Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
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: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 27 of 30
Found at i:9476522 original size:55 final size:54
Alignment explanation
Indices: 9476458--9476714 Score: 221
Period size: 55 Copynumber: 4.7 Consensus size: 54
9476448 AACCGTTAAA
* * * * *
9476458 TTTTCAACATGATGTGTAATTACTAAATCTTTAACATGATTTGTAACAATTACAT
1 TTTTCAACATGATATGTAATAACTAAATCTTCAACATG-CTTGTAACAACTACAT
* * * * * *
9476513 TTTTTAACATGGTATGTAATAATTAAAT-TGTCAACATTGCTTGTAACAATTATAA
1 TTTTCAACATGATATGTAATAACTAAATCT-TCAACA-TGCTTGTAACAACTACAT
* * * * * *
9476568 TTTTCAACATGGTATATAACAACTAAATCTTTAACATCGCCTGTAACAACTATAT
1 TTTTCAACATGATATGTAATAACTAAATCTTCAACAT-GCTTGTAACAACTACAT
* * *
9476623 TTTTCAGCATGAGATGTAATAACTAAATCTTCAACATGGCTTATAACAACTACAT
1 TTTTCAACATGATATGTAATAACTAAATCTTCAACAT-GCTTGTAACAACTACAT
* * * * *
9476678 TTTTCATCGT-AGTGTGTAACAACTAAATTTTCAACAT
1 TTTTCAACATGA-TATGTAATAACTAAATCTTCAACAT
9476715 AGTGTGTCAT
Statistics
Matches: 164, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
54 3 0.02
55 158 0.96
56 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (54 bp):
TTTTCAACATGATATGTAATAACTAAATCTTCAACATGCTTGTAACAACTACAT
Found at i:9476597 original size:110 final size:110
Alignment explanation
Indices: 9476456--9476671 Score: 258
Period size: 110 Copynumber: 2.0 Consensus size: 110
9476446 TTAACCGTTA
* * ** ** * *
9476456 AATTTTCAACATGATGTGTAATTACTAAATCTTTAACAT-GATTTGTAACAATTACATTTTTTAA
1 AATTTTCAACATGATATATAACAACTAAATCTTTAACATCG-CCTGTAACAACTACATTTTTCAA
* * *
9476520 CATG-GTATGTAATAATTAAAT-TGTCAACATTGCTTGTAACAATTAT
65 CATGAG-ATGTAATAACTAAATCT-TCAACATGGCTTATAACAATTAT
* * *
9476566 AATTTTCAACATGGTATATAACAACTAAATCTTTAACATCGCCTGTAACAACTATATTTTTCAGC
1 AATTTTCAACATGATATATAACAACTAAATCTTTAACATCGCCTGTAACAACTACATTTTTCAAC
9476631 ATGAGATGTAATAACTAAATCTTCAACATGGCTTATAACAA
66 ATGAGATGTAATAACTAAATCTTCAACATGGCTTATAACAA
9476672 CTACATTTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
110 86 0.97
111 3 0.03
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (110 bp):
AATTTTCAACATGATATATAACAACTAAATCTTTAACATCGCCTGTAACAACTACATTTTTCAAC
ATGAGATGTAATAACTAAATCTTCAACATGGCTTATAACAATTAT
Found at i:9476673 original size:27 final size:28
Alignment explanation
Indices: 9476337--9476674 Score: 112
Period size: 27 Copynumber: 12.3 Consensus size: 28
9476327 ATATGACGTA
*
9476337 TAACAATTA-AATCTTCAACATGGCTTG
1 TAACAACTATAATCTTCAACATGGCTTG
** * * *
9476364 TAGTAACTAT-ATTTTGCAATATGGCGTG
1 TAACAACTATAATCTT-CAACATGGCTTG
* * * *
9476392 TAATAGCTA-AAT-TTCAAACATTGCGTG
1 TAACAACTATAATCTTC-AACATGGCTTG
* * *
9476419 TAACAACTATATTTTTCAACATGG-TGTT
1 TAACAACTATAATCTTCAACATGGCT-TG
*** * *
9476447 TAACCGTTA-AATTTTCAACAT-GATGTG
1 TAACAACTATAATCTTCAACATGGCT-TG
** * **
9476474 TAATTACTA-AATCTTTAACATGATTTG
1 TAACAACTATAATCTTCAACATGGCTTG
* * * * *
9476501 TAACAATTACATTTTTTAACATGG-TATG
1 TAACAACTATAATCTTCAACATGGCT-TG
* * *
9476529 TAATAATTA-AAT-TGTCAACATTGCTTG
1 TAACAACTATAATCT-TCAACATGGCTTG
* * *
9476556 TAACAATTATAATTTTCAACATGG-TATA
1 TAACAACTATAATCTTCAACATGGCT-TG
* * *
9476584 TAACAACTA-AATCTTTAACATCGCCTG
1 TAACAACTATAATCTTCAACATGGCTTG
* * * *
9476611 TAACAACTATATTTTTCAGCATGAG-ATG
1 TAACAACTATAATCTTCAACATG-GCTTG
* *
9476639 TAATAACTA-AATCTTCAACATGGCTTA
1 TAACAACTATAATCTTCAACATGGCTTG
9476666 TAACAACTA
1 TAACAACTA
9476675 CATTTTTCAT
Statistics
Matches: 230, Mismatches: 61, Indels: 40
0.69 0.18 0.12
Matches are distributed among these distances:
26 4 0.02
27 126 0.55
28 95 0.41
29 5 0.02
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (28 bp):
TAACAACTATAATCTTCAACATGGCTTG
Found at i:9476682 original size:110 final size:110
Alignment explanation
Indices: 9476479--9476714 Score: 255
Period size: 110 Copynumber: 2.1 Consensus size: 110
9476469 ATGTGTAATT
** * * *
9476479 ACTAAATCTTTAACATGATTTGTAACAATTACATTTTTTAACATGGTATGTAATAATTAAATTGT
1 ACTAAATCTTTAACATGACCTGTAACAACTACATTTTTCAACATGGTATGTAATAACTAAATTGT
* * * * *
9476544 CAACATTGCTTGTAACAATTATAATTTTCAACATGGTATATAACA
66 CAACATGGCTTATAACAACTACAATTTTCAACATAGTATATAACA
* *
9476589 ACTAAATCTTTAACATCG-CCTGTAACAACTATATTTTTCAGCATGAG-ATGTAATAACTAAATC
1 ACTAAATCTTTAACAT-GACCTGTAACAACTACATTTTTCAACATG-GTATGTAATAACTAAAT-
* * * * *
9476652 T-TCAACATGGCTTATAACAACTACATTTTTCATCGTAGTGTGTAACA
63 TGTCAACATGGCTTATAACAACTACAATTTTCAACATAGTATATAACA
9476699 ACTAAAT-TTTCAACAT
1 ACTAAATCTTT-AACAT
9476715 AGTGTGTCAT
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
109 3 0.03
110 99 0.94
111 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (110 bp):
ACTAAATCTTTAACATGACCTGTAACAACTACATTTTTCAACATGGTATGTAATAACTAAATTGT
CAACATGGCTTATAACAACTACAATTTTCAACATAGTATATAACA
Found at i:9483417 original size:66 final size:66
Alignment explanation
Indices: 9483311--9483441 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
9483301 TAGATAAGGG
* *
9483311 GTTATTATCCTATAAATAGACCTTTTCACTTCATTTGTAGATACACACTTAAATAAGATTTTCTT
1 GTTATTAGCCTATAAATAGACCTTTTCACTTCATCTGTAGATACACACTTAAATAAGATTTTCTT
9483376 A
66 A
* *
9483377 GTTATTAGCCTATAAATAGGCCTTTTCACTTCATCTGTAGATACACACTTGAATAAGATTTTCTT
1 GTTATTAGCCTATAAATAGACCTTTTCACTTCATCTGTAGATACACACTTAAATAAGATTTTCTT
9483442 TCTTTCTCTA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (66 bp):
GTTATTAGCCTATAAATAGACCTTTTCACTTCATCTGTAGATACACACTTAAATAAGATTTTCTT
A
Found at i:9484597 original size:14 final size:15
Alignment explanation
Indices: 9484580--9484609 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9484570 AAAATATAAT
9484580 TACTATTA-TATATA
1 TACTATTAGTATATA
9484594 TACTATTAGTATATA
1 TACTATTAGTATATA
9484609 T
1 T
9484610 NTATTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (15 bp):
TACTATTAGTATATA
Found at i:9484882 original size:35 final size:34
Alignment explanation
Indices: 9484819--9484892 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 34
9484809 TGTAATGTTG
* *
9484819 TTTAAGTTGTTGATTGGATATTT-GTTTTTAGTTA
1 TTTAAGTTGATGATTGGATATTTATTTTTTA-TTA
9484853 TTTAAGTTGAT-ATTTGAGATATTTATTTTTTATTA
1 TTTAAGTTGATGA-TTG-GATATTTATTTTTTATTA
9484888 TTTAA
1 TTTAA
9484893 ATTTAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 1 0.03
34 13 0.37
35 15 0.43
36 6 0.17
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (34 bp):
TTTAAGTTGATGATTGGATATTTATTTTTTATTA
Found at i:9485776 original size:12 final size:13
Alignment explanation
Indices: 9485750--9485794 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
9485740 CTTTTTGATA
*
9485750 TTTACATTT-TGT
1 TTTATATTTATGT
*
9485762 TTTCTATTTAT-T
1 TTTATATTTATGT
9485774 TTTATATTTATGT
1 TTTATATTTATGT
9485787 TTTA-ATTT
1 TTTATATTT
9485795 TCATTCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 22 0.79
13 6 0.21
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (13 bp):
TTTATATTTATGT
Found at i:9496787 original size:170 final size:171
Alignment explanation
Indices: 9495912--9497769 Score: 1935
Period size: 171 Copynumber: 11.0 Consensus size: 171
9495902 NNNNNNNNNN
* * *
9495912 TCAACTCAAAATCAATTATAAGATTATAAAACCATTTAAAGCGAG-AATAAGGCTTTCGAAGACA
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
* *
9495976 TGAGTGACTATAAATGGACTTTT-TTGTCAATGGATGGCATTCGCTTCATGTTTCTCCAGGTAAA
66 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTCAAGGTAAA
* * * * * ** *
9496040 TATTCTATTATGATATGTTCTAATGAAAAAGGTAAAAAAGT
131 CATTCAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAAT
* * *
9496081 TCAACTTAAATTCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGGA
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
* * * * ** * *
9496146 TAAGTGACTATATATGGACTTTTTTTGTCAATGGATGGCTTTCACTTCAAATATCTCAAGGAAAA
66 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTCAAGGTAAA
* * * *
9496211 TATTCAATTATAAT-TAGTTTTAACCAAAACGATAAAAAAAG
131 CATTCAATTATAATCT-GTTTTAACCAAAAAGGTAAAAAAAT
* * * * *
9496252 TCAACTTAAAATCAGTTATAAGATTATAAAACCATTTAAAGTGAGTAATAAGGTTTTTGAAGGCA
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
* * * * * *
9496317 TCAGAGACTATAAATGGACTTGTTTTTTTGTCAATGGATGGCTTTTGCTTCATGATTTGT-GAGG
66 TGAGTGACTATAAATGGAC---TTTTCTTGTCAATGGATGGCTTTCGCTTCATG-TTTCTCAAGG
*
9496381 TAAACATTCAATTATAATCTGTTTTAACCAAAAATGTAGAAAAAAT
127 TAAACATTCAATTATAATCTGTTTTAACCAAAAAGGTA-AAAAAAT
* * ** *
9496427 T-GACTTAAAATCAATTATGAGATTATAAAACCACTTAAAGAAAGTAATAAGGCTTTCAAAGGCA
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
* * * * * *
9496491 TGAGT-AGCTATAATTGAACTTTTCTTCTGAATGAATGGCTTTCGCTTCATGTTTCTCGAGG---
66 TGAGTGA-CTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTCAAGGTAA
* * * * *
9496552 -CA-T-GA--GTGATCTATTTT-ACAAAATAAGGTAAAAAAAT
130 ACATTCAATTATAATCTGTTTTAACCAAA-AAGGTAAAAAAAT
* * * * **
9496589 TCAACTTAAAACCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGACTTT-TAAGGTG
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
* * * * *
9496653 TGAGTGGCTATAAATGGACTTTTCTTGTCAGTGGATGACTTTTGCTTCATGTTTCCCAAGGTAAA
