACAAAAGTATTTCACACACAACTAGAGAAGAAACAGAGGAAACACA
ATTAACAATTCACTAAACTCACCAAGAAGATTGAACTCCCTGATCATTGACACACAACGCAAAGC
C
Found at i:6181360 original size:272 final size:272
Alignment explanation
Indices: 6180538--6181413 Score: 787
Period size: 272 Copynumber: 3.2 Consensus size: 272
6180528 TTAGTTAGTG
* * * * *
6180538 AAGAAACAGGGGAAACACAATTAACAGTTCACTGAACTCACCAAGATGATTGAACTCCCCTCCAT
1 AAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAGGATTGAACTCCCCTCCAT
* * ** * * * *
6180603 TGATACAACA--CTAA-CGCATAATTAAAACCCCTTAAAAATCTCCATTGACA-CTTCTCAACAA
66 TGAAACAAAATGCTAACCG-ATAATTAAAACCCCTTAAAAGGCGCCATGGACACCAT-TCAAGAA
* ** *
6180664 GAAGTCAAATTGGAGCA-C-A-TAGT-CTA--CTAAGCTAA--TTCTTCCA-TTGCTCAAACTAG
129 CAAGTCAAATTCAAGCACCTAGTGGTCCTAGTCT-A-CTAAGGTT-TT-CATTTGCTCAAAC-AG
* * * *
6180720 -TCAATCACACCAAAAT-GCCAAATTATCCTACATG-G--ACTACTTACACATGCAGAGT-CAAC
189 TTCAACCACACC--AATGGGC---TAATCCTAAATGAGTTACTACTTACACATGCAGAGTCCAAC
* *
6180779 ACAGTATTTCACACACAACTAGC-
249 AAAGTATTTCACACACAGCTAGCT
*
6180802 AGAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAAGATTGAACTCCCCTCCA
1 A-AGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAGGATTGAACTCCCCTCCA
* **
6180867 TTGAAACAAAATGCTAACCGATAATTAAAACCCCTTAAAAGGTGCCATGGACACTGTTCAAGAAC
65 TTGAAACAAAATGCTAACCGATAATTAAAACCCCTTAAAAGGCGCCATGGACACCATTCAAGAAC
* * * *
6180932 AAGTCAAATTCAAGCACCTAGTGGTCCTAGTCTACTAAGTTTTTCCTTTGCTCAAACTGTTCAAT
130 AAGTCAAATTCAAGCACCTAGTGGTCCTAGTCTACTAAGGTTTTCATTTGCTCAAACAGTTCAAC
* * * * *
6180997 CACATCAATGGGCTAATCCTATATGGGTTACTACTTACATATACAGAG-CCAACACCAAGTATTT
195 CACACCAATGGGCTAATCCTAAATGAGTTACTACTTACACATGCAGAGTCCAACA--AAGTATTT
*
6181061 CACACGCAGCTAG-T
258 CACACACAGCTAGCT
* * * * *
6181075 GAAGAATCAGAGGAAACACGATTAATAATTCACTAAACCCGCCAAGAGGACTGAACTCCCCTCCA
1 -AAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAGGATTGAACTCCCCTCCA
* * * * * * * * *
6181140 TTGACACATAGTGCTAGCTGATAATTAAAACCTCTT-ATAGGCGCCATTGACACCATTCAAGAAG
65 TTGAAACAAAATGCTAACCGATAATTAAAACCCCTTAAAAGGCGCCATGGACACCATTCAAGAAC
* * * *
6181204 AAGTCAATTTCAAGCACC-AGCTGGTCCTAGTCTATTAAGGTTTTGATTTGCTCAAACAAG-TCG
130 AAGTCAAATTCAAGCACCTAG-TGGTCCTAGTCTACTAAGGTTTTCATTTGCTCAAAC-AGTTCA
* * * * *
6181267 ACCACACCAATGGGTTAATCTTAAATGAAG-TATTACTCACACATGCAGAGTCCATACAAAATAT
193 ACCACACCAATGGGCTAATCCTAAATG-AGTTACTACTTACACATGCAGAGTCCA-ACAAAGTAT
* *
6181331 TTCACATATAGCTAGCT
256 TTCACACACAGCTAGCT
** * *
6181348 AAGAAACAGAGGAAACACAACCAATAGTTCACTAAAACTCACCAAGAGGATTGAACTCTCCTCCA
1 AAGAAACAGAGGAAACACAATTAATAATTCACT-AAACTCACCAAGAGGATTGAACTCCCCTCCA
6181413 T
65 T
6181414 AGCCATCAAG
Statistics
Matches: 503, Mismatches: 78, Indels: 53
0.79 0.12 0.08
Matches are distributed among these distances:
264 1 0.00
265 67 0.13
267 52 0.10
268 14 0.03
269 2 0.00
270 6 0.01
271 35 0.07
272 179 0.36
273 143 0.28
274 4 0.01
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.24
Consensus pattern (272 bp):
AAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAGGATTGAACTCCCCTCCAT
TGAAACAAAATGCTAACCGATAATTAAAACCCCTTAAAAGGCGCCATGGACACCATTCAAGAACA
AGTCAAATTCAAGCACCTAGTGGTCCTAGTCTACTAAGGTTTTCATTTGCTCAAACAGTTCAACC
ACACCAATGGGCTAATCCTAAATGAGTTACTACTTACACATGCAGAGTCCAACAAAGTATTTCAC
ACACAGCTAGCT
Found at i:6183910 original size:19 final size:19
Alignment explanation
Indices: 6183842--6183912 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
6183832 TTTTACAAGT
* *
6183842 TTTTATTATTTTGTAAGAA
1 TTTTATTATTTTATAAAAA
6183861 TTCTAATATT-TTTTATAAAAA
1 TT-T--TATTATTTTATAAAAA
* *
6183882 TTTAAATATTTTA-AATAAA
1 TTTTATTATTTTATAA-AAA
6183901 TTTTATTATTTT
1 TTTTATTATTTT
6183913 TATATTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
18 4 0.10
19 20 0.49
20 2 0.05
21 11 0.27
22 4 0.10
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTATTATTTTATAAAAA
Found at i:6183923 original size:19 final size:19
Alignment explanation
Indices: 6183901--6183957 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
6183891 TTTAAATAAA
6183901 TTTTATTATTTTTATATTT
1 TTTTATTATTTTTATATTT
* *
6183920 TTTTATAATTTATA-ATTT
1 TTTTATTATTTTTATATTT
* *
6183938 ATTTGATT-TTTTTGTATTT
1 -TTTTATTATTTTTATATTT
6183957 T
1 T
6183958 ATAATGTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 9 0.30
19 21 0.70
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTATTATTTTTATATTT
Found at i:6183929 original size:27 final size:28
Alignment explanation
Indices: 6183899--6183980 Score: 82
Period size: 27 Copynumber: 3.0 Consensus size: 28
6183889 ATTTTAAATA
*
6183899 AATTTTATTATTTTTAT-ATTTTTTTAT
1 AATTTTATAATTTTTATAATTTTTTTAT
* *
6183926 AA-TTTATAATTTATT-TGATTTTTTTGT
1 AATTTTATAATTT-TTATAATTTTTTTAT
*
6183953 -ATTTTATAATGTTTATAAGTTTTTTTAT
1 AATTTTATAATTTTTATAA-TTTTTTTAT
6183981 TTTTTTTTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
26 13 0.29
27 24 0.53
28 8 0.18
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (28 bp):
AATTTTATAATTTTTATAATTTTTTTAT
Found at i:6183968 original size:36 final size:34
Alignment explanation
Indices: 6183920--6183986 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 34
6183910 TTTTATATTT
6183920 TTTTATAATTTATAA-TTTATTTGATTTTTTTGTA
1 TTTTATAATTTATAAGTTT-TTTGATTTTTTTGTA
*
6183954 TTTTATAATGTTTATAAGTTTTTTTATTTTTTT
1 TTTTATAA--TTTATAAGTTTTTTGATTTTTTT
6183987 TTTCTTATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 8 0.28
36 18 0.62
37 3 0.10
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (34 bp):
TTTTATAATTTATAAGTTTTTTGATTTTTTTGTA
Found at i:6195414 original size:8 final size:8
Alignment explanation
Indices: 6195398--6195430 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
6195388 GCAGACACAA
*
6195398 AGCAGCAT
1 AGCACCAT
6195406 AGCACCAT
1 AGCACCAT
6195414 AGCACCAT
1 AGCACCAT
6195422 AGCACCAT
1 AGCACCAT
6195430 A
1 A
6195431 AGTCAATCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.39, C:0.33, G:0.15, T:0.12
Consensus pattern (8 bp):
AGCACCAT
Found at i:6196725 original size:254 final size:253
Alignment explanation
Indices: 6196300--6197142 Score: 873
Period size: 254 Copynumber: 3.2 Consensus size: 253
6196290 AAGCATGTTT
* *
6196300 AATTGGAATAAACAATTAATTAAATAAATCTCGAGTT-GCAGCGAAAAAAACTTCAAAAGCAACG
1 AATTGGAATAAACAATTAATTAAAGAAATCTCGA-TTAGCA--GTAAAAAACTTCAAAAGCAACG
* * *
6196364 GAGAGAAACCAGTAAAATGCAATGCAATCTCGTCAACTAAGTATTACACTGTTTTTGGCTGAACT
63 GAGAGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTTTTTGGATGAACT
* * *
6196429 ATGTTCAACTTGAATAAACAGCTAATTAAAAAAATCTTGATTAGCAGTGAACAAAAAGAATCAAA
128 ATGTTCAATTTGAATAAACAACTAATTAAAGAAATCTTGATTAGCAGTGAACAAAAAGAATCAAA
* * * * *
6196494 AGCAAAATGCAAT-TAATCATATATGACTAAGTATTACACTGTTTTCTGTTGAACTAAGGTC
193 AGCAAAATGCAATAAAATCACAT-CGACTAAGTATTACACTGTTATCTGATGAACTAAGGTC
* *
6196555 AATTGGAATTAACAATTAATTGAAGAAATCTCGATTAGCAGTAAAAGAACTTCAAAAGCAACGGA
1 AATTGGAATAAACAATTAATTAAAGAAATCTCGATTAGCAGTAAAA-AACTTCAAAAGCAACGGA
6196620 GAGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTTTTTGGATGAACTAT
65 GAGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTTTTTGGATGAACTAT
6196685 GTTCAATTTGAATAAACAACTAATTAAAGAAATCTTGATTAGCAGTGCAAAAAAACAAAAAAAGA
130 GTTCAATTTGAATAAACAACTAATTAAAGAAATCTTGATTAGCAGTG------AAC----AAA-A
*
6196750 AGCAAAAGCAAAAGCAAAATGCAATAAAATCACATCGACTAAGTATTACACTGTTATCTGATGAA
184 AG---AATCAAAAGCAAAATGCAATAAAATCACATCGACTAAGTATTACACTGTTATCTGATGAA
**
6196815 CTAATTTC
246 CTAAGGTC
* * * * *
6196823 AATTGGAATAAACAACTAATCAAAGAAATCTTGTATTAGCAGTGAAAAACAATCAAAAGCAAATT
1 AATTGGAATAAACAATTAATTAAAGAAATCTCG-ATTAGCAGTAAAAAAC-TTCAAAAGC-AA--
* * * * * * * * *
6196888 AGGAAAAAAAACAGTAAAATACAATACAATCACATCGACTAAGTATTACACTGTTATCT-GATGG
61 CGGAGAGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTT-TTTGGATGA
* * *
6196952 ACTAAGTTCAATTGGAATAAACAACTAATCAAAGAAATCTTGGATTAGCAGTGAAAAACAATCAA
125 ACTATGTTCAATTTGAATAAACAACTAATTAAAGAAATCTT-GATTAGCAGTG---AAC-A--AA
* * *
6197017 AAGCAAATTAGAAAAAGAAAAACAGTAAAATACAATACAATCACATCGACTAAGTATTACACTGT
183 AAG--AA-T--CAAAAG-----C---AAAATGCAATAAAATCACATCGACTAAGTATTACACTGT
*
6197082 TATCTGATGAACTAAGTTC
235 TATCTGATGAACTAAGGTC
* * * *
6197101 AATTCGAATAAACAATTAATTAAACAAATCTTGAGTAGCAGT
1 AATTGGAATAAACAATTAATTAAAGAAATCTCGATTAGCAGT
6197143 TTAAAAAAAA
Statistics
Matches: 503, Mismatches: 48, Indels: 52
0.83 0.08 0.09
Matches are distributed among these distances:
253 5 0.01
254 126 0.25
255 34 0.07
260 3 0.01
264 3 0.01
265 3 0.01
267 5 0.01
268 86 0.17
269 29 0.06
270 13 0.03
272 90 0.18
273 13 0.03
275 1 0.00
277 8 0.02
278 84 0.17
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (253 bp):
AATTGGAATAAACAATTAATTAAAGAAATCTCGATTAGCAGTAAAAAACTTCAAAAGCAACGGAG
AGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTTTTTGGATGAACTATG
TTCAATTTGAATAAACAACTAATTAAAGAAATCTTGATTAGCAGTGAACAAAAAGAATCAAAAGC
AAAATGCAATAAAATCACATCGACTAAGTATTACACTGTTATCTGATGAACTAAGGTC
Found at i:6196956 original size:138 final size:137
Alignment explanation
Indices: 6196518--6197142 Score: 793
Period size: 134 Copynumber: 4.6 Consensus size: 137
6196508 AATCATATAT
* * * * * *
6196518 GACTAAGTATTACACTGTTTTCTGTTGAACTAAGGTCAATTGGAATTAACAATTAATTGAAGAAA
1 GACTAAGTATTACACTGTTATCTGATGAACTAAGTTCAATTGGAATAAACAACTAATTAAAGAAA
* * * * * * * *
6196583 TCTCGATTAGCAGTAAAAGAAC-TTCAAAAGC-AA--CGGAGAGAAACCAGTAAAATGCAATACA
66 TCTTGATTAGCAGTGAAA-AACAATCAAAAGCAAATTAGGAAAAAAAACAGTAAAATACAATACA
* *
6196644 ATCTCGTC
130 ATCACATC
* * *
6196652 GACTAAGTATTACACTGTT-TTTGGATGAACTATGTTCAATTTGAATAAACAACTAATTAAAGAA
1 GACTAAGTATTACACTGTTATCT-GATGAACTAAGTTCAATTGGAATAAACAACTAATTAAAGAA
** * * * *
6196716 ATCTTGATTAGCAGTGCAAAAA-AA-CAAAA--AAAGAAGCAAAAGCAAA-AGCAAAATGCAATA
65 ATCTTGATTAGCAGTG-AAAAACAATCAAAAGCAAATTAGGAAAA-AAAACAGTAAAATACAATA
*
6196776 AAATCACATC
128 CAATCACATC
* *
6196786 GACTAAGTATTACACTGTTATCTGATGAACTAATTTCAATTGGAATAAACAACTAATCAAAGAAA
1 GACTAAGTATTACACTGTTATCTGATGAACTAAGTTCAATTGGAATAAACAACTAATTAAAGAAA
6196851 TCTTGTATTAGCAGTGAAAAACAATCAAAAGCAAATTAGGAAAAAAAACAGTAAAATACAATACA
66 TCTTG-ATTAGCAGTGAAAAACAATCAAAAGCAAATTAGGAAAAAAAACAGTAAAATACAATACA
