Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 33
Found at i:3363975 original size:200 final size:197
Alignment explanation
Indices: 3363590--3364706 Score: 953
Period size: 200 Copynumber: 5.7 Consensus size: 197
3363580 AAAGTTTCCT
* * * * *
3363590 ATAAAGTGTCAATACATTTTTAAAAACGTATTGATCCCTAAAACATCATAATCCATAAATATAAT
1 ATAAAGTGTCGATACA-TTTTAAAAA-GTATCGATCCCAAAAACATCA-AACCCATAATTATAAT
* *
3363655 GTAATAGGTAAATTTACAATGTAACCGGTATAACTAAACCGATTTTATGAGAGAATAGGTCTACA
63 GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGGTTTTATGAGAGAATAGGTCTACA
*
3363720 TAATATATCGACACTTCTGGAATTTGTG-CTGATACTATTTGTCCAGAAGGAATGCCCAAAAAGG
128 TAATGTATCGACACTTCTGGAATTTGTGTC-GATACT-TTTGTCCAGAAGGAATGCCCAAAAAGG
3363784 TGCACCC
191 TGCACCC
3363791 ATAAAGTGTCGATACATGTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATG
1 ATAAAGTGTCGATACAT-TTTAAAAAGTATCGATCCCAAAAACATC-AAACCCATAATTATAATG
* ** * * * * *
3363856 TAATAGGTAATTTTGTAATATAACCGATATAAATATATCGGTTTTATGTGAGAATAGGTCTACAT
64 TAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGGTTTTATGAGAGAATAGGTCTACAT
* * * *
3363921 AATGTGTCGACACTT-TTGAATGTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATGGT
129 AATGTATCGACACTTCTGGAAT-TTGTGTCGATAC-TTTTGTCCAGAAGGAATGCCCAAAAAGGT
* **
3363985 GAACGT
192 GCACCC
* *
3363991 ATAGAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTT-TAAAAAGTATCGATCCCAAAAACATC-AAACCCATAATTATAATG
* * * * * *
3364056 TAATAAGTAAATTTACAATGTAACTGGTATAAATAAACCGGTTTTTTGAGAAAATAGATATACAT
64 TAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGGTTTTATGAGAGAATAGGTCTACAT
* * * * ****
3364121 AATGTATTGACACTTGTGGAATTTGTGTCGATACTTTTGGTCAACAAGGAAAATTCAAAAAGGGT
129 AATGTATCGACACTTCTGGAATTTGTGTCGATACTTTT-GTCCAGAAGGAATGCCCAAAAA-GGT
3364186 GCACCC
192 GCACCC
* ** * *
3364192 ATAAAGTGTCGATACA--TT----A-CATC-AT----AACCCAT-AAA--TATAATGTA-ATAGG
1 ATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCAAACCCATAAT-TATA-ATG
** * ** * * * *
3364241 TAAT-TTTATAATATA-ACCGGT-A----T--AAATATACCGGTTATATGTGAGAATATGTCTAC
64 TAATAGGTA-AATTTACA-ATGTAACCGGTATAAATAAACCGGTTTTATGAGAGAATAGGTCTAC
* * * *
3364297 ATAATGTGTCGACACTT-TTGAATGTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGG
127 ATAATGTATCGACACTTCTGGAAT-TTGTGTCGATAC-TTTTGTCCAGAAGGAATGCCCAAAAAG
* ***
3364361 GTGAATGA
190 GTGCACCC
* * * * *
3364369 ATAAAGTATTGATACATTTATAAAACGTATCGATCCCAAAAACATTGAAACCAATAATTATAATG
1 ATAAAGTGTCGATACATTT-TAAAAAGTATCGATCCCAAAAACA-TCAAACCCATAATTATAATG
* ** ** * **
3364434 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACTTGTTTTATGTTAAAATAGGTGAACAT
64 TAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGGTTTTATGAGAGAATAGGTCTACAT
* * * * * * *
3364499 AATGTATCGACATGTTTTAG-ATTTGTGACGATACTTTTTGTCCAAAATGAATG-CCAAAAGGGT
129 AATGTATCGACA-CTTCTGGAATTTGTGTCGATAC-TTTTGTCCAGAAGGAATGCCCAAAAAGG-
*
3364562 TGCACAC
191 TGCACCC
* *
3364569 ATAAAGTGTCGATACATTTTGTAAAAAGTATCAATCCCAAAAACATCGAAACCGATAATTATAAT
1 ATAAAGTGTCGATACA-TTT-TAAAAAGTATCGATCCCAAAAACATC-AAACCCATAATTATAAT
* ** * * * **
3364634 GTAATATGTAAATTTACAATGTAACCGGTATAAATGTATCAGTTTTATGAGAAAATAGGTGGACA
63 GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGGTTTTATGAGAGAATAGGTCTACA
3364699 TAATGTAT
128 TAATGTAT
3364707 TGATACGTTT
Statistics
Matches: 736, Mismatches: 133, Indels: 94
0.76 0.14 0.10
Matches are distributed among these distances:
177 24 0.03
178 66 0.09
179 5 0.01
180 2 0.00
184 10 0.01
185 18 0.02
186 5 0.01
188 5 0.01
190 4 0.01
191 1 0.00
192 5 0.01
193 18 0.02
194 11 0.01
198 2 0.00
199 21 0.03
200 375 0.51
201 162 0.22
202 2 0.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (197 bp):
ATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCAAACCCATAATTATAATGTA
ATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGGTTTTATGAGAGAATAGGTCTACATAA
TGTATCGACACTTCTGGAATTTGTGTCGATACTTTTGTCCAGAAGGAATGCCCAAAAAGGTGCAC
CC
Found at i:3364534 original size:378 final size:377
Alignment explanation
Indices: 3363839--3364586 Score: 1099
Period size: 378 Copynumber: 2.0 Consensus size: 377
3363829 AAAACATCGA
* * * *
3363839 AACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGATATAAATATATCGGTTTTATG
1 AACCCATAAATATAATGTAATAGGTAATTTTATAATATAACCGATATAAATATACCGGTTATATG
3363904 TGAGAATAGGTCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACATTTTGTCCAGAAT
66 TGAGAATAGGTCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACATTTTGTCCAGAAT
* * * *
3363969 GAATGCCCAAAATGGTGAACGTATAGAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAAC
131 GAATGCCCAAAAGGGTGAACGAATAAAGTATCGATACATTTATAAAAAGTATCGATCCCAAAAAC
* *
3364034 ATCAAAACCGATAATTATAATGTAATAAGTAAATTTACAATGTAACTGGTATAAATAAACCGGTT
196 ATCAAAACCAATAATTATAATGTAATAAGTAAATTTACAATGTAACCGGTATAAATAAACCGGTT
* * * *
3364099 TTTTGAGAAAATAGATATACATAATGTATTGACACTTGTGGAATTTGTGTCGATACTTTTGGT-C
261 TTATGAGAAAATAGATATACATAATGTATCGACACTTGTAGAATTTGTGACGATACTTTTGGTCC
* *
3364163 AACAAGGAAAATTCAAAAAGGG-TGCACCCATAAAGTGTCGATACATTACATCAT
326 AA-AAGG--AATGCAAAAAGGGTTGCACACATAAAGTGTCGATACATTACATCAT
*
3364217 AACCCATAAATATAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTATATG
1 AACCCATAAATATAATGTAATAGGTAATTTTATAATATAACCGATATAAATATACCGGTTATATG
* *
3364282 TGAGAATATGTCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACTTTTTGTCCAGAAT
66 TGAGAATAGGTCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACATTTTGTCCAGAAT
* * *
3364347 GAATGCCCAAAAGGGTGAATGAATAAAGTATTGATACATTTATAAAACGTATCGATCCCAAAAAC
131 GAATGCCCAAAAGGGTGAACGAATAAAGTATCGATACATTTATAAAAAGTATCGATCCCAAAAAC
** * * **
3364412 ATTGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTTGTT
196 ATCAAAACCAATAATTATAATGTAATAAGTAAATTTACAATGTAACCGGTATAAATAAACCGGTT
** * * * *
3364477 TTATGTTAAAATAGGTGA-ACATAATGTATCGACATGTTTTAG-ATTTGTGACGATACTTTTTGT
261 TTATGAGAAAATAGAT-ATACATAATGTATCGACA-CTTGTAGAATTTGTGACGATACTTTTGGT
* *
3364540 CCAAAATGAATGCCAAAAGGGTTGCACACATAAAGTGTCGATACATT
324 CCAAAAGGAATGCAAAAAGGGTTGCACACATAAAGTGTCGATACATT
3364587 TTGTAAAAAG
Statistics
Matches: 330, Mismatches: 36, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
376 11 0.03
377 24 0.07
378 287 0.87
379 8 0.02
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (377 bp):
AACCCATAAATATAATGTAATAGGTAATTTTATAATATAACCGATATAAATATACCGGTTATATG
TGAGAATAGGTCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACATTTTGTCCAGAAT
GAATGCCCAAAAGGGTGAACGAATAAAGTATCGATACATTTATAAAAAGTATCGATCCCAAAAAC
ATCAAAACCAATAATTATAATGTAATAAGTAAATTTACAATGTAACCGGTATAAATAAACCGGTT
TTATGAGAAAATAGATATACATAATGTATCGACACTTGTAGAATTTGTGACGATACTTTTGGTCC
AAAAGGAATGCAAAAAGGGTTGCACACATAAAGTGTCGATACATTACATCAT
Found at i:3364681 original size:201 final size:198
Alignment explanation
Indices: 3364217--3364735 Score: 630
Period size: 201 Copynumber: 2.6 Consensus size: 198
3364207 ATTACATCAT
* * * * * * *
3364217 AACCCATAAATATAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTATATG
1 AACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATA-CAGTTTTATG
* * ** * * *
3364282 TGAGAATATGTCTACATAATGTGTCGACACTTTT-GAATGTTGTGTCGATACTTTTTGTCCAGAA
65 TGAAAATAGGTGAACATAATGTATCGACAGTTTTAG-AT-TTGTGTCGATACTTTTTGTCCAAAA
* * * *
3364346 TGAATGCCCAAAAGGGTGAATGAATAAAGTATTGATACATTTATAAAACGTATCGATCCCAAAAA
128 TGAATGCCCAAAAGGGTGAATCAATAAAGTATCGATACATTTATAAAAAGTATCAATCCCAAAAA
*
3364411 CATTGA
193 CATCGA
*
3364417 AACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTTGTTTTATG
1 AACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATAC-AGTTTTATG
* *
3364482 TTAAAATAGGTGAACATAATGTATCGACATGTTTTAGATTTGTGACGATACTTTTTGTCCAAAAT
65 TGAAAATAGGTGAACATAATGTATCGACA-GTTTTAGATTTGTGTCGATACTTTTTGTCCAAAAT
* * *
3364547 GAATG-CCAAAAGGGTTGCA-CACATAAAGTGTCGATACATTTTGTAAAAAGTATCAATCCCAAA
129 GAATGCCCAAAAGGG-TGAATCA-ATAAAGTATCGATACA-TTTATAAAAAGTATCAATCCCAAA
3364610 AACATCGA
191 AACATCGA
* * *
3364618 AACCGATAATTATAATGTAATATGTAAATTTACAATGTAACCGGTATAAATGTATCAGTTTTATG
1 AACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATA-CAGTTTTATG
* * * * *
3364683 AGAAAATAGGTGGACATAATGTATTGATACGTTTTAGATTTGTGTCAATACTT
65 TGAAAATAGGTGAACATAATGTATCGACA-GTTTTAGATTTGTGTCGATACTT
3364736 GTAAATAACG
Statistics
Matches: 276, Mismatches: 36, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
199 11 0.04
200 125 0.45
201 138 0.50
202 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (198 bp):
AACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACAGTTTTATGT
GAAAATAGGTGAACATAATGTATCGACAGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGA
ATGCCCAAAAGGGTGAATCAATAAAGTATCGATACATTTATAAAAAGTATCAATCCCAAAAACAT
CGA
Found at i:3367182 original size:200 final size:199
Alignment explanation
Indices: 3366684--3367729 Score: 1133
Period size: 200 Copynumber: 5.2 Consensus size: 199
3366674 TGTTATTTAC
* *
3366684 AAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGTTA-ACCTATTTTCTCATAAAACCG
1 AAGTATCGACACAAATTC-AAAA-GTGTCGATACATTATG-TAGACCTATTCTCACATAAAACCG
* * * *
3366747 GTACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTT
63 GTATATTTATACCGATTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* *
3366812 TGGGATCGATACTTTTTACAAAATGTATCGACACTTTATGTGTGCAACCCTTTT-GGCATTCATT
128 TGGGATCGATACTTTTTA-AAAATGTATCGACACTTTATGCGTTC-ACCCTTTTGGGCATTCATT
* *
3366876 TTGGAAAAA
191 CTGGACAAA
** * * *
3366885 AAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAA-TGG
1 AAGTATCGACACAAATTC-AAAA-GTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGG
* * * *
3366948 ATATATTTATACCTG-TTACATTTTAAATTTACCTATTACATTATTATTATTGGTTTCAATGTTT
64 -TATATTTATACC-GATTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * * *
3367012 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCATTCACCCTTTTGGGCATTCATTC
127 TTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTC
3367077 TGGACAAA
192 TGGACAAA
* * * * * *
3367085 AAGTATCAACACAACATTCAAAAGTGTTGACACATTATTTAGACATATTCTCACATATAACCGGT
1 AAGTATCGACACAA-ATTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGT
* * * * * *
3367150 ATATTTATATCGATTATATTATAAAATTACCTATTACATTATATTTATGGGTTAT-GATGTTTTA
65 ATATTTATACCGATTACATTATAAATTTACCTATTACATTATAATTATCGGTT-TCGATGTTTTT
* * *
3367214 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGT-ACCCTTTTTGG-ATTTTCCTT
129 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGT-TCACCCTTTTGGGCA--TTCATT
* *
3367277 GTGGACCAA
191 CTGGACAAA
* * * * * * * * * **
3367286 AAGTATCGACACAAATTCCACAACTGTCAATACATTATGCATATCTATTTTCTCAAAAAATTGGT
1 AAGTATCGACACAAATT-CAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGT
* * *
3367351 TTATTTATACC-AGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTT
65 ATATTTATACCGA-TTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* * * * *
3367415 GGGAT-GATACTTTTTATAAATGTATCGACACTCTATGCATTCACCATTTTGGGCATTCATTCTA
129 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTG
3367479 GACAAA
194 GACAAA
* * * * *
3367485 ATGTATCGACACAAGATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATTAAATCGAT
1 AAGTATCGACACAA-ATTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGT
* * * * * *
3367550 ATATTTATACCGGTTATATTACAAAATTACTTATTACATTATAATTATGGGTTTCGATGTTTTTG
65 ATATTTATACCGATTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * * * *
3367615 GGATCAATACTTTTTAAACATGTATCGACACTTTATGGGTGCACCTTTTTGGGCATTCCTTCTGG
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGG
3367680 ACAAA
195 ACAAA
* * * *
3367685 TAGTATCAACACAAATTCCAGAAGTGTCTATACATTATGTAGACC
1 AAGTATCGACACAAATT-CAAAAGTGTCGATACATTATGTAGACC
3367730 GACTGTGAGG
Statistics
Matches: 702, Mismatches: 122, Indels: 43
0.81 0.14 0.05
Matches are distributed among these distances:
199 131 0.19
200 318 0.45
201 250 0.36
202 3 0.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (199 bp):
AAGTATCGACACAAATTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTA
TATTTATACCGATTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGG
GATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGGA
CAAA
Found at i:3367578 original size:400 final size:397
Alignment explanation
Indices: 3366684--3367723 Score: 1326
Period size: 400 Copynumber: 2.6 Consensus size: 397
3366674 TGTTATTTAC
* * * *
3366684 AAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGTTA-ACCTATTTTCTCATAAAACCG
1 AAGTATCGACACAAATTC-AAAA-GTGTCGACACATTATG-TAGACCTATTCTCACATTAAACCG
* * * * **
3366747 GTACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTT
63 GTATATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* *
3366812 TGGGATCGATACTTTTTACAAAATGTATCGACACTTTATGTGTGCAACCC-TTTTGGCATTCATT
128 TGGGATCGATACTTTTTA-AAAATGTATCGACACTTTATGGGTG-AACCCTTTTTGG-ATTCCTT
* * * * *
3366876 TTGGAAAAAAAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACA
190 CTGG-ACAAAAGTATCGACACAAATTCCAAAAC-TGTCAATACATTATGATCACCTATTTTAACA
* * * * **
3366940 TAAAATGGATATATTTATACCTGTTACATTTTAAATTTACCTATTACATTATTATTATTGGTTTC
253 AAAAATGGATATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTC
* * *
3367005 AATGTTTTTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCATTCACCCTTTTGGGCA
318 AATGTTTTTGGGATCGATACATTTTATAAATGTATCGACACTCTATGCATTCACCATTTTGGGCA
*
3367070 TTCATTCTGGACAAA
383 TTCATTCTAGACAAA
* * * *
3367085 AAGTATCAACACAACATTCAAAAGTGTTGACACATTATTTAGACATATTCTCACA-TATAACCGG
1 AAGTATCGACACAA-ATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATTA-AACCGG
* * *
3367149 TATATTTATATCGATTATATTATAAAATTACCTATTACATTATATTTATGGGTTAT-GATGTTTT
64 TATATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATGGGTT-TCGATGTTTT
* * *
3367213 AGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGTACCCTTTTTGGATTTTCCTTG
128 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGAACCCTTTTTGGA--TTCCTTC
* * **
3367278 TGGACCAAAAGTATCGACACAAATTCCACAACTGTCAATACATTATGCAT-ATCTATTTTCTCAA
191 TGGA-CAAAAGTATCGACACAAATTCCAAAACTGTCAATACATTATG-ATCACCTATTTTAACAA
*
3367342 AAAATTGG-TTTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTC
254 AAAA-TGGATATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTC
* *
3367406 GATGTTTTTGGGAT-GATACTTTTTATAAATGTATCGACACTCTATGCATTCACCATTTTGGGCA
318 AATGTTTTTGGGATCGATACATTTTATAAATGTATCGACACTCTATGCATTCACCATTTTGGGCA
3367470 TTCATTCTAGACAAA
383 TTCATTCTAGACAAA
* * *
3367485 ATGTATCGACACAAGATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATTAAATCGAT
1 AAGTATCGACACAA-ATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATTAAACCGGT
* *
3367550 ATATTTATACCGGTTATATTACAAAATTACTTATTACATTATAATTATGGGTTTCGATGTTTTTG
65 ATATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* * *
3367615 GGATCAATACTTTTTAAACATGTATCGACACTTTATGGGTGCA-CCTTTTTGGGCATTCCTTCTG
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGAACCCTTTTT-GG-ATTCCTTCTG
* * * *
3367679 GACAAATAGTATCAACACAAATTCCAGAAGTGTCTATACATTATG
193 GACAAA-AGTATCGACACAAATTCCAAAACTGTCAATACATTATG
3367724 TAGACCGACT
Statistics
Matches: 557, Mismatches: 65, Indels: 36
0.85 0.10 0.05
Matches are distributed among these distances:
398 4 0.01
399 57 0.10
400 247 0.44
401 231 0.41
402 16 0.03
403 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (397 bp):
AAGTATCGACACAAATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATTAAACCGGTA
TATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
GATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGAACCCTTTTTGGATTCCTTCTGGAC
AAAAGTATCGACACAAATTCCAAAACTGTCAATACATTATGATCACCTATTTTAACAAAAAATGG
ATATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCAATGTTTT
TGGGATCGATACATTTTATAAATGTATCGACACTCTATGCATTCACCATTTTGGGCATTCATTCT
AGACAAA
Found at i:3367997 original size:15 final size:15
Alignment explanation
Indices: 3367977--3368008 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3367967 TGGTTGTATT
3367977 GGGGGATGACGGTGA
1 GGGGGATGACGGTGA
*
3367992 GGGGGATGATGGTGA
1 GGGGGATGACGGTGA
3368007 GG
1 GG
3368009 AAAAATAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.62, T:0.16
Consensus pattern (15 bp):
GGGGGATGACGGTGA
Found at i:3368280 original size:66 final size:66
Alignment explanation
Indices: 3368154--3368280 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
3368144 GGATGTGGAA
** * *
3368154 GAAAAAATTGATAGAGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAACTTAAGATGGTGATGGG
1 GAAAAAATTGATAGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGATGGG
3368219 T
66 T
* * * * *
3368220 GAAAAAATTGATGGAGTGGTG-AAGGAGATTGTGGAATTGAGGAGTGAACTTACGGGGGTGA
1 GAAAAAATTGATAGAGTGGTGAAAGAAG-TTGAGGAATTGAGGAGTGAACTTAAGAGGGTGA
3368281 AGGGGGTGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 5 0.10
66 46 0.90
ACGTcount: A:0.33, C:0.02, G:0.40, T:0.24
Consensus pattern (66 bp):
GAAAAAATTGATAGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGATGGG
T
Found at i:3369997 original size:19 final size:19
Alignment explanation
Indices: 3369973--3370021 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
3369963 AATGTAGGGT
3369973 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
3369992 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
3370011 TAATTTTGTAT
1 TAATTTTGTAT
3370022 GTGGATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3370717 original size:200 final size:201
Alignment explanation
Indices: 3370363--3371703 Score: 1432
Period size: 202 Copynumber: 6.8 Consensus size: 201
3370353 GTATGCATAT
* *
3370363 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAATATAATGTAATA
* ** * * * *
3370428 GGTAATTTTGTAATATACCCAGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * ** *** *
3370493 ATCAACACTTTTTCATAA--TGTGTCGATACTTTTTATCCTA-AATTAATGCCC-AAAATTATGA
131 ATCGACAC-TTTT-AGAATTTGTGTCGATACTTTTTGTCC-AGAAGGAATGCCCAAAAAGGGTGC
3370554 ACGCATAAA
193 ACGCATAAA
** *
3370563 GTGTCGATACATTTATTGAAAGTGTCGATCCCAGAAACATCAAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAATATAATGTAATA
* * * *
3370628 GGTAAATTTACAATGTAACCGGTATAAGTAAACCAGCTTTATGAGAGAATAGGTCTACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
*
3370693 ATCGACACTTCTAGAATTTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAAGGGTGCAC
131 ATCGACACTTTTAGAATTTGTGTCGATACTT-TTTGTCCAGAAGGAATGCCCAAAAAGGGTGCAC
* *
3370757 ACAAAAA
195 GCATAAA
*
3370764 GTGTCGATACATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAAATATAATGTAAT
1 GTGTCGATACATTTATAAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAAATATAATGTAAT
* * * * * *
3370829 ATGTAAATTTACAATGTAACCAGTATAACTAAACCTGTTTTATGAGATAATAGGTCTACATAATG
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATG
*
3370894 TATCGACACTTTTGGAATTTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAAGGGTGCA
130 TATCGACACTTTTAGAATTTGTGTCGATACTT-TTTGTCCAGAAGGAATGCCCAAAAAGGGTGCA
*
3370958 CGCAAAAA
194 CGCATAAA
* * *
3370966 GTGTCGATACATTTATAAACAAGTATCGATCCCAGAAATATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTATAAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAAATATAATGTAAT
* * * * * *
3371031 ATG-AAATTTTTCAATGTAACCGATATACATATACCAGTTTTATAAGAGAATAGGTCTACA-ATA
65 AGGTAAA-TTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA-A
* * * *
3371094 TGTATCGACACTTGT-GTAATTTGTGTCAATACTTTTGGTCCAGAAAGAATGCCCAAAAAGGGTG
128 TGTATCGACACTTTTAG-AATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGGTG
* *
3371158 CA-TCATTAA
192 CACGCATAAA
** ** * * *
3371167 GTGTCGAT-C----CCAAAAA----C-AT--C-GAAAC-TC-ATAA-TTATAATGTATTAGGTAA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGA-AACCCATAA-ATATAATGTAA
* * * *
3371216 T---T---TTT-TAATATAACCTGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAAT
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAAT
* * * * * * * * *
3371274 GTATCGACACTTTT-TATTTTTTGTCGATACCTTTTGTCCAAAATGAATGCCC-AAAATGATGAA
129 GTATCGACACTTTTAGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGGTGCA
3371337 CGCATAAA
194 CGCATAAA
** *
3371345 GTGTCGATACATTTATTGAAAGTGTCGATACCAGAAACATCGAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAATATAATGTAATA
* *
3371410 GGTAAATTTACAATGTAACTGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTACA-ACATG
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA-ATG
*
3371474 TATCGACACTTGT-GAAATTTGTGTCGATACTTTTTGTCCAGAAGGAATG-CC-AAAAGGGTTGC
130 TATCGACACTTTTAG-AATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGG-TGC
*
3371536 ACGCATAAG
193 ACGCATAAA
* * * * *
3371545 GTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAATATAATGTAATA
* * * * *
3371610 GGTAAATTTCCAATGTAACTGGTTTAAATATACCGGTTTTATGAGAAAATAGGTC-ATCATAAAG
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTA-CATAATG
*
3371674 TATCGACAATTGTTA-AATTTGTGTCGATAC
130 TATCGACACTT-TTAGAATTTGTGTCGATAC
3371704 CATTTTAAAT
Statistics
Matches: 966, Mismatches: 130, Indels: 90
0.81 0.11 0.08
Matches are distributed among these distances:
177 8 0.01
178 43 0.04
179 57 0.06
180 4 0.00
183 3 0.00
185 5 0.01
186 13 0.01
187 5 0.01
188 3 0.00
190 3 0.00
191 6 0.01
192 13 0.01
193 5 0.01
195 3 0.00
196 3 0.00
198 7 0.01
199 72 0.07
200 323 0.33
201 49 0.05
202 339 0.35
203 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (201 bp):
GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAATATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
ATCGACACTTTTAGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGGTGCACG
CATAAA
Found at i:3371481 original size:580 final size:581
Alignment explanation
Indices: 3370582--3371703 Score: 1546
Period size: 580 Copynumber: 1.9 Consensus size: 581
3370572 CATTTATTGA
* *
3370582 AAGTGTCGATCCCAGAAACATCAAAACCCATAAATATAATGTAATAGGTAAATTTACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCAAAACCCATAAATATAATGTAATAGGTAAATTTACAATATAAC
*
3370647 CGGTATAAGTAAACCAGCTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTAGAATTT
66 CGGTATAAATAAACCAGCTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTAGAATTT
* * * *
3370712 GTGTCGATATTGTTTGTCCAGAAGGAATGCCCAAAAAGGGTGCACACAAAAAGTGTCGATACATT
131 GTGTCGATACTGTTTGTCCAAAAGGAATGCCCAAAAAGGATGAACACAAAAAGTGTCGATACATT
* *
3370777 TATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAAATATAATGTAATATGTAAATTTACA
196 TATAAACAAGTATCGATACCAGAAACATCGAAACCCATAAATATAATGTAATAGGTAAATTTACA
* * *
3370842 ATGTAACCAGTATAACTAAACCTGTTTTATGAGATAATAGGTCTACATAATGTATCGACACTTTT
261 ATGTAACCAGTATAACTAAACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTGT
*
3370907 GGAATTTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAAGGG-TGCACGCAAAAAGTGT
326 GAAATTTGTGTCGATACTT-TTTGTCCAGAAGGAATG-CC-AAAAGGGTTGCACGCAAAAAGTGT
* * *
3370970 CGATACATTTATAAACAAGTATCGATCCCAGAAATATCGAAACCCATAATTATAATGTAATATG-
388 CGATACATTTATAAA-AAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* * * *
3371034 AAATTTTTCAATGTAACCGATATACATATACCAGTTTTATAAGAGAATAGGTC-TACA-ATATGT
452 AAA-TTTCCAATGTAACCGATATAAATATACCAGTTTTATAAGAAAATAGGTCAT-CATA-AAGT
*
3371097 ATCGACACTTGTGT-AATTTGTGTCAATACTTTTGGTCCAGAAAGAATGCCCAAAAAGGGTGCAT
514 ATCGACAATTGT-TAAATTTGTGTCAATACTTTTGGTCCAGAAAGAATGCCCAAAAAGGGTGCAT
3371161 CATT
578 CATT
* * * * * **
3371165 AAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTATTAGGTAATTTTTTAATATAAC
1 AAGTGTCGATCCCAAAAACATCAAAACCCATAAATATAATGTAATAGGTAAATTTACAATATAAC
* * * * * ** *
3371230 CTGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTATCGACACTT-TTTATTTT
66 CGGTATAAATAAACCAGCTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTAGAATTT
* * * * *
3371294 TTGTCGATACCT-TTTGTCCAAAATGAATGCCC-AAAATGATGAACGCATAAAGTGTCGATACAT
131 GTGTCGATA-CTGTTTGTCCAAAAGGAATGCCCAAAAAGGATGAACACAAAAAGTGTCGATACAT
** *
3371357 TTATTGA-AAGTGTCGATACCAGAAACATCGAAACCCATAAATATAATGTAATAGGTAAATTTAC
195 TTATAAACAAGTATCGATACCAGAAACATCGAAACCCATAAATATAATGTAATAGGTAAATTTAC
** *
3371421 AATGTAACTGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTACA-ACATGTATCGACACTT
260 AATGTAACCAGTATAACTAAACCGGTTTTATGAGAGAATAGGTCTACATA-ATGTATCGACACTT
* *
3371485 GTGAAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCAAAAGGGTTGCACGCATAAGGTGTC
324 GTGAAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCAAAAGGGTTGCACGCAAAAAGTGTC
* * * *
3371550 GATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATAGGTAA
389 GATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAA
* * * * *
3371615 ATTTCCAATGTAACTGGTTTAAATATACCGGTTTTATGAGAAAATAGGTCATCATAAAGTATCGA
454 ATTTCCAATGTAACCGATATAAATATACCAGTTTTATAAGAAAATAGGTCATCATAAAGTATCGA
*
3371680 CAATTGTTAAATTTGTGTCGATAC
519 CAATTGTTAAATTTGTGTCAATAC
3371704 CATTTTAAAT
Statistics
Matches: 472, Mismatches: 59, Indels: 21
0.86 0.11 0.04
Matches are distributed among these distances:
577 1 0.00
578 120 0.25
579 36 0.08
580 144 0.31
581 33 0.07
582 31 0.07
583 107 0.23
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (581 bp):
AAGTGTCGATCCCAAAAACATCAAAACCCATAAATATAATGTAATAGGTAAATTTACAATATAAC
CGGTATAAATAAACCAGCTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTAGAATTT
GTGTCGATACTGTTTGTCCAAAAGGAATGCCCAAAAAGGATGAACACAAAAAGTGTCGATACATT
TATAAACAAGTATCGATACCAGAAACATCGAAACCCATAAATATAATGTAATAGGTAAATTTACA
ATGTAACCAGTATAACTAAACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTGT
GAAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCAAAAGGGTTGCACGCAAAAAGTGTCGA
TACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAT
TTCCAATGTAACCGATATAAATATACCAGTTTTATAAGAAAATAGGTCATCATAAAGTATCGACA
ATTGTTAAATTTGTGTCAATACTTTTGGTCCAGAAAGAATGCCCAAAAAGGGTGCATCATT
Found at i:3373187 original size:3 final size:3
Alignment explanation
Indices: 3373155--3373207 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
3373145 CAAGAGGTCA
* * * *
3373155 ATG AAG ATG AAG ATG ACG ATG AAT- ATG ATG ATG ATG ATG ATG ATT
1 ATG ATG ATG ATG ATG ATG ATG -ATG ATG ATG ATG ATG ATG ATG ATG
3373200 ATG ATG AT
1 ATG ATG AT
3373208 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.28, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:3375338 original size:201 final size:199
Alignment explanation
Indices: 3374664--3375832 Score: 1309
Period size: 200 Copynumber: 5.8 Consensus size: 199
3374654 AAAGTTTCCT
* * * * *
3374664 ATAAAGTGTCAATACATTTTTAAAAACGTATTGATCCCTAAAACATCAAAATCCATAATTATAAC
1 ATAAAGTGTCGATACATTTTTAAAAA-GTATCGATCCCAAAAACATCAAAACCCATAATTATAAT
* * * * * * *
3374729 GTAATAGGTAAATTTACAAAGTAACCGGTATAACTAAACCGATTTTATGAGAGAATAGGTCTACA
65 GTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACA
* * *
3374794 TAATATATCGACACTTTTGGAATTTGTGTCGATACTATTTGTCCAGAAGGAATGCCCAAAAA-GG
130 TAATGTATCGACACTTTTAGAATTTGTGTCGATACT-TTTGTCCAGAATGAATG-CCAAAAAGGG
3374858 TGCACCC
193 TGCACCC
* *
3374865 ATAAAGTGTCGATACATGTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATG
1 ATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATG
* * ** * ** * * * *
3374930 TAATAGATAATTTTGTAATATAACTGGTATAAATATACCGACTTTAGGTGAGAATAGGTCTACAT
66 TAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACAT
* * *
3374995 AATGTGTCGACACTTTT-GAATGTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATGGT
131 AATGTATCGACACTTTTAGAAT-TTGTGTCGATAC-TTTTGTCCAGAATGAATGCCAAAAAGGGT
* *
3375059 GAACGC
194 GCACCC
* * * *
3375065 ATAGAGTATCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATG
* * * * *
3375130 TAATAGGTAAATTTACAATGTATCTGGTATAAATAAACTGGTTTTTTGAGAAAATAGATATACAT
66 TAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACAT
* * * * *
3375195 AATGTATTGACACTTGTGGAATTTGTGTCGATACTTTTGGTCCACAAGGAAAAT-CCAAAAAGGG
131 AATGTATCGACACTTTTAGAATTTGTGTCGATACTTTT-GTCCAGAATG--AATGCCAAAAAGGG
3375259 TGCACCC
193 TGCACCC
* * * *
3375266 ATAAAGTGTCGATATATTTTTAAAAAGTATCGATCCCTAAAACATCATAACCCATAAATATAATG
1 ATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATG
* * * * * * * * *
3375331 TAATAGGTAATTTTATAATATAA-TCGGTATAAATATACCGGTTATATGTGAGAATATGTCTATA
66 TAATAGGTAAATTTACAATGTAACT-GGTATAAATATACCGGTTTTATGAGAAAATAGGTATACA
* *
3375395 TAATGTGTCGACACTTTT-GAATATTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGG
130 TAATGTATCGACACTTTTAGAAT-TTGTGTCGATAC-TTTTGTCCAGAATGAATGCCAAAAAGGG
* ***
3375459 TGAATGA
193 TGCACCC
* * *
3375466 ATAAAGTGTCGATACATTTATAAAACGTATCGATCCCAAAAACAT-AGAAACCAATAATTATAAT
1 ATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCA-AAACCCATAATTATAAT
** * **
3375530 GTAATAGGTAAATTTACAATGTAACCAGTATAAATGTACTC-GTTTTATGTTAAAATAGGTGA-A
65 GTAATAGGTAAATTTACAATGTAACTGGTATAAATATAC-CGGTTTTATGAGAAAATAGGT-ATA
* *
3375593 CATAATGTATCGACACATTTTAG-ATTTGTGTCGATACTTTTTGTTCAAAATGAATGCC-AAAAG
128 CATAATGTATCGACAC-TTTTAGAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCAAAAAG
* *
3375656 GGTTACACAC
191 GG-TGCACCC
* * * **
3375666 ATAAAGTGTCGATACATTTTGTAAAAAGTATTGATCCCAAAAATATCGAAACTGATAATTATAAT
1 ATAAAGTGTCGATACATTTT-TAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAAT
* *
3375731 GTAATAGGTAAATTTACAATGTAACTGGTATAAATGTACTGGTTTTATGAGAAAATAGGTGA-AC
65 GTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATAGGT-ATAC
3375795 ATAATGTATCGACACGTTTTAG-ATTTGTGTCGATACTT
129 ATAATGTATCGACAC-TTTTAGAATTTGTGTCGATACTT
3375833 GTAAATAATG
Statistics
Matches: 819, Mismatches: 128, Indels: 43
0.83 0.13 0.04
Matches are distributed among these distances:
199 25 0.03
200 467 0.57
201 319 0.39
202 8 0.01
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (199 bp):
ATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATG
TAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACAT
AATGTATCGACACTTTTAGAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAAAAGGGTGC
ACCC
Found at i:3375831 original size:401 final size:397
Alignment explanation
Indices: 3374664--3375832 Score: 1508
Period size: 401 Copynumber: 2.9 Consensus size: 397
3374654 AAAGTTTCCT
* * * * *
3374664 ATAAAGTGTCAATACATTTTTAAAAACGTATTGATCCCTAAAACATCAAAATCCATAATTATAAC
1 ATAAAGTGTCGATACATTTAT-AAAACGTATCGATCCCAAAAACATCAAAA-CCATAATTATAAT
* * * *
3374729 GTAATAGGTAAATTTACAAAGTAACCGGTATAACTAAAC-CGATTTTATGAGAGAATAGGTCTAC
64 GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACTCG-TTTTATGAGAAAATAGGT-AAC
* * * *
3374793 ATAATATATCGACACTTTTGGAATTTGTGTCGATACTATTTGTCCAGAAGGAATGCCCAAAAAGG
127 ATAATGTATCGACACTTTTGGAATTTGTGTCGATACTTTTTGTCCAAAAGGAATG-CCAAAAGGG
*
3374858 TGCACCCATAAAGTGTCGATACATGTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAAT
191 TGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAAT
* * ** *
3374923 TATAATGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGACTTTAGGTGAGAATAGG
256 TATAATGTAATAGGTAATTTTATAATATAACTGGTATAAATATACCGGTTTTATGTGAGAATAGG
* *
3374988 TCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAA
321 TCTACATAATGTGTCGACACTTTTGAATATTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAA
* *
3375053 AATGGTGAACGC
386 AAGGGTGAACGA
* * *
3375065 ATAGAGTATCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATAAAACGTATCGATCCCAAAAACATCAAAACC-ATAATTATAATG
* * * * *
3375130 TAATAGGTAAATTTACAATGTATCTGGTATAAATAAACTGGTTTTTTGAGAAAATAGATATACAT
65 TAATAGGTAAATTTACAATGTAACCGGTATAAATAAACTCGTTTTATGAGAAAATAGGTA-ACAT