66 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTCAAGGTAAA
** * *
9496718 CATTCAATTATGCTCTGTTTTAAGCAAAAAGGCAAAAAAAT
131 CATTCAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAAT
* * * *
9496759 TCAGCTTCAAATCAATTATGAGATTATAAAATCATTGTAAAGCGAGTAATATGGCTTTCGAAGGC
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATT-TAAAGCGAGTAATAAGGCTTTCGAAGGC
* * * * *
9496824 ATGAGTGGCTATAAATGGACTTTTCTTATCAATGAATGGCTTTCGCTTCACGTTTGT-AGAGGTA
65 ATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTCA-AGGTA
* * * *
9496888 AACATTCAATTATAAACTTTTTTAACCAAAAATGTAAGAAAAT
129 AACATTCAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAAT
* * *
9496931 TCAACTGAAAATCAATTATAAGATTATAAAACCATTTAAAGCAAG-AATAAGGCTTTCGAAGGCA
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
* ** * ** *
9496995 TGAGTGACTATAAATGGACTTTTTTTGTCAATAAATGGCATTCGCTTCACATTTCTCAAGGCAAA
66 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTCAAGGTAAA
* * * * ** *
9497060 TATTCTATTATGATCTGTTCTAATGAAAAAGGTAAAAAAGT
131 CATTCAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAAT
* * *
9497101 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGATGGGA
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
* * * * * * * *
9497166 TAAGTTACTATAAATGGACTTTTCTTATCAATGGATGGCTTTCGCTTCATATATCCCATGGCAAA
66 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTCAAGGTAAA
* * * * *
9497231 TATTCAATTATAATCAGTTTTAACCAAAATGGTTAAAAAAG
131 CATTCAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAAT
* * *
9497272 TCAACTTAAAATCAGTTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGTTTTCGAAGGCA
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
* * * * * **
9497337 TAAGAGACTATAAATGG-CTTTTTTTGTCAATGGATGGCTTTCGCTTCACGATTCTTGAGGTAAA
66 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTCAAGGTAAA
*
9497401 CATTCAATTATAATCTGTTTTAACCAAAAATGTAGAAAAAAT
131 CATTCAATTATAATCTGTTTTAACCAAAAAGGTA-AAAAAAT
* * * * * *
9497443 T-AACTTAAAATCAATTATGAGATTATGAAACCACTGAAAGCAAGTAATAAAGCTTTCAAAGGCA
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
* * * * * *
9497507 TGAGTGGCTATAATTGAACTTTTCTTCTCAATGAATGGCTTCCGCTTCATGTTTCTCAAGG----
66 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTCAAGGTAAA
* * * * *
9497568 CA-T-GA--GTGATCT-ATTT-ACAAAATAAGGTAAAAAAAT
131 CATTCAATTATAATCTGTTTTAACCAAA-AAGGTAAAAAAAT
* * *
9497604 TCAACTTAAAA-CTAATTATGAGATTATAAAACCATTTAAAGTGAATAATAGGGCTTTCGAAGGC
1 TCAACTTAAAATC-AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGC
* * * * * **
9497668 ATGAGCGACTATAAATGGAGTTTTCTTATCAATGCG-TGGCTTTCGCTTTACGTTTCTTGAGGTA
65 ATGAGTGACTATAAATGGACTTTTCTTGTCAATG-GATGGCTTTCGCTTCATGTTTCTCAAGGTA
* * * *
9497732 AACATTCAATTGTAATATGTTTTAACCAATAATGTAAA
129 AACATTCAATTATAATCTGTTTTAACCAAAAAGGTAAA
9497770 GAATTAAAGT
Statistics
Matches: 1390, Mismatches: 255, Indels: 86
0.80 0.15 0.05
Matches are distributed among these distances:
161 14 0.01
162 174 0.13
163 69 0.05
165 2 0.00
166 6 0.00
167 6 0.00
168 2 0.00
169 41 0.03
170 376 0.27
171 432 0.31
172 127 0.09
173 1 0.00
174 129 0.09
175 11 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (171 bp):
TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTCAAGGTAAA
CATTCAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAAT
Found at i:9497285 original size:341 final size:338
Alignment explanation
Indices: 9495912--9497757 Score: 1846
Period size: 341 Copynumber: 5.5 Consensus size: 338
9495902 NNNNNNNNNN
* * *
9495912 TCAACTCAAAATCAATTATAAGATTATAAAACCATTTAAAGCGAG-AATAAGGCTTTCGAAGACA
1 TCAACTTAAAATCAATTATAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCA
* ** *
9495976 TGAGTGACTATAAATGGAC-TTTTTTGTCAATGGATGGCATTCGCTTCATGTTTCTCCAGGTAAA
66 TGAGTGACTATAAATGGACTTTTTTTGTCAATGGATGGCTTTCGCTTCACATTTCTCAAGGTAAA
* * * * * * *
9496040 TATTCTATTATGATATGTTCTAATGAAAAAGGTAAAAAAGTTCAACTTAAATTCAATTATGAGAT
131 CATTCAATTATGATCTGTTTTAACGAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
* * * * *
9496105 TATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGGATAAGTGACTATATATGGACTTTTT
196 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTC
* * * * * *
9496170 TTGTCAATGGATGGCTTTCACTTCAAATATCTCAAGGAAAATATTCAATTATAATTAGTTTTAAC
261 TTATCAATGAATGGCTTTCGCTTCATATATC-CCAGGCAAA-ATTCAATTATAA-TA-TTTTAAC
* * *
9496235 CAAAACGATAAAAAAAG
322 CAAAATGGTAAAAAAAT
* ** * *
9496252 TCAACTTAAAATCAGTTATAAGATTATAAAACCATTTAAAGTGAGTAATAAGGTTTTTGAAGGCA
1 TCAACTTAAAATCAATTATAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCA
* * * * * *
9496317 TCAGAGACTATAAATGGACTTGTTTTTTTGTCAATGGATGGCTTTTGCTTCATGATTTGT-GAGG
66 TGAGTGACTATAAATGGAC---TTTTTTTGTCAATGGATGGCTTTCGCTTCA-CATTTCTCAAGG
* * * *
9496381 TAAACATTCAATTATAATCTGTTTTAACCAAAAATGTAGAAAAAATT-GACTTAAAATCAATTAT
127 TAAACATTCAATTATGATCTGTTTTAACGAAAAAGGTA-AAAAAATTCAACTTAAAATCAATTAT
* ** * * *
9496445 GAGATTATAAAACCACTTAAAGAAAGTAATAAGGCTTTCAAAGGCATGAGT-AGCTATAATTGAA
191 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGA-CTATAAATGGA
* * * * * * * * *
9496509 CTTTTCTTCTGAATGAATGGCTTTCGCTTCATGTTTCTCGAGGC---A-TGAGTGAT-CTATTTT
255 CTTTTCTTATCAATGAATGGCTTTCGCTTCATATATC-CCAGGCAAAATTCAATTATAATATTTT
9496569 -A-CAAAATAAGGTAAAAAAAT
319 AACCAAAAT--GGTAAAAAAAT
* * * * **
9496589 TCAACTTAAAACCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGACTTT-TAAGGTG
1 TCAACTTAAAATCAATTATAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCA
* * * * * ** *
9496653 TGAGTGGCTATAAATGGACTTTTCTTGTCAGTGGATGACTTTTGCTTCATGTTTCCCAAGGTAAA
66 TGAGTGACTATAAATGGACTTTTTTTGTCAATGGATGGCTTTCGCTTCACATTTCTCAAGGTAAA
* * * *
9496718 CATTCAATTATGCTCTGTTTTAA-GCAAAAAGGCAAAAAAATTCAGCTTCAAATCAATTATGAGA
131 CATTCAATTATGATCTGTTTTAACG-AAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGA
* * *
9496782 TTATAAAATCATTGTAAAGCGAGTAATATGGCTTTCGAAGGCATGAGTGGCTATAAATGGACTTT
195 TTATAAAACCATT-TAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTT
* * ** * *
9496847 TCTTATCAATGAATGGCTTTCGCTTCACGTTTGT-AGAGGTAAACATTCAATTATAAACTTTTTT
259 TCTTATCAATGAATGGCTTTCGCTTCA--TATATCCCAGGCAAA-ATTCAATTAT-AA-TATTTT
*
9496911 AACCAAAAAT-GTAAGAAAAT
319 AACC-AAAATGGTAAAAAAAT
*
9496931 TCAACTGAAAATCAATTATAAGATTATAAAACCATTTAAAGCAAG-AATAAGGCTTTCGAAGGCA
1 TCAACTTAAAATCAATTATAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCA
** * *
9496995 TGAGTGACTATAAATGGACTTTTTTTGTCAATAAATGGCATTCGCTTCACATTTCTCAAGGCAAA
66 TGAGTGACTATAAATGGACTTTTTTTGTCAATGGATGGCTTTCGCTTCACATTTCTCAAGGTAAA
* * * * *
9497060 TATTCTATTATGATCTGTTCTAATGAAAAAGGTAAAAAAGTTCAACTTAAAATCAATTATGAGAT
131 CATTCAATTATGATCTGTTTTAACGAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
* * * * *
9497125 TATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGATGGGATAAGTTACTATAAATGGACTTTTC
196 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTC
*
9497190 TTATCAATGGATGGCTTTCGCTTCATATATCCCATGGCAAATATTCAATTATAATCAGTTTTAAC
261 TTATCAATGAATGGCTTTCGCTTCATATATCCCA-GGCAAA-ATTCAATTATAAT-A-TTTTAAC
* *
9497255 CAAAATGGTTAAAAAAG
322 CAAAATGGTAAAAAAAT
* * ** *
9497272 TCAACTTAAAATCAGTTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGTTTTCGAAGGCA
1 TCAACTTAAAATCAATTATAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCA
* * **
9497337 TAAGAGACTATAAATGG-CTTTTTTTGTCAATGGATGGCTTTCGCTTCACGA-TTCTTGAGGTAA
66 TGAGTGACTATAAATGGACTTTTTTTGTCAATGGATGGCTTTCGCTTCAC-ATTTCTCAAGGTAA
* * *
9497400 ACATTCAATTATAATCTGTTTTAACCAAAAATGTAGAAAAAATT-AACTTAAAATCAATTATGAG
130 ACATTCAATTATGATCTGTTTTAACGAAAAAGGTA-AAAAAATTCAACTTAAAATCAATTATGAG
* * * * * * * * *
9497464 ATTATGAAACCACTGAAAGCAAGTAATAAAGCTTTCAAAGGCATGAGTGGCTATAATTGAACTTT
194 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTT
* * * * * * * * *
9497529 TCTTCTCAATGAATGGCTTCCGCTTCATGTTTCTCAAGGC---A-TGAGTGAT-CTA-TTT-A-C
259 TCTTATCAATGAATGGCTTTCGCTTCATATATC-CCAGGCAAAATTCAATTATAATATTTTAACC
9497586 AAAATAAGGTAAAAAAAT
323 AAAAT--GGTAAAAAAAT
* * *
9497604 TCAACTTAAAA-CTAATTATGAGATTATAAAACCATTTAAAGTGAA-TAATAGGGCTTTCGAAGG
1 TCAACTTAAAATC-AATTATAAGATTATAAAACCATTTAAAG-CAAGTAATAAGGCTTTCGAAGG
* * * * * * **
9497667 CATGAGCGACTATAAATGGAGTTTTCTTATCAATGCG-TGGCTTTCGCTTTACGTTTCTTGAGGT
64 CATGAGTGACTATAAATGGACTTTTTTTGTCAATG-GATGGCTTTCGCTTCACATTTCTCAAGGT
* * *
9497731 AAACATTCAATTGTAATATGTTTTAAC
128 AAACATTCAATTATGATCTGTTTTAAC
9497758 CAATAATGTA
Statistics
Matches: 1251, Mismatches: 209, Indels: 99
0.80 0.13 0.06
Matches are distributed among these distances:
330 6 0.00
331 2 0.00
332 94 0.08
333 153 0.12
334 74 0.06
335 6 0.00
336 29 0.02
337 64 0.05
338 3 0.00
339 9 0.01
340 55 0.04
341 352 0.28
342 222 0.18
343 2 0.00
344 2 0.00
345 167 0.13
346 11 0.01
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (338 bp):
TCAACTTAAAATCAATTATAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCA
TGAGTGACTATAAATGGACTTTTTTTGTCAATGGATGGCTTTCGCTTCACATTTCTCAAGGTAAA
CATTCAATTATGATCTGTTTTAACGAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTC
TTATCAATGAATGGCTTTCGCTTCATATATCCCAGGCAAAATTCAATTATAATATTTTAACCAAA
ATGGTAAAAAAAT