6196916 ATCACATC
130 ATCACATC
* *
6196924 GACTAAGTATTACACTGTTATCTGATGGACTAAGTTCAATTGGAATAAACAACTAATCAAAGAAA
1 GACTAAGTATTACACTGTTATCTGATGAACTAAGTTCAATTGGAATAAACAACTAATTAAAGAAA
*
6196989 TCTTGGATTAGCAGTGAAAAACAATCAAAAGCAAATTAGAAAAAGAAAAACAGTAAAATACAATA
66 TCTT-GATTAGCAGTGAAAAACAATCAAAAGCAAATTAG-GAAA-AAAAACAGTAAAATACAATA
6197054 CAATCACATC
128 CAATCACATC
* * *
6197064 GACTAAGTATTACACTGTTATCTGATGAACTAAGTTCAATTCGAATAAACAATTAATTAAACAAA
1 GACTAAGTATTACACTGTTATCTGATGAACTAAGTTCAATTGGAATAAACAACTAATTAAAGAAA
*
6197129 TCTTGAGTAGCAGT
66 TCTTGATTAGCAGT
6197143 TTAAAAAAAA
Statistics
Matches: 432, Mismatches: 42, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
132 2 0.00
133 7 0.02
134 159 0.37
135 19 0.04
136 5 0.01
137 3 0.01
138 130 0.30
139 13 0.03
140 94 0.22
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (137 bp):
GACTAAGTATTACACTGTTATCTGATGAACTAAGTTCAATTGGAATAAACAACTAATTAAAGAAA
TCTTGATTAGCAGTGAAAAACAATCAAAAGCAAATTAGGAAAAAAAACAGTAAAATACAATACAA
TCACATC
Found at i:6208908 original size:16 final size:17
Alignment explanation
Indices: 6208867--6208914 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
6208857 AAGAATGACA
6208867 TTGTAATGAATTTAAAT
1 TTGTAATGAATTTAAAT
* **
6208884 TTATAATGAATTT-TTT
1 TTGTAATGAATTTAAAT
6208900 TTGTAATGAATTTAA
1 TTGTAATGAATTTAA
6208915 CGATATCAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (17 bp):
TTGTAATGAATTTAAAT
Found at i:6209174 original size:31 final size:29
Alignment explanation
Indices: 6209104--6209177 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
6209094 GGCTCAAGTT
* *
6209104 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
6209133 ACGTTTTAGTCACTTATGTTATCACGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
6209164 ACATTTTAGTCACT
1 ACATTTTAGTCACT
6209178 GAGCCGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:6220760 original size:22 final size:23
Alignment explanation
Indices: 6220719--6220761 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6220709 CAATACTCGA
*
6220719 TTTTTTTTAATTTTATATTAAAG
1 TTTTTTTTAATTTCATATTAAAG
*
6220742 TTTTTTTTTATTTCA-ATTAA
1 TTTTTTTTAATTTCATATTAA
6220762 GTACTCGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTTTTAATTTCATATTAAAG
Found at i:6229131 original size:9 final size:9
Alignment explanation
Indices: 6229095--6229647 Score: 244
Period size: 9 Copynumber: 66.0 Consensus size: 9
6229085 AATTGCACGG
6229095 GTAAGTTAT
1 GTAAGTTAT
*
6229104 GT-A-TTGT
1 GTAAGTTAT
*
6229111 GTAAGCTAT
1 GTAAGTTAT
*
6229120 GTAAGTTGT
1 GTAAGTTAT
6229129 GT-A-TTAT
1 GTAAGTTAT
6229136 GTAAGTTAT
1 GTAAGTTAT
6229145 -T-A-TTAT
1 GTAAGTTAT
6229151 GCTTTAAGTTAT
1 G---TAAGTTAT
*
6229163 GTAAGTAAT
1 GTAAGTTAT
6229172 GT-A-TTAT
1 GTAAGTTAT
*
6229179 GTAAGTTGT
1 GTAAGTTAT
*
6229188 GT-A-TAAT
1 GTAAGTTAT
*
6229195 GTTAGTTAT
1 GTAAGTTAT
**
6229204 CAAAGTTAT
1 GTAAGTTAT
6229213 GT-A-TTAT
1 GTAAGTTAT
6229220 GTAAGTTAT
1 GTAAGTTAT
*
6229229 TTAAGTTAT
1 GTAAGTTAT
*
6229238 GTAA--CAT
1 GTAAGTTAT
*
6229245 GTAAATTAT
1 GTAAGTTAT
*
6229254 GTAAGTTGT
1 GTAAGTTAT
*
6229263 GT-A-TAAT
1 GTAAGTTAT
*
6229270 GTTAGTTAT
1 GTAAGTTAT
*
6229279 GTAAGTAAT
1 GTAAGTTAT
6229288 GT-A-TTAT
1 GTAAGTTAT
*
6229295 GTAAGTTGT
1 GTAAGTTAT
*
6229304 GT-A-TAAT
1 GTAAGTTAT
*
6229311 GTTAGTTAT
1 GTAAGTTAT
**
6229320 CAAAGTTAT
1 GTAAGTTAT
6229329 GT-A-TTAT
1 GTAAGTTAT
6229336 GTAAGTTAT
1 GTAAGTTAT
*
6229345 TTAAGTTAT
1 GTAAGTTAT
*
6229354 GTAA--CAT
1 GTAAGTTAT
*
6229361 GTAAATTAT
1 GTAAGTTAT
*
6229370 GTAAGTTGT
1 GTAAGTTAT
*
6229379 GT-A-TAAT
1 GTAAGTTAT
*
6229386 GTTAGTTAT
1 GTAAGTTAT
**
6229395 CAAAGTTAT
1 GTAAGTTAT
6229404 GT-A-TTAT
1 GTAAGTTAT
6229411 GTAAGTTAT
1 GTAAGTTAT
6229420 -TCAAGTTAT
1 GT-AAGTTAT
*
6229429 GTAA--CAT
1 GTAAGTTAT
*
6229436 GTAAATTAT
1 GTAAGTTAT
*
6229445 GTAAGTTGT
1 GTAAGTTAT
*
6229454 GT-A-TAAT
1 GTAAGTTAT
*
6229461 GTTAGTTAT
1 GTAAGTTAT
**
6229470 CAAAGTTAT
1 GTAAGTTAT
6229479 GT-A-TTAT
1 GTAAGTTAT
6229486 GTAAGTTAT
1 GTAAGTTAT
*
6229495 TTAAGTTAT
1 GTAAGTTAT
*
6229504 GTAA--CAT
1 GTAAGTTAT
*
6229511 GTAAATTAT
1 GTAAGTTAT
6229520 GTAAGTTAT
1 GTAAGTTAT
* *
6229529 GTAGGCTAT
1 GTAAGTTAT
* *
6229538 GTATGTTAA
1 GTAAGTTAT
**
6229547 GTAAGCAAT
1 GTAAGTTAT
6229556 GT-A-TTAT
1 GTAAGTTAT
*
6229563 GTAAGTTGT
1 GTAAGTTAT
*
6229572 GT-A-TAAT
1 GTAAGTTAT
*
6229579 GTTAGTTAT
1 GTAAGTTAT
**
6229588 CAAAGTTAT
1 GTAAGTTAT
6229597 GT-A-TTAT
1 GTAAGTTAT
***
6229604 GTGTTTCTAT
1 GTAAGT-TAT
*
6229614 TTAAGTTAT
1 GTAAGTTAT
*
6229623 GTAAGTTGT
1 GTAAGTTAT
6229632 GT-A-TTAT
1 GTAAGTTAT
6229639 GTAAGTTAT
1 GTAAGTTAT
6229648 TAAAAATTGA
Statistics
Matches: 396, Mismatches: 97, Indels: 102
0.67 0.16 0.17
Matches are distributed among these distances:
6 4 0.01
7 108 0.27
8 35 0.09
9 236 0.60
10 7 0.02
11 1 0.00
12 5 0.01
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:6229136 original size:16 final size:16
Alignment explanation
Indices: 6229117--6229587 Score: 125
Period size: 16 Copynumber: 28.8 Consensus size: 16
6229107 TTGTGTAAGC
*
6229117 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
6229133 TATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAT
*
6229148 TATGCT---TTAAG--T
1 TATG-TAAGTTATGTAT
*
6229160 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
*
6229176 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * **
6229192 AATGTTAGTTATCAAAGT
1 TATGTAAGTTAT-GTA-T
6229210 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
6229226 TATTTAAGTTATGTAA
1 TATGTAAGTTATGTAT
* *
6229242 CATGTAAATTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
6229260 TGTGT-A-TAATGTTAGT
1 TATGTAAGTTATG-TA-T
*
6229276 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
*
6229292 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * **
6229308 AATGTTAGTTATCAAAGT
1 TATGTAAGTTAT-GTA-T
6229326 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
6229342 TATTTAAGTTATGTAA
1 TATGTAAGTTATGTAT
* *
6229358 CATGTAAATTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
6229376 TGTGT-A-TAATGTTAGT
1 TATGTAAGTTATG-TA-T
**
6229392 TATCAAAGTTATGTAT
1 TATGTAAGTTATGTAT
6229408 TATGTAAGTTAT-TCAAGT
1 TATGTAAGTTATGT--A-T
*
6229426 TATGTAA--CATGTAAAT
1 TATGTAAGTTATGT--AT
*
6229442 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * **
6229458 AATGTTAGTTATCAAAGT
1 TATGTAAGTTAT-GTA-T
6229476 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
6229492 TATTTAAGTTATGTAA
1 TATGTAAGTTATGTAT
* *
6229508 CATGTAAATTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
6229526 TATGTAGGCTATGTATGT
1 TATGTAAGTTATGTA--T
* **
6229544 TAAGTAAGCAATGTAT
1 TATGTAAGTTATGTAT
*
6229560 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* *
6229576 AATGTTAGTTAT
1 TATGTAAGTTAT
6229588 CAAAGTTATG
Statistics
Matches: 333, Mismatches: 81, Indels: 82
0.67 0.16 0.17
Matches are distributed among these distances:
11 1 0.00
12 5 0.02
13 3 0.01
14 3 0.01
15 8 0.02
16 200 0.60
17 30 0.09
18 83 0.25
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:6229203 original size:25 final size:25
Alignment explanation
Indices: 6229155--6229306 Score: 139
Period size: 25 Copynumber: 6.1 Consensus size: 25
6229145 TATTATGCTT
6229155 TAAGTTATGTAAGTAATG-TA-TTATG
1 TAAGTTATGT-A-TAATGTTAGTTATG
* *
6229180 TAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGTATAATGTTAGTTATG
* * * *
6229205 AAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATAATGTTAGTTATG
* *
6229230 TAAGTTATGTA-ACATGTAAATTATG
1 TAAGTTATGTATA-ATGTTAGTTATG
*
6229255 TAAGTTGTGTATAATGTTAGTTATG
1 TAAGTTATGTATAATGTTAGTTATG
* * * *
6229280 TAAGTAATGTATTATGTAAGTTGTG
1 TAAGTTATGTATAATGTTAGTTATG
6229305 TA
1 TA
6229307 TAATGTTAGT
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
23 5 0.05
24 3 0.03
25 95 0.91
26 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.45
Consensus pattern (25 bp):
TAAGTTATGTATAATGTTAGTTATG
Found at i:6229234 original size:50 final size:50
Alignment explanation
Indices: 6229155--6229531 Score: 291
Period size: 50 Copynumber: 7.7 Consensus size: 50
6229145 TATTATGCTT
*
6229155 TAAGTTATGTAAGTAATGT-A-TTATGTAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGT-A-TAATGTAAGTTATGTAAGTTATGTATAATGTTAGTTATC
* * * * * *
6229205 AAAGTTATGTATTATGTAAGTTATTTAAGTTATGTA-ACATGTAAATTATG
1 TAAGTTATGTATAATGTAAGTTATGTAAGTTATGTATA-ATGTTAGTTATC
* * *
6229255 TAAGTTGTGTATAATGTTAGTTATGT-A---A-G--TAATG-TA-TTATG
1 TAAGTTATGTATAATGTAAGTTATGTAAGTTATGTATAATGTTAGTTATC
* * ** * * *
6229296 TAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATAATGTAAGTTATGTAAGTTATGTATAATGTTAGTTATC
* *
6229346 TAAGTTATGTA-ACATGTAAATTATGTAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGTATA-ATGTAAGTTATGTAAGTTATGTATAATGTTAGTTATC
* * * * *
6229396 AAAGTTATGTATTATGTAAGTTAT-TCAAGTTATGTA-ACATGTAAATTATG
1 TAAGTTATGTATAATGTAAGTTATGT-AAGTTATGTATA-ATGTTAGTTATC
* * ** * * *
6229446 TAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATAATGTAAGTTATGTAAGTTATGTATAATGTTAGTTATC
*
6229496 TAAGTTATGTA-ACATGTAAATTATGTAAGTTATGTA
1 TAAGTTATGTATA-ATGTAAGTTATGTAAGTTATGTA
6229532 GGCTATGTAT
Statistics
Matches: 260, Mismatches: 47, Indels: 40
0.75 0.14 0.12
Matches are distributed among these distances:
41 29 0.11
42 2 0.01
43 3 0.01
44 1 0.00
45 2 0.01
46 2 0.01
48 9 0.03
49 9 0.03
50 203 0.78
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.45
Consensus pattern (50 bp):
TAAGTTATGTATAATGTAAGTTATGTAAGTTATGTATAATGTTAGTTATC
Found at i:6229234 original size:75 final size:75
Alignment explanation
Indices: 6229153--6229648 Score: 276
Period size: 75 Copynumber: 6.5 Consensus size: 75
6229143 ATTATTATGC
* * * *
6229153 TTTAAGTTATGTAAGTAATGTATTATGTAAGTTGTGTATAATGTTA-GTTATCA-AAGTTATGT-
1 TTTAAGTTATGTAAGTTATGTATTATGTAAGTTAT-T-TAA-GTTATG-TAACATAAATTATGTA
6229215 A-TTATGTAAGTTA
62 AGTTATGTAAGTTA
* * *
6229228 TTTAAGTTATGTAA--CATGTAAATTATGTAAGTTGTGTATAATGTTAGTTATGTAA-GTAATGT
1 TTTAAGTTATGTAAGTTATGT--ATTATGTAA---GT-TAT--T-TAAGTTATGTAACATAA---
* *
6229290 ATTATGTAAGTTGTGT-A-TAA