* * * *
3375195 AATGTATTGACACTTGTGGAATTTGTGTCGATACTTTTGGTCCACAAGGAAAAT-CCAAAAAGGG
129 AATGTATCGACACTTTTGGAATTTGTGTCGATACTTTTTGTCCAAAAGG--AATGCC-AAAAGGG
* *
3375259 TGCACCCATAAAGTGTCGATATATTTTTAAAAAGTATCGATCCCTAAAACATC-ATAACCCATAA
191 TGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGA-AACCCATAA
* *
3375323 ATATAATGTAATAGGTAATTTTATAATATAA-TCGGTATAAATATACCGGTTATATGTGAGAATA
255 TTATAATGTAATAGGTAATTTTATAATATAACT-GGTATAAATATACCGGTTTTATGTGAGAATA
* *
3375387 TGTCTATATAATGTGTCGACACTTTTGAATATTGTGTCGATACTTTTTGTCCAGAATGAATGCCC
319 GGTCTACATAATGTGTCGACACTTTTGAATATTGTGTCGATACTTTTTGTCCAGAATGAATGCCC
*
3375452 AAAAGGGTGAATGA
384 AAAAGGGTGAACGA
3375466 ATAAAGTGTCGATACATTTATAAAACGTATCGATCCCAAAAACAT-AGAAACCAATAATTATAAT
1 ATAAAGTGTCGATACATTTATAAAACGTATCGATCCCAAAAACATCA-AAACC-ATAATTATAAT
* ** **
3375530 GTAATAGGTAAATTTACAATGTAACCAGTATAAATGTACTCGTTTTATGTTAAAATAGGTGAACA
64 GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACTCGTTTTATGAGAAAATAGGT-AACA
* * *
3375595 TAATGTATCGACACATTTTAG-ATTTGTGTCGATACTTTTTGTTCAAAATGAATGCCAAAAGGGT
128 TAATGTATCGACAC-TTTTGGAATTTGTGTCGATACTTTTTGTCCAAAAGGAATGCCAAAAGGG-
* * * * **
3375659 TACACACATAAAGTGTCGATACATTTTGTAAAAAGTATTGATCCCAAAAATATCGAAACTGATAA
191 TGCACCCATAAAGTGTCGATACATTTT-TAAAAAGTATCGATCCCAAAAACATCGAAACCCATAA
* * * * * * *
3375724 TTATAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATGTACTGGTTTTATGAGAAAATAG
255 TTATAATGTAATAGGTAATTTTATAATATAACTGGTATAAATATACCGGTTTTATGTGAGAATAG
** *
3375789 GTGAACATAATGTATCGACACGTTTT-AGAT-TTGTGTCGATACTT
320 GTCTACATAATGTGTCGACAC-TTTTGA-ATATTGTGTCGATACTT
3375833 GTAAATAATG
Statistics
Matches: 666, Mismatches: 84, Indels: 36
0.85 0.11 0.05
Matches are distributed among these distances:
399 12 0.02
400 164 0.25
401 474 0.71
402 16 0.02
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (397 bp):
ATAAAGTGTCGATACATTTATAAAACGTATCGATCCCAAAAACATCAAAACCATAATTATAATGT
AATAGGTAAATTTACAATGTAACCGGTATAAATAAACTCGTTTTATGAGAAAATAGGTAACATAA
TGTATCGACACTTTTGGAATTTGTGTCGATACTTTTTGTCCAAAAGGAATGCCAAAAGGGTGCAC
CCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAA
TGTAATAGGTAATTTTATAATATAACTGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTAC
ATAATGTGTCGACACTTTTGAATATTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGG
TGAACGA
Found at i:3380314 original size:125 final size:125
Alignment explanation
Indices: 3380150--3380391 Score: 380
Period size: 125 Copynumber: 1.9 Consensus size: 125
3380140 ACATAAAGTA
* *
3380150 TCGATACAATTATTAAAAGTATCGATCCCAATAAAATCGAAACCGATAATTATAATGTAATATGT
1 TCGATACAATTATTAAAAGTATCGATCCCAATAAAATCGAAACCGATAATTACAATGTAATAGGT
* *
3380215 AAATTTACAATGTAACTGATATAAATATATCT-GTTTTATGAGAAAATAGGTCATCTATTG
66 AAATTTACAATGTAACTGATAGAAATATA-CTGGTTTTATGAAAAAATAGGTCATCTATTG
* *
3380275 TCGATACATTTATTAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTACAATGTGATAGG
1 TCGATACAATTATTAAAAGTATCGATCCCAATAAA-ATCGAAACCGATAATTACAATGTAATAGG
* *
3380339 TAAATTTACAATGTACCTTATAGAAATATACTGGTTTTATGAAAAAATAGGTC
65 TAAATTTACAATGTAACTGATAGAAATATACTGGTTTTATGAAAAAATAGGTC
3380392 TAAATAATGT
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
124 5 0.05
125 102 0.95
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (125 bp):
TCGATACAATTATTAAAAGTATCGATCCCAATAAAATCGAAACCGATAATTACAATGTAATAGGT
AAATTTACAATGTAACTGATAGAAATATACTGGTTTTATGAAAAAATAGGTCATCTATTG
Found at i:3380702 original size:87 final size:87
Alignment explanation
Indices: 3380591--3380752 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 87
3380581 AAATAGGTCA
* * * * * *
3380591 ATATATGCGCTACTTATTATATTATATAAGCGCTACCTAATTTGTTATTGTACTTTATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTAATAATATTT
3380656 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
3380678 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTAATAATATTT
3380743 CCGGTTAAAT
66 CCGGTTAAAT
3380753 AATATAACAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTAATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:3380725 original size:23 final size:23
Alignment explanation
Indices: 3380675--3380719 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3380665 TGCCTATTTT
*
3380675 ATTATATAAGCACTACCTATTAC
1 ATTATATAAGCACTACCTAATAC
*
3380698 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCACTACCTAATA
3380720 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCACTACCTAATAC
Found at i:3381307 original size:7 final size:7
Alignment explanation
Indices: 3381295--3381319 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3381285 GGGTTTCCTC
3381295 AATTTTG
1 AATTTTG
3381302 AATTTTG
1 AATTTTG
3381309 AATTTTG
1 AATTTTG
3381316 AATT
1 AATT
3381320 GGGAAACTTG
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:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (7 bp):
AATTTTG
Found at i:3383848 original size:284 final size:286
Alignment explanation
Indices: 3383334--3383909 Score: 1084
Period size: 284 Copynumber: 2.0 Consensus size: 286
3383324 GCATTGCCTA
*
3383334 CAATATTTGCTGCAAAATTGCAAGGTGTTGCCAAGCTAGCATCTGTACATGCGTTTCTTGCCCAT
1 CAATATTTGCTGCAAAATTGCAAGGTGTTGCC-A-CTAGCATCTGTACATGCGTTTCTTGCCCAC
3383399 GGTTTTCTGGTAAAGCCATTGTTTCAGAAAATTGTGGTGCAATGTGGCTCGGACATATTATTGAG
64 GGTTTTCTGGTAAAGCCATTGTTTCAGAAAATTGTGGTGCAATGTGGCTCGGACATATTATTGAG
*
3383464 TAGCTCCCAGGATGGGGTCCTTTTACCAAGGAGTCAACCCCTTAACAAATCAAAGAAAGGGCTTA
129 TAGCTCCCAGGATGGGGTCCTTTTACCAAGGAGTCAACCCCTTAACAAATCAAAGAAAGGGCTCA
3383529 ATACACTGAATAGAGGTATATGTGATCATAATTCATAATTATGCTGGAATACTAACTTCTGAATC
194 ATACACTGAATAGAGGTATATGTGATCATAATTCATAATTATGCTGGAATACTAACTTCTGAATC
3383594 ATTTGGCAATAGTTGCATGCGTTGGTTT
259 ATTTGGCAATAGTTGCATGCGTTGGTTT
*
3383622 CAATATTTGCTGCAAAATTGCAAGGTGTTG-C-CTAGCATCTGTGCATGCGTTTCTTGCCCACGG
1 CAATATTTGCTGCAAAATTGCAAGGTGTTGCCACTAGCATCTGTACATGCGTTTCTTGCCCACGG
*
3383685 TTTTCTTGTAAAGCCATTGTTTCAGAAAATTGTGGTGCAATGTGGCTCGGACATATTATTGAGTA
66 TTTTCTGGTAAAGCCATTGTTTCAGAAAATTGTGGTGCAATGTGGCTCGGACATATTATTGAGTA
3383750 GCTCCCAGGATGGGGTCCTTTTACCAAGGAGTCAACCCCTTAACAAATCAAAGAAAGGGCTCAAT
131 GCTCCCAGGATGGGGTCCTTTTACCAAGGAGTCAACCCCTTAACAAATCAAAGAAAGGGCTCAAT
3383815 ACACTGAATAGAGGTATATGTGATCATAATTCATAATTATGCTGGAATACTAACTTCTGAATCAT
196 ACACTGAATAGAGGTATATGTGATCATAATTCATAATTATGCTGGAATACTAACTTCTGAATCAT
3383880 TTGGCAATAGTTGCATGCGTTGGTTT
261 TTGGCAATAGTTGCATGCGTTGGTTT
3383906 CAAT
1 CAAT
3383910 GTGTGGTAAA
Statistics
Matches: 284, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
284 253 0.89
287 1 0.00
288 30 0.11
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (286 bp):
CAATATTTGCTGCAAAATTGCAAGGTGTTGCCACTAGCATCTGTACATGCGTTTCTTGCCCACGG
TTTTCTGGTAAAGCCATTGTTTCAGAAAATTGTGGTGCAATGTGGCTCGGACATATTATTGAGTA
GCTCCCAGGATGGGGTCCTTTTACCAAGGAGTCAACCCCTTAACAAATCAAAGAAAGGGCTCAAT
ACACTGAATAGAGGTATATGTGATCATAATTCATAATTATGCTGGAATACTAACTTCTGAATCAT
TTGGCAATAGTTGCATGCGTTGGTTT
Found at i:3407050 original size:32 final size:32
Alignment explanation
Indices: 3407009--3407105 Score: 128
Period size: 32 Copynumber: 3.1 Consensus size: 32
3406999 GAGTCGAGGG
3407009 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
3407041 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
3407072 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
3407104 TT
1 TT
3407106 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:3407081 original size:31 final size:31
Alignment explanation
Indices: 3407008--3407108 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 31
3406998 AGAGTCGAGG
3407008 GTTTACCTATGTTCT-ACGGAACATATGGACA
1 GTTTACCTATGTTCTAAC-GAACATATGGACA
**
3407039 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAACGA-ACATATGGACA
* *
3407071 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAACGAACATATGGACA
3407102 GTTTACC
1 GTTTACC
3407109 GAGGATCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTAACGAACATATGGACA
Found at i:3407140 original size:30 final size:30
Alignment explanation
Indices: 3407096--3407189 Score: 145
Period size: 30 Copynumber: 3.1 Consensus size: 30
3407086 AAGGAACATA
3407096 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
3407127 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * *
3407157 TGGATAGTTACCGAGG-TCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
3407186 TGGA
1 TGGA
3407190 TAGGTCCTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 15 0.25
30 38 0.63
31 7 0.12
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:3412062 original size:32 final size:32
Alignment explanation
Indices: 3412021--3412117 Score: 119
Period size: 32 Copynumber: 3.1 Consensus size: 32
3412011 GAGTCGAGGG
*
3412021 TTTACCTATGTTCTACGGAACATATGGATAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
3412053 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
3412084 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
3412116 TT
1 TT
3412118 ACCGAGGATC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
31 26 0.48
32 28 0.52
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:3412093 original size:31 final size:31
Alignment explanation
Indices: 3412020--3412120 Score: 116
Period size: 31 Copynumber: 3.2 Consensus size: 31
3412010 AGAGTCGAGG
*
3412020 GTTTACCTATGTTCT-ACGGAACATATGGATA
1 GTTTACCTATGTTCTAAC-GAACATATGGACA
**
3412051 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAACGA-ACATATGGACA
* *
3412083 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAACGAACATATGGACA
3412114 GTTTACC
1 GTTTACC
3412121 GAGGATCTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
31 32 0.54
32 27 0.46
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (31 bp):
GTTTACCTATGTTCTAACGAACATATGGACA
Found at i:3412152 original size:30 final size:30
Alignment explanation
Indices: 3412108--3412201 Score: 145
Period size: 30 Copynumber: 3.1 Consensus size: 30
3412098 AAGGAACATA
3412108 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
3412139 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * *
3412169 TGGATAGTTACCGAGG-TCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
3412198 TGGA
1 TGGA
3412202 TAGGTCCTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 15 0.25
30 38 0.63
31 7 0.12
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:3413889 original size:27 final size:24
Alignment explanation
Indices: 3413857--3413903 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
3413847 TTGTAATTTA
3413857 TTATGATGATAAAATTATATTTTT
1 TTATGATGATAAAATTATATTTTT
3413881 TTATGATGATAAAATTATATTTT
1 TTATGATGATAAAATTATATTTT
3413904 AACTCCTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (24 bp):
TTATGATGATAAAATTATATTTTT
Found at i:3415109 original size:29 final size:29
Alignment explanation
Indices: 3415007--3415115 Score: 87
Period size: 29 Copynumber: 3.7 Consensus size: 29
3414997 ATGATGATAG
* *
3415007 TTTGAGGATGAAATTAGAATGTTAAAAAGGT
1 TTTGA-GATCAAATTAGAATGTTCAAAA-GT
* * *
3415038 TTTG-GATCAATTTAGAATGAGGATCATAA-T
1 TTTGAGATCAAATTAGAAT---GTTCAAAAGT
* * *
3415068 GTAGAGATGAAATTAGAATGTTCAAAAGT
1 TTTGAGATCAAATTAGAATGTTCAAAAGT
3415097 TTTGAGATCAAATTAGAAT
1 TTTGAGATCAAATTAGAAT
3415116 AAGAGTCACA
Statistics
Matches: 59, Mismatches: 14, Indels: 12
0.69 0.16 0.14
Matches are distributed among these distances:
28 6 0.10
29 29 0.49
30 3 0.05
31 16 0.27
32 5 0.08
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (29 bp):
TTTGAGATCAAATTAGAATGTTCAAAAGT
Found at i:3415145 original size:60 final size:60
Alignment explanation
Indices: 3415021--3415155 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 60
3415011 AGGATGAAAT
* * * * * * *
3415021 TAGAATGTTAAAAAGGTTTTGGATCAATTTAGAATGAGGATCATAATGTAGAGATGAAAT
1 TAGAATGTTAAAAAGGTTTTGGATCAAATTAGAATAAGGATCACAATGTAAAAATAAAAC
* *
3415081 TAGAATGTTCAAAA-GTTTTGAGATCAAATTAGAATAA-GAGTCACAATTTAAAAATAAAAC
1 TAGAATGTTAAAAAGGTTTTG-GATCAAATTAGAATAAGGA-TCACAATGTAAAAATAAAAC
3415141 TAGAATGTTTAAAAA
1 TAGAATG-TTAAAAA
3415156 TTAGAGACCA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
59 8 0.13
60 48 0.77
61 6 0.10
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.30
Consensus pattern (60 bp):
TAGAATGTTAAAAAGGTTTTGGATCAAATTAGAATAAGGATCACAATGTAAAAATAAAAC
Found at i:3416813 original size:19 final size:20
Alignment explanation
Indices: 3416784--3416830 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
3416774 AACAATTTTC
*
3416784 TTTTG-AAATCAAAATG-GA
1 TTTTGAAAATCAAAATGAAA
3416802 TTTTGAAAATCAAAATGAAA
1 TTTTGAAAATCAAAATGAAA
3416822 TTTTGAAAA
1 TTTTGAAAA
3416831 ATGATTTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 5 0.19
19 11 0.42
20 10 0.38
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.34
Consensus pattern (20 bp):
TTTTGAAAATCAAAATGAAA
Found at i:3425077 original size:35 final size:35
Alignment explanation
Indices: 3425031--3425097 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
3425021 AAGCTGAAGC
*
3425031 ACAAACGTGAATTACATGGGGAATGTTAGTGTCTT
1 ACAAACGTGAATTACATGGAGAATGTTAGTGTCTT
*
3425066 ACAAACGTGAATTGCATGGAGAATGTTAGTGT
1 ACAAACGTGAATTACATGGAGAATGTTAGTGT
3425098 ATAGAATGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (35 bp):
ACAAACGTGAATTACATGGAGAATGTTAGTGTCTT
Found at i:3431266 original size:87 final size:86
Alignment explanation
Indices: 3431133--3431291 Score: 255
Period size: 87 Copynumber: 1.8 Consensus size: 86
3431123 CGCGCCTTTT
** *
3431133 ATTATGCACGTTGAATTATTGGTACTCCATTATTACATGAGCCTGAAAACTTGGCTTTTAAACGC
1 ATTATGCACGTTGAATTATTGGTACTCCATTATTACACAAGCCTGAAAACTTAGCTTTTAAACGC
3431198 TCTCCCTTGATCCGTGCCTTCC
66 TC-CCCTTGATCCGTGCCTTCC
* * *
3431220 ATTATGCATGTTGAATTATTGGTACTCCATTATTACCCAAGCCTGAAAACTTAGCTTTTAAATGC
1 ATTATGCACGTTGAATTATTGGTACTCCATTATTACACAAGCCTGAAAACTTAGCTTTTAAACGC
3431285 TCCCCTT
66 TCCCCTT
3431292 CCCCCTATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
86 5 0.08
87 61 0.92
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.36
Consensus pattern (86 bp):
ATTATGCACGTTGAATTATTGGTACTCCATTATTACACAAGCCTGAAAACTTAGCTTTTAAACGC
TCCCCTTGATCCGTGCCTTCC
Found at i:3431439 original size:21 final size:20
Alignment explanation
Indices: 3431414--3431463 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
3431404 TATAAGGTAA
*
3431414 AATTATTTTTTTATTATA-TT
1 AATTATTTTATT-TTATATTT
3431434 ATATTATATTTATTTTATATTT
1 A-ATTAT-TTTATTTTATATTT
3431456 AATTATTT
1 AATTATTT
3431464 GAATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.12
21 15 0.58
22 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTATTTTATTTTATATTT
Found at i:3432454 original size:60 final size:60
Alignment explanation
Indices: 3432353--3432469 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 60
3432343 CATTTGACAC
* * * * *
3432353 GATGCCTTCAAGTTCCAAGGGGAGGCATTTAACTGCGAGTTTCTTTGACCTCAATGTTGA
1 GATGCCTTCAAGTTCCAAGGGGAGGCATTCAACTACCAGTTTCTTCGACCTAAATGTTGA
*
3432413 GATGCCTTCAAGTT-CAAGGGGAAGGCATTCAACTACCAGTTTGTTCGACCTAAATGT
1 GATGCCTTCAAGTTCCAAGGGG-AGGCATTCAACTACCAGTTTCTTCGACCTAAATGT
3432470 CGACATTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
59 7 0.14
60 43 0.86
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (60 bp):
GATGCCTTCAAGTTCCAAGGGGAGGCATTCAACTACCAGTTTCTTCGACCTAAATGTTGA
Found at i:3437655 original size:79 final size:79
Alignment explanation
Indices: 3437544--3437701 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 79
3437534 GATACCGAAA
* *