Found at i:9497887 original size:134 final size:134
Alignment explanation
Indices: 9497639--9497894 Score: 327
Period size: 134 Copynumber: 1.9 Consensus size: 134
9497629 ATAAAACCAT
* ** * *
9497639 TTAAAGTGAATAATAGGGCTTTCGAAGGCATGAGCGACTATAAATGGAGTTTTCTTATCAATGCG
1 TTAAAGTGAATAATAGGGCTTTCAAAGGCATGAGCGACTATAAATAAACTTTTCTTATCAACGCG
* * *
9497704 TGGCTTTCGCTTTACGTTTCTTGAGGTAAACATTCAATTGTAATATGTTTTAACCAATAATGTAA
66 TGGCTTTCGCTTCACGTATCTTGAGGTAAACATTCAATTATAATATGTTTTAACCAATAATGTAA
9497769 AGAA
131 AGAA
* * *
9497773 TTAAAGTGAGTAATTA-GGCTTTCAAAGGCATGAGTGACTATAAATAAACTTTTCTTGTCAACG-
1 TTAAAGTGAATAA-TAGGGCTTTCAAAGGCATGAGCGACTATAAATAAACTTTTCTTATCAACGC
* * * * * *
9497836 GATGGCTTTCTCTTCATGTATGTTGAGGTAAATATTCAATTATTATCTGTTTTAACCAA
65 G-TGGCTTTCGCTTCACGTATCTTGAGGTAAACATTCAATTATAATATGTTTTAACCAA
9497895 AATAGCAAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
133 1 0.01
134 100 0.97
135 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.37
Consensus pattern (134 bp):
TTAAAGTGAATAATAGGGCTTTCAAAGGCATGAGCGACTATAAATAAACTTTTCTTATCAACGCG
TGGCTTTCGCTTCACGTATCTTGAGGTAAACATTCAATTATAATATGTTTTAACCAATAATGTAA
AGAA
Found at i:9498308 original size:171 final size:170
Alignment explanation
Indices: 9497773--9500449 Score: 2791
Period size: 171 Copynumber: 15.7 Consensus size: 170
9497763 ATGTAAAGAA
* * ** *
9497773 TTAAAGTGAGTAATTAGGCTTTCAAAGGCATGAGTGACTATAAATAAACTTTTCTTGTCAACGGA
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGA
* * * *
9497838 TGGCTTTCTCTTCATGTATGT-TGAGG-TAAATATTCAATTATTATCTGTTTTAACCAAAATA-G
66 TGGCTTTCGCTTCATCT-T-TCCGAGGCT-AATATTCAATTATAATCTGTTTTAACCAAAA-AGG
* * * *
9497900 CAAAAAAGTTCAACTTAAAACCAATTATGAGATTATAAAACTAT
127 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
* * * *
9497944 TTTAATTGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTT-TT-TACAATAG
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGT-CAATGG
* * * *
9498007 AGGGCTTTTGCTTCA-CATTTCTCGAGG-TAAATACTCAATTATAATCTG-TTTAACCAAAAATG
65 ATGGCTTTCGCTTCATC-TTTC-CGAGGCT-AATATTCAATTATAATCTGTTTTAACCAAAAAGG
** * * * *
9498069 TAGCAAAA-TGAACTTAAAAGCAAGTATGAGATTAAAAAACCAT
127 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
* ** ** * * *
9498112 TTAAAGCGAGTAATAAGGCTTTCGAACCCATGAGTGACTATAAATAAACTTTTCTTCTTAATGAA
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGA
* * * * *
9498177 TGGGTTTTGCTGCATCTTTCCGGAGGCTAATCTTCAATTATGATCTGTTTTAACCAAAAAGGTAA
66 TGGCTTTCGCTTCATCTTTCC-GAGGCTAATATTCAATTATAATCTGTTTTAACCAAAAAGGTAA
* * * *
9498242 AAAAATTCAACTAAAAAACAATCATGAGATTATAAAACCTT
130 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
* * * * **
9498283 TTAAAGTGAGTAATAATGG-TTTCGAAGGCACGAGCGACTATAAATGAACTCTTCTTCCCAATGG
1 TTAAAGTGAGTAATAA-GGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGG
* * * * * **
9498347 ATGGCTTTCGCTTCATGTTTCCTGAGGCAAAGATTCACTTATAATTTGTTTTAACCAAAAAGCCA
65 ATGGCTTTCGCTTCATCTTTCC-GAGGCTAATATTCAATTATAATCTGTTTTAACCAAAAAGGTA
9498412 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
129 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
* * * *
9498454 TTAAGGTGAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATGTACTTTTCTTTTCAA-GAG
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATG-G
* * * * * * * *
9498518 ATGGCTTTTGCGTCGTGTATTCTGACGCAAATATTCAATTATAATCTGTTTTAACCAAAATGGTA
65 ATGGCTTTCGCTTCATCT-TTCCGAGGCTAATATTCAATTATAATCTGTTTTAACCAAAAAGGTA
* * *
9498583 AAAAAATTCAATTTAAAACCAATTACGAGATTATAAAACCAT
129 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
** * *
9498625 TTAAAGCAAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGACTTTTCTTGTCAATGGA
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGA
* * * * **
9498690 TGGCTTTTGCTTCA-CGTTTCTCGAGG-TAAATATTCAATTATAATCTCTTTTAACTAAATATTT
66 TGGCTTTCGCTTCATC-TTTC-CGAGGCT-AATATTCAATTATAATCTGTTTTAACCAAAAAGGT
* *
9498753 TAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACCAT
128 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
* * * *
9498796 TTAACA-CGAGTAATAAGGCTTTTGAAGGCATGAATGACTATAAATGGACTTTTCTTGACAATGG
1 TTAA-AGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGG
* * * * *
9498860 ATGGCTTTCGCTTCA-CGTTTCCTAGGCAAATATCCAATTATAACCTGTTTTAACCAAAAATGTA
65 ATGGCTTTCGCTTCATC-TTTCCGAGGCTAATATTCAATTATAATCTGTTTTAACCAAAAAGGTA
* *
9498924 AAAATATTCAACTTGAAATCAATTATGAGATTATAAAACCAT
129 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
* * * * * *
9498966 TTAGATTGAGTAATAAGACTTTTGAAGGTATGAGTGACTATAAATGGACTTTTCTTGTCAACGGA
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGA
* * * * * * * *
9499031 TGACTTTTGCTTCATGTATCCCAAGGC-AATTATTCAATTATAATCTATTTTAAGCAAAACA-GC
66 TGGCTTTCGCTTCATCT-TTCCGAGGCTAA-TATTCAATTATAATCTGTTTTAACCAAAA-AGGT
*
9499094 AAAAGAATTCAAC-TAAAAGTCAATTATGAGATTAT-AAACTCAT
128 AAAAAAATTCAACTTAAAA-TCAATTATGAGATTATAAAAC-CAT
** * *
9499137 TTAAAGCAAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATGAACTTTT-TTCGTCAATGG
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTT-GTCAATGG
* * * * * * * *
9499201 ATGGCTTTCACTTCATGTTTCCCAAGGCAAATATTCTATTATGATCTGTTTTAACTAATAAGGTA
65 ATGGCTTTCGCTTCATCTTT-CCGAGGCTAATATTCAATTATAATCTGTTTTAACCAAAAAGGTA
*
9499266 AAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCAT
129 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
* * * * * * *
9499308 TTATAGCGAGTAATAAGGCTTTTGAAGGCATGAGTGACTACAAATAGACTTTTCTTATCAATAGA
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGA
* * * * * *
9499373 TGACTTTCGCTTCATGTTTCCCAAGG-TAAACATTTAATTATAATCTGTTTTAACCAAAATGGT-
66 TGGCTTTCGCTTCATCTTT-CCGAGGCT-AATATTCAATTATAATCTGTTTTAACCAAAAAGGTA
* * * * *
9499436 AAAACATTAAACTTGAAACCAATTATGAGATTCTAAAACCAT
129 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
* * * * **
9499478 TTAAAGCT-AGCAATAAGGCTTTTGAAGGCATAAGTGACTATAAATGCAGC-TTTCTTCCCAATG
1 TTAAAG-TGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGA-CTTTTCTTGTCAATG
* * **
9499541 GATGGCTTTCGCTTTA-CGTTTCCTAAGGAAAATATTCAATTATAATCTGTTTTAATCC-AAAAG
64 GATGGCTTTCGCTTCATC-TTTCC-GAGGCTAATATTCAATTATAATCTGTTTTAA-CCAAAAAG
* ** *
9499604 GCAAAACCATTCAACTCAAAATCAATTAT-ATGATTATAAAACCAT
126 GTAAAAAAATTCAACTTAAAATCAATTATGA-GATTATAAAACCAT
** * * ** *
9499649 TTATGGCGATTAATAAGGCTTTTAAAGGCATAAGTGACTATAAATGGACTTTTCTTGTCAATGGA
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGA
* * * * * *
9499714 TGGCTTCCACTTCA-CATTTTTC-AAGCTAAACATTCAATTATAATCTTTTTTTAACCAAAAAGG
66 TGGCTTTCGCTTCATC--TTTCCGAGGCT-AATATTCAATTATAATC-TGTTTTAACCAAAAAGG
*
9499777 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCAT
127 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
* * * * * *
9499821 TTACAGTAAGTAATAAGGCTTTTGAAGGCATTAGTGACTATAAATGAACTTTTCTTGTCAATTGA
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGA
* * * * *
9499886 TGGCTTTCGCTTCATGTTTCTC-ATGG-TAAACATTCAATTGTAAACT-TTGTTCACCAAAAAGG
66 TGGCTTTCGCTTCATCTTTC-CGA-GGCT-AATATTCAATTATAATCTGTT-TTAACCAAAAAGG
* * * *
9499948 CAAAAAAAATCAACTTAAAGTCGATTATGAGATTATAAAACCAT
127 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
* * * *
9499992 TTAAAATGAGTAAGAAGGCTTTC-AATGGCATGAGTGACTATAAATGGACTTTTTTTGACAATGG
1 TTAAAGTGAGTAATAAGGCTTTCGAA-GGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGG
* * * * * * *
9500056 ATGGCTTTTGCTTTATGTTTTCCTAGGCAAATATTCAATTATAATCTCTTTTAACCAAAAAGATA
65 ATGGCTTTCGCTTCAT-CTTTCCGAGGCTAATATTCAATTATAATCTGTTTTAACCAAAAAGGTA
*
9500121 AAAAAATTCAACTTAAAATGAATTATGAGATTATAAAACCAT
129 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
* * *
9500163 TTAAAGTGAGTAATAAAGCTTTCGAAGCCATGAGTGACTATAAATGGACTTTTCTTGACAATGGA
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGA
* * *
9500228 TGGCTTTCGCTTCA-CGTTTCCCTAGG-TAAATATTCAATTATAATCTATTTTAACCAAAAAGGC
66 TGGCTTTCGCTTCATC-TTT-CCGAGGCT-AATATTCAATTATAATCTGTTTTAACCAAAAAGGT
*
9500291 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCAT
128 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
*
9500334 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTGTCAATGGA
1 TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGA
* * *
9500399 TGGCTTTCGCTTCA-CGTTTCTTGAGG-TAAACATTCAATTATAAGCTGTTTT
66 TGGCTTTCGCTTCATC-TTTC-CGAGGCT-AATATTCAATTATAATCTGTTTT
9500450 TNNNNNNNNN
Statistics
Matches: 2112, Mismatches: 328, Indels: 132
0.82 0.13 0.05
Matches are distributed among these distances:
168 78 0.04
169 62 0.03
170 372 0.18
171 1427 0.68
172 171 0.08
173 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (170 bp):
TTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGA
TGGCTTTCGCTTCATCTTTCCGAGGCTAATATTCAATTATAATCTGTTTTAACCAAAAAGGTAAA
AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT
Found at i:9499144 original size:512 final size:509
Alignment explanation
Indices: 9497780--9500449 Score: 3037
Period size: 512 Copynumber: 5.2 Consensus size: 509
9497770 GAATTAAAGT
* * *
9497780 GAGTAATTAGGCTTTCAAAGGCATGAGTGACTATAAATAAACTTTTCTTGTCAACGGATGGCTTT
1 GAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATAAACTTTTCTTGTCAATGGATGGCTTT