54 ATTATGTAAGTTATGTAAGTTA
**
6229310 TGTT-AGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACATGTAAATTATGTAA
1 T-TTAAGTTATGTAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACA--TAAATTATGTAA
* *
6229374 GTTGTGT-A-TAA
63 GTTATGTAAGTTA
** *
6229385 TGTT-AGTTATCAAAGTTATGTATTATGTAAGTTATTCAAGTTATGTAACATGTAAATTATGTAA
1 T-TTAAGTTATGTAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACA--TAAATTATGTAA
* *
6229449 GTTGTGT-A-TAA
63 GTTATGTAAGTTA
**
6229460 TGTT-AGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACATGTAAATTATGTAA
1 T-TTAAGTTATGTAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACA--TAAATTATGTAA
* *
6229524 GTTATGTAGGCTA
63 GTTATGTAAGTTA
* * * ** * * *
6229537 TGTATGTTAAGTAAGCAATGTATTATGTAAGTTGTGTATAATGTTA-GTTATCA-AAGTTATGT-
1 TTTAAGTTATGTAAGTTATGTATTATGTAAGTTAT-T-TAA-GTTATG-TAACATAAATTATGTA
***
6229599 A-TTATGTGTTTCTA
62 AGTTATGTAAGT-TA
*
6229613 TTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATT
1 TTTAAGTTATGTAAGTTATGTATTATGTAAGTTATT
6229649 AAAAATTGAA
Statistics
Matches: 351, Mismatches: 42, Indels: 56
0.78 0.09 0.12
Matches are distributed among these distances:
73 4 0.01
75 204 0.58
76 33 0.09
77 34 0.10
78 9 0.03
79 16 0.05
80 12 0.03
82 26 0.07
83 4 0.01
84 9 0.03
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.46
Consensus pattern (75 bp):
TTTAAGTTATGTAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACATAAATTATGTAAGTT
ATGTAAGTTA
Found at i:6229300 original size:116 final size:116
Alignment explanation
Indices: 6229131--6229417 Score: 495
Period size: 116 Copynumber: 2.5 Consensus size: 116
6229121 TAAGTTGTGT
* *
6229131 ATTATGTAAGTTAT-TATTATGCTTTAAGTTATGTAAGTAATGTATTATGTAAGTTGTGTATAAT
1 ATTATGTAAGTTGTGTATAATG--TT-AGTTATGTAAGTAATGTATTATGTAAGTTGTGTATAAT
6229195 GTTAGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACATGTAA
63 GTTAGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACATGTAA
6229249 ATTATGTAAGTTGTGTATAATGTTAGTTATGTAAGTAATGTATTATGTAAGTTGTGTATAATGTT
1 ATTATGTAAGTTGTGTATAATGTTAGTTATGTAAGTAATGTATTATGTAAGTTGTGTATAATGTT
6229314 AGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACATGTAA
66 AGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACATGTAA
** *
6229365 ATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAGTT
1 ATTATGTAAGTTGTGTATAATGTTAGTTATGTAAGTAATGTATTATGTAAGTT
6229418 ATTCAAGTTA
Statistics
Matches: 163, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
116 142 0.87
117 2 0.01
118 13 0.08
119 6 0.04
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.46
Consensus pattern (116 bp):
ATTATGTAAGTTGTGTATAATGTTAGTTATGTAAGTAATGTATTATGTAAGTTGTGTATAATGTT
AGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACATGTAA
Found at i:6229319 original size:25 final size:25
Alignment explanation
Indices: 6229268--6229531 Score: 243
Period size: 25 Copynumber: 10.6 Consensus size: 25
6229258 GTTGTGTATA
*
6229268 ATGTTAGTTATGTAAGTAATGT-A-TT
1 ATGTAAGTTATGT-A-TAATGTAAGTT
* *
6229293 ATGTAAGTTGTGTATAATGTTAGTT
1 ATGTAAGTTATGTATAATGTAAGTT
** *
6229318 ATCAAAGTTATGTATTATGTAAGTT
1 ATGTAAGTTATGTATAATGTAAGTT
* *
6229343 ATTTAAGTTATGTA-ACATGTAAATT
1 ATGTAAGTTATGTATA-ATGTAAGTT
* *
6229368 ATGTAAGTTGTGTATAATGTTAGTT
1 ATGTAAGTTATGTATAATGTAAGTT
** *
6229393 ATCAAAGTTATGTATTATGTAAGTT
1 ATGTAAGTTATGTATAATGTAAGTT
*
6229418 AT-TCAAGTTATGTA-ACATGTAAATT
1 ATGT-AAGTTATGTATA-ATGTAAGTT
* *
6229443 ATGTAAGTTGTGTATAATGTTAGTT
1 ATGTAAGTTATGTATAATGTAAGTT
** *
6229468 ATCAAAGTTATGTATTATGTAAGTT
1 ATGTAAGTTATGTATAATGTAAGTT
* *
6229493 ATTTAAGTTATGTA-ACATGTAAATT
1 ATGTAAGTTATGTATA-ATGTAAGTT
6229518 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
6229532 GGCTATGTAT
Statistics
Matches: 194, Mismatches: 36, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
23 6 0.03
24 2 0.01
25 183 0.94
26 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (25 bp):
ATGTAAGTTATGTATAATGTAAGTT
Found at i:6229632 original size:26 final size:25
Alignment explanation
Indices: 6229328--6229647 Score: 81
Period size: 25 Copynumber: 12.7 Consensus size: 25
6229318 ATCAAAGTTA
* *
6229328 TGTATTATGTAAGTTATTTAAGT-TA
1 TGTATTATGTAAGTTATGT-AGTATG
** *
6229353 TGTAACATGTAAATTATGTAAGT-TG
1 TGTATTATGTAAGTTATGT-AGTATG
* * ** *
6229378 TGTATAATGTTAGTTATCAAAGT-TA
1 TGTATTATGTAAGTTAT-GTAGTATG
*
6229403 TGTATTATGTAAGTTAT-TCAAGT-TA
1 TGTATTATGTAAGTTATGT--AGTATG
** *
6229428 TGTAACATGTAAATTATGTAAGT-TG
1 TGTATTATGTAAGTTATGT-AGTATG
* * ** *
6229453 TGTATAATGTTAGTTATCAAAGT-TA
1 TGTATTATGTAAGTTAT-GTAGTATG
* *
6229478 TGTATTATGTAAGTTATTTAAGT-TA
1 TGTATTATGTAAGTTATGT-AGTATG
** *
6229503 TGTAACATGTAAATTATGTAAGTTATG
1 TGTATTATGTAAGTTATGT-AG-TATG
** * * * *
6229530 TAG-GCTATGTATGTTAAGTAAGCA-A
1 T-GTATTATGTAAGTTATGT-AGTATG
*
6229555 TGTATTATGTAAGTTGTGTA-TAATG
1 TGTATTATGTAAGTTATGTAGT-ATG
** *
6229580 T-TAGTTATCAAAGTTATGTATTATG
1 TGTA-TTATGTAAGTTATGTAGTATG
* *
6229605 TGTTTCTATTTAAGTTATGTAAGT-TG
1 TGTAT-TATGTAAGTTATGT-AGTATG
6229631 TGTATTATGTAAGTTAT
1 TGTATTATGTAAGTTAT
6229648 TAAAAATTGA
Statistics
Matches: 219, Mismatches: 59, Indels: 34
0.70 0.19 0.11
Matches are distributed among these distances:
24 5 0.02
25 173 0.79
26 23 0.11
27 17 0.08
28 1 0.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (25 bp):
TGTATTATGTAAGTTATGTAGTATG
Found at i:6234350 original size:19 final size:19
Alignment explanation
Indices: 6234326--6234369 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
6234316 AAAAATTATA
*
6234326 ATTTTTATTTTTTTATTTC
1 ATTTTTATTTTTGTATTTC
*
6234345 ATTTTTATTTTTGTATTTT
1 ATTTTTATTTTTGTATTTC
6234364 ATTTTT
1 ATTTTT
6234370 TCTTATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (19 bp):
ATTTTTATTTTTGTATTTC
Found at i:6235762 original size:41 final size:41
Alignment explanation
Indices: 6235702--6235940 Score: 286
Period size: 41 Copynumber: 5.8 Consensus size: 41
6235692 TTATTATTAC
* * *
6235702 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGCAA
1 TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGCAT
* ** *
6235743 TACCGGCGCTTCTTTAAAAACGCCGCTAAAGATCTGAGCAT
1 TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGCAT
* * * *
6235784 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGACAAAGCAT
1 TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGCAT
* * *
6235825 TAGCGGCGCTT-TTTCAAAAACGCTGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTCTTT-AAAAACGCCGCTAAAGGCCAGAGCAT
*
6235866 TAGCGGTGCTT-TTTCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTCTTT-AAAAACGCCGCTAAAGGCCAGAGCAT
*
6235907 TAGCGGCGCTTAC-TCAAAAACGCCGCTAAAGGCC
1 TAGCGGCGCTT-CTTTAAAAACGCCGCTAAAGGCC
6235941 CCAAAAACTC
Statistics
Matches: 172, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
40 2 0.01
41 169 0.98
42 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (41 bp):
TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGCAT
Found at i:6235844 original size:82 final size:81
Alignment explanation
Indices: 6235702--6235937 Score: 321
Period size: 82 Copynumber: 2.9 Consensus size: 81
6235692 TTATTATTAC
* * * *
6235702 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTT-AAAAACGC
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAAAGCATTAGCGGCGCTT-TTTCAAAAACGC
*
6235766 CGCTAAAGATCTGAGCAT
65 CGCTAAAGA-CAGAGCAT
* * * *
6235784 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGACAAAGCATTAGCGGCGCTTTTTCAAAAACGCT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAAAGCATTAGCGGCGCTTTTTCAAAAACGCC
6235849 GCTAAAAGACAGAGCAT
66 GCT-AAAGACAGAGCAT
* * **
6235866 TAGCGGTGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTACTCAAAAACGCC
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAAAGCATTAGCGGCGCTTTTTCAAAAACGCC
6235931 GCTAAAG
66 GCTAAAG
6235938 GCCCCAAAAA
Statistics
Matches: 135, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
81 7 0.05
82 123 0.91
83 5 0.04
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (81 bp):
TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAAAGCATTAGCGGCGCTTTTTCAAAAACGCC
GCTAAAGACAGAGCAT
Found at i:6235924 original size:123 final size:123
Alignment explanation
Indices: 6235702--6235936 Score: 339
Period size: 123 Copynumber: 1.9 Consensus size: 123
6235692 TTATTATTAC
* * *
6235702 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTTAAAAACGCC
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACACAGCAATACCGGCGCTTCTTTAAAAACGCC
* *
6235767 GCTAAAGATCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGACAAAGCAT
66 GCTAAAGACCAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGACAAAGCAT
* * * * *
6235825 TAGCGGCGCTTTTTCAAAAACGCTGCTAAAAGACAGAGCATTAGCGGTGCTT-TTTCAAAAACGC
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACACAGCAATACCGGCGCTTCTTT-AAAAACGC
*
6235889 CGCTAAAGGCCAGAGCATTAGCGGCGCTTAC-TCAAAAACGCCGCTAAA
65 CGCTAAAGACCAGAGCATTAGCGGCGCTT-CTTCAAAAACGCCGCTAAA
6235937 GGCCCCAAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
122 3 0.03
123 95 0.96
124 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (123 bp):
TAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGACACAGCAATACCGGCGCTTCTTTAAAAACGCC
GCTAAAGACCAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGACAAAGCAT
Found at i:6236761 original size:60 final size:62
Alignment explanation
Indices: 6236638--6236754 Score: 148
Period size: 60 Copynumber: 1.9 Consensus size: 62
6236628 TTGGGATAAT
* * * * *
6236638 AATAAGTTTAACTCTCCAATGTTTACAGATTCTATCAATTTTGTTTTAATTTTAAAAAATTC
1 AATAAATTTAACTCTCCAATCTTTACACATTCTATCAATTTAGTCTTAATTTTAAAAAATTC
* *
6236700 AATAAATTTAACTCT-CAA-CTTTACACATTTTATCAATTTAGTCTTATTTATTAAA
1 AATAAATTTAACTCTCCAATCTTTACACATTCTATCAATTTAGTCTTAATT-TTAAA
6236755 GATTCAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
60 25 0.53
61 8 0.17
62 14 0.30
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.45
Consensus pattern (62 bp):
AATAAATTTAACTCTCCAATCTTTACACATTCTATCAATTTAGTCTTAATTTTAAAAAATTC
Found at i:6236831 original size:22 final size:22
Alignment explanation