3437544 GGGGGTATCCATATTGTGAGGAATGTATCGATACTATTGATTACAGAATGCAAAAATGGTATCGA
1 GGGGGTATCCATATTGTGACGAAGGTATCGATACTATTGATTACAGAATGCAAAAATGGTATCGA
3437609 TACCGTCTTAGAGT
66 TACCGTCTTAGAGT
3437623 GGGGGTATCCATATTGTGACGAAGGTATCGATACTATTGATTACAGAATGCAAAAATGGTATCGA
1 GGGGGTATCCATATTGTGACGAAGGTATCGATACTATTGATTACAGAATGCAAAAATGGTATCGA
3437688 TACCGTCTTAGAGT
66 TACCGTCTTAGAGT
3437702 ATCAGTACCA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (79 bp):
GGGGGTATCCATATTGTGACGAAGGTATCGATACTATTGATTACAGAATGCAAAAATGGTATCGA
TACCGTCTTAGAGT
Found at i:3437710 original size:19 final size:19
Alignment explanation
Indices: 3437688--3437751 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
3437678 ATGGTATCGA
3437688 TACCGTCTTAGAGTATCAG
1 TACCGTCTTAGAGTATCAG
* *
3437707 TACCATAGTATAGTAGTATC-G
1 TACCGT-CT-TAG-AGTATCAG
3437728 ATACCGTCTTAGAGTATCAG
1 -TACCGTCTTAGAGTATCAG
3437748 TACC
1 TACC
3437752 ATAGTATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
19 15 0.42
20 5 0.14
21 5 0.14
22 11 0.31
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (19 bp):
TACCGTCTTAGAGTATCAG
Found at i:3437732 original size:22 final size:22
Alignment explanation
Indices: 3437699--3437775 Score: 83
Period size: 22 Copynumber: 3.6 Consensus size: 22
3437689 ACCGTCTTAG
3437699 AGTATCAGTACCATAGTATAGT
1 AGTATCAGTACCATAGTATAGT
* *
3437721 AGTATC-GATACCGT-CT-TAG-
1 AGTATCAG-TACCATAGTATAGT
3437740 AGTATCAGTACCATAGTATAGT
1 AGTATCAGTACCATAGTATAGT
3437762 AGTATC-GATACCAT
1 AGTATCAG-TACCAT
3437776 GGTAGGGGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
19 11 0.24
20 5 0.11
21 6 0.13
22 23 0.51
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (22 bp):
AGTATCAGTACCATAGTATAGT
Found at i:3437738 original size:41 final size:41
Alignment explanation
Indices: 3437681--3437773 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
3437671 TGCAAAAATG
3437681 GTATCGATACCGTCTTAGAGTATCAGTACCATAGTATAGTA
1 GTATCGATACCGTCTTAGAGTATCAGTACCATAGTATAGTA
3437722 GTATCGATACCGTCTTAGAGTATCAGTACCATAGTATAGTA
1 GTATCGATACCGTCTTAGAGTATCAGTACCATAGTATAGTA
3437763 GTATCGATACC
1 GTATCGATACC
3437774 ATGGTAGGGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (41 bp):
GTATCGATACCGTCTTAGAGTATCAGTACCATAGTATAGTA
Found at i:3438391 original size:55 final size:56
Alignment explanation
Indices: 3438115--3438375 Score: 346
Period size: 57 Copynumber: 4.6 Consensus size: 56
3438105 TCCAAATGGC
* * * *
3438115 ACTAAGTGTGCAAAGAGTTAATAAATTCATACTAAGTGTATGAATTTCCATATGGGA
1 ACTATGTGTGCAAAAAG-TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGA
* * * *
3438172 AATATGTGTGCAAAAAGTTAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGGC
1 ACTATGTGTGCAAAAAG-TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGA
* *
3438229 ACTATGTGTGCAAAAAGTTAATAAATTCATACTAAGTGTATGAATTTCCGTATGGGC
1 ACTATGTGTGCAAAAAG-TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGA
*
3438286 ACTATGTGTGCAAAAA-TAAGAAATTCATACTAAGTGTGTGAATTTCCGTATGGGA
1 ACTATGTGTGCAAAAAGTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGA
* * * *
3438341 ACTATATGTGTAAACA-TAAGAAATTCATAATAAGT
1 ACTATGTGTGCAAAAAGTAAGAAATTCATACTAAGT
3438376 AGGTGAATTT
Statistics
Matches: 185, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
55 67 0.36
57 118 0.64
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (56 bp):
ACTATGTGTGCAAAAAGTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGA
Found at i:3443452 original size:23 final size:23
Alignment explanation
Indices: 3443426--3443469 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
3443416 GGGTTCTACA
3443426 TGGTCCTTCGGGA-TAATTCTATG
1 TGGTCCTTCGGGACT-ATTCTATG
3443449 TGGTCCTTCGGGACTATTCTA
1 TGGTCCTTCGGGACTATTCTA
3443470 CGCGGAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (23 bp):
TGGTCCTTCGGGACTATTCTATG
Found at i:3451194 original size:18 final size:20
Alignment explanation
Indices: 3451157--3451194 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3451147 TCTTAAAAAT
3451157 AAATAAATATAGAAAGAGAA
1 AAATAAATATAGAAAGAGAA
*
3451177 AAATATATA-AGAAA-AGAA
1 AAATAAATATAGAAAGAGAA
3451195 GGGTCGGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (20 bp):
AAATAAATATAGAAAGAGAA
Found at i:3451927 original size:119 final size:119
Alignment explanation
Indices: 3451725--3451952 Score: 411
Period size: 119 Copynumber: 1.9 Consensus size: 119
3451715 GCTACCAACT
* *
3451725 GATTCTTCCTCCCAACTATAAATCAGATCAACTTTCGAATCAACGATCTCTTTTTGATTTGAAAA
1 GATTCTTCCTCCCAACTATAAATCAGATCAACTCTCGAATCAACGAGCTCTTTTTGATTTGAAAA
*
3451790 CATTTTCATTTTAAAAAGATAGGTCGATTACCAATCTTATTCCTACTACCAGTC
66 CATTTTCATTTTAAAAAGATAGGTCGATTACCAATCATATTCCTACTACCAGTC
**
3451844 GATTCTTCCTTGCAACTATAAATCAGATCAACTCTCGAATCAACGAGCTCTTTTTGATTTGAAAA
1 GATTCTTCCTCCCAACTATAAATCAGATCAACTCTCGAATCAACGAGCTCTTTTTGATTTGAAAA
3451909 CATTTTCATTTTAAAAAGATAGGTCGATTACCAATCATATTCCT
66 CATTTTCATTTTAAAAAGATAGGTCGATTACCAATCATATTCCT
3451953 CCATAAAATT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 104 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (119 bp):
GATTCTTCCTCCCAACTATAAATCAGATCAACTCTCGAATCAACGAGCTCTTTTTGATTTGAAAA
CATTTTCATTTTAAAAAGATAGGTCGATTACCAATCATATTCCTACTACCAGTC
Found at i:3454085 original size:21 final size:21
Alignment explanation
Indices: 3454059--3454110 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3454049 GCGGCGATGG
3454059 CATCTGAACC-AACTGCGGTGT
1 CATCTG-ACCTAACTGCGGTGT
* *
3454080 CATCTGACCTGACTGCGGTGC
1 CATCTGACCTAACTGCGGTGT
*
3454101 CGTCTGACCT
1 CATCTGACCT
3454111 GGTTATGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.17, C:0.33, G:0.25, T:0.25
Consensus pattern (21 bp):
CATCTGACCTAACTGCGGTGT
Found at i:3454111 original size:21 final size:21
Alignment explanation
Indices: 3454070--3454111 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3454060 ATCTGAACCA
*
3454070 ACTGCGGTGTCATCTGACCTG
1 ACTGCGGTGCCATCTGACCTG
*
3454091 ACTGCGGTGCCGTCTGACCTG
1 ACTGCGGTGCCATCTGACCTG
3454112 GTTATGGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.26
Consensus pattern (21 bp):
ACTGCGGTGCCATCTGACCTG
Found at i:3462581 original size:21 final size:19
Alignment explanation
Indices: 3462549--3462587 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
3462539 TGGGTAAATA
3462549 TGATGAATAATATCGATAC
1 TGATGAATAATATCGATAC
3462568 TGATGCAAGTAATATCGATA
1 TGATG-AA-TAATATCGATA
3462588 TTGCTAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (19 bp):
TGATGAATAATATCGATAC
Found at i:3466484 original size:6 final size:6
Alignment explanation
Indices: 3466473--3466497 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3466463 TTTGAACCTT
3466473 GCTTCA GCTTCA GCTTCA GCTTCA G
1 GCTTCA GCTTCA GCTTCA GCTTCA G
3466498 TGGTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (6 bp):
GCTTCA
Found at i:3474110 original size:15 final size:15
Alignment explanation
Indices: 3474090--3474119 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3474080 ATCTAAGAAT
3474090 CAATTTCTAGACAAA
1 CAATTTCTAGACAAA
3474105 CAATTTCTAGACAAA
1 CAATTTCTAGACAAA
3474120 GGACACTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (15 bp):
CAATTTCTAGACAAA
Found at i:3475627 original size:54 final size:54
Alignment explanation
Indices: 3475544--3476042 Score: 570
Period size: 54 Copynumber: 9.6 Consensus size: 54
3475534 CATTTGTATA
* * * *
3475544 AATTCATAATATGTTTATGAACGATCGTATAGGCACTAAGTGTGCTACCCGCGT
1 AATTCATAATATGTTTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGG
** ***
3475598 AATTCATAATATGTTTATGAACGACCGTATAAACACTAAGTGTGCAACCCATAA
1 AATTCATAATATGTTTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGG
* *
3475652 AATTCATAAAATGTTTATGAACGACCGTATAGACACTAAGTGTGCAACCCACGG
1 AATTCATAATATGTTTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGG
3475706 AATTCAT-A-A----TATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGG
1 AATTCATAATATGTTTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGG
3475754 AATTCAT-A-A----TATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGG
1 AATTCATAATATGTTTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGG
* * **
3475802 AATTCATAATATGTTTATGAACTACCGTATAGGCACTAAGTGTGTATTCCACGG
1 AATTCATAATATGTTTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGG
* * * *
3475856 AATTTATAATATGTTTGTGAACGACCGTATAGGCACTAAATGTGCAACTCACGG
1 AATTCATAATATGTTTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGG
* *
3475910 AATTCAT-A-A----CATGAACGACCGTATAGGCACTAAGTGTGCAACCCACAG
1 AATTCATAATATGTTTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGG
* * * * *
3475958 AATTCATATTAAGTTTATGAACGACCGTATCA-ACACTAAGGGTGCAACCCATGG
1 AATTCATAATATGTTTATGAACGACCGTAT-AGGCACTAAGTGTGCAACCCACGG
* * *
3476012 AAATTCACAATGA-GTTTGTGAATGACCGTAT
1 -AATTCATAAT-ATGTTTATGAACGACCGTAT
3476043 CGACAATATA
Statistics
Matches: 388, Mismatches: 42, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
48 134 0.35
49 1 0.00
50 2 0.01
52 2 0.01
53 2 0.01
54 221 0.57
55 25 0.06
56 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTCATAATATGTTTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGG
Found at i:3475911 original size:204 final size:207
Alignment explanation
Indices: 3475558--3476042 Score: 638
Period size: 204 Copynumber: 2.3 Consensus size: 207
3475548 CATAATATGT
* * * *
3475558 TTATGAACGATCGTATAGGCACTAAGTGTGCTACCCGCGTAATTCATAATATGTTTATGAACGAC
1 TTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACGAC
*
3475623 CGTATAAACACTAAGTGTGCAACCCATAAAATTCATAAAATGTTTATGAACGACCGTATAGACAC
66 CGTATAAACACTAAGTGTGCAACCCACAAAATTCATAAAATGTTTATGAACGACCGTATAGACAC
* * *
3475688 TAAGTGTGCAACCCACGGAATTCATAATATGAACGACCGTATAGGCACTAAGTGTGCAACCCACG
131 TAAATGTGCAACCCACGGAATTCATAACATGAACGACCGTATAGGCACTAAGTGTGCAACCCACA
3475753 GAATTC-A-TAA
196 GAATTCAATTAA
*
3475763 -TATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACTAC
1 TTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACGAC
** * ** ** * * * *
3475827 CGTATAGGCACTAAGTGTGTATTCCACGGAATTTATAATATGTTTGTGAACGACCGTATAGGCAC
66 CGTATAAACACTAAGTGTGCAACCCACAAAATTCATAAAATGTTTATGAACGACCGTATAGACAC
*
3475892 TAAATGTGCAACTCACGGAATTCATAACATGAACGACCGTATAGGCACTAAGTGTGCAACCCACA
131 TAAATGTGCAACCCACGGAATTCATAACATGAACGACCGTATAGGCACTAAGTGTGCAACCCACA
3475957 GAATTCATATTAA
196 GAATTCA-ATTAA
* * * * *
3475970 GTTTATGAACGACCGTATCA-ACACTAAGGGTGCAACCCATGGAAATTCACAATGA-GTTTGTGA
1 --TTATGAACGACCGTAT-AGGCACTAAGTGTGCAACCCACGG-AATTCATAAT-ATGTTTATGA
*
3476033 ATGACCGTAT
61 ACGACCGTAT
3476043 CGACAATATA
Statistics
Matches: 243, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
204 179 0.74
206 1 0.00
207 3 0.01
210 34 0.14
211 25 0.10
212 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (207 bp):
TTATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACGAC
CGTATAAACACTAAGTGTGCAACCCACAAAATTCATAAAATGTTTATGAACGACCGTATAGACAC
TAAATGTGCAACCCACGGAATTCATAACATGAACGACCGTATAGGCACTAAGTGTGCAACCCACA
GAATTCAATTAA
Found at i:3475948 original size:156 final size:155
Alignment explanation
Indices: 3475544--3476042 Score: 616
Period size: 156 Copynumber: 3.2 Consensus size: 155
3475534 CATTTGTATA
* * * *
3475544 AATTCATAATATGTTTATGAACGATCGTATAGGCACTAAGTGTGCTACCCGCGTAATTCATAATA
1 AATTCATAATATGTTT-TGAACGACCGTATAGGCACTAAGTGTGCAACCCACGGAATTCAT-A-A
** * * *
3475609 TGTTTATGAACGACCGTATAAACACTAAGTGTGCAACCCATAAAATTCATAAAATGTTTATGAAC
63 ----TATGAACGACCGTATAGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAAC
3475674 GACCGTATAGACACTAAGTGTGCAACCCACGG
124 GACCGTATAGACACTAAGTGTGCAACCCACGG
3475706 AATTCATAATA-----TGAACGACCGTATAGGCACTAAGTGTGCAACCCACGGAATTCATAATAT
1 AATTCATAATATGTTTTGAACGACCGTATAGGCACTAAGTGTGCAACCCACGGAATTCATAATAT
* *
3475766 GAACGACCGTATAGGCACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACTACCGTA
66 GAACGACCGTATAGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTA
* * **
3475831 TAGGCACTAAGTGTGTATTCCACGG
131 TAGACACTAAGTGTGCAACCCACGG
* * * *
3475856 AATTTATAATATGTTTGTGAACGACCGTATAGGCACTAAATGTGCAACTCACGGAATTCATAACA
1 AATTCATAATATGTTT-TGAACGACCGTATAGGCACTAAGTGTGCAACCCACGGAATTCATAATA
* *
3475921 TGAACGACCGTATAGGCACTAAGTGTGCAACCCACAGAATTCATATTAAGTTTATGAACGACCGT
65 TGAACGACCGTATAGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGT
* *
3475986 ATCA-ACACTAAGGGTGCAACCCATGG
130 AT-AGACACTAAGTGTGCAACCCACGG
* *
3476012 AAATTCACAATGA-GTTTGTGAATGACCGTAT
1 -AATTCATAAT-ATGTTT-TGAACGACCGTAT
3476043 CGACAATATA
Statistics
Matches: 296, Mismatches: 32, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
150 92 0.31
154 1 0.00
155 1 0.00
156 164 0.55
157 26 0.09
158 1 0.00
162 11 0.04
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (155 bp):
AATTCATAATATGTTTTGAACGACCGTATAGGCACTAAGTGTGCAACCCACGGAATTCATAATAT
GAACGACCGTATAGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTA
TAGACACTAAGTGTGCAACCCACGG
Found at i:3476926 original size:16 final size:16
Alignment explanation
Indices: 3476901--3476933 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3476891 AAGAATTTCA
3476901 AATTATTTTA-AAAAC
1 AATTATTTTACAAAAC
3476916 AATTGATTTTACAAAAC
1 AATT-ATTTTACAAAAC
3476933 A
1 A
3476934 TATCAGAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (16 bp):
AATTATTTTACAAAAC
Found at i:3477243 original size:6 final size:6
Alignment explanation
Indices: 3477224--3481814 Score: 3124
Period size: 6 Copynumber: 772.0 Consensus size: 6
3477214 GTACATCGAA
* * * *
3477224 ACATAA ACACAT ACATAT ACATAT ATATAT ACATAT ACATAT ACACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT --ACATAT
* * * * * * * *
3477274 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3477322 ACATAC ACATAC ACATAC ACATAG ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3477370 ACATAC ACATAC ACATAG ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3477418 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3477466 ACA-AC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3477513 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACTACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT AC-ATAT
* * * * * * * *
3477562 ACACAT ACACAT ACACAT CACATAC ACATAC ACTACCAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT -ACATAT ACATAT AC-A-TAT ACATAT ACATAT
* * * * * * * * *
3477613 ACACAT ACACAT ACACAT ACCTAC ACACAT ACACAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3477661 -CACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3477708 ACACAT ACACAT ACACAT ACACAT ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3477756 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3477804 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3477852 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3477900 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * *
3477948 ACATAC ACATAC ACATAC ACATCAC ACACAT ACACAT ACACAT ACATA-
1 ACATAT ACATAT ACATAT ACAT-AT ACATAT ACATAT ACATAT ACATAT
* * * * * * * * *
3477996 CCATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3478044 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * * *
3478092 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACGTAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * * * * * * *
3478140 ACGTAC ACGTAC ACGTAC ACCTAC ACATAC ACATAC ACATAC ACGTAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * * * *
3478188 ACGTAC ACGTAC ACTACACT ACCACAT ACACAT ACA-CT ACACAT ACACAT