* * ** * * *
9497845 CTCTTCATGTATGTTGAGGTAAATATTCAATTATTATCTGTTTTAACC-AAAATAGCAAAAAAGT
66 CGCTTCATGTTTCCTGAGGTAAACATTCAATTATAATCTGTTTTAACCAAAAAT-GCAAAAAAAT
* * *
9497909 TCAACTTAAAACCAATTATGAGATTATAAAACTATTTTAATTGAGTAATAAGGCTTTCGAAGGCA
130 TCAACTTAAAATCAATTATGAGATTATAAAACCA-TTTAATTGAGTAATAAGGCTTTTGAAGGCA
* * * ** * * *
9497974 TGGGTGACTATAAATGGACTTTT-TT-TACAATAGAGGGCTTTTGCTTCACATTTCTCGAGGTAA
194 TGAGTGACTATAAATGGACTTTTCTTGT-CAATGGATGGCTTTTGCTTCATGTTTCCCAAGGCAA
* ** * * *
9498037 ATACTCAATTATAATCTG-TTTAACCAAAAATGTAGCAAAA-TGAACTTAAAAGCAAGTATGAGA
258 ATATTCAATTATAATCTGTTTTAACCAAAAA-GTAAAAAAATTCAAC-TAAAATCAATTATGAGA
* * ** *
9498100 TTAAAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAACCCATGAGTGACTATAAATAAACTTTT
321 TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGACTTTT
* * * * * * ** * *
9498165 CTTCTTAATGAATGGGTTTTGCTGCATC-TTTCCGGAGGCT-AATCTTCAATTATGATCTGTTTT
386 CTTGTCAATGGATGGCTTTCGCTTCA-CGTTTCCCAAGG-TAAATATTCAATTATAATCTGTTTT
* * * * *
9498228 AACCAAAAAGGTAAAAAAATTCAACTAAAAAACAATCATGAGATTATAAAACCTTTTAAAGT
449 AACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA-C
* * * * **
9498290 GAGTAATAATGG-TTTCGAAGGCACGAGCGACTATAAATGAACTCTTCTTCCCAATGGATGGCTT
1 GAGTAATAA-GGCTTTCGAAGGCATGAGTGACTATAAATAAACTTTTCTTGTCAATGGATGGCTT
* * * *
9498354 TCGCTTCATGTTTCCTGAGGCAAAGATTCACTTATAATTTGTTTTAACCAAAAA-GCCAAAAAAA
65 TCGCTTCATGTTTCCTGAGGTAAACATTCAATTATAATCTGTTTTAACCAAAAATG-CAAAAAAA
* **
9498418 TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAGGTGAGTAATAAGGCTTTCAAAGGC
129 TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA-TTGAGTAATAAGGCTTTTGAAGGC
* * * * ** *
9498483 ATGAGTGACTATAAATGTACTTTTCTTTTCAA-GAGATGGCTTTTGCGTCGTGTATT-CTGACGC
193 ATGAGTGACTATAAATGGACTTTTCTTGTCAATG-GATGGCTTTTGCTTCATGT-TTCCCAAGGC
* * * *
9498546 AAATATTCAATTATAATCTGTTTTAACCAAAATGGTAAAAAAATTCAATTTAAAACCAATTACGA
256 AAATATTCAATTATAATCTGTTTTAACCAAAA-AGTAAAAAAATTCAA-CTAAAATCAATTATGA
*
9498611 GATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGACTT
319 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGACTT
* * * *
9498676 TTCTTGTCAATGGATGGCTTTTGCTTCACGTTTCTCGAGGTAAATATTCAATTATAATCTCTTTT
384 TTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCCAAGGTAAATATTCAATTATAATCTGTTTT
* * ** * *
9498741 AACTAAATATTTTAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACCATTTAACAC
449 AACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA-AC
* * ** *
9498803 GAGTAATAAGGCTTTTGAAGGCATGAATGACTATAAATGGACTTTTCTTGACAATGGATGGCTTT
1 GAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATAAACTTTTCTTGTCAATGGATGGCTTT
* * * * * * *
9498868 CGCTTCACGTTTCCT-AGGCAAATATCCAATTATAACCTGTTTTAACCAAAAATGTAAAAATATT
66 CGCTTCATGTTTCCTGAGGTAAACATTCAATTATAATCTGTTTTAACCAAAAATGCAAAAAAATT
* * *
9498932 CAACTTGAAATCAATTATGAGATTATAAAACCATTTAGATTGAGTAATAAGACTTTTGAAGGTAT
131 CAACTTAAAATCAATTATGAGATTATAAAACCATTTA-ATTGAGTAATAAGGCTTTTGAAGGCAT
* * * *
9498997 GAGTGACTATAAATGGACTTTTCTTGTCAACGGATGACTTTTGCTTCATGTATCCCAAGGCAATT
195 GAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTTGCTTCATGTTTCCCAAGGCAAAT
* * * *
9499062 ATTCAATTATAATCTATTTTAAGCAAAACAGCAAAAGAATTCAACTAAAAGTCAATTATGAGATT
260 ATTCAATTATAATCTGTTTTAACCAAAA-AGTAAAAAAATTCAACTAAAA-TCAATTATGAGATT
*
9499127 AT-AAACTCATTTAAAGCAAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAAT-GAACTTTT
323 ATAAAAC-CATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAG-ACTTTT
* * * * *
9499190 -TTCGTCAATGGATGGCTTTCACTTCATGTTTCCCAAGGCAAATATTCTATTATGATCTGTTTTA
386 CTT-GTCAATGGATGGCTTTCGCTTCACGTTTCCCAAGGTAAATATTCAATTATAATCTGTTTTA
* * * *
9499254 ACTAATAAGGTAAAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTATAGC
450 ACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA-AAC
* * * * * *
9499315 GAGTAATAAGGCTTTTGAAGGCATGAGTGACTACAAATAGACTTTTCTTATCAATAGATGACTTT
1 GAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATAAACTTTTCTTGTCAATGGATGGCTTT
** * ** *
9499380 CGCTTCATGTTTCCCAAGGTAAACATTTAATTATAATCTGTTTTAACC-AAAATGGTAAAACATT
66 CGCTTCATGTTTCCTGAGGTAAACATTCAATTATAATCTGTTTTAACCAAAAATGCAAAAAAATT
* * * * * *
9499444 AAACTTGAAACCAATTATGAGATTCTAAAACCATTTAA-AGCTAGCAATAAGGCTTTTGAAGGCA
131 CAACTTAAAATCAATTATGAGATTATAAAACCATTTAATTG--AGTAATAAGGCTTTTGAAGGCA
* * ** * * * * *
9499508 TAAGTGACTATAAATGCAGC-TTTCTTCCCAATGGATGGCTTTCGCTTTACGTTTCCTAAGGAAA
194 TGAGTGACTATAAATGGA-CTTTTCTTGTCAATGGATGGCTTTTGCTTCATGTTTCCCAAGGCAA
* * **
9499572 ATATTCAATTATAATCTGTTTTAATCCAAAAGGCAAAACCATTCAACTCAAAATCAATTAT-ATG
258 ATATTCAATTATAATCTGTTTTAA-CCAAAAAGTAAAAAAATTCAACT-AAAATCAATTATGA-G
** * * * *
9499636 ATTATAAAACCATTTATGGCGATTAATAAGGCTTTTAAAGGCATAAGTGACTATAAATGGACTTT
320 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGACTTT
* * * ** * * *
9499701 TCTTGTCAATGGATGGCTTCCACTTCACATTTTTCAAGCTAAACATTCAATTATAATCTTTTTTT
385 TCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCCAAGGTAAATATTCAATTATAATC-TGTTTT
* *
9499766 AACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTACA-
449 AACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAC
* * * *
9499826 GTAAGTAATAAGGCTTTTGAAGGCATTAGTGACTATAAATGAACTTTTCTTGTCAATTGATGGCT
1 G--AGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATAAACTTTTCTTGTCAATGGATGGCT
* * * * *
9499891 TTCGCTTCATGTTT-CTCATGGTAAACATTCAATTGTAAACT-TTGTTCACCAAAAAGGCAAAAA
64 TTCGCTTCATGTTTCCTGA-GGTAAACATTCAATTATAATCTGTT-TTAACCAAAAATGCAAAAA
* * * * * *
9499954 AAATCAACTTAAAGTCGATTATGAGATTATAAAACCATTTAAAATGAGTAAGAAGGC-TTTCAAT
127 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT-AATTGAGTAATAAGGCTTTTGAA-
* * * * *
9500018 GGCATGAGTGACTATAAATGGACTTTTTTTGACAATGGATGGCTTTTGCTTTATGTTTTCCTAGG
190 GGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTTGCTTCATGTTTCCCAAGG
* *
9500083 CAAATATTCAATTATAATCTCTTTTAACCAAAAAGATAAAAAAATTCAACTTAAAATGAATTATG
255 CAAATATTCAATTATAATCTGTTTTAACCAAAAAG-TAAAAAAATTCAAC-TAAAATCAATTATG
* * * * *
9500148 AGATTATAAAACCATTTAAAGTGAGTAATAAAGCTTTCGAAGCCATGAGTGACTATAAATGGACT
318 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGACT
* * *
9500213 TTTCTTGACAATGGATGGCTTTCGCTTCACGTTTCCCTAGGTAAATATTCAATTATAATCTATTT
383 TTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCCAAGGTAAATATTCAATTATAATCTGTTT
* * *
9500278 TAACCAAAAAGGCAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGT
448 TAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA-C
*
9500341 GAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTGTCAATGGATGGCTTT
1 GAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATAAACTTTTCTTGTCAATGGATGGCTTT
* * *
9500406 CGCTTCACGTTTCTTGAGGTAAACATTCAATTATAAGCTGTTTT
66 CGCTTCATGTTTCCTGAGGTAAACATTCAATTATAATCTGTTTT
9500450 TNNNNNNNNN
Statistics
Matches: 1838, Mismatches: 270, Indels: 101
0.83 0.12 0.05
Matches are distributed among these distances:
509 6 0.00
510 177 0.10
511 63 0.03
512 715 0.39
513 610 0.33
514 261 0.14
515 5 0.00
516 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (509 bp):
GAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATAAACTTTTCTTGTCAATGGATGGCTTT
CGCTTCATGTTTCCTGAGGTAAACATTCAATTATAATCTGTTTTAACCAAAAATGCAAAAAAATT
CAACTTAAAATCAATTATGAGATTATAAAACCATTTAATTGAGTAATAAGGCTTTTGAAGGCATG
AGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTTGCTTCATGTTTCCCAAGGCAAATA
TTCAATTATAATCTGTTTTAACCAAAAAGTAAAAAAATTCAACTAAAATCAATTATGAGATTATA
AAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGACTTTTCTTGT
CAATGGATGGCTTTCGCTTCACGTTTCCCAAGGTAAATATTCAATTATAATCTGTTTTAACCAAA
AAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAC
Found at i:9504283 original size:171 final size:171
Alignment explanation
Indices: 9503874--9508160 Score: 4544
Period size: 171 Copynumber: 25.1 Consensus size: 171
9503864 GGGTCGTGAC
* * * * * * * *
9503874 ACTATAAATGGACATTTCTTGACAATGAATGGCTTTTGCTTCATGTTTTACT-TGGCAAATATTC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACG-TTTCCTAAGGTAAATATTC
** * * * * *
9503938 AATTATAATCTACTTCAACTAAAAAGGTAAAACAATTCAACTTAAAATTAATTATGAGATTACAA
65 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * *
9504003 AACCATTTAAAGTGAGTAATAAAGCTTTTGAAGGCATGAGT-
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * ** *
9504044 ACTATAAATGGACTTTTCTTGTCAATCGATGGCTTTCACTTCACATTTCCCT-AGCCAAATATTT
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTT-CCTAAGGTAAATATTC
** *
9504108 AATTATAATCCATTTTAACCAAAAAGGTAAAAAAAATTCAACTTAAAATCAATTATGTGATTATA
65 AATTATAATCTGTTTTAACCAAAAAGGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * * * *
9504173 AAACCATTTACAGCGAGTAAGAAGGCTTTTGAAGGCATTAGTC
129 AAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * *
9504216 ACTATAAATGGACTTTTCTTATCAATGGATGGCTTTCGCTTCACGTTTCTTGAGGTAAACATT-A
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAAGGTAAATATTCA
9504280 ATTATAATCT-TTTTAAGCCAAAAAGGCT-AAAAAATTCAACTTAAAATCAATTATGAGATTATA
66 ATTATAATCTGTTTTAA-CCAAAAAGG-TAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * * *
9504343 AAACCATTTAAA-AGAGTAATAAGGCTTTCAAAGGCATCAATG