Indices: 6236806--6236866 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
6236796 AAAAAGTTTG
*
6236806 TTTTTGATAAAAATACATAAAA
1 TTTTTAATAAAAATACATAAAA
*
6236828 -TTTTAAAAAAAATGACATAAAA
1 TTTTTAATAAAAAT-ACATAAAA
* *
6236850 TTTATTTATTAAAATAC
1 TTT-TTAATAAAAATAC
6236867 TAATTTTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 11 0.35
22 8 0.26
23 4 0.13
24 8 0.26
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (22 bp):
TTTTTAATAAAAATACATAAAA
Found at i:6237989 original size:31 final size:31
Alignment explanation
Indices: 6237954--6238013 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
6237944 CACTGCACCA
6237954 AAAAATTATG-ATGTTAATCTCTATACTTTAC
1 AAAAATTATGAAT-TTAATCTCTATACTTTAC
* *
6237985 AAAAATTATGAATTTAGTCTCTGTACTTT
1 AAAAATTATGAATTTAATCTCTATACTTT
6238014 GATTCGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (31 bp):
AAAAATTATGAATTTAATCTCTATACTTTAC
Found at i:6250962 original size:14 final size:14
Alignment explanation
Indices: 6250917--6250962 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
6250907 TAATTTTATA
6250917 TTTTAGGAATTCAACT
1 TTTTAGGAATT-AA-T
*
6250933 TTTTA--AATTAAA
1 TTTTAGGAATTAAT
6250945 TTTTAGGAATTAAT
1 TTTTAGGAATTAAT
6250959 TTTT
1 TTTT
6250963 CAGAAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 5 0.19
13 2 0.08
14 14 0.54
16 5 0.19
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (14 bp):
TTTTAGGAATTAAT
Found at i:6257730 original size:7 final size:7
Alignment explanation
Indices: 6257720--6257745 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6257710 AGTACATGTG
6257720 ACATGCC
1 ACATGCC
6257727 ACATGCC
1 ACATGCC
6257734 ACATGCC
1 ACATGCC
6257741 ACATG
1 ACATG
6257746 TTATTGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.15
Consensus pattern (7 bp):
ACATGCC
Found at i:6265593 original size:31 final size:33
Alignment explanation
Indices: 6265526--6265595 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 33
6265516 CCGACGGCTC
*
6265526 GCCCGAAATATGGGAGGTTCGGGTAAAAATATAG
1 GCCCGAAATAT-GGAGGTTCGGGCAAAAATATAG
*
6265560 GCCCGAAATAT-GA-GTTTGGGCAAAAA-ATGAG
1 GCCCGAAATATGGAGGTTCGGGCAAAAATAT-AG
6265591 GCCCG
1 GCCCG
6265596 TTTAAAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 2 0.06
31 18 0.55
32 2 0.06
34 11 0.33
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (33 bp):
GCCCGAAATATGGAGGTTCGGGCAAAAATATAG
Found at i:6269724 original size:46 final size:46
Alignment explanation
Indices: 6269657--6269887 Score: 374
Period size: 46 Copynumber: 5.0 Consensus size: 46
6269647 CATGGCAAAG
*
6269657 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACCGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
* *
6269703 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACCGACT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
6269749 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
* *
6269795 TGTAAAAAGTAGGTATAGTATTTCAATAAAGAAAACCATACTGAG-
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
* *
6269840 TGCTGAAAAAGTAGGTATGGTACTTCAGTAAAGAAAACCATACTGAGT
1 TG-TG-AAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
6269888 ATTAGTATTG
Statistics
Matches: 173, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.01
46 133 0.77
47 38 0.22
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
Found at i:6273309 original size:30 final size:30
Alignment explanation
Indices: 6273273--6273343 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
6273263 CTTGGGGGTC
6273273 TATCAGTGCTTTTCCTCGGTTTCTCCCTGG
1 TATCAGTGCTTTTCCTCGGTTTCTCCCTGG
*
6273303 TATCAGTGCTTTTCCTTGGTTTCTCCCTGG
1 TATCAGTGCTTTTCCTCGGTTTCTCCCTGG
*
6273333 TATCGGTGCTT
1 TATCAGTGCTT
6273344 CTTCGTGGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.07, C:0.27, G:0.21, T:0.45
Consensus pattern (30 bp):
TATCAGTGCTTTTCCTCGGTTTCTCCCTGG
Found at i:6273360 original size:30 final size:30
Alignment explanation
Indices: 6273273--6273360 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
6273263 CTTGGGGGTC
*
6273273 TATCAGTGCTTTTCC-TCGGTTTCTCCCTGG
1 TATCAGTGCTTTTCCGT-GGCTTCTCCCTGG
* *
6273303 TATCAGTGCTTTTCCTTGGTTTCTCCCTGG
1 TATCAGTGCTTTTCCGTGGCTTCTCCCTGG
* *
6273333 TATCGGTGCTTCTT-CGTGGCTTGTCCCT
1 TATCAGTGCTT-TTCCGTGGCTTCTCCCT
6273361 TTGATCCATA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
30 49 0.94
31 3 0.06
ACGTcount: A:0.06, C:0.28, G:0.22, T:0.44
Consensus pattern (30 bp):
TATCAGTGCTTTTCCGTGGCTTCTCCCTGG
Found at i:6274104 original size:4 final size:4
Alignment explanation
Indices: 6274097--6274135 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
6274087 ATATATGCAT
6274097 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
6274136 TCCCTAGCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:6274384 original size:43 final size:43
Alignment explanation
Indices: 6274251--6274388 Score: 106
Period size: 43 Copynumber: 3.2 Consensus size: 43
6274241 TACATATTCA
*
6274251 CATTTAAAATTGTTTTCTCTAGCTGAAGTTGCATGTACTTGTG
1 CATTTAAAATTGTTTTCACTAGCTGAAGTTGCATGTACTTGTG
** * * * * * *
6274294 CATTTAAAA--GAATACAGT-GTCTATAAATAT--ATGTACTTATTCA
1 CATTTAAAATTGTTTTCACTAG-CT-GAAGT-TGCATGTACTT-GT-G
*
6274337 CATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTG
1 CATTTAAAATTGTTTTCACTAGCTGAAGTTGCATGTACTTGTG
6274380 CATTTAAAA
1 CATTTAAAA
6274389 GAATACAGTA
Statistics
Matches: 67, Mismatches: 18, Indels: 20
0.64 0.17 0.19
Matches are distributed among these distances:
40 1 0.01
41 14 0.21
42 4 0.06
43 29 0.43
44 4 0.06
45 14 0.21
46 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (43 bp):
CATTTAAAATTGTTTTCACTAGCTGAAGTTGCATGTACTTGTG
Found at i:6274390 original size:86 final size:86
Alignment explanation
Indices: 6274245--6274489 Score: 429
Period size: 86 Copynumber: 2.9 Consensus size: 86
6274235 TGTATATACA
*
6274245 TATTCACATTTAAAATTGTTTTCTCTAGCTGAAGTTGCATGTACTTGTGCATTTAAAAGAATACA
1 TATTCACATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTGCATTTAAAAGAATACA
6274310 GTGTCTATAAATATATGTACT
66 GTGTCTATAAATATATGTACT
6274331 TATTCACATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTGCATTTAAAAGAATACA
1 TATTCACATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTGCATTTAAAAGAATACA
* *
6274396 GTATCTATAAATATATGTATT
66 GTGTCTATAAATATATGTACT
* * *
6274417 TATTCACATTTAAAATTGTTTTCCCTAGCTGAA-TTACATGTACTTGTGCATTGAAAAGAATCCA
1 TATTCACATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTGCATTTAAAAGAATACA
6274481 GTGTCTATA
66 GTGTCTATA
6274490 GCTGTAAAAG
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
85 36 0.24
86 116 0.76
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (86 bp):
TATTCACATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTGCATTTAAAAGAATACA
GTGTCTATAAATATATGTACT
Found at i:6277426 original size:43 final size:43
Alignment explanation
Indices: 6277365--6277449 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
6277355 TCAATTTGGT
* *
6277365 ACCTAAACTTAACACTTTTTCTTAAGTTGGTACTTAATCTTTA
1 ACCTAAACTTAACACTTTTTCTTAAATTGGTACCTAATCTTTA
* *
6277408 ACCTAAACTTGACTCTTTTTCTTAAATTGGTACCTAATCTTT
1 ACCTAAACTTAACACTTTTTCTTAAATTGGTACCTAATCTTT
6277450 TTTTGTTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (43 bp):
ACCTAAACTTAACACTTTTTCTTAAATTGGTACCTAATCTTTA
Found at i:6279109 original size:18 final size:19
Alignment explanation
Indices: 6279062--6279109 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
6279052 TAATATATTA
*
6279062 ATAATATTAATTAGTAAAT
1 ATAATATTATTTAGTAAAT
**
6279081 -TAATAAAATTTA-TAAAT
1 ATAATATTATTTAGTAAAT
6279098 ATAATATTATTT
1 ATAATATTATTT
6279110 TCATTTATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATAATATTATTTAGTAAAT
Found at i:6282501 original size:19 final size:21
Alignment explanation
Indices: 6282458--6282511 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
6282448 ATTCTTTTTC
6282458 ATAAA-TATTTCTAAAAAAACA
1 ATAAATTATTT-TAAAAAAACA
* *
6282479 AT-AATTTTTTTAAAAAAA-T
1 ATAAATTATTTTAAAAAAACA
6282498 ATAAATTATTTTAA
1 ATAAATTATTTTAA
6282512 CTACTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.07
20 20 0.71
21 6 0.21
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAATTATTTTAAAAAAACA
Found at i:6293146 original size:18 final size:18
Alignment explanation
Indices: 6293123--6293166 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
6293113 AATTTTTATG
*
6293123 ATTGGGTTGGGTTGAGTA
1 ATTGGGTTGGGTTGAATA
6293141 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
6293159 CTTGGGTT
1 ATTGGGTT
6293167 TGGATTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:6293590 original size:19 final size:19
Alignment explanation
Indices: 6293566--6293634 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
6293556 TATTCATAAA
*
6293566 AAAGGGAGGAAATCAGTAT
1 AAAGGGAGGAAATCAGTGT
6293585 AAAGGG-GGAAAATCAGTGT
1 AAAGGGAGG-AAATCAGTGT
* ** *
6293604 AAAGAGAAAAAACCAGTGT
1 AAAGGGAGGAAATCAGTGT
6293623 AAAGGGAGGAAA
1 AAAGGGAGGAAA
6293635 AAGAAATCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 2 0.05
19 38 0.95
ACGTcount: A:0.51, C:0.06, G:0.32, T:0.12
Consensus pattern (19 bp):
AAAGGGAGGAAATCAGTGT
Found at i:6294491 original size:23 final size:23
Alignment explanation
Indices: 6294433--6294546 Score: 94
Period size: 23 Copynumber: 5.0 Consensus size: 23
6294423 AAGTTTATTG
6294433 TATATTATTATTTTAGATTTATCA
1 TATATTATTATTTTA-ATTTATCA
* *
6294457 TGTTTTATTATTTGTAATTTATCA
1 TATATTATTATTT-TAATTTATCA
*
6294481 -ATATTATTATTTCAAATTTATCA
1 TATATTATTATTT-TAATTTATCA
* *
6294504 T-TAATATT-TTTAAATTTAT--
1 TATATTATTATTTTAATTTATCA
* *
6294523 TATACTATTATTTTGGATTTATCA
1 TATATTATTATTTT-AATTTATCA
6294547 CGCATGATTA
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
19 1 0.01
20 6 0.08
21 11 0.15
22 9 0.12
23 25 0.34
24 19 0.26
25 2 0.03
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (23 bp):
TATATTATTATTTTAATTTATCA
Found at i:6294543 original size:43 final size:45
Alignment explanation
Indices: 6294407--6294546 Score: 140