1 ACATAT ACATAT AC-ATA-T A-CATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3478238 ACACAT ACACAT ACACAT ACA-CT ACACAT ACACAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3478285 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACA-CT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
** ** * * * * * * *
3478332 ACACGT ACACGT ACACTAC ACATAC ACATAC ACATAC ACGTAC ACATAC
1 ACATAT ACATAT ACA-TAT ACATAT ACATAT ACATAT ACATAT ACATAT
* ** * ** * * * *
3478381 ACGTAT ACACGT ACA-CT ACACGT ACACAT AC-CAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3478427 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACTAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACA-TAT
* * * * * *
3478476 ACATAC ACATAC ACATAC ACA-AT ACACAT ACACAT AC--AT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * * *
3478521 ACACAT ACACAT ACACAT ACACAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3478569 ACATAC ACATAC ACATAC ACAACAT ACACAT -CACAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT AC-ATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3478617 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3478665 ACACAT ACACAT ACACAT ACACAT ACACTAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACA-TAT ACATAT ACATAT ACATAT
* * * * * * ** *
3478714 ACATAC ACATAC ACATAC ACAGAT ACACAT ACACAT ACA-CC ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3478761 ACA-AC ACATAC ACATAC ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * **
3478808 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACCCAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3478856 ACACAT ACACAT AC-CAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * * *
3478903 ACACAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3478951 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3478999 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3479047 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3479095 ACATAC ACA-A- ACACAA ACACAT ACACAT ACACAT ACACAT AC-CAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * *
3479140 ACATAC ACATAC ACATAC ACATACAT ACACAT ACACAT ACACAT ACA-CT
1 ACATAT ACATAT ACATAT ACAT--AT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3479189 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * ** * * * *
3479237 ACACAT ACACAT ACACAT ACACCT ACACAT ACACAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3479285 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * ** * * * *
3479333 ACACAT ACACAT ACACA- ACACCT ACACAT ACACA- ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
3479379 ACACAT ACACAT ACACAT ACACTAC ACATAC ACATAC ACCATA- CCATAC
1 ACATAT ACATAT ACATAT ACA-TAT ACATAT ACATAT A-CATAT ACATAT
* * * * * * * *
3479428 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACCACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT A-CATAT ACATAT
* * * * * * * * *
3479477 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAC ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * * * *
3479525 ACACAC ACATAC ACATAC ACATAC ACACACA ACACAT ACACAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATA-T ACATAT ACATAT ACATAT
* * * *
3479574 ACACAT ACACAT ACCATA- AC--AT ACATAT ACATAT ACATAC ACATAC
1 ACATAT ACATAT A-CATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
3479620 ACATAC ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT CACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT -ACATAT
* * *
3479669 ACATAT AC--AT ACATAT ACATAT ACATAT ACACAT ATATAT ACACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * *
3479715 ACATAT ACACAT ACATAT ACATAT ACACAT ACATAT ACACAT ACATAA
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * *
3479763 ACACAT ACATAT ACATAT ACATAA ACACAT ACATAT ACATAT ACATAA
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * *
3479811 ACACAT ACATAT ACACAT ACATAT ACATAT ACATAT ACACAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * *
3479859 ACACAT ACATAT ACACAT ACATAT ACATAC ATATAT ACATAT AC-TAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * *
3479906 ACATATAT ACACAT ACATAT ACATAAT ACATAT ACATAT ACACAT ACACAT
1 AC--ATAT ACATAT ACATAT ACAT-AT ACATAT ACATAT ACATAT ACATAT
3479957 ACATAT AC--AT ACATAT ACATAT ACA-AT ACATAT AC--AT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
3480000 ACAT-T AC--AT ACATAT ACATATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT AC--ATAT ACATAT ACATAT ACATAT ACATAT
*
3480047 AC-TAT AC--AT ACATAT ACATAT ACCTAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
3480092 ACATAT ACATAT ACATA- ACATAT ACATAT ACATAT AACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT -ACATAT ACATAT
3480140 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT AC--AT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * *
3480186 GCATAT GCTATAT GCATAT GCATAT ACATAT GCATAT ACATAT GCATAT
1 ACATAT AC-ATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
3480235 GCATAT ACATATAT ACATAT ACATAT AC-TAT AC-TAT ACATAT ACATAT
1 ACATAT AC--ATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * *
3480283 ACATAT ACATAT ACATAT ACATAT ACATAT GCATAT GCATAT GCATATT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATA-T
* * * * * *
3480332 GC-TAT GCATAT GCATAT GCATAT GCATAT ACATAT ACATAT GCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * *
3480379 GCATAT GC--AT GCATAT ACATAT GCATAT ACATAT ACATAT GCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
3480425 ACATA- ACATAT ACATAT ACATAT ACATAT ACATAT ACACAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
3480472 ACATAT ACATAT ACATAT AC--AT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
3480518 ACATAT ACATAT ACACAT ACATAT AC--AT ACATAT ACATATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT AC--ATAT ACATAT
*
3480566 ACATAT ACATAG ACATAT ACATAT ACATAT AC-TAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
3480613 AC--AT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT AC--AT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
3480657 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT AC--AT ACATA-
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
3480702 ACATAT ACATAT ACATAT ACATA- ACATAT --ATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
3480747 ACATAT ACATA- ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* *
3480794 ACATAT ATATACAT ACATAT GCATAT AC--AT ACATAT ACATAT ACATAT
1 ACATAT ACAT--AT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
3480842 -C--AT ACATAT ACATAT ACATAT ACATAT ATGCATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT A--CATAT ACATAT ACATAT
* * * *
3480889 ACATAT ACATAT ACATAT ATATAT ACATAT -CAT-T TCATTAT TCTTATT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACA-TAT ACATA-T
* * * * * * * * * *
3480937 A-TTGT TCTTAG CCTTAT -CAT-T A-ATCT AC-TTT ATCATAT AACCCT-T
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT A-CATAT -A-CATAT
* * * * * * * * * *
3480982 ACTTAC CCTGTAT ACACATT AACATCAT ATA-AC ACATAT GTCAT-T GCACAAAG
1 ACATAT AC-ATAT ACATA-T -ACAT-AT ACATAT ACATAT -ACATAT --ACATAT
* * * * * * * ** * * ***
3481035 AAACAA ACATGT -CATCAT ACCAAATT TC-TTT ATGTTATT TC-TTT GTTTAT
1 ACATAT ACATAT ACAT-AT A-CATA-T ACATAT A-CATA-T ACATAT ACATAT
* * * * * * * * *
3481085 CCCATGT GCATTT ATATGT ATAT-T GCATAT ACATATT GCATAT ACATAT
1 -ACATAT ACATAT ACATAT ACATAT ACATAT ACATA-T ACATAT ACATAT
3481134 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
3481182 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * *
3481230 ACATAT ACATAT ACATAT ACATAT ACATAT GCATAT GCATAT GCATATT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATA-T
* * * * *
3481279 GCATAT GCATAT GCATAT GCATAT ACATAT ACATAT ACATAT GCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * *
3481327 GCATAT GCATAT GCATAT ACATAT GCATAT ACATAT ACATAT GCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
3481375 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
3481423 ACATAT ACATAT ACATAT ACATAT AC--AT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
3481469 ACATAT ACATAT ATATACAT ACATAT ACATAT ACATAT AC--AT ACATAT
1 ACATAT ACATAT ACAT--AT ACATAT ACATAT ACATAT ACATAT ACATAT
3481517 ACATAT ACATAT ACATAT ACATAT ACAT-T ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
3481564 ACATAT ACATAT AC--AT ACATAT ACATAT AC-TAT ACCTAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* *
3481609 ATATAT ATATACAT ACATAT ACATAT ACATAT ACATAT ACA-AT ACATAT
1 ACATAT ACAT--AT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
3481658 ACATAT ACATAT -CATA- ACATAT --ATAT ACATAT -CATAT GCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
3481701 GCATAT ACATAT AC-TAT ACATAT -C--AT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * *
3481745 ACATAT --ATAT ACATAT GCATAT GCATAT GCATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
3481791 ACATAT ACATAT ATATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT
3481815 CATTTCATTA
Statistics
Matches: 4163, Mismatches: 261, Indels: 322
0.88 0.05 0.07
Matches are distributed among these distances:
3 5 0.00
4 90 0.02
5 203 0.05
6 3678 0.88
7 114 0.03
8 71 0.02
9 2 0.00
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.25
Consensus pattern (6 bp):
ACATAT
Found at i:3482109 original size:22 final size:23
Alignment explanation
Indices: 3482077--3482121 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
3482067 CTGAGTGGCA
3482077 TGTGAAATATGTCCCAAAGGACC
1 TGTGAAATATGTCCCAAAGGACC
**
3482100 TGTG-AATATGTCCTGAAGGACC
1 TGTGAAATATGTCCCAAAGGACC
3482122 CCGAAGGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (23 bp):
TGTGAAATATGTCCCAAAGGACC
Found at i:3482918 original size:22 final size:21
Alignment explanation
Indices: 3482866--3482920 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
3482856 CGATGTTTCT
3482866 TGGTATCGATA--CCTCCATA
1 TGGTATCGATACTCCTCCATA
*
3482885 TAGGTATTGATACTCCTTCCATA
1 T-GGTATCGATACTCC-TCCATA
3482908 TGGTATCGATACT
1 TGGTATCGATACT
3482921 GTTCATGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 1 0.03
20 9 0.30
22 13 0.43
23 7 0.23
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (21 bp):
TGGTATCGATACTCCTCCATA
Found at i:3494780 original size:11 final size:11
Alignment explanation
Indices: 3494757--3494790 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3494747 ATGCGAAAAG
*
3494757 GTAAATACAAT
1 GTAAATGCAAT
*
3494768 GTGAATGCAAT
1 GTAAATGCAAT
3494779 GTAAATGCAAT
1 GTAAATGCAAT
3494790 G
1 G
3494791 CAAGGTGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (11 bp):
GTAAATGCAAT
Found at i:3500818 original size:16 final size:17
Alignment explanation
Indices: 3500784--3500821 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
3500774 TTTTCTTTTC
* *
3500784 TTTTTCTTTTATTTTAT
1 TTTTTCATTTATTTCAT
3500801 TTTTTCATTT-TTTCAT
1 TTTTTCATTTATTTCAT
3500817 TTTTT
1 TTTTT
3500822 TAAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCATTTATTTCAT
Found at i:3505920 original size:3 final size:3
Alignment explanation
Indices: 3505907--3505935 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
3505897 CCTACCAAAA
3505907 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3505936 CGGACGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3506749 original size:2 final size:2
Alignment explanation
Indices: 3506742--3506799 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
3506732 TAACCTAAGA
3506742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3506784 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
3506800 CTTAATTAGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3512172 original size:2 final size:2
Alignment explanation
Indices: 3512165--3512192 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3512155 ACGAAAGAGA
3512165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3512193 GGGAGGATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3523401 original size:75 final size:74
Alignment explanation
Indices: 3523243--3523401 Score: 194
Period size: 75 Copynumber: 2.1 Consensus size: 74
3523233 CTTAACCGGC
* * * *
3523243 TAAAATAAAATAGGCACTACCTATTATGTTAAACTACTACCGATTTGTTTGAAGATTACTAATAA
1 TAAAATAAAATAGGCACTACCCATTACGTTAAAATACTACCGATTTGTTTAAAGATTACTAATAA
* *
3523308 TGTAATCGG
66 TGTAAACAG
* * * * *
3523317 TAAAATAAAATAGGCGCTACCCATTACGTTAAAATATCTATCTG-TTTGTTTAAAGGTTATTAGT
1 TAAAATAAAATAGGCACTACCCATTACGTTAAAATA-CTA-CCGATTTGTTTAAAGATTACTAAT
3523381 AATGTAAACAG
64 AATGTAAACAG
3523392 TAAAATAAAA
1 TAAAATAAAA
3523402 CAGGTGATAT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
74 32 0.44
75 38 0.53
76 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (74 bp):
TAAAATAAAATAGGCACTACCCATTACGTTAAAATACTACCGATTTGTTTAAAGATTACTAATAA
TGTAAACAG
Found at i:3523423 original size:75 final size:74
Alignment explanation
Indices: 3523243--3523424 Score: 188
Period size: 75 Copynumber: 2.4 Consensus size: 74
3523233 CTTAACCGGC
* * *
3523243 TAAAATAAAATAGGC-ACTACCTATTATGTTAAACTACTACCGATTTGTTTGAAGATTACTAATA
1 TAAAATAAAACAGGCGA-TACCTATTATGTTAAAATACTACCGATTTGTTTAAAGATTACTAATA
* *
3523307 ATGTAATCGG
65 ATGTAAACAG
* * * * * * * *
3523317 TAAAATAAAATAGGCGCTACCCATTACGTTAAAATATCTATCTG-TTTGTTTAAAGGTTATTAGT
1 TAAAATAAAACAGGCGATACCTATTATGTTAAAATA-CTA-CCGATTTGTTTAAAGATTACTAAT
3523381 AATGTAAACAG
64 AATGTAAACAG
* *
3523392 TAAAATAAAACAGGTGATATCTATTATGTTAAA
1 TAAAATAAAACAGGCGATACCTATTATGTTAAA
3523425 TAGGCGCTAC
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
74 31 0.35
75 55 0.62
76 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (74 bp):
TAAAATAAAACAGGCGATACCTATTATGTTAAAATACTACCGATTTGTTTAAAGATTACTAATAA
TGTAAACAG
Found at i:3523438 original size:23 final size:23
Alignment explanation
Indices: 3523412--3523471 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
3523402 CAGGTGATAT
* * *
3523412 CTATTATGTTAAATAGGCGCTAC
1 CTATTACGTTAAATAAGAGCTAC
3523435 CTATTACGTTAAATAAGAGCTAC
1 CTATTACGTTAAATAAGAGCTAC
*
3523458 ATATTACGTTAAAT
1 CTATTACGTTAAAT
3523472 TACTACCGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (23 bp):
CTATTACGTTAAATAAGAGCTAC
Found at i:3523570 original size:75 final size:74
Alignment explanation
Indices: 3523453--3523668 Score: 297
Period size: 75 Copynumber: 2.9 Consensus size: 74
3523443 TTAAATAAGA
* * *
3523453 GCTACATATTACGTTAAATTACTACCGGTTTGTTTAAAGGTTAATAATAATTTAAACGGTAAAAT
1 GCTACCTATTACGTTAAAATACTACCGGTTTGTTTAAAGGTTAATAATAATGTAAACGGTAAAAT
* *
3523518 AAAATATGT
66 AAAATAGGC
* * *
3523527 GCTACCTATTACGTTAAAATATCTACCGGTTTGTTTAAAGGTTACTAATAATGTAAATGGTGAAA
1 GCTACCTATTACGTTAAAATA-CTACCGGTTTGTTTAAAGGTTAATAATAATGTAAACGGTAAAA
3523592 TAAAATAGGC
65 TAAAATAGGC
* ** * *
3523602 GCTACCTATTACGTTAAACTAACTGTCGTTTTATTTAAAGGTTAATAATAATGTAAACGGTAAAA
1 GCTACCTATTACGTTAAAAT-ACTACCGGTTTGTTTAAAGGTTAATAATAATGTAAACGGTAAAA
3523667 TA
65 TA
3523669 TATACAACTT
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
74 19 0.15
75 104 0.84
76 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (74 bp):
GCTACCTATTACGTTAAAATACTACCGGTTTGTTTAAAGGTTAATAATAATGTAAACGGTAAAAT
AAAATAGGC
Found at i:3523929 original size:151 final size:152
Alignment explanation
Indices: 3523648--3523943 Score: 470
Period size: 151 Copynumber: 1.9 Consensus size: 152
3523638 AAAGGTTAAT
3523648 AATAATGTAAACGGTAAAATATATACAACTTAACCGTTTGAAATATTTTTTTAAAATTCGAAAGT