129 AAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
** * * *
9504385 ACTATAAATGGAC--TTCTTAACAATGGATGGCTTTTGCTTCACATTTCCCT-AGGCAAATATTC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTT-CCTAAGGTAAATATTC
9504447 AATTATAATCTGTTTTAACCAAAAAGG-AAAAAAATTCAACTTAAAAAT-AATTATGAGATTATA
65 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTT-AAAATCAATTATGAGATTATA
* * *
9504510 AAACAATTTAAAGTGAGTAATAAGGCTTTCGAAGGTATGAGTG
129 AAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * * * * *
9504553 TCTATAAATAGACTTTTTTTGTCAACGGATGGCTTTTGCTTCACGTAT-CTCAAGGCAAATATTT
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCT-AAGGTAAATATTC
* * * * * *
9504617 AATTATAATATGTTTTATCCAAAACGGTAAAAAAATTCAACTAAAAATCAATTACGAAATTATAA
65 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * *
9504682 AACCATTTATAGCGAGTAATGAGGCTTTTGAAGGCATGAGTG
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * * ** * *
9504724 ACTATAAATGGGCTTTTCTCGACAATGGATGACTTTTGCTTCATATTTTCCCAA-GTGAATATTC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCA-CGTTTCCTAAGGTAAATATTC
* *
9504788 AATTATAATCTGTTTTAACCAAAAAGGTAAAAATATTCAACTTCAAATCAATTATGAGATTATAA
65 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* *
9504853 AACCATTTAAGGCGAGTAATAGGGCTTTCGAAGGCATGAGTG
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * * * *
9504895 ACTATAAATGGACTTTTCTTTTAAATGGATGACTTTCGCTTCATGTTT-CTCGAGTTAAACATTC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCT-AAGGTAAATATTC
* * * * * * *
9504959 AATTATGATCTGTTTTGACTAAAAAGGTAAAAAAATTCAAATAAAAATTAATTATGAGATTACAA
65 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* *
9505024 AACCATTTAAAGTGAGTAATAAGGCTTT-GAAGGTATGAGTG
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * *** * *
9505065 ACTGTTAATAGACTTTACTCACCAATGGATGGCTTTCGCTTCACATTTCCCCAA--TCAAATATT
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTT-CCTAAGGT-AAATATT
* *
9505128 CAATTATAATCTGTTTTAACCAAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGTGGTTAT
64 CAATTATAATCTGTTTTAACC-AAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * * *
9505193 AAAACCATATACAGCGAGTAACAAGGCTTCCGAAGGTATGAGTG
128 AAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * *
9505237 ACAATAAATGGACTTTTCTTATCAATGGATGGCTTTGGCTTCACGTTT-TTCAA-GTAAACT-TT
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCT-AAGGTAAA-TATT
* **
9505299 CAATTATAATCT-TTGTTAACTAAAAATTTTAAAAAAAATTCAACTTAAAATCAATTATGAGATT
64 CAATTATAATCTGTT-TTAACCAAAAA-GGT-AAAAAAATTCAACTTAAAATCAATTATGAGATT
** * * * ***
9505363 ATAAAACCATTTAAAATGAGTAATAAGACTTTCAAAGGCATTACCA
126 ATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* *
9505409 ACTATAAAT-GATCTTTTGTTGACAATGGATGGCTTTCGCTTCACGTTTCTCT-AGGTAAATATT
1 ACTATAAATGGA-CTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTC-CTAAGGTAAATATT
*
9505472 CAATTATAATCTGTTTTAACCAAAAAGGTAAAAACAA-TCAACTTAAAATTAATTATGCA-ATTA
64 CAATTATAATCTGTTTTAACCAAAAAGGTAAAAA-AATTCAACTTAAAATCAATTATG-AGATTA
* * * ** *
9505535 TAAAATCATTTAAAGTGAGCAATAAGGCTTTCGAAAACGTGAGTG
127 TAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * *
9505580 ACTATAAATGGACTTTTCTTGCCAACGGATGGCTTTCGCTTCATGTAT-CTCGAGGTAAATATTC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCT-AAGGTAAATATTC
* * * * *
9505644 AATTATAATTTGGTTTAACCAAAACGGTAACAAAATTTAACTTAAAATCAATTATGAGATTATAA
65 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * *
9505709 AACCATTGAAAGCGAGTAATAAGGCTTTTGAAGGTATGAGTG
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * * **
9505751 ACTATAAATTGACTTTTCTTGACAATGGATGGCTTTTGCTTCATGTTTCCTGAGCCAAATATTCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAAGGTAAATATTCA
* * *
9505816 TTTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTGAACTGAAAATCAATTATGAGATTATAAA
66 ATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * * *
9505881 ACCATTTAAAGCGAGCAATAAGGCTTCCGAAGGTATAAGCG
131 ACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * *
9505922 ACTATAAATGAACTTTTCTT-CCTAATGGATGGTTTTCGCTTCA-TTTTTCTCAAGGTAAATATT
1 ACTATAAATGGACTTTTCTTGTC-AATGGATGGCTTTCGCTTCACGTTTCCT-AAGGTAAATATT
* * ** *
9505985 CAATTATAATTTGTTTTAACCAAAAAGGCAAAAAAATTCAACTTAAAATTGACTATGAGATTATA
64 CAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * * * * *
9506050 AAACCATTTAAAGTG-GATAATAAAGCTTTCAAAAGCATGGGTA
129 AAACCATTTAAAGCGAG-TAATAAGGCTTTCGAAGGCATGAGTG
* * * * * * *
9506093 ACTCTAAATAGAAATTTTTTTGTCAATTGATGGTTTTCGCTTCACATTT-CTCAAGGTAAATATT
1 ACTATAAAT-GGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCT-AAGGTAAATATT
* * **
9506157 CAATGATAATCTGTTTTAACCATAAAGGTAAAAAAATAAAACTTAAAATCAATTATGAGATTATA
64 CAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * *
9506222 AAACCATTTACAGTGAGTAATAAGGCTTTTGAAGGCATGAGTG
129 AAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * * * * * *
9506265 ACTATAGATAGACTTTTTTTGTCAATGGAAGGTTTTCGCTTCACGTTTCCCACGGTAAACATTTA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAAGGTAAATATTCA
*** ** * *
9506330 ATTATAATCT-TTTTCAGTGAAAAATTTTAAAAAATTCCACTTAAAATCAATTATGAGATTATAA
66 ATTATAATCTGTTTT-AACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
*
9506394 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGTATGAGTG
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * * * * * *
9506436 AC--TAAATGGACCTTTGTTCTTAATGAATGGGTTTAGCTTCACATTTCCTGAGGCT-AATATTC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAAGG-TAAATATTC
* *
9506498 AATTATGATATGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
65 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
*
9506563 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTG
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * *
9506605 ACTATAAATGGACTTTTCTTGTCAATGGATGACTTTCGCTTGATGTTTCTTAAGGTAAACATTCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAAGGTAAATATTCA
* * * *
9506670 ATTATTATCTGTTTTAACCAAAAAGGTAAAAATATTCAACTAAAAATCAATTATGAGATAATAAA
66 ATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * *
9506735 ACTAATTAAAGCAAGTAATAAGGCTTTCGAAGGCATGA-TAA
131 ACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGT-G
* ** * * *
9506776 ACTATAAATGGACTTTTTTTGTCAATGGATGGCTTTTACTTCACGTTTCCCAAGGTAAAGATTCT
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAAGGTAAATATTCA
* * ** * * *
9506841 ATTATGATCTGTTTTAACCAAAAAGGCAAAAAGGTTCAAATCAAGATCAATTATGAGATTATAAA
66 ATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * *
9506906 ACCGTTTAAAGCGAGTAATAAGGCTTTTGAAAGCATAAGTG
131 ACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * * * * * *
9506947 GCTATAAATGAAATTTTCTTTTCCATGGATGGATTTCGCTTCATGTTTCCTAAGGCAAACATTCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAAGGTAAATATTCA
* ** *
9507012 ATTATAATCT-TTTTGACCAAAAATTTAAAAAAAATTCAACTTAAAATCAATTATGAGATTATCA
66 ATTATAATCTGTTTTAACCAAAAAGGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * *
9507076 AACCATTTAAAGTGAATAATAAGGTTTTCAAAGGCATGAGTG
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * ** *
9507118 ACTATAAATGAACTTTTCGTT-TTAATAAATGAG-TTTTGCTTCACGTTTCCTAAGGCT-AATAT
1 ACTATAAATGGACTTTTC-TTGTCAATGGATG-GCTTTCGCTTCACGTTTCCTAAGG-TAAATAT
* * * * *
9507180 TCAATTATGATCTGTGTTAACCAAAAAGGTAAAAAAAATCAACTAAAAATCAATTGTGAGATTAT
63 TCAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* *
9507245 AAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAGGCATGAGTG
128 AAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * * * * *
9507289 ACAATAAATGAACTTTTCTT-TCCAATGGATGGGTTTTGCTTCATGTTTCTTAAGGCAAAGATTC
1 ACTATAAATGGACTTTTCTTGT-CAATGGATGGCTTTCGCTTCACGTTTCCTAAGGTAAATATTC
* * * *
9507353 ATTTATAATCTATTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCGACTATGAGATTATAA
65 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * **
9507418 AACCATTTAAAGCTAGTAATAAGGCTCTCAAAGGTGTGAGTG
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* ** * ** * *
9507460 ACTATAAATGGAGTTTTCTTGTCAATGCTTGGCTTTCACTTCATATTTCCTGAGGTAAACATTCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAAGGTAAATATTCA
* * * * * *
9507525 ATTAGAATATGTTTTAATCAAAAAGGCAAAAAAAATTCAACTTAAAATCAATTGTGAGATTACAA
66 ATTATAATCTGTTTTAACCAAAAAGG-TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * *
9507590 AACCATTTAAAGTGAGTAACAAGGCTTTTGAAGGTATGAGTG
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* ** * * * * * * * * **
9507632 ACTACAAATAAACTTTTCTTCTAAATAGTTGACTTTCACTTCATGTTTCCCT-AGTTAAGCATTC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTT-CCTAAGGTAAATATTC
* ** * *
9507696 AATTATAATCTGTTTTAACAAAAAATATAAAAAAATACAACTTGAAATCAATTATGAGATTATAA
65 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * *
9507761 AACCATTTAAAGTGAGTAACAAGGCTTTTGAAGGTATGAGTG
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * * * * * ** **
9507803 ACTACAAATGAACTTTTCTTCTAAATGGTTGACTTTCACTTCACATTTCCCGA-GTGAAGCATTC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAAGGT-AAATATTC
* * *
9507867 AATTATAATTTGTTTTAACCAAAAATGTAAAAAAATACAACTTAAAATCAATTATGAGATTATAA