Period size: 47 Copynumber: 3.1 Consensus size: 45
6294397 CATTAAATTA
* * *
6294407 ATCATTAATATTATCTAAGTTTATTGTATATTATTATTTTAGATTT
1 ATCATTAATATTATTTAAATTTA-TCTATATTATTATTTTAGATTT
** * * * *
6294453 ATCATGTTTTATTATTTGTAATTTATCAATATTATTATTTCAAATTT
1 ATCAT-TAATATTATTT-AAATTTATCTATATTATTATTTTAGATTT
* *
6294500 ATCATTAATATT-TTTAAATTTAT-TATACTATTATTTTGGATTT
1 ATCATTAATATTATTTAAATTTATCTATATTATTATTTTAGATTT
6294543 ATCA
1 ATCA
6294547 CGCATGATTA
Statistics
Matches: 75, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
43 19 0.25
44 7 0.09
45 3 0.04
46 10 0.13
47 31 0.41
48 5 0.07
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (45 bp):
ATCATTAATATTATTTAAATTTATCTATATTATTATTTTAGATTT
Found at i:6295839 original size:19 final size:19
Alignment explanation
Indices: 6295802--6295839 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
6295792 AGATATCATG
*
6295802 TATTAATAAATTAAAAAAA
1 TATTAATAAATAAAAAAAA
6295821 TATTAA-AAATAAAACAAAA
1 TATTAATAAATAAAA-AAAA
6295840 ACAATGAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
TATTAATAAATAAAAAAAA
Found at i:6296797 original size:6 final size:6
Alignment explanation
Indices: 6296788--6296813 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6296778 ATCTTCATCT
6296788 TCACCA TCACCA TCACCA TCACCA TC
1 TCACCA TCACCA TCACCA TCACCA TC
6296814 TTCAAGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (6 bp):
TCACCA
Found at i:6299516 original size:14 final size:13
Alignment explanation
Indices: 6299497--6299535 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
6299487 AAGTTATTTT
6299497 AGAAAAATGAAAAA
1 AGAAAAA-GAAAAA
6299511 AGAAAAA-AGAAAA
1 AGAAAAAGA-AAAA
6299524 AGAAAAAGAAAA
1 AGAAAAAGAAAA
6299536 GCAAACAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 14 0.61
14 8 0.35
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:6299536 original size:5 final size:6
Alignment explanation
Indices: 6299497--6299535 Score: 51
Period size: 6 Copynumber: 6.0 Consensus size: 6
6299487 AAGTTATTTT
6299497 AGAAAA ATGAAAAA AGAAAAA AGAAAA AGAAAA AGAAAA
1 AGAAAA A-G-AAAA AG-AAAA AGAAAA AGAAAA AGAAAA
6299536 GCAAACAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 17 0.55
7 9 0.29
8 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AGAAAA
Found at i:6300648 original size:16 final size:16
Alignment explanation
Indices: 6300627--6300657 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6300617 ATCCATCTTA
6300627 GCAGGGCTCTTTCCCC
1 GCAGGGCTCTTTCCCC
6300643 GCAGGGCTCTTTCCC
1 GCAGGGCTCTTTCCC
6300658 TGATTTCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.42, G:0.26, T:0.26
Consensus pattern (16 bp):
GCAGGGCTCTTTCCCC
Found at i:6304238 original size:3 final size:3
Alignment explanation
Indices: 6304230--6304292 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
6304220 CTAAATTTCA
*
6304230 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6304278 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
6304293 AATTGCTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6304449 original size:13 final size:13
Alignment explanation
Indices: 6304433--6304463 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6304423 TTTTTTTAAA
6304433 ATATTTATTTTAT
1 ATATTTATTTTAT
*
6304446 ATATGTATTTTAT
1 ATATTTATTTTAT
6304459 ATATT
1 ATATT
6304464 ATGATTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
ATATTTATTTTAT
Found at i:6305118 original size:110 final size:109
Alignment explanation
Indices: 6304919--6305156 Score: 388
Period size: 110 Copynumber: 2.2 Consensus size: 109
6304909 TCAAAAAAGG
6304919 AAAATATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAT-TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * * *
6304984 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATA-TCCTTC
65 GGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCCTTC
*
6305028 TTAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGC
1 --AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
6305093 TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCCTTC
64 TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCCTTC
*
6305139 AAAAATTTCAAAATAAGG
1 AAAATTTTCAAAATAAGG
6305157 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
109 17 0.14
110 93 0.77
111 10 0.08
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (109 bp):
AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCCTTC
Found at i:6306713 original size:19 final size:20
Alignment explanation
Indices: 6306673--6306716 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6306663 GTCTCTTTAG
* *
6306673 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
6306692 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
6306711 GCATTA
1 GCATTA
6306717 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:6309103 original size:16 final size:16
Alignment explanation
Indices: 6309083--6309114 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
6309073 ATCGAAGTAA
6309083 AAAAAAGGAAAAAGAAG
1 AAAAAA-GAAAAAGAAG
6309100 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
6309115 AAAGAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAGAAG
Found at i:6309110 original size:6 final size:6
Alignment explanation
Indices: 6309084--6309130 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
6309074 TCGAAGTAAA
* *
6309084 AAAAAGG AAAAAG -AAGA- AAAAAG AAAAAG AAAAAG AAAAAT AAAAAG
1 AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
6309131 GAGAGGTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
5 6 0.18
6 23 0.68
7 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:6311897 original size:25 final size:25
Alignment explanation
Indices: 6311851--6311900 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6311841 CAGTTAAAAA
* * *
6311851 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
6311876 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
6311901 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:6312022 original size:25 final size:25
Alignment explanation
Indices: 6311976--6312025 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6311966 CAGTTAAAAA
* * *
6311976 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
6312001 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
6312026 ACCGCCCCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:6312148 original size:25 final size:25
Alignment explanation
Indices: 6312102--6312151 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6312092 CAGTTAAAAA
* * *
6312102 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
6312127 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
6312152 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:6312251 original size:125 final size:125
Alignment explanation
Indices: 6311601--6312239 Score: 1179
Period size: 125 Copynumber: 5.1 Consensus size: 125
6311591 CAATTCAAAC
* *
6311601 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
6311666 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* * *
6311726 GATTAAAGCCACATCGGTAAATCTTGATTAAAGCTACAACATCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
6311791 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
6311851 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
*
6311916 CAGTGAAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
6311976 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACCGCCCCAAGCAAT
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTA-CGCCCCAAGCAAT
* *
6312041 GCAGTGAAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTTCGACATTGCAGTTAAAAA
65 GCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
6312102 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
* *
6312167 CAGTGGAACAGATTAAAACCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
6312227 GATTAAAGCCACA
1 GATTAAAGCCACA
6312240 ATGACGAATC
Statistics
Matches: 501, Mismatches: 12, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
125 377 0.75
126 124 0.25
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (125 bp):
GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
Found at i:6312251 original size:251 final size:250
Alignment explanation
Indices: 6311601--6312239 Score: 1179
Period size: 251 Copynumber: 2.6 Consensus size: 250
6311591 CAATTCAAAC
* *
6311601 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
6311666 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTA
* * *
6311731 AAGCCACATCGGTAAATCTTGATTAAAGCTACAACATCGAATCTTACGCCCCAAGCGATGCAGTG
131 AAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATGCAGTG
*
6311796 GAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
196 AAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
6311851 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
*
6311916 CAGTGAAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTA
6311981 AAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACCGCCCCAAGCAATGCAGT
131 AAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTA-CGCCCCAAGCAATGCAGT
*
6312046 GAAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTTCGACATTGCAGTTAAAAA
195 GAAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
6312102 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
* *
6312167 CAGTGGAACAGATTAAAACCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTA
6312232 AAGCCACA
131 AAGCCACA
6312240 ATGACGAATC
Statistics
Matches: 377, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
250 171 0.45
251 206 0.55
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (250 bp):
GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTA
AAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATGCAGTG
AAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
Found at i:6313662 original size:3 final size:3
Alignment explanation
Indices: 6313654--6313728 Score: 141
Period size: 3 Copynumber: 25.0 Consensus size: 3
6313644 ATAAATTTCA
*
6313654 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6313702 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