1 AATAATGTAAACGGTAAAATATATACAACTTAACCGTTTG-AATATTTTTTTAAAATTCGAAAGT
* *
3523713 ATAGATACTTACTCTAAAAGTATGGATACTTTAAATGTTAATAATAATATATCCATACTTACTCT
65 ATAGATACTTACTCTAAAAGTATGAATACTCTAAATGTTAATAATAATATATCCATACTTACTCT
3523778 AAAAGTATTGATATTGTTTCCAC
130 AAAAGTATTGATATTGTTTCCAC
* * *
3523801 AATAATGTAAATGGTAAAATATATACAACTTAACCGTTTG-ATTTTTTTTTTAAATTCGAAAGTA
1 AATAATGTAAACGGTAAAATATATACAACTTAACCGTTTGAATATTTTTTTAAAATTCGAAAGTA
* * * * *
3523865 TTGATACTTCCTCTAAAAGTATGAATACTCTAAA-GATTAATAATAATGTATCTATACTTGCTCT
66 TAGATACTTACTCTAAAAGTATGAATACTCTAAATG-TTAATAATAATATATCCATACTTACTCT
3523929 AAAAGTATTGATATT
130 AAAAGTATTGATATT
3523944 TGCTAAAGTA
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
150 1 0.01
151 92 0.70
153 39 0.30
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (152 bp):
AATAATGTAAACGGTAAAATATATACAACTTAACCGTTTGAATATTTTTTTAAAATTCGAAAGTA
TAGATACTTACTCTAAAAGTATGAATACTCTAAATGTTAATAATAATATATCCATACTTACTCTA
AAAGTATTGATATTGTTTCCAC
Found at i:3524276 original size:108 final size:108
Alignment explanation
Indices: 3524127--3524707 Score: 374
Period size: 108 Copynumber: 5.4 Consensus size: 108
3524117 GGATTTCTTT
* * * * * * *
3524127 ATAATAAAATAAGAAATTAACATATTTTGTTGTCGTGGGATTTCGAAGACCCCATCAGCTTAAA-
1 ATAACAAAATAAGTAATTAACATATTTTGTTATCGTCGGATTTCCAAGGCCCTATCAGCTTAAAC
*
3524191 TTTTAGTAACATTTTAGGCGCTACCAAATATGTTGATAATATTA
66 TTTGA-TAACATTTTAGGCGCTACCAAATATGTTGATAATATTA
* * * *
3524235 ATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCTATTAGTTTAAAC
1 ATAACAAAATAAGTAATTAACATATTTTGTTATCGTCGGATTTCCAAGGCCCTATCAGCTTAAAC
* * * *
3524300 TTTGATAATATTTTATGCGCTACCTAATATGTTGATAATATTG
66 TTTGATAACATTTTAGGCGCTACCAAATATGTTGATAATATTA
** * *
3524343 ATAACAAGTTAAATAATTAACATATTTTGTTATCATCGGATTTCCAAGGCCCTATCAG------C
1 ATAACAAAATAAGTAATTAACATATTTTGTTATCGTCGGATTTCCAAGGCCCTATCAGCTTAAAC
* * *
3524402 TTT-A-AA-A----ATGCGCTACCTAATATGTTGATAATATTG
66 TTTGATAACATTTTAGGCGCTACCAAATATGTTGATAATATTA
** * * * *
3524438 ATAACAAGTTAAATAATTAA-ACTATTTTGTTATCGTCGAATTTCTAAGGCCCTATCAACTTTAA
1 ATAACAAAATAAGTAATTAACA-TATTTTGTTATCGTCGGATTTCCAAGGCCCTATCAGC-TT--
* * * * * **** * * *
3524502 AAAAGCACTACCT-ATTACATTAAATAAGCGTTACTTGTTATGTT-ATTATTGTTG
62 --AA--ACT--TTGATAACATT--TTAGGCGCTACCAAATATGTTGA-TAATATTA
**** * * * * *
3524556 ATAA-TGTTTCCAGTAATTAACTTATTTTGTTATCGTCGAATTTCTAAGGCACTATC-GACTTAA
1 ATAACAAAAT-AAGTAATTAACATATTTTGTTATCGTCGGATTTCCAAGGCCCTATCAG-CTTAA
* * * *
3524619 ACTTTGGTAACATTTTAGGAGCTACCTAATATGTTGATAATATTG
64 ACTTTGATAACATTTTAGGCGCTACCAAATATGTTGATAATATTA
*
3524664 ATAAC-AAATCAAGTAATTAACCTATTTTGTTATCGTCGGATTTC
1 ATAACAAAAT-AAGTAATTAACATATTTTGTTATCGTCGGATTTC
3524708 TAAAGCCCCA
Statistics
Matches: 380, Mismatches: 61, Indels: 64
0.75 0.12 0.13
Matches are distributed among these distances:
94 1 0.00
95 81 0.21
99 1 0.00
100 2 0.01
101 1 0.00
102 4 0.01
108 198 0.52
109 6 0.02
110 8 0.02
111 4 0.01
112 1 0.00
113 2 0.01
117 5 0.01
118 66 0.17
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (108 bp):
ATAACAAAATAAGTAATTAACATATTTTGTTATCGTCGGATTTCCAAGGCCCTATCAGCTTAAAC
TTTGATAACATTTTAGGCGCTACCAAATATGTTGATAATATTA
Found at i:3524481 original size:95 final size:95
Alignment explanation
Indices: 3524208--3524515 Score: 366
Period size: 95 Copynumber: 3.1 Consensus size: 95
3524198 AACATTTTAG
* * ** * *
3524208 GCGCTACCAAATATGTTGATAATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCG
1 GCGCTACCTAATATGTTGATAATATTGATAACAAGTTAAATAATTAAACTATTTTGTTATCGTCG
*
3524273 GATTTCTAAGGCCCTATTAGTTTAAACTTTGATAATATTTTAT
66 GATTTCTAAGGCCCTATCAG------CTTT-A-AA-A----AT
*
3524316 GCGCTACCTAATATGTTGATAATATTGATAACAAGTTAAATAATT-AACATATTTTGTTATCATC
1 GCGCTACCTAATATGTTGATAATATTGATAACAAGTTAAATAATTAAAC-TATTTTGTTATCGTC
*
3524380 GGATTTCCAAGGCCCTATCAGCTTTAAAAAT
65 GGATTTCTAAGGCCCTATCAGCTTTAAAAAT
3524411 GCGCTACCTAATATGTTGATAATATTGATAACAAGTTAAATAATTAAACTATTTTGTTATCGTCG
1 GCGCTACCTAATATGTTGATAATATTGATAACAAGTTAAATAATTAAACTATTTTGTTATCGTCG
* * *
3524476 AATTTCTAAGGCCCTATCAACTTTAAAAAA
66 GATTTCTAAGGCCCTATCAGCTTTAAAAAT
*
3524506 GCACTACCTA
1 GCGCTACCTA
3524516 TTACATTAAA
Statistics
Matches: 183, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
95 97 0.53
96 3 0.02
99 1 0.01
100 2 0.01
101 1 0.01
102 4 0.02
107 2 0.01
108 73 0.40
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (95 bp):
GCGCTACCTAATATGTTGATAATATTGATAACAAGTTAAATAATTAAACTATTTTGTTATCGTCG
GATTTCTAAGGCCCTATCAGCTTTAAAAAT
Found at i:3532016 original size:15 final size:16
Alignment explanation
Indices: 3531996--3532028 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3531986 AATTAACCGA
3531996 ATGAAAT-TATTAAAT
1 ATGAAATATATTAAAT
*
3532011 ATGAAATATATTATAT
1 ATGAAATATATTAAAT
3532027 AT
1 AT
3532029 ATTAAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (16 bp):
ATGAAATATATTAAAT
Found at i:3533943 original size:4 final size:4
Alignment explanation
Indices: 3533922--3534280 Score: 691
Period size: 4 Copynumber: 89.8 Consensus size: 4
3533912 TAATGGAGGT
* * *
3533922 TACA CACA TGCA TGCA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3533970 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3534018 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3534066 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3534114 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3534162 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3534210 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3534258 TACA TACA TACA TACA TACA TAC
1 TACA TACA TACA TACA TACA TAC
3534281 TACTATGTGT
Statistics
Matches: 351, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 351 1.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:3535715 original size:17 final size:18
Alignment explanation
Indices: 3535695--3535732 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
3535685 ATAGTGATCC
3535695 TTTATAAATTTCAAAT-T
1 TTTATAAATTTCAAATAT
* *
3535712 TTTATATATTTTAAATAT
1 TTTATAAATTTCAAATAT
3535730 TTT
1 TTT
3535733 CTTTATATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATAAATTTCAAATAT
Found at i:3543159 original size:81 final size:81
Alignment explanation
Indices: 3543048--3543242 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 81
3543038 TACTACTATG
* * * * * * *
3543048 TTGTGGCATTTGTATAAAAACGTTGTTAAAGTACTACTCTTTTGCGGCGTTTTTTG-AGAAACAC
1 TTGTGGCGTTTGTATAAAAATG-CGCTAAAGTACTACTCTGTTGCGGCGTTTGTTGAAAAAACAC
* *
3543112 CACTATGGATGAACCTA
65 CACTATAGATGAACCAA
* *
3543129 TTGTGGCGTTTGTATAAAAATGCCGCTAAAGTACTACTCTGTTGCGGTGTTTGTTGAAAAAACGC
1 TTGTGGCGTTTGTATAAAAATG-CGCTAAAGTACTACTCTGTTGCGGCGTTTGTTGAAAAAACAC
3543194 CACTATAGATGAACCAA
65 CACTATAGATGAACCAA
* *
3543211 TTGTAGCGTTTTTATATAAACAT-CGCTAAAGT
1 TTGTGGCGTTTGTATA-AAA-ATGCGCTAAAGT
3543243 TACCATTTTG
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
81 48 0.49
82 44 0.45
83 3 0.03
84 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (81 bp):
TTGTGGCGTTTGTATAAAAATGCGCTAAAGTACTACTCTGTTGCGGCGTTTGTTGAAAAAACACC
ACTATAGATGAACCAA
Found at i:3543238 original size:82 final size:80
Alignment explanation
Indices: 3543074--3543242 Score: 214
Period size: 82 Copynumber: 2.1 Consensus size: 80
3543064 AAAACGTTGT
* * * * * *
3543074 TAAAGTACTACTCTTTTGCGGCGTTTTTTGAGAAACACCACTATGGATGAACCTATTGTGGCGTT
1 TAAAGTACTACTCTGTTGCGGCGTTTGTTGAAAAACACCACTATAGATGAACCAATTGTAGCGTT
3543139 TGTATAAAAATGCCGC
66 TGTATAAAAAT-CCGC
* *
3543155 TAAAGTACTACTCTGTTGCGGTGTTTGTTGAAAAAACGCCACTATAGATGAACCAATTGTAGCGT
1 TAAAGTACTACTCTGTTGCGGCGTTTGTTG-AAAAACACCACTATAGATGAACCAATTGTAGCGT
*
3543220 TTTTATATAAACAT-CGC
65 TTGTATA-AAA-ATCCGC
3543237 TAAAGT
1 TAAAGT
3543243 TACCATTTTG
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
81 27 0.36
82 44 0.58
83 3 0.04
84 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (80 bp):
TAAAGTACTACTCTGTTGCGGCGTTTGTTGAAAAACACCACTATAGATGAACCAATTGTAGCGTT
TGTATAAAAATCCGC
Found at i:3543418 original size:4 final size:4
Alignment explanation
Indices: 3543411--3544875 Score: 2480
Period size: 4 Copynumber: 366.0 Consensus size: 4
3543401 GCATGCATGC
3543411 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3543459 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3543507 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3543555 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3543603 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3543651 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3543699 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
3543747 ATGT ATGT ATGC ATGC ATGT ATGT ATGT ATGG ATGT ATGC ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
3543795 ATGT ATGT ATGC ATGC ATGT ATGT ATGC ATGT ATGC ATGG ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
3543843 ATGC ATGT ATGT ATGT ATGT ATGT GTGT GTGT GTGT GTGT GTGT GTGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
3543891 GTGT GTGT GTGT GTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3543939 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3543987 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544035 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544083 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544131 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544179 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544227 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544275 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544323 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544371 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544419 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544467 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544515 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3544563 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
3544611 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGC ATGC ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
3544659 ATGC ATGC ATGC ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
3544707 ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGC ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
3544755 ATGT ATGT ATGT ATGC ATGC ATGC ATGC ATGT ATGT ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
3544803 ATGC ATGC ATGC ATGC ATGC ATGC ATGT ATGT ATGT ATGA ATGA ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
3544851 AAGCT ATGC ATGT ATGT ATCT ATGT
1 ATG-T ATGT ATGT ATGT ATGT ATGT
3544876 TCAATTCCCT
Statistics
Matches: 1423, Mismatches: 37, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
4 1420 1.00
5 3 0.00
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:3543871 original size:2 final size:2
Alignment explanation
Indices: 3543864--3543906 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3543854 TATGTATGTA
3543864 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
3543906 T
1 T
3543907 ATGTATGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:3547205 original size:45 final size:45
Alignment explanation
Indices: 3547166--3547580 Score: 557
Period size: 45 Copynumber: 9.2 Consensus size: 45
3547156 AAATGAATGA
* * *
3547166 ATAAATGAAATGCATAACAATGCATTAACTG-CATTAAATGATGCC
1 ATAAATGAAATGCATAACAGTGCATTAAC-GACATGAAAGGATGCC
* *
3547211 ATAAATGAAATGCATAACAATGCATTAATGACATGAAAGGATGCC
1 ATAAATGAAATGCATAACAGTGCATTAACGACATGAAAGGATGCC
* * *
3547256 ATAAATGAAATGCATAACGGTGCATTAACGGCATGAAAGAATGCC
1 ATAAATGAAATGCATAACAGTGCATTAACGACATGAAAGGATGCC
* *
3547301 ATAAATGAAATGCATAACAGTGCATTAATGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACAGTGCATTAACGACATGAAAGGATGCC
** *
3547346 ATAAATGAAATGCATAATGGTGCATTAACGATATGAAAGGATGCC
1 ATAAATGAAATGCATAACAGTGCATTAACGACATGAAAGGATGCC
* * *
3547391 ATAAATGAAATGCATAACGGTGCATTAACGACATGAAAGTAGGCC
1 ATAAATGAAATGCATAACAGTGCATTAACGACATGAAAGGATGCC
* **
3547436 ATAAATGAAATGCATAACAGTGCATTAACGACATGAAATGATGAT
1 ATAAATGAAATGCATAACAGTGCATTAACGACATGAAAGGATGCC
* *
3547481 ATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGCC
1 ATAAATGAAATGCATAACAGTGCATTAACGACATGAAAGGATGCC
* * *
3547526 ATAAATGAAATGCATAACGGTGTAATATAA-G-CATGAAAGGATGCT
1 ATAAATGAAATGCATAACAGTG-CAT-TAACGACATGAAAGGATGCC
*
3547571 ATACATGAAA
1 ATAAATGAAA
3547581 ATAAAGGATA
Statistics
Matches: 332, Mismatches: 35, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
44 1 0.00
45 326 0.98
46 3 0.01
47 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (45 bp):
ATAAATGAAATGCATAACAGTGCATTAACGACATGAAAGGATGCC
Found at i:3548309 original size:45 final size:45
Alignment explanation
Indices: 3548102--3548308 Score: 333
Period size: 45 Copynumber: 4.6 Consensus size: 45
3548092 AAATGAATGA
* * * *
3548102 ATAAATGAAATGCATAACAGTGCATTAACGTCATGAAAGTATGTC
1 ATAAATGAAATGCATAACGGTGCATTAACGGCATGAAAGGATGCC
* * *
3548147 ATAAACGAAATGCATAATGGTGCATTAACGGCATGAAAGAATGCC
1 ATAAATGAAATGCATAACGGTGCATTAACGGCATGAAAGGATGCC
*
3548192 ATAAATGAAATGCATAACGGTGCATTAACGGCATGAAAGGATACC
1 ATAAATGAAATGCATAACGGTGCATTAACGGCATGAAAGGATGCC
*
3548237 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAACGGCATGAAAGGATGCC
3548282 ATAAATGAAATGCATAACGGTGCATTA
1 ATAAATGAAATGCATAACGGTGCATTA
3548309 TAAGCATGTA
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 150 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (45 bp):
ATAAATGAAATGCATAACGGTGCATTAACGGCATGAAAGGATGCC
Found at i:3548316 original size:45 final size:44
Alignment explanation
Indices: 3548102--3548336 Score: 301
Period size: 45 Copynumber: 5.2 Consensus size: 44
3548092 AAATGAATGA
* * * *
3548102 ATAAATGAAATGCATAACAGTGCATTAACGTCATGAAAGTATGTC
1 ATAAATGAAATGCATAACGGTGCATTAA-GGCATGAAAGGATGCC
* * *
3548147 ATAAACGAAATGCATAATGGTGCATTAACGGCATGAAAGAATGCC
1 ATAAATGAAATGCATAACGGTGCATTAA-GGCATGAAAGGATGCC
*
3548192 ATAAATGAAATGCATAACGGTGCATTAACGGCATGAAAGGATACC
1 ATAAATGAAATGCATAACGGTGCATTAA-GGCATGAAAGGATGCC
*
3548237 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTA-AGGCATGAAAGGATGCC
* **
3548282 ATAAATGAAATGCATAACGGTGCATTATAAGCATGTAAA-GATGAT
1 ATAAATGAAATGCATAACGGTGCATTA-AGGCATG-AAAGGATGCC
3548327 ATAAATGAAA
1 ATAAATGAAA
3548337 ATAAATAATA
Statistics
Matches: 172, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 169 0.98
46 3 0.02
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (44 bp):
ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
Found at i:3549188 original size:22 final size:22
Alignment explanation
Indices: 3549160--3549210 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
3549150 TAACACAATA
3549160 ATGCAATACTTAAGTCATGAAC
1 ATGCAATACTTAAGTCATGAAC
*
3549182 ATGCAATACTTATGTCATGAAC
1 ATGCAATACTTAAGTCATGAAC
3549204 ATGCAAT
1 ATGCAAT
3549211 CCAATCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (22 bp):
ATGCAATACTTAAGTCATGAAC
Found at i:3551013 original size:23 final size:22
Alignment explanation
Indices: 3551003--3551061 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
3550993 TTTCTACTCA
*
3551003 GCACTTCGGTGCAAATCTATGTG
1 GCACTTCGGTGCAAATCTA-CTG
3551026 GCACTTCGGTGCAAATCTACGTG
1 GCACTTCGGTGCAAATCTAC-TG
3551049 GCACTTCGGTGCA
1 GCACTTCGGTGCA
3551062 TTTATATGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (22 bp):
GCACTTCGGTGCAAATCTACTG
Found at i:3558567 original size:24 final size:24
Alignment explanation
Indices: 3558535--3558580 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
3558525 GCATGTCATG
*