65 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * *
9507932 AACCATTT-AAGTGAGTAATAAGGCTTTCGAAGGCATGTGTT
130 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * *
9507973 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCCCCTT-ATGTTTCCTGAA-GTAAACATT
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTT-CGCTTCACGTTTCCT-AAGGTAAATATT
* * ** * *
9508036 CAATTATAATCTGTTTTAACTAAACATATAAAAAAAATCAACTCAAAATCAATTATGAGATTATA
64 CAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
** * * * * *
9508101 AAAGAATTTAAAGTGACTAATAAGGCTTTCAAAGGTATAAGTG
129 AAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
9508144 ACTATAAATGGACTTTT
1 ACTATAAATGGACTTTT
9508161 TGTAACGACC
Statistics
Matches: 3458, Mismatches: 580, Indels: 157
0.82 0.14 0.04
Matches are distributed among these distances:
167 79 0.02
168 65 0.02
169 184 0.05
170 449 0.13
171 2119 0.61
172 521 0.15
173 38 0.01
174 3 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (171 bp):
ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCTAAGGTAAATATTCA
ATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
ACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
Found at i:9505497 original size:685 final size:683
Alignment explanation
Indices: 9503874--9508160 Score: 4824
Period size: 685 Copynumber: 6.3 Consensus size: 683
9503864 GGGTCGTGAC
* * * * * ** * *
9503874 ACTATAAATGGACATTTCTTGACAATGAATGGCTTTTGCTTCATGTTT-TACTTGGCAAATATTC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTTCAAGGTAAACATTC
** * * * * *
9503938 AATTATAATCTACTTCAACTAAAAAGGTAAAACAATTCAACTTAAAATTAATTATGAGATTACAA
66 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* **
9504003 AACCATTTAAAGTGAGTAATAAAGCTTTTGAAGGCATGAGT-ACTATAAATGGACTTTTCTTGTC
131 AACCATTTAAAGTGAGTAATAAGGCTTTCAAAGGCATGAGTAACTATAAATGGACTTTTCTTGTC
* * ** * **
9504067 AATCGATGGCTTTCACTTCACATTTCCCTAGCCAAATATTTAATTATAATCCATTTTAACCAAAA
196 AATGGATGGCTTTCACTTCACATTTCTCTAGGTAAATATTCAATTATAATCTGTTTTAACCAAAA
* * *
9504132 AGGTAAAAAAAATTCAACTTAAAATCAATTATGTGATTATAAAACCATTTACAGCGAGTAAGAAG
261 AGGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAG
* * * * *
9504197 GCTTTTGAAGGCATTAGTCACTATAAATGGACTTTTCTTATCAATGGATGGCTTTCGCTTCACGT
325 GCTTTTGAAGGCATGAGTGACTATAAATGGACTTTTCTTTTCAATGGATGACTTTCGCTTCATGT
*
9504262 TTCTTGAGGTAAACATT-AATTATAATCTTTTTAAGCCAAAAAGGCT-AAAAAATTCAACTTAAA
390 TTCTCGAGGTAAACATTCAATTATAATCTTTTTAA-CCAAAAAGG-TAAAAAAATTCAACTTAAA
* * * * *
9504325 ATCAATTATGAGATTATAAAACCATTTAAA-AGAGTAATAAGGCTTTCAAAGGCATCAATGACTA
453 ATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGTATGAGTGACTA
* *
9504389 TAAATGGAC--TTCTTAACAATGGATGGCTTTTGCTTCACATTTCCCTAGGCAAATATTCAATTA
518 TAAAT-GACTTTTCTTCACAATGGATGGCTTTTGCTTCACATTTCCCGAGGCAAATATTCAATTA
*
9504452 TAATCTGTTTTAACCAAAAAGG-AAAAAAATTCAACTTAAAAAT-AATTATGAGATTATAAAACA
582 TAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTT-AAAATCAATTATGAGATTATAAAACC
* *
9504515 ATTTAAAGTGAGTAATAAGGCTTTCGAAGGTATGAGTG
646 ATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * * * * * * *
9504553 TCTATAAATAGACTTTTTTTGTCAACGGATGGCTTTTGCTTCACGTATC-TCAAGGCAAATATTT
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTTCAAGGTAAACATTC
* * * * * *
9504617 AATTATAATATGTTTTATCCAAAACGGTAAAAAAATTCAACTAAAAATCAATTACGAAATTATAA
66 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * ** * * * *
9504682 AACCATTTATAGCGAGTAATGAGGCTTTTGAAGGCATGAGTGACTATAAATGGGCTTTTCTCGAC
131 AACCATTTAAAGTGAGTAATAAGGCTTTCAAAGGCATGAGTAACTATAAATGGACTTTTCTTGTC
* ** * * * *
9504747 AATGGATGACTTTTGCTTCATATTT-TCCCAAGTGAATATTCAATTATAATCTGTTTTAACCAAA
196 AATGGATGGCTTTCACTTCACATTTCT-CTAGGTAAATATTCAATTATAATCTGTTTTAACCAAA
* * * *
9504811 AAGGTAAAAATATTCAACTTCAAATCAATTATGAGATTATAAAACCATTTAAGGCGAGTAATAGG
260 AAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAG
* *
9504876 GCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTTTAAATGGATGACTTTCGCTTCATGT
325 GCTTTTGAAGGCATGAGTGACTATAAATGGACTTTTCTTTTCAATGGATGACTTTCGCTTCATGT
* * * * * *
9504941 TTCTCGAGTTAAACATTCAATTATGATCTGTTTTGACTAAAAAGGTAAAAAAATTCAAATAAAAA
390 TTCTCGAGGTAAACATTCAATTATAATCT-TTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAA
* * *
9505006 TTAATTATGAGATTACAAAACCATTTAAAGTGAGTAATAAGGCTTT-GAAGGTATGAGTGACTGT
454 TCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGTATGAGTGACTAT
* * * * **
9505070 TAATAGACTTTAC-TCACCAATGGATGGCTTTCGCTTCACATTTCCCCAATCAAATATTCAATTA
519 AAAT-GACTTTTCTTCA-CAATGGATGGCTTTTGCTTCACATTTCCCGAGGCAAATATTCAATTA
* *
9505134 TAATCTGTTTTAACCAAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGTGGTTATAAAACC
582 TAATCTGTTTTAACC-AAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
* * * * *
9505199 ATATACAGCGAGTAACAAGGCTTCCGAAGGTATGAGTG
646 ATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * *
9505237 ACAATAAATGGACTTTTCTTATCAATGGATGGCTTTGGCTTCACGTTT-TTCAA-GTAAACTTTC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTTCAAGGTAAACATTC
* **
9505300 AATTATAATCT-TTGTTAACTAAAAATTTTAAAAAAAATTCAACTTAAAATCAATTATGAGATTA
66 AATTATAATCTGTT-TTAACCAAAAA-GGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTA
* * * ** *
9505364 TAAAACCATTTAAAATGAGTAATAAGACTTTCAAAGGCATTACCAACTATAAAT-GATCTTTTGT
128 TAAAACCATTTAAAGTGAGTAATAAGGCTTTCAAAGGCATGAGTAACTATAAATGGA-CTTTTCT
* * *
9505428 TGACAATGGATGGCTTTCGCTTCACGTTTCTCTAGGTAAATATTCAATTATAATCTGTTTTAACC
192 TGTCAATGGATGGCTTTCACTTCACATTTCTCTAGGTAAATATTCAATTATAATCTGTTTTAACC
* * * *
9505493 AAAAAGGTAAAAACAA-TCAACTTAAAATTAATTATGCA-ATTATAAAATCATTTAAAGTGAGCA
257 AAAAAGGTAAAAA-AATTCAACTTAAAATCAATTATG-AGATTATAAAACCATTTAAAGCGAGTA
* ** * ** * *
9505556 ATAAGGCTTTCGAAAACGTGAGTGACTATAAATGGACTTTTCTTGCCAACGGATGGCTTTCGCTT
320 ATAAGGCTTTTGAAGGCATGAGTGACTATAAATGGACTTTTCTTTTCAATGGATGACTTTCGCTT
* * * * *
9505621 CATGTATCTCGAGGTAAATATTCAATTATAAT-TTGGTTTAACCAAAACGGTAACAAAATTTAAC
385 CATGTTTCTCGAGGTAAACATTCAATTATAATCTT--TTTAACCAAAAAGGTAAAAAAATTCAAC
* * *
9505685 TTAAAATCAATTATGAGATTATAAAACCATTGAAAGCGAGTAATAAGGCTTTTGAAGGTATGAGT
448 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGTATGAGT
* ** * *
9505750 GACTATAAATTGACTTTTCTTGACAATGGATGGCTTTTGCTTCATGTTTCCTGAGCCAAATATTC
513 GACTATAAA-TGACTTTTCTTCACAATGGATGGCTTTTGCTTCACATTTCCCGAGGCAAATATTC
* * *
9505815 ATTTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTGAACTGAAAATCAATTATGAGATTATAA
577 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * * *
9505880 AACCATTTAAAGCGAGCAATAAGGCTTCCGAAGGTATAAGCG
642 AACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * *
9505922 ACTATAAATGAACTTTTCTT-CCTAATGGATGGTTTTCGCTTCATTTTTC-TCAAGGTAAATATT
1 ACTATAAATGGACTTTTCTTGTC-AATGGATGGCTTTCGCTTCATGTTTCTTCAAGGTAAACATT
* * ** *
9505985 CAATTATAATTTGTTTTAACCAAAAAGGCAAAAAAATTCAACTTAAAATTGACTATGAGATTATA
65 CAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * * * * * *
9506050 AAACCATTTAAAGTG-GATAATAAAGCTTTCAAAAGCATGGGTAACTCTAAATAGAAATTTTTTT
130 AAACCATTTAAAGTGAG-TAATAAGGCTTTCAAAGGCATGAGTAACTATAAAT-GGACTTTTCTT
* * * * *
9506114 GTCAATTGATGGTTTTCGCTTCACATTTCTCAAGGTAAATATTCAATGATAATCTGTTTTAACCA
193 GTCAATGGATGGCTTTCACTTCACATTTCTCTAGGTAAATATTCAATTATAATCTGTTTTAACCA
* ** * *
9506179 TAAAGGTAAAAAAATAAAACTTAAAATCAATTATGAGATTATAAAACCATTTACAGTGAGTAATA
258 AAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
* * * **
9506244 AGGCTTTTGAAGGCATGAGTGACTATAGATAGACTTTT-TTTGTCAATGGAAGGTTTTCGCTTCA
323 AGGCTTTTGAAGGCATGAGTGACTATAAATGGACTTTTCTTT-TCAATGGATGACTTTCGCTTCA
* * * *** ** * *
9506308 CGTTTC-CCACGGTAAACATTTAATTATAATCTTTTTCAGTGAAAAATTTTAAAAAATTCCACTT
387 TGTTTCTCGA-GGTAAACATTCAATTATAATCTTTTT-AACCAAAAAGGTAAAAAAATTCAACTT
*
9506372 AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGTATGAGTGA
450 AAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGTATGAGTGA
* * ** * * * * *
9506437 C--TAAATGGACCTTTGTTCTTAATGAATGGGTTTAGCTTCACATTTCCTGAGGCTAATATTCAA
515 CTATAAAT-GACTTTTCTTCACAATGGATGGCTTTTGCTTCACATTTCCCGAGGCAAATATTCAA
* *
9506500 TTATGATATGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
579 TTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
*
9506565 CCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTG
644 CCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* *
9506605 ACTATAAATGGACTTTTCTTGTCAATGGATGACTTTCGCTTGATGTTTCTT-AAGGTAAACATTC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTTCAAGGTAAACATTC
* * * *
9506669 AATTATTATCTGTTTTAACCAAAAAGGTAAAAATATTCAACTAAAAATCAATTATGAGATAATAA
66 AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * ** * *
9506734 AACTAATTAAAGCAAGTAATAAGGCTTTCGAAGGCATGA-TAAACTATAAATGGACTTTTTTTGT
131 AACCATTTAAAGTGAGTAATAAGGCTTTCAAAGGCATGAGT-AACTATAAATGGACTTTTCTTGT
* * * * * * *
9506798 CAATGGATGGCTTTTACTTCACGTTTCCCAAGGTAAAGATTCTATTATGATCTGTTTTAACCAAA
195 CAATGGATGGCTTTCACTTCACATTTCTCTAGGTAAATATTCAATTATAATCTGTTTTAACCAAA
* ** * * * *
9506863 AAGGCAAAAAGGTTCAAATCAAGATCAATTATGAGATTATAAAACCGTTTAAAGCGAGTAATAAG
260 AAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAG
* * * * * *