6313729 AATTGCTTAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6313886 original size:13 final size:13
Alignment explanation
Indices: 6313870--6313900 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6313860 TTTTTTTAAA
6313870 ATATTTATTTTAT
1 ATATTTATTTTAT
*
6313883 ATATGTATTTTAT
1 ATATTTATTTTAT
6313896 ATATT
1 ATATT
6313901 ATGATTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
ATATTTATTTTAT
Found at i:6314552 original size:110 final size:109
Alignment explanation
Indices: 6314354--6314648 Score: 477
Period size: 110 Copynumber: 2.7 Consensus size: 109
6314344 TCAAAAAAGG
6314354 AAAATATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAA-ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * * *
6314419 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATA-TCCTTC
65 GGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCCTTC
*
6314463 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGC
1 --AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
6314528 TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCCTTC
64 TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCCTTC
* *
6314574 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
6314638 GGTTTCGATTT
66 GGTGTCGATTT
6314649 CTCGTTTATC
Statistics
Matches: 174, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
108 28 0.16
109 43 0.25
110 94 0.54
111 9 0.05
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (109 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCCTTC
Found at i:6317431 original size:23 final size:24
Alignment explanation
Indices: 6317368--6317448 Score: 137
Period size: 24 Copynumber: 3.4 Consensus size: 24
6317358 ATTGGCTCGC
6317368 ATGAGCTTCCTGAATATGGCTCTT
1 ATGAGCTTCCTGAATATGGCTCTT
6317392 ATGAGCTTCCTGAATATGGCTCTT
1 ATGAGCTTCCTGAATATGGCTCTT
* *
6317416 ATGAG-TTTCTGAATATGGCTATT
1 ATGAGCTTCCTGAATATGGCTCTT
6317439 ATGAGCTTCC
1 ATGAGCTTCC
6317449 CATTATAAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
23 21 0.40
24 32 0.60
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (24 bp):
ATGAGCTTCCTGAATATGGCTCTT
Found at i:6317486 original size:25 final size:25
Alignment explanation
Indices: 6317458--6317512 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
6317448 CCATTATAAA
6317458 GCTCGGATAAGCTACCCGTT-TCATG
1 GCTCGGATAAGCTACCCGTTAT-ATG
* * * *
6317483 GCTCAGATGAGCTTCCTGTTATATG
1 GCTCGGATAAGCTACCCGTTATATG
6317508 GCTCG
1 GCTCG
6317513 AGAGAGTGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.31
Consensus pattern (25 bp):
GCTCGGATAAGCTACCCGTTATATG
Found at i:6320225 original size:41 final size:43
Alignment explanation
Indices: 6320180--6320356 Score: 185
Period size: 41 Copynumber: 4.3 Consensus size: 43
6320170 TAGCAGATGT
* *
6320180 AGTGCCGGTGAAT-T-AATTCAGACTT-TAAGTCTAGTAGGCTA
1 AGTGCCGGTGAATCTGAA-TCAGACTTATAAGCCTAGCAGGCTA
* *
6320221 AGTGCCGGTG-ATCTGAACCAGA-TTATGAA-ACTAGCAGGCTA
1 AGTGCCGGTGAATCTGAATCAGACTTAT-AAGCCTAGCAGGCTA
* * *
6320262 AGTGCCGGTG-ATTTGAATCAG-GTTATAAACCTAGCAGGCTA
1 AGTGCCGGTGAATCTGAATCAGACTTATAAGCCTAGCAGGCTA
* *
6320303 CGTGCCGGTG-ATCTGAATCAGGC-TATAAGCCTAGCAGGCTA
1 AGTGCCGGTGAATCTGAATCAGACTTATAAGCCTAGCAGGCTA
6320344 AGTGCCGGTGAAT
1 AGTGCCGGTGAAT
6320357 ATGTTAAATT
Statistics
Matches: 117, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.05
41 105 0.90
42 6 0.05
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (43 bp):
AGTGCCGGTGAATCTGAATCAGACTTATAAGCCTAGCAGGCTA
Found at i:6322345 original size:43 final size:44
Alignment explanation
Indices: 6322253--6322345 Score: 102
Period size: 43 Copynumber: 2.1 Consensus size: 44
6322243 TCCCAAACAA
* *
6322253 AAAATTTGGAAATAATAAATTCATAAATCATAAATTTCAAAGTT
1 AAAATTTGGAAATAATAAATTCATAAATCATAAATTTCAAAATC
* *
6322297 AAAATTTTGAAAT-TTAAATTCAT-AATCCA-AAATTTTCAAAATC
1 AAAATTTGGAAATAATAAATTCATAAAT-CATAAA-TTTCAAAATC
*
6322340 CAAATT
1 AAAATT
6322346 GTAAAAACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
42 6 0.14
43 24 0.57
44 12 0.29
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (44 bp):
AAAATTTGGAAATAATAAATTCATAAATCATAAATTTCAAAATC
Found at i:6325361 original size:31 final size:31
Alignment explanation
Indices: 6325322--6325414 Score: 123
Period size: 31 Copynumber: 3.0 Consensus size: 31
6325312 AACGGTCTCA
* *
6325322 AAACTATTCAAAAATTTTCATTTAAGTCACT
1 AAACTATTCGAAAGTTTTCATTTAAGTCACT
* * *
6325353 GAATTATTCGAAAGTTTTCATTTAAGTAACT
1 AAACTATTCGAAAGTTTTCATTTAAGTCACT
* *
6325384 AAACTATTTGAAAGTTTTTATTTAAGTCACT
1 AAACTATTCGAAAGTTTTCATTTAAGTCACT
6325415 TAGTTGTTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (31 bp):
AAACTATTCGAAAGTTTTCATTTAAGTCACT
Found at i:6342232 original size:47 final size:47
Alignment explanation
Indices: 6342143--6342237 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 47
6342133 GTATGACCTG
*
6342143 AAATTTCCTCTTCGAAAAACCATTACTTTAATATACCGTTATTTTTT
1 AAATTTCCTCTTCGAAAAACCATTACTTTAATATACCATTATTTTTT
* * *
6342190 AAATTTCCTCTTCGAGAAATCATTACTTTAATACT-CTATTATTTTTT
1 AAATTTCCTCTTCGAAAAACCATTACTTTAATA-TACCATTATTTTTT
6342237 A
1 A
6342238 GACACTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 42 0.98
48 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (47 bp):
AAATTTCCTCTTCGAAAAACCATTACTTTAATATACCATTATTTTTT
Found at i:6342963 original size:105 final size:105
Alignment explanation
Indices: 6342833--6343043 Score: 413
Period size: 105 Copynumber: 2.0 Consensus size: 105
6342823 TCAATGAGAT
6342833 AAGACAGAAAAACACTCAACACATTTATATACTCATATAACATTATAAAAAATTGACTAATGCAT
1 AAGACAGAAAAACACTCAACACATTTATATACTCATATAACATTATAAAAAATTGACTAATGCAT
6342898 TAATATTACCTATCCAAATTTTTTTAGAAAATAATGATTG
66 TAATATTACCTATCCAAATTTTTTTAGAAAATAATGATTG
*
6342938 AAGACAGAAAAACACTCAACACATTTATATGCTCATATAACATTATAAAAAATTGACTAATGCAT
1 AAGACAGAAAAACACTCAACACATTTATATACTCATATAACATTATAAAAAATTGACTAATGCAT
6343003 TAATATTACCTATCCAAATTTTTTTAGAAAATAATGATTG
66 TAATATTACCTATCCAAATTTTTTTAGAAAATAATGATTG
6343043 A
1 A
6343044 TGTTAACTTT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.32
Consensus pattern (105 bp):
AAGACAGAAAAACACTCAACACATTTATATACTCATATAACATTATAAAAAATTGACTAATGCAT
TAATATTACCTATCCAAATTTTTTTAGAAAATAATGATTG
Found at i:6346584 original size:51 final size:51
Alignment explanation
Indices: 6346529--6346631 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
6346519 AAAAAAGGAA
6346529 TGTGGGGATTCTGAAATCAAATTCAGTGAATAAATGCGAGAATTGGGATTC
1 TGTGGGGATTCTGAAATCAAATTCAGTGAATAAATGCGAGAATTGGGATTC
6346580 TGTGGGGATTCTGAAATCAAATTCAGTGAATAAATGCGAGAATTGGGATTC
1 TGTGGGGATTCTGAAATCAAATTCAGTGAATAAATGCGAGAATTGGGATTC
6346631 T
1 T
6346632 ATCCCAAAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGGGGATTCTGAAATCAAATTCAGTGAATAAATGCGAGAATTGGGATTC
Found at i:6349636 original size:45 final size:45
Alignment explanation
Indices: 6349559--6349644 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
6349549 AGATATTCGG
* * *
6349559 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGA
1 TGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCCGA
*
6349604 TGGAATCAACACATAGCAACCACTTTACTAATCAATGATGT
1 TGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
6349645 TCGGTTCACA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (45 bp):
TGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCCGA
Found at i:6349766 original size:50 final size:48
Alignment explanation
Indices: 6349646--6349837 Score: 195
Period size: 50 Copynumber: 3.9 Consensus size: 48
6349636 CAATGATGTT
* * * *
6349646 CGGTTCACATAGTAGCTTGCACATAGTACTACACATGTTACCATTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA--A-CATC
* * * *
6349697 CGATACACGTAGTAGCCTGCACATAGTACTACATACGTGATCGAACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAC-ATC
* * * *
6349747 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACC-AACA-TC
* *
6349797 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGAC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGAC
6349838 TAGGGGTGAG
Statistics
Matches: 116, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
49 3 0.03
50 78 0.67
51 33 0.28
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (48 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAACATC
Found at i:6349829 original size:100 final size:100
Alignment explanation
Indices: 6349653--6349836 Score: 280
Period size: 100 Copynumber: 1.8 Consensus size: 100
6349643 GTTCGGTTCA
* ** *
6349653 CATAGTAGCTTGCACATAGTACTACACATGTTACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTACA
*
6349718 CATAGTACTACATACGTGATCGAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAACTATCCGGTACG
* *
6349754 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTACA
6349818 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
6349837 CTAGGGGTGA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
99 4 0.05
100 39 0.52
101 32 0.43
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (100 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAACTATCCGGTACG
Found at i:6349998 original size:9 final size:9
Alignment explanation
Indices: 6349981--6350017 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
6349971 TGAGTTTTCG
6349981 AATTCGAAT
1 AATTCGAAT
*
6349990 AACTCGAAT
1 AATTCGAAT
6349999 AATTCGAAT
1 AATTCGAAT
6350008 AATTCGAAT
1 AATTCGAAT
6350017 A
1 A
6350018 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:6351115 original size:5 final size:5
Alignment explanation
Indices: 6351105--6351130 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6351095 CTCGAAAATT
6351105 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
6351131 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:6355791 original size:15 final size:16
Alignment explanation
Indices: 6355771--6355812 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
6355761 GGCCTATTGC
6355771 TTTTTTGGTTTT-CTA
1 TTTTTTGGTTTTCCTA
*
6355786 TTTTTT-GTTTTCCTG
1 TTTTTTGGTTTTCCTA
*
6355801 TTATTTGGTTTT
1 TTTTTTGGTTTT