3558535 GTACATAGATTTTTTATACATCGT
1 GTACATAGATGTTTTATACATCGT
3558559 GTACATAGATGTTTTATACATC
1 GTACATAGATGTTTTATACATC
3558581 ATATGGAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (24 bp):
GTACATAGATGTTTTATACATCGT
Found at i:3560539 original size:23 final size:23
Alignment explanation
Indices: 3560472--3560539 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 23
3560462 CATGTTATCG
* *
3560472 GGCACTTCAGTGCATTTCTATGC
1 GGCACTTCGGTGCATTTCTACGC
* * ** *
3560495 GACACTTTGGTGCAAATCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
3560518 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
3560540 AGCTGTAGTG
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:3566975 original size:24 final size:23
Alignment explanation
Indices: 3566952--3567011 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
3566942 GATATAAAAT
*
3566952 TGTCCTGAAGGACCACGTAGAAA
1 TGTCCCGAAGGACCACGTAGAAA
*
3566975 TGTCCCGAAGGACCACGT--ATA
1 TGTCCCGAAGGACCACGTAGAAA
*
3566996 TGTCCCGAAAGACCAC
1 TGTCCCGAAGGACCAC
3567012 ATATATATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 17 0.50
23 17 0.50
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAA
Found at i:3567000 original size:21 final size:21
Alignment explanation
Indices: 3566974--3567098 Score: 117
Period size: 21 Copynumber: 6.0 Consensus size: 21
3566964 CCACGTAGAA
*
3566974 ATGTCCCGAAGGACCACGTAT
1 ATGTCCCGAAGGACCACATAT
*
3566995 ATGTCCCGAAAGACCACATAT
1 ATGTCCCGAAGGACCACATAT
* * * *
3567016 ATATTCCAAAGGACCAAATAT
1 ATGTCCCGAAGGACCACATAT
* * *
3567037 GTGTCCCGAAGAACCGCATAT
1 ATGTCCCGAAGGACCACATAT
* * **
3567058 ATGTTCCAAAGGATTACATAT
1 ATGTCCCGAAGGACCACATAT
3567079 ATGTCCTC-AAGGACCACATA
1 ATGTCC-CGAAGGACCACATA
3567099 GAACCCTCGA
Statistics
Matches: 79, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
21 78 0.99
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAT
Found at i:3577056 original size:36 final size:36
Alignment explanation
Indices: 3577004--3577107 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
3576994 AGCCACCTTA
* * * *
3577004 AGGAATTACCATCTTGATCGGTGTTGAACTTGCATG
1 AGGAATTACCAGCTTGATCGGAGTTGAACCTACATG
*
3577040 A-GAATTTACTAGCTTGATCGGAGTTGAACCTACATG
1 AGGAA-TTACCAGCTTGATCGGAGTTGAACCTACATG
* *
3577076 AGGGATTACCAGCTTGATCGGAGCTGAACCTA
1 AGGAATTACCAGCTTGATCGGAGTTGAACCTA
3577108 ATACTCCAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
35 3 0.05
36 53 0.91
37 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (36 bp):
AGGAATTACCAGCTTGATCGGAGTTGAACCTACATG
Found at i:3598054 original size:76 final size:74
Alignment explanation
Indices: 3598034--3598179 Score: 157
Period size: 76 Copynumber: 1.9 Consensus size: 74
3598024 AAAAAACGGT
* * * *
3598034 TTTTGAAAACGTACAGTATATAGTCTTTAAAAATATTTTTAAAAAAATATAATATATAGTTTTAA
1 TTTT-AAAACGTACAATATATAGTTTTTAAAAACAGTTTTAAAAAAATATAATATATAGTTTTAA
*
3598099 AAAAATATAG
65 AAAAATACAG
* * * * **
3598109 TTTTAAAACGTATAATATATAGTTTTTAAAAAATATTTTTTGAAAACGTATAATATATAGATTTT
1 TTTTAAAACGTACAATATATAGTTTTT-AAAAACA-GTTTTAAAAAAATATAATATATAG-TTTT
3598174 AAAAAA
63 AAAAAA
3598180 TATTTTTGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
74 20 0.32
75 11 0.18
76 21 0.34
77 10 0.16
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (74 bp):
TTTTAAAACGTACAATATATAGTTTTTAAAAACAGTTTTAAAAAAATATAATATATAGTTTTAAA
AAAATACAG
Found at i:3598063 original size:38 final size:36
Alignment explanation
Indices: 3597959--3598537 Score: 353
Period size: 36 Copynumber: 15.2 Consensus size: 36
3597949 AAGTCGTATA
** * *
3597959 TTTGAAAATATATAATATATAGTTTTTAAAAACG-GT
1 TTTGAAAACGTATAATATATAG-TTTTAAAAAAGATT
* *
3597995 TTT-AAAGACGTATAATATATAATTTTTTTAAAAAACGGTT
1 TTTGAAA-ACGTATAATATAT-A--GTTTTAAAAAA-GATT
* * *
3598035 TTTGAAAACGTACAGTATATAGTCTTT-AAAAATATT
1 TTTGAAAACGTATAATATATAGT-TTTAAAAAAGATT
* **
3598071 TTTAAAAAAATATAATATATAGTTTTAAAAAA-ATAT
1 TTTGAAAACGTATAATATATAGTTTTAAAAAAGAT-T
* *
3598107 AGTTTTAAAACGTATAATATATAGTTTTTAAAAAATATTT
1 --TTTGAAAACGTATAATATATAG-TTTTAAAAAAGA-TT
*
3598147 TTTGAAAACGTATAATATATAGATTTTAAAAAATATT
1 TTTGAAAACGTATAATATATAG-TTTTAAAAAAGATT
* * * *
3598184 TTTGAAAACGTTTAATATATGGTTTTTTTTTAAAAATATT
1 TTTGAAAACGTATAATATATAG----TTTTAAAAAAGATT
* * * *
3598224 TTTGAAAGCGTATAACATACAGTTTTTAAAAAATATT
1 TTTGAAAACGTATAATATATAG-TTTTAAAAAAGATT
* * *
3598261 TTTGAAAACGTATAATACATGATTTTTAAAATATATATATATATATT
1 TTTGAAAACGTATAATATAT-A-GTTT----TA-A-A-A-A-AGATT
* * *** * *
3598308 TTTTAAAATGTATAATATATAGTTTTTTTTTAAATACT
1 TTTGAAAACGTATAATATATAG--TTTTAAAAAAGATT
** * * *
3598346 TTTGAAAGA-AAATAATATACAGTTTTTAAAAATATT
1 TTTGAAA-ACGTATAATATATAGTTTTAAAAAAGATT
* ** *
3598382 TTTGAAAACGTATAATATATAATTTTTCAAAATATT
1 TTTGAAAACGTATAATATATAGTTTTAAAAAAGATT
*
3598418 TTTGAAAACATATAATATATAGTTTTTAAAAAA-ATACT
1 TTTGAAAACGTATAATATATAG-TTTTAAAAAAGAT--T
* * *
3598456 TTTGAAAACGTATAATATATGGTTTTTAAAAATATT
1 TTTGAAAACGTATAATATATAGTTTTAAAAAAGATT
*
3598492 TTTGAAAATGTATAATATATA-TTTTAAAAAAATGATT
1 TTTGAAAACGTATAATATATAGTTTT-AAAAAA-GATT
3598529 TTTGAAAAC
1 TTTGAAAAC
3598538 ATATTTTTGA
Statistics
Matches: 437, Mismatches: 67, Indels: 77
0.75 0.12 0.13
Matches are distributed among these distances:
35 13 0.03
36 127 0.29
37 87 0.20
38 111 0.25
39 14 0.03
40 48 0.11
41 4 0.01
42 2 0.00
43 2 0.00
44 1 0.00
45 1 0.00
46 2 0.00
47 25 0.06
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (36 bp):
TTTGAAAACGTATAATATATAGTTTTAAAAAAGATT
Found at i:3598091 original size:112 final size:111
Alignment explanation
Indices: 3597963--3598541 Score: 362
Period size: 110 Copynumber: 5.1 Consensus size: 111
3597953 CGTATATTTG
* * *
3597963 AAAATATATAATATATAGTTTTTAAAA-ACGGTTTTAAAGACGTATAATATATAATTTTTTTAAA
1 AAAAAATATAATATATAGTTTTTAAAATACAGTTTTAAA-ACGTATAATATAT-A-GTTTTTAAA
* *
3598027 AAACGGTTTTTGAAAACGTACAGTATATAG-TCTTT-AAAAATATTTTTA
63 AAACAGTTTTTGAAAACGTACAATATATAGAT-TTTAAAAAATATTTTTA
* *
3598075 AAAAAATATAATATATAGTTTTAAAAAAATATAGTTTTAAAACGTATAATATATAGTTTTTAAAA
1 AAAAAATATAATATATAGTTTT--TAAAATACAGTTTTAAAACGTATAATATATAGTTTTTAAAA
* * * *
3598140 AATATTTTTTGAAAACGTATAATATATAGATTTTAAAAAATATTTTTG
64 AACAGTTTTTGAAAACGTACAATATATAGATTTTAAAAAATATTTTTA
** * * * * * * *
3598188 AAAACGTTTAATATATGGTTTTTTTTTAAAA-ATATTTTTGAAAGCGTATAACATACAGTTTTTA
1 AAAAAATATAATATATAG----TTTTTAAAATACAGTTTT-AAAACGTATAATATATAGTTTTTA
* * * *
3598252 AAAAATA-TTTTTGAAAACGTATAATACAT-GATTTTTAAAATATATATATATATATTTTTT
61 AAAAACAGTTTTTGAAAACGTACAATATATAGA--TTT----TA-A-A-A-A-ATATTTTTA
** * ** *
3598312 AAAATGTATAATATATAGTTTTTTTTTAAATAC--TTTTGAAAGA-AAATAATATACAGTTTTT-
1 AAAAAATATAATATATAG---TTTTTAAAATACAGTTTT-AAA-ACGTATAATATATAGTTTTTA
* * ** *
3598373 AAAAATA-TTTTTGAAAACGTATAATATATA-ATTTTTCAAAATATTTTTG
61 AAAAACAGTTTTTGAAAACGTACAATATATAGATTTTAAAAAATATTTTTA
* * * * *
3598422 AAAACATATAATATATAGTTTTTAAAAAAATACTTTTGAAAACGTATAATATATGGTTTTT-AAA
1 AAAAAATATAATATATAGTTTTT-AAAATACAGTTTT-AAAACGTATAATATATAGTTTTTAAAA
* * * *
3598486 AATA-TTTTTGAAAATGTATAATATAT--ATTTTAAAAAAATGATTTTTG
64 AACAGTTTTTGAAAACGTACAATATATAGATTTT-AAAAAAT-ATTTTTA
*
3598533 AAAACATAT
1 AAAAAATAT
3598542 TTTTGAAAAT
Statistics
Matches: 390, Mismatches: 47, Indels: 61
0.78 0.09 0.12
Matches are distributed among these distances:
107 5 0.01
108 4 0.01
109 6 0.02
110 79 0.20
111 17 0.04
112 58 0.15
113 31 0.08
114 45 0.12
115 45 0.12
117 4 0.01
119 5 0.01
120 1 0.00
121 30 0.08
122 24 0.06
123 12 0.03
124 24 0.06
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (111 bp):
AAAAAATATAATATATAGTTTTTAAAATACAGTTTTAAAACGTATAATATATAGTTTTTAAAAAA
CAGTTTTTGAAAACGTACAATATATAGATTTTAAAAAATATTTTTA
Found at i:3598137 original size:74 final size:72
Alignment explanation
Indices: 3597959--3598537 Score: 484
Period size: 74 Copynumber: 7.6 Consensus size: 72
3597949 AAGTCGTATA
** *** *
3597959 TTTGAAAATATATAATATATAGTTTTTAAAAACGGTTTT-AAAGACGTATAATATATAATTTTTT
1 TTTGAAAACGTATAATATATAGTTTTTAAAAATATTTTTGAAA-ACGTATAATATAT-A-GTTTT
3598023 TAAAAA-ACGGTT
63 TAAAAATA---TT
* * * * ** *
3598035 TTTGAAAACGTACAGTATATAGTCTTTAAAAATATTTTTAAAAAAATATAATATATAGTTTTAAA
1 TTTGAAAACGTATAATATATAGTTTTTAAAAATATTTTTGAAAACGTATAATATATAGTTTT-TA
3598100 AAAATATAGT
65 AAAATAT--T
3598110 TTT-AAAACGTATAATATATAGTTTTTAAAAAATATTTTTTGAAAACGTATAATATATAGATTTT
1 TTTGAAAACGTATAATATATAGTTTTT-AAAAATA-TTTTTGAAAACGTATAATATATAG-TTTT
*
3598174 AAAAAATATT
63 TAAAAATATT
* * * * *
3598184 TTTGAAAACGTTTAATATATGGTTTTTTTTTAAAAATATTTTTGAAAGCGTATAACATACAGTTT
1 TTTGAAAACGTATAATATATAG----TTTTTAAAAATATTTTTGAAAACGTATAATATATAGTTT
3598249 TTAAAAAATATT
62 TT-AAAAATATT
* * * *
3598261 TTTGAAAACGTATAATACATGATTTTTAAAATATATATATATATATTTTTTAAAATGTATAATAT
1 TTTGAAAACGTATAATATAT-A-GTTT----T-TA-A-A-A-ATATTTTTGAAAACGTATAATAT
** *
3598326 ATAGTTTTTTTTTAAATACT
55 ATAG--TTTTTAAAAATATT
** * * *
3598346 TTTGAAAGA-AAATAATATACAGTTTTTAAAAATATTTTTGAAAACGTATAATATATAATTTTTC
1 TTTGAAA-ACGTATAATATATAGTTTTTAAAAATATTTTTGAAAACGTATAATATATAGTTTTTA
3598410 AAAATATT
65 AAAATATT
* * *
3598418 TTTGAAAACATATAATATATAGTTTTTAAAAAAATACTTTTGAAAACGTATAATATATGGTTTTT
1 TTTGAAAACGTATAATATATAGTTTTT--AAAAATATTTTTGAAAACGTATAATATATAGTTTTT
3598483 AAAAATATT
64 AAAAATATT
* *
3598492 TTTGAAAATGTATAATATATA-TTTTAAAAAAATGATTTTTGAAAAC
1 TTTGAAAACGTATAATATATAGTTTT-TAAAAAT-ATTTTTGAAAAC
3598538 ATATTTTTGA
Statistics
Matches: 413, Mismatches: 57, Indels: 69
0.77 0.11 0.13
Matches are distributed among these distances:
71 1 0.00
72 40 0.10
73 16 0.04
74 112 0.27
75 37 0.09
76 78 0.19
77 56 0.14
78 9 0.02
79 7 0.02
80 2 0.00
81 1 0.00
82 1 0.00
83 4 0.01
84 23 0.06
85 20 0.05
86 6 0.01
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (72 bp):
TTTGAAAACGTATAATATATAGTTTTTAAAAATATTTTTGAAAACGTATAATATATAGTTTTTAA
AAATATT
Found at i:3598325 original size:23 final size:23
Alignment explanation
Indices: 3598256--3598335 Score: 90
Period size: 24 Copynumber: 3.4 Consensus size: 23
3598246 TTTTTAAAAA
* * *
3598256 ATATTTTTGAAAACGTATAATAC
1 ATATTTTTTAAAATGTATAATAT
*
3598279 ATGA-TTTTTAAAATATATATATAT
1 AT-ATTTTTTAAAATGTATA-ATAT
3598303 ATATTTTTTAAAATGTATAATAT
1 ATATTTTTTAAAATGTATAATAT
3598326 ATAGTTTTTT
1 ATA-TTTTTT
3598336 TTTAAATACT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
23 22 0.46
24 26 0.54
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (23 bp):
ATATTTTTTAAAATGTATAATAT
Found at i:3598369 original size:122 final size:123
Alignment explanation
Indices: 3598179--3598416 Score: 345
Period size: 122 Copynumber: 1.9 Consensus size: 123
3598169 ATTTTAAAAA
* * * ***
3598179 ATATTTTTGAAAACGTTTAATATATGGTTTTTTTTTAAAAATATTTTTGAAAGCGTATAACATAC
1 ATATTTTTGAAAACGTATAATATATAGTTTTTTTTT-AAAATACTTTTGAAAGAAAATAACATAC
*
3598244 AGTTTTTAAAAAATATTTTTGAAAACGTATAATACATGATTTTT-AAAATATATATATAT
65 AGTTTTT-AAAAATATTTTTGAAAACGTATAATACATAATTTTTCAAAATATATATATAT
* * *
3598303 ATATTTTTTAAAATGTATAATATATAGTTTTTTTTT-AAATACTTTTGAAAGAAAATAATATACA
1 ATATTTTTGAAAACGTATAATATATAGTTTTTTTTTAAAATACTTTTGAAAGAAAATAACATACA
*
3598367 GTTTTTAAAAATATTTTTGAAAACGTATAATATATAATTTTTCAAAATAT
66 GTTTTTAAAAATATTTTTGAAAACGTATAATACATAATTTTTCAAAATAT
3598417 TTTTGAAAAC
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
121 34 0.33
122 36 0.35
124 32 0.31
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (123 bp):
ATATTTTTGAAAACGTATAATATATAGTTTTTTTTTAAAATACTTTTGAAAGAAAATAACATACA
GTTTTTAAAAATATTTTTGAAAACGTATAATACATAATTTTTCAAAATATATATATAT
Found at i:3598536 original size:15 final size:14
Alignment explanation
Indices: 3598508--3598556 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
3598498 AATGTATAAT
*
3598508 ATATATTTTAAAAAA
1 ATAT-TTTTGAAAAA
*
3598523 ATGATTTTTGAAAAC
1 AT-ATTTTTGAAAAA
*
3598538 ATATTTTTGAAAAT
1 ATATTTTTGAAAAA
3598552 ATATT
1 ATATT
3598557 ATTGGTCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 16 0.53
15 12 0.40
16 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (14 bp):
ATATTTTTGAAAAA
Found at i:3598589 original size:5 final size:4
Alignment explanation
Indices: 3598566--3598620 Score: 62
Period size: 4 Copynumber: 13.8 Consensus size: 4
3598556 TATTGGTCAT
3598566 TTTA TTTA TTTA TTTA TTTCA TTTTA TTT- TTTA TTT- TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTT-A -TTTA TTTA TTTA TTTA TTTA TTTA TTTA
3598613 TTTCA TTT
1 TTT-A TTT
3598621 TTAGGTTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
3 9 0.20
4 27 0.60
5 6 0.13
6 3 0.07
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:3598599 original size:7 final size:7
Alignment explanation
Indices: 3598565--3598615 Score: 61
Period size: 7 Copynumber: 7.1 Consensus size: 7
3598555 TTATTGGTCA
3598565 TTTTATT
1 TTTTATT
3598572 TATTTATT
1 T-TTTATT
3598580 TATTTCA--
1 T-TTT-ATT
3598587 TTTTATT
1 TTTTATT
3598594 TTTTATT
1 TTTTATT
3598601 TTTTATT
1 TTTTATT
3598608 TTTTATT
1 TTTTATT
3598615 T
1 T
3598616 CATTTTTAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 1 0.03
6 3 0.08
7 24 0.60
8 11 0.28
9 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTATT
Found at i:3599895 original size:14 final size:15
Alignment explanation
Indices: 3599878--3599908 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
3599868 ATTTTATTCC
3599878 TTTTATTTAC-TTAT
1 TTTTATTTACTTTAT
3599892 TTTTATTTACTTTAT
1 TTTTATTTACTTTAT
3599907 TT
1 TT
3599909 CGATCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTTACTTTAT
Found at i:3600032 original size:12 final size:13
Alignment explanation
Indices: 3600009--3600038 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
3599999 ACTCGAATCA
3600009 AATTTCAATTTTT
1 AATTTCAATTTTT
3600022 AATTT-AATTTTT
1 AATTTCAATTTTT
3600034 AATTT
1 AATTT
3600039 TCACAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
AATTTCAATTTTT
Found at i:3603930 original size:18 final size:19
Alignment explanation
Indices: 3603894--3603941 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
3603884 TCCGACAAAC
3603894 ATTTTTTCTTTCTTCATTT
1 ATTTTTTCTTTCTTCATTT
*
3603913 CTTTTTTCTTT-TGT-ATTT
1 ATTTTTTCTTTCT-TCATTT
*
3603931 AATTTTTCTTT
1 ATTTTTTCTTT
3603942 ATTCTGTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.75
Consensus pattern (19 bp):
ATTTTTTCTTTCTTCATTT
Found at i:3609334 original size:37 final size:36
Alignment explanation
Indices: 3609260--3609771 Score: 423
Period size: 37 Copynumber: 13.7 Consensus size: 36
3609250 TTGAAGTCGT
*
3609260 ATTTTTT-AAAACATATAATATATAGTTTTCTTAAAAA
1 ATTTTTTGAAAACGTATAATATATAGTTTT-TT-AAAA
*
3609297 ATTGTTTTGAAAACATATAATATATAGTTTTTTAAAA
1 ATT-TTTTGAAAACGTATAATATATAGTTTTTTAAAA
* * * *
3609334 ATCAATTTTTAAAAACGTATAGTAGATAG-TCTTTAAAA
1 AT---TTTTTGAAAACGTATAATATATAGTTTTTTAAAA
* * * **
3609372 TATTTTTTTTAAAAAGTATAATAAATAGTTTTAAAAAAA
1 -A-TTTTTTGAAAACGTATAATATATAGTTTT-TTAAAA
*
3609411 ATATAGTTTTGAAAATGTATAATATATAGTTTTTTAAAA
1 AT-T--TTTTGAAAACGTATAATATATAGTTTTTTAAAA
* *
3609450 A---ATTGAAAA-ATCATAATATATAGTTTTTTAAAAA
1 ATTTTTTGAAAACGT-ATAATATATAGTTTTTT-AAAA
*
3609484 ATATTTTTGAAAACGTATAATATATGGTTTTTTTTAAAAATATA
1 AT-TTTTTGAAAACGTATAATATATAG--TTTTTT---AA-A-A
*
3609528 TATATTTTTAAAAACGTATAATATATAG-TTTTTAAAA
1 -AT-TTTTTGAAAACGTATAATATATAGTTTTTTAAAA
*** * *
3609565 A-AAATTGAAAAAGTATAATATATAGTTTTTAAAAA
1 ATTTTTTGAAAACGTATAATATATAGTTTTTTAAAA
** * *
3609600 ATACCTTTAAAAACGTATAATATATA-ATTTTTAAAA
1 AT-TTTTTGAAAACGTATAATATATAGTTTTTTAAAA
*
3609636 ATATTTTTGAAAACGTATAATATATATTTTTTTAAAA
1 AT-TTTTTGAAAACGTATAATATATAGTTTTTTAAAA
* *