9506928 GCTTTTGAAAGCATAAGTGGCTATAAATGAAATTTTCTTTTCCATGGATGGA-TTTCGCTTCATG
325 GCTTTTGAAGGCATGAGTGACTATAAATGGACTTTTCTTTTCAATGGAT-GACTTTCGCTTCATG
* * * **
9506992 TTTC-CTAAGGCAAACATTCAATTATAATCTTTTTGACCAAAAATTTAAAAAAAATTCAACTTAA
389 TTTCTC-GAGGTAAACATTCAATTATAATCTTTTTAACCAAAAAGGT-AAAAAAATTCAACTTAA
* * * * *
9507056 AATCAATTATGAGATTATCAAACCATTTAAAGTGAATAATAAGGTTTTCAAAGGCATGAGTGACT
452 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGTATGAGTGACT
** ** * ** *
9507121 ATAAATGAACTTTTCGTT-TTAATAAATGAG-TTTTGCTTCACGTTTCCTAAGGCTAATATTCAA
517 ATAAATG-ACTTTTC-TTCACAATGGATG-GCTTTTGCTTCACATTTCCCGAGGCAAATATTCAA
* * * * *
9507184 TTATGATCTGTGTTAACCAAAAAGGTAAAAAAAATCAACTAAAAATCAATTGTGAGATTATAAAA
579 TTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* *
9507249 CCATTTAAAGCAAGTAATAAGGCTTTTGAAGGCATGAGTG
644 CCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * * * * *
9507289 ACAATAAATGAACTTTTCTT-TCCAATGGATGGGTTTTGCTTCATGTTTCTT-AAGGCAAAGATT
1 ACTATAAATGGACTTTTCTTGT-CAATGGATGGCTTTCGCTTCATGTTTCTTCAAGGTAAACATT
* * * *
9507352 CATTTATAATCTATTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCGACTATGAGATTATA
65 CAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* ** * *
9507417 AAACCATTTAAAGCT-AGTAATAAGGCTCTCAAAGGTGTGAGTGACTATAAATGGAGTTTTCTTG
130 AAACCATTTAAAG-TGAGTAATAAGGCTTTCAAAGGCATGAGTAACTATAAATGGACTTTTCTTG
** * * * * *
9507481 TCAATGCTTGGCTTTCACTTCATATTTC-CTGAGGTAAACATTCAATTAGAATATGTTTTAATCA
194 TCAATGGATGGCTTTCACTTCACATTTCTCT-AGGTAAATATTCAATTATAATCTGTTTTAACCA
* * * * *
9507545 AAAAGGCAAAAAAAATTCAACTTAAAATCAATTGTGAGATTACAAAACCATTTAAAGTGAGTAAC
258 AAAAGG-TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * ** * * * * *
9507610 AAGGCTTTTGAAGGTATGAGTGACTACAAATAAACTTTTCTTCTAAATAGTTGACTTTCACTTCA
322 AAGGCTTTTGAAGGCATGAGTGACTATAAATGGACTTTTCTTTTCAATGGATGACTTTCGCTTCA
* * * * * ** * *
9507675 TGTTTCCCTAGTTAAGCATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATACAACTTG
387 TGTTTCTCGAGGTAAACATTCAATTATAATCT-TTTTAACCAAAAAGGTAAAAAAATTCAACTTA
* *
9507740 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAACAAGGCTTTTGAAGGTATGAGTGAC
451 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGTATGAGTGAC
* * * ** **
9507805 TACAAATGAACTTTTCTTCTA-AATGGTTGACTTTCACTTCACATTTCCCGAGTG-AAGCATTCA
516 TATAAATG-ACTTTTCTTC-ACAATGGATGGCTTTTGCTTCACATTTCCCGAG-GCAAATATTCA
* * *
9507868 ATTATAATTTGTTTTAACCAAAAATGTAAAAAAATACAACTTAAAATCAATTATGAGATTATAAA
578 ATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * *
9507933 ACCATTT-AAGTGAGTAATAAGGCTTTCGAAGGCATGTGTT
643 ACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
* * *
9507973 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCCCCTT-ATGTTTCCTGAA-GTAAACATT
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTT-CGCTTCATGTTTCTTCAAGGTAAACATT
* * ** * *
9508036 CAATTATAATCTGTTTTAACTAAACATATAAAAAAAATCAACTCAAAATCAATTATGAGATTATA
65 CAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
** * * * *
9508101 AAAGAATTTAAAGTGACTAATAAGGCTTTCAAAGGTATAAGTGACTATAAATGGACTTTT
130 AAACCATTTAAAGTGAGTAATAAGGCTTTCAAAGGCATGAGTAACTATAAATGGACTTTT
9508161 TGTAACGACC
Statistics
Matches: 3040, Mismatches: 499, Indels: 133
0.83 0.14 0.04
Matches are distributed among these distances:
679 266 0.09
680 154 0.05
681 30 0.01
682 332 0.11
683 336 0.11
684 747 0.25
685 1041 0.34
686 129 0.04
687 5 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (683 bp):
ACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCTTCAAGGTAAACATTC
AATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
AACCATTTAAAGTGAGTAATAAGGCTTTCAAAGGCATGAGTAACTATAAATGGACTTTTCTTGTC
AATGGATGGCTTTCACTTCACATTTCTCTAGGTAAATATTCAATTATAATCTGTTTTAACCAAAA
AGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGG
CTTTTGAAGGCATGAGTGACTATAAATGGACTTTTCTTTTCAATGGATGACTTTCGCTTCATGTT
TCTCGAGGTAAACATTCAATTATAATCTTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATC
AATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGTATGAGTGACTATAA
ATGACTTTTCTTCACAATGGATGGCTTTTGCTTCACATTTCCCGAGGCAAATATTCAATTATAAT
CTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA
AAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG
Found at i:9513982 original size:28 final size:27
Alignment explanation
Indices: 9513941--9513996 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 27
9513931 CAAATAATGT
9513941 TGAAATTATTTTTAATAGATGAGGACA
1 TGAAATTATTTTTAATAGATGAGGACA
9513968 TNGAAATTATTTTTAATAGATGAGGACA
1 T-GAAATTATTTTTAATAGATGAGGACA
9513996 T
1 T
9513997 TTTTGAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.38
Consensus pattern (27 bp):
TGAAATTATTTTTAATAGATGAGGACA
Found at i:9517691 original size:19 final size:19
Alignment explanation
Indices: 9517658--9517694 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9517648 GGACTTATTT
*
9517658 TTTTTTAATATTTTTAACC
1 TTTTTTAATACTTTTAACC
*
9517677 TTTTTTAATCCTTTTAAC
1 TTTTTTAATACTTTTAAC
9517695 AAGGTCGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTTAATACTTTTAACC
Found at i:9520862 original size:41 final size:40
Alignment explanation
Indices: 9520809--9520902 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 40
9520799 ATTTTTGAAA
*** *
9520809 GAAAAAACAAAAATTTATATTTTCATATTACAAAAAATGG
1 GAAAAAACAAAAAAAAACATTTTCATATTACAAAAAATGG
*
9520849 GAAAAAACGAAAAAAAAACATTTTCATATTACAAGAAATGG
1 GAAAAAAC-AAAAAAAAACATTTTCATATTACAAAAAATGG
9520890 GAAAAAACAAAAA
1 GAAAAAACAAAAA
9520903 GCAATGGTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 13 0.27
41 35 0.73
ACGTcount: A:0.61, C:0.09, G:0.10, T:0.21
Consensus pattern (40 bp):
GAAAAAACAAAAAAAAACATTTTCATATTACAAAAAATGG
Found at i:9521154 original size:30 final size:30
Alignment explanation
Indices: 9521120--9521178 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
9521110 TTTTCATATT
9521120 ACAAGAAATGGGATCAATACTTTTATTAGA
1 ACAAGAAATGGGATCAATACTTTTATTAGA
9521150 ACAAGAAATGGGATCAATACTTTTATTAG
1 ACAAGAAATGGGATCAATACTTTTATTAG
9521179 TTTTGTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (30 bp):
ACAAGAAATGGGATCAATACTTTTATTAGA
Found at i:9521194 original size:152 final size:150
Alignment explanation
Indices: 9520910--9521195 Score: 353
Period size: 152 Copynumber: 1.9 Consensus size: 150
9520900 AAAGCAATGG
*
9520910 TTAATAATGGCATCAATACTTTTATTAGTTTTGAAGCAATCTTATATATTTTCATATTACAAAAA
1 TTAACAATGGCATCAATACTTTTATTAGTTTTGAAGCAATCTTATATATTTTCATATTACAAAAA
**** ** ** ***
9520975 ATGGGATCAATACTTTTATTAGTTTTGTTTGCTTTTTTTACTATTTTTGAAAGTTTTGTTTACTT
66 ATGGGATCAATACTTTTATTAGACAAGAATGCGATCAATACTATTTTT--AAGTTTTGTTTACTT
9521040 TTTTTTTCATACTACAAGAAAT
129 TTTTTTTCATACTACAAGAAAT
* * *
9521062 TTAACAATGGGATCAATACTTTTATTAGTTTTGAAGCAATCTTGTATATTTTCATATTACAAGAA
1 TTAACAATGGCATCAATACTTTTATTAGTTTTGAAGCAATCTTATATATTTTCATATTACAAAAA
* *
9521127 ATGGGATCAATACTTTTATTAGAACAAGAAATGGGATCAATACT-TTTATT-AGTTTTGTTT-GT
66 ATGGGATCAATACTTTTATTAG-ACAAG-AATGCGATCAATACTATTT-TTAAGTTTTGTTTACT
9521189 TTTTTTT
128 TTTTTTT
9521196 ATTATTATTT
Statistics
Matches: 114, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
150 8 0.07
151 10 0.09
152 83 0.73
153 4 0.04
154 9 0.08
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (150 bp):
TTAACAATGGCATCAATACTTTTATTAGTTTTGAAGCAATCTTATATATTTTCATATTACAAAAA
ATGGGATCAATACTTTTATTAGACAAGAATGCGATCAATACTATTTTTAAGTTTTGTTTACTTTT
TTTTTCATACTACAAGAAAT
Found at i:9521219 original size:17 final size:17
Alignment explanation
Indices: 9521197--9521232 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
9521187 GTTTTTTTTA
9521197 TTATTATTTTTGAAAGT
1 TTATTATTTTTGAAAGT
9521214 TTATTATTTTTGAAAGT
1 TTATTATTTTTGAAAGT
9521231 TT
1 TT
9521233 TGTTTGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (17 bp):
TTATTATTTTTGAAAGT
Found at i:9521402 original size:60 final size:59
Alignment explanation
Indices: 9521326--9521445 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 59
9521316 TTCATATGAC
9521326 AAGAAATGGGATCAATACTTTTATTAG-TTTGTTTGCTTTTATTTTTTCATATAACAAGAA
1 AAGAAATGGGATCAATACTTTTATTAGTTTTGTTTGC-TTT-TTTTTTCATATAACAAGAA
*
9521386 AAGAAATGGGATCAATACTTTTATTAGTTTTGTTTGCTTTTTTTTTCATATTACAAGAA
1 AAGAAATGGGATCAATACTTTTATTAGTTTTGTTTGCTTTTTTTTTCATATAACAAGAA
9521445 A
1 A
9521446 TCTTATATAT
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
59 19 0.33
60 30 0.52
61 9 0.16
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (59 bp):
AAGAAATGGGATCAATACTTTTATTAGTTTTGTTTGCTTTTTTTTTCATATAACAAGAA
Found at i:9521690 original size:32 final size:32
Alignment explanation
Indices: 9521662--9521745 Score: 159
Period size: 32 Copynumber: 2.6 Consensus size: 32
9521652 TATTTTTATT
9521662 AGTTTTGTTTGCTTTATTTTATTATTTTTGAA
1 AGTTTTGTTTGCTTTATTTTATTATTTTTGAA
9521694 AGTTTTGTTTGCTTTATTTTATTATTTTTGAA
1 AGTTTTGTTTGCTTTATTTTATTATTTTTGAA
*
9521726 AGTTTTGTTTGCTTTTTTTT
1 AGTTTTGTTTGCTTTATTTT
9521746 TTCATATTAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.15, C:0.04, G:0.13, T:0.68
Consensus pattern (32 bp):
AGTTTTGTTTGCTTTATTTTATTATTTTTGAA