6355813 TCCTTTCGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 13 0.57
16 5 0.22
ACGTcount: A:0.05, C:0.07, G:0.14, T:0.74
Consensus pattern (16 bp):
TTTTTTGGTTTTCCTA
Found at i:6356527 original size:2 final size:2
Alignment explanation
Indices: 6356522--6356551 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6356512 TCATGTTTTG
*
6356522 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6356552 GAGATTTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6357835 original size:40 final size:40
Alignment explanation
Indices: 6357750--6357835 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 40
6357740 AATAAAAGTT
* * *
6357750 TTTTATTATATTAAAAATACTACCATAAATATAATAAATG
1 TTTTATTATATTAAAAACACTACAATAAATATAATAAATA
6357790 TTTTATTATATTAAAAAC-C-ACAAATAAATATAATAAATA
1 TTTTATTATATTAAAAACACTAC-AATAAATATAATAAATA
6357829 TGTTTAT
1 T-TTTAT
6357836 CAAATATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
38 2 0.05
39 17 0.41
40 22 0.54
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (40 bp):
TTTTATTATATTAAAAACACTACAATAAATATAATAAATA
Found at i:6357952 original size:13 final size:12
Alignment explanation
Indices: 6357936--6357991 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
6357926 ATTGTTAAGT
6357936 TAATGATTTAATA
1 TAAT-ATTTAATA
6357949 TAAT-TATTAATA
1 TAATAT-TTAATA
*
6357961 TATATAATTAATA
1 TA-ATATTTAATA
*
6357974 TAATATTT-TTA
1 TAATATTTAATA
6357985 TAATATT
1 TAATATT
6357992 ATATATCCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 10 0.27
12 13 0.35
13 14 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
TAATATTTAATA
Found at i:6358121 original size:19 final size:19
Alignment explanation
Indices: 6358085--6358121 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6358075 CAACTTCTCT
*
6358085 TTTAAATATTATATTTTTA
1 TTTAAATATTATAATTTTA
*
6358104 TTTAAATATTTTAATTTT
1 TTTAAATATTATAATTTT
6358122 TCGAATTAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTAAATATTATAATTTTA
Found at i:6364782 original size:24 final size:26
Alignment explanation
Indices: 6364740--6364788 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
6364730 AGAATTATAC
*
6364740 ATTTATTATTCATCTA-TTTTATTTT
1 ATTTATTATTCATCCATTTTTATTTT
*
6364765 ATTTATT-TTCCTCCATTTTTATTT
1 ATTTATTATTCATCCATTTTTATTT
6364789 ACTAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.67
Consensus pattern (26 bp):
ATTTATTATTCATCCATTTTTATTTT
Found at i:6377977 original size:24 final size:24
Alignment explanation
Indices: 6377899--6378005 Score: 139
Period size: 24 Copynumber: 4.5 Consensus size: 24
6377889 ATACGGAACA
* *
6377899 AATA-CAGAGAGCACAAATGTGCT
1 AATATCAGAGAGCACCAACGTGCT
***
6377922 AA-A-CAGAGAGCACTGGCGTGCT
1 AATATCAGAGAGCACCAACGTGCT
6377944 AAATATCAGAGAGCACCAACGTGCT
1 -AATATCAGAGAGCACCAACGTGCT
6377969 AATATCAGAGAGCACCAACGTGCT
1 AATATCAGAGAGCACCAACGTGCT
6377993 AATATCAGAGAGC
1 AATATCAGAGAGC
6378006 GCGCTAAAGT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
22 16 0.22
23 4 0.05
24 38 0.51
25 16 0.22
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (24 bp):
AATATCAGAGAGCACCAACGTGCT
Found at i:6378853 original size:12 final size:13
Alignment explanation
Indices: 6378836--6378867 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6378826 GATTTCCATC
6378836 AATTCAAT-CACT
1 AATTCAATCCACT
6378848 AATTC-ATCCACT
1 AATTCAATCCACT
6378860 AATTCAAT
1 AATTCAAT
6378868 ATAAGCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 14 0.78
13 2 0.11
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTCAATCCACT
Found at i:6379032 original size:14 final size:14
Alignment explanation
Indices: 6379013--6379052 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
6379003 AAAACTCTAA
6379013 TTTTC-TTCTTTACT
1 TTTTCTTTCTTT-CT
6379027 TTTTCTTTCTTTC-
1 TTTTCTTTCTTTCT
6379040 -TTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
6379053 CCCCTGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 12 0.50
14 6 0.25
15 6 0.25
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:6379037 original size:4 final size:4
Alignment explanation
Indices: 6379028--6379052 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6379018 TTCTTTACTT
6379028 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
6379053 CCCCTGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:6379064 original size:11 final size:11
Alignment explanation
Indices: 6379048--6379073 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6379038 TCTTTCTTTC
6379048 TTTCTCCCCTG
1 TTTCTCCCCTG
6379059 TTTCTCCCCTG
1 TTTCTCCCCTG
6379070 TTTC
1 TTTC
6379074 GTTTCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:6382160 original size:17 final size:17
Alignment explanation
Indices: 6382138--6382189 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
6382128 TTTTTATTAG
6382138 TAAATAAAAAATTAATA
1 TAAATAAAAAATTAATA
*
6382155 TAAATATTTAATAA-TAATA
1 TAAATA---AAAAATTAATA
*
6382174 TAAATAAAATATTAAT
1 TAAATAAAAAATTAAT
6382190 TATTTTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 3 0.11
17 10 0.36
19 11 0.39
20 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAATAAAAAATTAATA
Found at i:6382177 original size:32 final size:33
Alignment explanation
Indices: 6382107--6382195 Score: 80
Period size: 33 Copynumber: 2.8 Consensus size: 33
6382097 ATATTATTTT
* * *
6382107 TATAAAAAATTTATTAATATATTTTTATTAGTAA
1 TATAAAAAATTAATTAATATA-TTTTAATAATAA
6382141 -ATAAAAAATTAATATAA-ATA-TTTAATAATAA
1 TATAAAAAATTAAT-TAATATATTTTAATAATAA
*
6382172 TATAAATAAAAT-ATTAAT-TATTTT
1 TATAAA-AAATTAATTAATATATTTT
6382196 GTTTGAGGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
31 14 0.30
32 10 0.22
33 19 0.41
34 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (33 bp):
TATAAAAAATTAATTAATATATTTTAATAATAA
Found at i:6387508 original size:21 final size:21
Alignment explanation
Indices: 6387484--6387546 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
6387474 TAGAAACCCG
6387484 TAAGGGTTAAACGGAAGCTCA
1 TAAGGGTTAAACGGAAGCTCA
* * * * *
6387505 TAAGAGCTGAACGGAAACCCA
1 TAAGGGTTAAACGGAAGCTCA
*
6387526 TAAGGGTTAAACTGAAGCTCA
1 TAAGGGTTAAACGGAAGCTCA
6387547 AAAGAGCTAA
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
TAAGGGTTAAACGGAAGCTCA
Found at i:6387522 original size:42 final size:42
Alignment explanation
Indices: 6387461--6387590 Score: 145
Period size: 42 Copynumber: 3.1 Consensus size: 42
6387451 CACAGAAGAA
* ** *
6387461 CATAAGTGCTAAATAGAAACCCGTAAGGGTTAAACGGAAGCT
1 CATAAGAGCTAAACGGAAACCCGTAAGGGTTAAACTGAAGCT
* *
6387503 CATAAGAGCTGAACGGAAACCCATAAGGGTTAAACTGAAGCT
1 CATAAGAGCTAAACGGAAACCCGTAAGGGTTAAACTGAAGCT
* ** * *
6387545 CAAAAGAGCTAAATTGAAACCTAG-AAGGGTTAAACTGAAACT
1 CATAAGAGCTAAACGGAAACC-CGTAAGGGTTAAACTGAAGCT
6387587 CATA
1 CATA
6387591 TAAGTTAATT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (42 bp):
CATAAGAGCTAAACGGAAACCCGTAAGGGTTAAACTGAAGCT
Found at i:6389932 original size:22 final size:23
Alignment explanation
Indices: 6389904--6389947 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6389894 ATGACACAAA
*
6389904 TATTATAT-TTCATATTTTTCAC
1 TATTATATGTTCATATATTTCAC
*
6389926 TATTATATGTTCCTATATTTCA
1 TATTATATGTTCATATATTTCA
6389948 TTATCGTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.27, C:0.14, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTATATGTTCATATATTTCAC
Found at i:6390663 original size:21 final size:21
Alignment explanation
Indices: 6390620--6390663 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6390610 CTATAAAATA
* *
6390620 TAGTTACTATAGCGATGATAT
1 TAGTTACTATAACGATGAGAT
*
6390641 TAGTTACTATAACGGTGAGAT
1 TAGTTACTATAACGATGAGAT
6390662 TA
1 TA
6390664 TCATGTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (21 bp):
TAGTTACTATAACGATGAGAT
Found at i:6392484 original size:9 final size:9
Alignment explanation
Indices: 6392467--6392503 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
6392457 TATAGTTTGA
6392467 TATTCGAAT
1 TATTCGAAT
*
6392476 TATTTGAAT
1 TATTCGAAT
*
6392485 TATTCGAGT
1 TATTCGAAT
6392494 TATTCGAAT
1 TATTCGAAT
6392503 T
1 T
6392504 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:6392622 original size:8 final size:9
Alignment explanation
Indices: 6392601--6392627 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
6392591 AAATTCGAAT
6392601 TTTTTTCGA
1 TTTTTTCGA
6392610 TTTTTTCGA
1 TTTTTTCGA
6392619 TTTTTTCGA
1 TTTTTTCGA
6392628 GTCGAATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (9 bp):
TTTTTTCGA
Found at i:6392969 original size:29 final size:29
Alignment explanation
Indices: 6392905--6392974 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
6392895 ACTACTAAAA
*
6392905 TAGTCACTTTTGTTTGACTCAAGTTACATTT
1 TAGTCACTTATGTTTGA--CAAGTTACATTT
*
6392936 TAGTCACTTATGTTTGA-AATGTTACGTTT
1 TAGTCACTTATGTTTGACAA-GTTACATTT
*
6392965 TAGTCGCTTA
1 TAGTCACTTA
6392975 CGTTATCGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.06
29 17 0.49
31 16 0.46
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATGTTTGACAAGTTACATTT
Found at i:6394026 original size:24 final size:23
Alignment explanation
Indices: 6393989--6394045 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
6393979 TTTTCTTCTT
6393989 TATTT-ATTTTTTTTATGATTTTC
1 TATTTAATTTTTTTTATG-TTTTC
* *
6394012 TATTTAATTTTTTTTGTGTTTTT
1 TATTTAATTTTTTTTATGTTTTC
*
6394035 TATTTACTTTT
1 TATTTAATTTT
6394046 GAAAGATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 19 0.63
24 11 0.37
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (23 bp):
TATTTAATTTTTTTTATGTTTTC
Found at i:6399632 original size:31 final size:31
Alignment explanation
Indices: 6399578--6399651 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
6399568 TGGACAACAA
* * * **
6399578 AAGTTCAAGTCTCAATGTGGGAACTGTTGCC
1 AAGTTCAAGCCCCGATGTGGGAACAATTGCC
* * *
6399609 TAGTTCAGGCCCCGATGTTGGAACAATTGCC
1 AAGTTCAAGCCCCGATGTGGGAACAATTGCC
6399640 AAGTTCAAGCCC
1 AAGTTCAAGCCC
6399652 TAACTTGAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (31 bp):
AAGTTCAAGCCCCGATGTGGGAACAATTGCC