3609673 ATACTTTTGAAAACGTATAATATATATTTTTTTAAAA
1 AT-TTTTTGAAAACGTATAATATATAGTTTTTTAAAA
*
3609710 ATACTTTTGAAAACGTATAATATATAG-TTTTTAAAA
1 AT-TTTTTGAAAACGTATAATATATAGTTTTTTAAAA
*
3609746 ATATTTTTGGAAACGTATAATATATA
1 AT-TTTTTGAAAACGTATAATATATA
3609772 TTTAAAAAAT
Statistics
Matches: 400, Mismatches: 45, Indels: 61
0.79 0.09 0.12
Matches are distributed among these distances:
32 1 0.00
33 24 0.06
34 24 0.06
35 9 0.02
36 65 0.16
37 120 0.30
38 36 0.09
39 54 0.14
40 32 0.08
42 8 0.02
43 1 0.00
44 1 0.00
45 25 0.06
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (36 bp):
ATTTTTTGAAAACGTATAATATATAGTTTTTTAAAA
Found at i:3609568 original size:45 final size:45
Alignment explanation
Indices: 3609484--3609569 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
3609474 TTTTTAAAAA
* * ***
3609484 ATATTTTTGAAAACGTATAATATATGGTTTTTTTTAAAAATATAT
1 ATATTTTTAAAAACGTATAATATATAGTTTTTAAAAAAAATATAT
3609529 ATATTTTTAAAAACGTATAATATATAGTTTTTAAAAAAAAT
1 ATATTTTTAAAAACGTATAATATATAGTTTTTAAAAAAAAT
3609570 TGAAAAAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (45 bp):
ATATTTTTAAAAACGTATAATATATAGTTTTTAAAAAAAATATAT
Found at i:3609754 original size:73 final size:73
Alignment explanation
Indices: 3609259--3609774 Score: 458
Period size: 73 Copynumber: 6.9 Consensus size: 73
3609249 TTTGAAGTCG
* * *
3609259 TATTTTTTAAAACATATAATATATAGTTTTCTTAAAAA-ATTGTTTTGAAAACATATAATATATA
1 TATTTTTGAAAACGTATAATATATAG-TTT-TTAAAAATA-T-TTTTGAAAACGTATAATATATA
*
3609323 GTTTTTTAAAAA
62 TTTTTTTAAAAA
* * * * * * * *
3609335 TCAATTTTTAAAAACGTATAGTAGATAGTCTTTAAAATATTTTTTTTAAAAAGTATAATAAATAG
1 T--ATTTTTGAAAACGTATAATATATAGTTTTTAAAA-ATATTTTTGAAAACGTATAATATATA-
***
3609400 TTTTAAAAAAAA
62 TTTTTTTAAAAA
* *
3609412 TATAGTTTTGAAAATGTATAATATATAGTTTTTTAAAAA-A---TTGAAAA-ATCATAATATATA
1 TAT--TTTTGAAAACGTATAATATATAG-TTTTTAAAAATATTTTTGAAAACGT-ATAATATATA
*
3609472 GTTTTTTAAAAAA
62 -TTTTTTTAAAAA
* *
3609485 TATTTTTGAAAACGTATAATATATGGTTTTTTTTAAAAATATATATATTTTTAAAAACGTATAAT
1 TATTTTTGAAAACGTATAATATATAG---TTTTT---AA-A-A-ATATTTTTGAAAACGTATAAT
*
3609550 ATATA-GTTTTTAAAAA
57 ATATATTTTTTTAAAAA
** * ** * *
3609566 -A-AATTGAAAAAGTATAATATATAGTTTTTAAAAAATACCTTTAAAAACGTATAATATATA-AT
1 TATTTTTGAAAACGTATAATATATAGTTTTT-AAAAATATTTTTGAAAACGTATAATATATATTT
3609628 TTTTAAAAA
65 TTTTAAAAA
* *
3609637 TATTTTTGAAAACGTATAATATATATTTTTTTAAAAATACTTTTGAAAACGTATAATATATATTT
1 TATTTTTGAAAACGTATAATATATA-GTTTTTAAAAATATTTTTGAAAACGTATAATATATATTT
3609702 TTTTAAAAA
65 TTTTAAAAA
* *
3609711 TACTTTTGAAAACGTATAATATATAGTTTTTAAAAATATTTTTGGAAACGTATAATATATATTT
1 TATTTTTGAAAACGTATAATATATAGTTTTTAAAAATATTTTTGAAAACGTATAATATATATTT
3609775 AAAAAATTGA
Statistics
Matches: 365, Mismatches: 49, Indels: 55
0.78 0.10 0.12
Matches are distributed among these distances:
71 55 0.15
72 3 0.01
73 119 0.33
74 42 0.12
75 2 0.01
76 32 0.09
77 34 0.09
78 30 0.08
79 20 0.05
80 2 0.01
81 9 0.02
83 16 0.04
84 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (73 bp):
TATTTTTGAAAACGTATAATATATAGTTTTTAAAAATATTTTTGAAAACGTATAATATATATTTT
TTTAAAAA
Found at i:3609831 original size:4 final size:4
Alignment explanation
Indices: 3609822--3609876 Score: 60
Period size: 4 Copynumber: 13.5 Consensus size: 4
3609812 ATAATATTGG
*
3609822 TTAT TTAT TTAT TTAT TTAT TTAT TTCATT TTAT TT-T TTAC TT-T TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT-A-T TTAT TTAT TTAT TTAT TTAT
3609870 TTCAT TT
1 TT-AT TT
3609877 TTAGGTCCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
3 5 0.11
4 30 0.68
5 6 0.14
6 3 0.07
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:3611147 original size:23 final size:25
Alignment explanation
Indices: 3611112--3611160 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
3611102 TTGAATTTTC
3611112 TTTTATTCATTTTATTTACTT-ATTT
1 TTTTATT-ATTTTATTTACTTCATTT
3611137 TTTTATT-TTTTATTTACTTCATTT
1 TTTTATTATTTTATTTACTTCATTT
3611161 CGATCTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.52
24 4 0.17
25 7 0.30
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTATTATTTTATTTACTTCATTT
Found at i:3616247 original size:123 final size:124
Alignment explanation
Indices: 3616041--3616277 Score: 395
Period size: 123 Copynumber: 1.9 Consensus size: 124
3616031 GCACTATAAA
*
3616041 TAAAAGGAAAGTAGCAACTTAGACATTAAACATAATGAAAAGTGAATTTATGCCACATTAGTAGC
1 TAAAAGGAAAGTAGCAAATTAGACATTAAACATAATGAAAAGTGAATTTATGCCACATTAGTAGC
3616106 ACAAAAGAAAAACTGA-TTTTCAGTCAAAATCACATAAGCTTAACATGGGCCTTGTAAG
66 ACAAAAGAAAAACTGATTTTTCAGTCAAAATCACATAAGCTTAACATGGGCCTTGTAAG
*
3616164 TAAAAGGAAAGTAGCAAATTAGACATTTAACATAATGAAAAGTGAATTTATGCCACATTAGTAGC
1 TAAAAGGAAAGTAGCAAATTAGACATTAAACATAATGAAAAGTGAATTTATGCCACATTAGTAGC
* * * ** *
3616229 ACAAAAGGAGAAGTGATTTTTCTTTCAAAATCACATAAGTTTAACATGG
66 ACAAAAGAAAAACTGATTTTTCAGTCAAAATCACATAAGCTTAACATGG
3616278 TCATAGAAAT
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
123 76 0.72
124 29 0.28
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.26
Consensus pattern (124 bp):
TAAAAGGAAAGTAGCAAATTAGACATTAAACATAATGAAAAGTGAATTTATGCCACATTAGTAGC
ACAAAAGAAAAACTGATTTTTCAGTCAAAATCACATAAGCTTAACATGGGCCTTGTAAG
Found at i:3621405 original size:15 final size:15
Alignment explanation
Indices: 3621385--3621416 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3621375 TTCTGGTTTT
3621385 AAACCAGAAAACACA
1 AAACCAGAAAACACA
3621400 AAACCAGAAAACACA
1 AAACCAGAAAACACA
3621415 AA
1 AA
3621417 TGATAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.25, G:0.06, T:0.00
Consensus pattern (15 bp):
AAACCAGAAAACACA
Found at i:3621909 original size:19 final size:20
Alignment explanation
Indices: 3621878--3621917 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
3621868 ATCGGTTTTC
3621878 AACCGGTTTTGACCGGTCTG
1 AACCGGTTTTGACCGGTCTG
3621898 AACCGG-TTTGACCGGTCTG
1 AACCGGTTTTGACCGGTCTG
3621917 A
1 A
3621918 CCCGACCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.28
Consensus pattern (20 bp):
AACCGGTTTTGACCGGTCTG
Found at i:3621952 original size:7 final size:7
Alignment explanation
Indices: 3621940--3621987 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
3621930 AACCCGACCC
3621940 GACCGTT
1 GACCGTT
3621947 GACCGTT
1 GACCGTT
**
3621954 GACCCGACCC
1 GA-CCG--TT
3621964 GACCGTT
1 GACCGTT
3621971 GACCGTT
1 GACCGTT
3621978 GACCGTT
1 GACCGTT
3621985 GAC
1 GAC
3621988 TTCCTTTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 26 0.76
8 3 0.09
9 3 0.09
10 2 0.06
ACGTcount: A:0.17, C:0.35, G:0.27, T:0.21
Consensus pattern (7 bp):
GACCGTT
Found at i:3621958 original size:24 final size:24
Alignment explanation
Indices: 3621931--3621981 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
3621921 GACCCGACTA
3621931 ACCCGACCCGACCGTTGACCGTTG
1 ACCCGACCCGACCGTTGACCGTTG
3621955 ACCCGACCCGACCGTTGACCGTTG
1 ACCCGACCCGACCGTTGACCGTTG
3621979 ACC
1 ACC
3621982 GTTGACTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.18, C:0.43, G:0.24, T:0.16
Consensus pattern (24 bp):
ACCCGACCCGACCGTTGACCGTTG
Found at i:3626349 original size:20 final size:21
Alignment explanation
Indices: 3626324--3626375 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3626314 TTTTCCCAAT
*
3626324 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
3626344 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
3626365 TCGCAATGCGA
1 TCGCAATGCGA
3626376 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:3626454 original size:20 final size:20
Alignment explanation
Indices: 3626406--3626458 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
3626396 TAATACAAAA
* *
3626406 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
3626426 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
3626446 TCGCAACGCGATT
1 TCGCAACGCGATT
3626459 TACATAGCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:3627039 original size:19 final size:19
Alignment explanation
Indices: 3627015--3627055 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
3627005 CGAGATAATT
*
3627015 GCAACGCGAAATAAAAAAC
1 GCAACGCGAAACAAAAAAC
*
3627034 GCAACGCGAAACAAAAATC
1 GCAACGCGAAACAAAAAAC
3627053 GCA
1 GCA
3627056 TTACGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.24, G:0.17, T:0.05
Consensus pattern (19 bp):
GCAACGCGAAACAAAAAAC
Found at i:3627098 original size:20 final size:19
Alignment explanation
Indices: 3627062--3627120 Score: 100
Period size: 19 Copynumber: 3.1 Consensus size: 19
3627052 CGCATTACGA
3627062 TTTTATTTCGCGTTGCGAT
1 TTTTATTTCGCGTTGCGAT
3627081 TTTTATTTCGCGGTTGCGAT
1 TTTTATTTCGC-GTTGCGAT
*
3627101 TTTCATTTCGCGTTGCGAT
1 TTTTATTTCGCGTTGCGAT
3627120 T
1 T
3627121 GTCTGGTCGC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 20 0.53
20 18 0.47
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.51
Consensus pattern (19 bp):
TTTTATTTCGCGTTGCGAT
Found at i:3627140 original size:33 final size:33
Alignment explanation
Indices: 3627103--3627189 Score: 138
Period size: 33 Copynumber: 2.6 Consensus size: 33
3627093 GTTGCGATTT
* *
3627103 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
3627136 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
3627169 TCATTTCCGCGTTGCGATTCT
1 TCATTT-CGCGTTGCGATTCT
3627190 TATTATCTCG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
33 36 0.72
34 14 0.28
ACGTcount: A:0.11, C:0.24, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:3629297 original size:21 final size:21
Alignment explanation
Indices: 3629273--3629339 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
3629263 TCATTCCTCG
3629273 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
3629294 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
3629315 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
3629336 AGAG
1 AGAG
3629340 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:3629298 original size:42 final size:42
Alignment explanation
Indices: 3629218--3629339 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 42
3629208 CCCGACTCAT
* * * * * *
3629218 CTATCATCCCTCAAGAGTCCACTCCTATCGTTGC-AGAGGCCC
1 CTATCATTCCTCGAGAGTCCCCTCCCACCGTT-CAAGAGGCCA
3629260 CTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCA
* * * *
3629302 CTGTCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 CTATCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
3629340 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 5 0.07
42 60 0.90
43 2 0.03
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:3630717 original size:14 final size:14
Alignment explanation
Indices: 3630698--3630733 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3630688 ATTGTTTAAT
3630698 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
3630712 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
3630726 TGATTTGT
1 TGATTTGT
3630734 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:3630921 original size:19 final size:19
Alignment explanation
Indices: 3630893--3631023 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
3630883 GAAACTCGAA
*
3630893 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
3630912 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
3630928 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
3630945 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
3630959 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
3630978 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
* *
3630994 CTCG--TTGCAATTTTCAT
1 TTCGCATTGCGATTTTCAT
3631011 TTCGCATTGCGAT
1 TTCGCATTGCGAT
3631024 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 15, Indels: 30
0.65 0.12 0.24
Matches are distributed among these distances:
14 22 0.27
16 13 0.16
17 13 0.16
19 34 0.41
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:3630939 original size:33 final size:32
Alignment explanation
Indices: 3630897--3631023 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
3630887 CTCGAATTCG
3630897 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
3630930 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
3630963 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
3630996 CGTTGCAATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
3631024 AGTAATTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
33 79 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:3631007 original size:66 final size:66
Alignment explanation
Indices: 3630891--3631022 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
3630881 GCGAAACTCG
* *
3630891 AATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCG
1 AATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGCG
3630956 A
66 A
*
3630957 AATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCGCATTGCG
1 AATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGCG
3631022 A
66 A
3631023 TAGTAATTTC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.42
Consensus pattern (66 bp):
AATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGCG
A
Found at i:3633334 original size:12 final size:12
Alignment explanation
Indices: 3633317--3633341 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3633307 TCTTCGGGGA
3633317 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3633329 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3633341 C
1 C
3633342 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:3633550 original size:24 final size:24
Alignment explanation
Indices: 3633516--3633569 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3633506 CTGAAACATC
* *
3633516 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
3633540 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
3633564 ATCAAA
1 ATCAAA
3633570 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:3634668 original size:19 final size:19
Alignment explanation
Indices: 3634623--3634680 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
3634613 GACATTCATT
*
3634623 TGACTATCGCAACGCAAAAA
1 TGACTATCGCAACGC-GAAA
3634643 TGACTATCGCAACGCGAAA
1 TGACTATCGCAACGCGAAA
* *
3634662 TGGCTATCGCAACGAGAAA
1 TGACTATCGCAACGCGAAA
3634681 ATCGCAATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (19 bp):
TGACTATCGCAACGCGAAA
Found at i:3634744 original size:19 final size:19
Alignment explanation
Indices: 3634720--3634768 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
3634710 GATTTTCTCG
*
3634720 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTCGCA
3634739 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
3634758 TTACGATTTTC
1 TTGCGATTTTC
3634769 TCGTTGCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.51
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:3634904 original size:14 final size:14
Alignment explanation
Indices: 3634885--3634921 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3634875 CATCAATTAA
3634885 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
3634899 ACAAATCATCTTTT
1 ACAAATCAACATTT
3634913 ACAAATCAA
1 ACAAATCAA
3634922 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:3636823 original size:20 final size:19
Alignment explanation
Indices: 3636788--3636854 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
3636778 GAAACTTAAA
3636788 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
3636807 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
3636827 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
3636846 ATCGCAACG
1 ATCGCAACG
3636855 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Done.