Found at i:6399669 original size:89 final size:90
Alignment explanation
Indices: 6399540--6399710 Score: 200
Period size: 89 Copynumber: 1.9 Consensus size: 90
6399530 CCTAATATGA
* * * * * * * **
6399540 GAACAATTACCAAATTCAAGGACTAACTTGGACAACAAAA-GTTCAAGTCTCAATGTGGGAACTG
1 GAACAATTACCAAATTCAAGCACTAACTTGAAAAAAAAAAGGTTCAAGTCCCAACGTGGAAAAAG
*
6399604 TTGCCTAGTTCAGGCCCCGATGTTG
66 TTGCCAAGTTCAGGCCCCGATGTTG
* * * *
6399629 GAACAATTGCCAAGTTCAAGCCCTAACTTGAAAAAAAAAAGGTTCAGGTCCCAACGTGGAAAAAG
1 GAACAATTACCAAATTCAAGCACTAACTTGAAAAAAAAAAGGTTCAAGTCCCAACGTGGAAAAAG
*
6399694 TTGCCAAGTTTAGGCCC
66 TTGCCAAGTTCAGGCCC
6399711 TAAATGTTGA
Statistics
Matches: 66, Mismatches: 15, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
89 33 0.50
90 33 0.50
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (90 bp):
GAACAATTACCAAATTCAAGCACTAACTTGAAAAAAAAAAGGTTCAAGTCCCAACGTGGAAAAAG
TTGCCAAGTTCAGGCCCCGATGTTG
Found at i:6406660 original size:16 final size:17
Alignment explanation
Indices: 6406639--6406673 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6406629 AATTAATTTA
*
6406639 AATTAATTAATTTT-TC
1 AATTAAATAATTTTCTC
6406655 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
6406672 AA
1 AA
6406674 CACAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:6415587 original size:19 final size:19
Alignment explanation
Indices: 6415552--6415589 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
6415542 CTACATTGCT
*
6415552 TACCCAACCAGCATCATTG
1 TACCCAACAAGCATCATTG
6415571 TACCCAACAAAGC-TCATTG
1 TACCCAAC-AAGCATCATTG
6415590 CACTATCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.21
Consensus pattern (19 bp):
TACCCAACAAGCATCATTG
Found at i:6427985 original size:49 final size:49
Alignment explanation
Indices: 6427913--6428011 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
6427903 GTTTGTGTAT
* *
6427913 TCATAACAATTTGGTACCAAAGCCTATCACAA-TAGGCAATGATGTACTA
1 TCATAACAATTTGGTACCAAAGCCTACCACAAGT-GGCAACGATGTACTA
6427962 TCATAACAATTTGGTACCAAAGCCTACCACAAGTGGCAACGATGTACTA
1 TCATAACAATTTGGTACCAAAGCCTACCACAAGTGGCAACGATGTACTA
6428011 T
1 T
6428012 GTTGTTACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 46 0.98
50 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.25
Consensus pattern (49 bp):
TCATAACAATTTGGTACCAAAGCCTACCACAAGTGGCAACGATGTACTA
Found at i:6430025 original size:121 final size:121
Alignment explanation
Indices: 6429811--6430058 Score: 478
Period size: 121 Copynumber: 2.0 Consensus size: 121
6429801 TGTTCATCCT
6429811 GCCAAAGCTCACCACCTCACCAATAACAGGAACCTTGGCATGGACCATCTGCCATTTGTGAAGTA
1 GCCAAAGCTCACCACCTCACCAATAACAGGAACCTTGGCATGGACCATCTGCCATTTGTGAAGTA
*
6429876 CGCTAACCCATCGTTATACATACTAGGAGAACCTTGTGAAACAGCGTGACTTAAGA
66 CGCTAACCCATCATTATACATACTAGGAGAACCTTGTGAAACAGCGTGACTTAAGA
6429932 GCCAAAGCTCACCACCTCACCAATAACAGGAACCTTGGCATGGACCATCTGCCATTTGTGAAGTA
1 GCCAAAGCTCACCACCTCACCAATAACAGGAACCTTGGCATGGACCATCTGCCATTTGTGAAGTA
*
6429997 CGCTGACCCATCATTATACATACTAGGAGAACCTTGTGAAACAGCGTGACTTAAGA
66 CGCTAACCCATCATTATACATACTAGGAGAACCTTGTGAAACAGCGTGACTTAAGA
6430053 GCCAAA
1 GCCAAA
6430059 ATCCTAACAC
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 125 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (121 bp):
GCCAAAGCTCACCACCTCACCAATAACAGGAACCTTGGCATGGACCATCTGCCATTTGTGAAGTA
CGCTAACCCATCATTATACATACTAGGAGAACCTTGTGAAACAGCGTGACTTAAGA
Found at i:6444882 original size:3 final size:3
Alignment explanation
Indices: 6444874--6444904 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6444864 AAATGATCCT
6444874 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
6444905 AGCCATGGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:6445596 original size:76 final size:76
Alignment explanation
Indices: 6445470--6445621 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
6445460 ATAAAACATA
6445470 AAACAAACATTTAATGGTGCAATTTTAACAAGAGACCGTTTTGCTCACTCATATAACGGATAAGA
1 AAACAAACATTTAATGGTGCAATTTTAACAAGAGACCGTTTTGCTCACTCATATAACGGATAAGA
6445535 ACCAACTTGCT
66 ACCAACTTGCT
6445546 AAACAAACATTTAATGGTGCAATTTTAACAAGAGACCGTTTTGCTCACTCATATAACGGATAAGA
1 AAACAAACATTTAATGGTGCAATTTTAACAAGAGACCGTTTTGCTCACTCATATAACGGATAAGA
6445611 ACCAACTTGCT
66 ACCAACTTGCT
6445622 CCTTTTCAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (76 bp):
AAACAAACATTTAATGGTGCAATTTTAACAAGAGACCGTTTTGCTCACTCATATAACGGATAAGA
ACCAACTTGCT
Found at i:6450128 original size:43 final size:43
Alignment explanation
Indices: 6450081--6450166 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
6450071 AAGAATTGGA
6450081 TAGATTTCATATTGAACTGATGAAAAGTCCATTGACATACAAG
1 TAGATTTCATATTGAACTGATGAAAAGTCCATTGACATACAAG
6450124 TAGATTTCATATTGAACTGATGAAAAGTCCATTGACATACAAG
1 TAGATTTCATATTGAACTGATGAAAAGTCCATTGACATACAAG
6450167 AAATTTTAGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (43 bp):
TAGATTTCATATTGAACTGATGAAAAGTCCATTGACATACAAG
Found at i:6451440 original size:17 final size:16
Alignment explanation
Indices: 6451405--6451439 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6451395 CATATTTTAC
6451405 AAATTTTAATTAATTA
1 AAATTTTAATTAATTA
6451421 AAATATTTAA-TAATTA
1 AAAT-TTTAATTAATTA
6451437 AAA
1 AAA
6451440 AAAACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTTTAATTAATTA
Found at i:6452195 original size:125 final size:126
Alignment explanation
Indices: 6451950--6452514 Score: 726
Period size: 125 Copynumber: 4.5 Consensus size: 126
6451940 AAAATCAAAG
* * * * * * * *
6451950 CAGGATGATTTATCAGAAGAATTTTTGCAGTCGTGCCCACGTGTACGCGCTTTTGCTACAGTAGG
1 CAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
* * *
6452015 TCCTGGAA-AAATTATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTCAAG
66 TCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAC
* * * *
6452075 CAGGATGCTATATTCA-AAGAATTTGTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTCG
1 CAGGATGCTATA-TGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
* * *
6452139 GTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTAC
65 GTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAC
* * *
6452200 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTATAGTAGG
1 CAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
* * * * * *
6452265 TCCT-AAAAAAATTATTTCAAGTTAACGTTTCTGAGCAAATAGTATAAAAAAACGCTTCAAG
66 TCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTCAAC
* * * * * *
6452326 CAGGATGCTATTTGAGAAGAATTTCTGAAATCGCGTCCTCGTAGACGCGCTTTTGCTACAGTTGG
1 CAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
* * *
6452391 TCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTAC
66 TCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAC
* * *
6452451 CAGGACGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAG
1 CAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
6452515 CACGTTTGGG
Statistics
Matches: 376, Mismatches: 58, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
124 38 0.10
125 193 0.51
126 109 0.29
127 36 0.10
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (126 bp):
CAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
TCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAC
Found at i:6452415 original size:251 final size:250
Alignment explanation
Indices: 6451950--6452514 Score: 889
Period size: 251 Copynumber: 2.3 Consensus size: 250
6451940 AAAATCAAAG
* * * * * * *
6451950 CAGGATGATTTATCAGAAGAATTTTTGCAGTCGTGCCCACGTGTACGCGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
** * *
6452015 TCCTGGAAAAATTATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
66 TCCTAAAAAAATTATTTCAAGTTAACATTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
* * * *
6452080 TGCTATATTCAAAGAATTTGTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTCGGTCTTG
131 TGCTATATTCAAAGAATTTCTGAAATCGCGCCCTCCTAGACGCGCTTTTGCTACAGTCGGTCCTA
6452145 GAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
196 GAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
* *
6452200 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTATAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
*
6452265 TCCTAAAAAAATTATTTCAAGTTAACGTTTCTGAGCAAATAGTATAAAAAAACGCTTCAAGCAGG
66 TCCTAAAAAAATTATTTCAAGTTAACATTTCTGAGCAAATAGTAT-AAAAAACGCTTCAAGCAGG
* * * *
6452330 ATGCTAT-TTGAGAAGAATTTCTGAAATCGCGTCCTCGTAGACGCGCTTTTGCTACAGTTGGTCC
130 ATGCTATATTCA-AAGAATTTCTGAAATCGCGCCCTCCTAGACGCGCTTTTGCTACAGTCGGTCC
6452394 TAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
194 TAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
* *
6452451 CAGGACGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
6452515 CACGTTTGGG
Statistics
Matches: 287, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
250 99 0.34
251 188 0.66
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (250 bp):
CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
TCCTAAAAAAATTATTTCAAGTTAACATTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
TGCTATATTCAAAGAATTTCTGAAATCGCGCCCTCCTAGACGCGCTTTTGCTACAGTCGGTCCTA
GAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
Found at i:6454981 original size:25 final size:27
Alignment explanation
Indices: 6454951--6455012 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
6454941 ATTGTAAATT
6454951 ATTAAATA-A-AATTATTTTTCAACTA
1 ATTAAATATATAATTATTTTTCAACTA
* *
6454976 ATTAAATATTATCATTATTTTTCAATTA
1 ATTAAATA-TATAATTATTTTTCAACTA
*
6455004 TTTAAATAT
1 ATTAAATAT
6455013 TATCATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 8 0.26
27 2 0.06
28 21 0.68
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTAAATATATAATTATTTTTCAACTA
Found at i:6454992 original size:28 final size:28
Alignment explanation
Indices: 6454961--6455018 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
6454951 ATTAAATAAA
6454961 ATTATTTTTCAACTAATTAAATATTATC
1 ATTATTTTTCAACTAATTAAATATTATC
* *
6454989 ATTATTTTTCAATTATTTAAATATTATC
1 ATTATTTTTCAACTAATTAAATATTATC
6455017 AT
1 AT
6455019 AATTATTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTATTTTTCAACTAATTAAATATTATC
Done.