Found at i:9521818 original size:201 final size:202
Alignment explanation
Indices: 9521492--9521914 Score: 699
Period size: 201 Copynumber: 2.1 Consensus size: 202
9521482 TACTTTTATT
9521492 AGTTTTGTTTGCTTTATTTTATTATTTTTGAAAGTTTTGTTTGCTTTTTTTTTTTCATATTACAA
1 AGTTTTGTTTGCTTTATTTTATTATTTTTGAAAGTTTTGTTTGCTTTTTTTTTTTCATATTACAA
* * *
9521557 GAAATCTTTTATTACTTTTTAATTTTTTTTTCAATTTACAAAAAATCTTTGTTAAAATTATTTAT
66 GAAATCTTTTATTACTTTTAAATTTATTTTTCAATTTACAAAAAATCTTTGTTAAAATTATTTAG
* * *
9521622 ATATTTTCATATTGCAAGAAATGTGATGAATATTTTTATTAGTTTTGTTTGCTTTATTTTATTAT
131 ATATTTTCATATTACAAGAAATGGGATGAATACTTTTATTAGTTTTGTTTGCTTTATTTTATTAT
9521687 TTTTGAA
196 TTTTGAA
9521694 AGTTTTGTTTGCTTTATTTTATTATTTTTGAAAGTTTTGTTTGC-TTTTTTTTTTCATATTACAA
1 AGTTTTGTTTGCTTTATTTTATTATTTTTGAAAGTTTTGTTTGCTTTTTTTTTTTCATATTACAA
*** * *
9521758 GAAATCTTTTATTACTTTTAAATTTATTTTTC-ATATTAC-AATTTTTTTTTTTAAAAATTATTT
66 GAAATCTTTTATTACTTTTAAATTTATTTTTCAAT-TTACAAAAAATCTTTGTT-AAAATTATTT
9521821 AGATATTTTCATATTACAAGAAATGGGATGAATACTTTTATTAGTTTTGTTTGCTTTATTTTATT
129 AGATATTTTCATATTACAAGAAATGGGATGAATACTTTTATTAGTTTTGTTTGCTTTATTTTATT
9521886 ATTTTTGAA
194 ATTTTTGAA
*
9521895 AGTTTTGTTTGCTTTTTTTT
1 AGTTTTGTTTGCTTTATTTT
9521915 TTCATATTGT
Statistics
Matches: 207, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
200 10 0.05
201 153 0.74
202 44 0.21
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (202 bp):
AGTTTTGTTTGCTTTATTTTATTATTTTTGAAAGTTTTGTTTGCTTTTTTTTTTTCATATTACAA
GAAATCTTTTATTACTTTTAAATTTATTTTTCAATTTACAAAAAATCTTTGTTAAAATTATTTAG
ATATTTTCATATTACAAGAAATGGGATGAATACTTTTATTAGTTTTGTTTGCTTTATTTTATTAT
TTTTGAA
Found at i:9523517 original size:20 final size:20
Alignment explanation
Indices: 9523472--9523509 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9523462 TTCTGGCCCC
9523472 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
9523492 ATTTGACTTGTTGGAGTA
1 ATTTGACTTATTGGAGTA
9523510 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:9529341 original size:15 final size:15
Alignment explanation
Indices: 9529321--9529366 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
9529311 TTCTTAAAAC
9529321 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
9529336 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
* *
9529351 AGCTTTAAAATCAAA
1 AACTTTAAAACCAAA
9529366 A
1 A
9529367 TCTCTTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:9534264 original size:14 final size:14
Alignment explanation
Indices: 9534245--9534278 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
9534235 GTCATGACAT
9534245 GCATGTGATGGATA
1 GCATGTGATGGATA
9534259 GCATGTGATGGATA
1 GCATGTGATGGATA
9534273 GCATGT
1 GCATGT
9534279 TTGCATGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.35, T:0.29
Consensus pattern (14 bp):
GCATGTGATGGATA
Found at i:9537487 original size:19 final size:19
Alignment explanation
Indices: 9537463--9537500 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9537453 CCATTTAACT
*
9537463 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
9537482 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
9537501 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:9537707 original size:28 final size:29
Alignment explanation
Indices: 9537666--9537725 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
9537656 GTCTATGGGC
*
9537666 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
9537694 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
9537724 AA
1 AA
9537726 AGTTTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:9538850 original size:34 final size:35
Alignment explanation
Indices: 9538795--9538886 Score: 114
Period size: 34 Copynumber: 2.6 Consensus size: 35
9538785 GGTGAGAGGA
* *
9538795 GCAGCTTTAGCTGCTGATTTTGGAGGCTAAAAAGT
1 GCAGATTTTGCTGCTGATTTTGGAGGCTAAAAAGT
* * *
9538830 GCAG-TTTTGCTGCTGGTTTTGGAGGCTGAGAAGT
1 GCAGATTTTGCTGCTGATTTTGGAGGCTAAAAAGT
*
9538864 GCAGATTTTTGCAGCTGATTTTG
1 GCAGA-TTTTGCTGCTGATTTTG
9538887 AAGGTTGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
34 30 0.61
35 4 0.08
36 15 0.31
ACGTcount: A:0.20, C:0.13, G:0.32, T:0.36
Consensus pattern (35 bp):
GCAGATTTTGCTGCTGATTTTGGAGGCTAAAAAGT
Found at i:9538969 original size:34 final size:34
Alignment explanation
Indices: 9538931--9539010 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
9538921 TGTTGTTTTG
*
9538931 GCTGCTAATTTTTGAGG-GAAAATAGAGCAGCTTA
1 GCTGCTAATTTTAGAGGAG-AAATAGAGCAGCTTA
**
9538965 GCTGCTGGTTTTAGAGGAGAAATAGAGCAGCTTA
1 GCTGCTAATTTTAGAGGAGAAATAGAGCAGCTTA
*
9538999 GCTACTAATTTT
1 GCTGCTAATTTT
9539011 GAAGCCAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 38 0.97
35 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.31
Consensus pattern (34 bp):
GCTGCTAATTTTAGAGGAGAAATAGAGCAGCTTA
Found at i:9539176 original size:5 final size:5
Alignment explanation
Indices: 9539166--9539203 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
9539156 CTAAATGGTG
9539166 AAAGA AAAGA AAAGA AAAGA AAAGA ACAA-A AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA A-AAGA AAAGA AAA
9539204 ATGGGCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.06
5 27 0.87
6 2 0.06
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:9539230 original size:27 final size:27
Alignment explanation
Indices: 9539190--9539245 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
9539180 AAAAGAAAAG
9539190 AACAAAAAAGAAAAATGGGCATGACCC
1 AACAAAAAAGAAAAATGGGCATGACCC
* * *
9539217 AACAAGAAATAAAAATGGGCATGGCCC
1 AACAAAAAAGAAAAATGGGCATGACCC
9539244 AA
1 AA
9539246 TAGATAGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.54, C:0.18, G:0.20, T:0.09
Consensus pattern (27 bp):
AACAAAAAAGAAAAATGGGCATGACCC
Found at i:9545453 original size:21 final size:20
Alignment explanation
Indices: 9545428--9545487 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
9545418 AGATGTCTAA
*
9545428 AATAATTATTTGAAATGAAAT
1 AATAATTATTTG-AATAAAAT
* *
9545449 TATAATTGTTTGAATAAAAT
1 AATAATTATTTGAATAAAAT
9545469 AATAA-TATTT-AATAAAAT
1 AATAATTATTTGAATAAAAT
9545487 A
1 A
9545488 TTCTATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 9 0.26
19 4 0.12
20 11 0.32
21 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
AATAATTATTTGAATAAAAT
Found at i:9547640 original size:27 final size:28
Alignment explanation
Indices: 9547593--9547645 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
9547583 ACAAGTGTCG
*
9547593 GGGGTGAAAATTTACCGA-TTTGCCCTT
1 GGGGTGAAAAATTACCGATTTTGCCCTT
9547620 GGGGTGACAAAATTACC-ATTTTGCCC
1 GGGGTGA-AAAATTACCGATTTTGCCC
9547646 CTAGATAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (28 bp):
GGGGTGAAAAATTACCGATTTTGCCCTT
Found at i:9550368 original size:37 final size:37
Alignment explanation
Indices: 9550314--9550434 Score: 172
Period size: 37 Copynumber: 3.3 Consensus size: 37
9550304 TGATGTTGGG
*
9550314 TGATGATG-TTGAGGTGTGCGAGTAGGGAGCGCACACA
1 TGATGATGATTGA-GTGTGCGAGTAGGGAGTGCACACA
*
9550351 TGATGATGATTGAGTGTGCTAGTAGGGAGTGCACACA
1 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
** * *
9550388 TGACAATGATGGAGTGTGCGAGTTGGGAGTGCACACA
1 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
9550425 TGATGATGAT
1 TGATGATGAT
9550435 GTATGTATAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
37 70 0.95
38 4 0.05
ACGTcount: A:0.26, C:0.12, G:0.37, T:0.25
Consensus pattern (37 bp):
TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
Found at i:9557546 original size:12 final size:12
Alignment explanation
Indices: 9557516--9557557 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
9557506 ACAAACGTAA
9557516 AAGAGAAAAGAA-
1 AAGA-AAAAGAAG
9557528 AACGAAAAAGAAG
1 AA-GAAAAAGAAG
*
9557541 AAGAAAGAGAAG
1 AAGAAAAAGAAG
9557553 AAGAA
1 AAGAA
9557558 GTAAAGCCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.26, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAAG
Found at i:9564999 original size:20 final size:20
Alignment explanation
Indices: 9564974--9565012 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
9564964 GCTACCCATG
9564974 AGTATTAGTATACTATAAAA
1 AGTATTAGTATACTATAAAA
9564994 AGTATTAGTATACTATAAA
1 AGTATTAGTATACTATAAA
9565013 CTTTTGTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (20 bp):
AGTATTAGTATACTATAAAA
Found at i:9567750 original size:58 final size:56
Alignment explanation
Indices: 9567658--9567808 Score: 185
Period size: 58 Copynumber: 2.6 Consensus size: 56
9567648 GGGTGTTACA
* * * * *
9567658 TGTCTTAATTTAGATAAGAAAACATGTTTAGTCTTAATTTAGACAAGAAAATATATT
1 TGTCTTAATTTAGAAAAGAAAA-ATTTTTTGTCTTAATCTAGACAAGAAAACATATT
*
9567715 TGTCTTAATTAAAGAAAAGAAAATATTTTTTGTCTTAATCTAGACAAGAAAACATATT
1 TGTCTTAATT-TAGAAAAGAAAA-ATTTTTTGTCTTAATCTAGACAAGAAAACATATT
* *
9567773 TGTCTAAATTTAGACAAGATAAAATATTTTTGTCTT
1 TGTCTTAATTTAGAAAAGA-AAAAT-TTTTTGTCTT
9567809 GATTAAAGAC
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
57 19 0.23
58 62 0.77
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (56 bp):
TGTCTTAATTTAGAAAAGAAAAATTTTTTGTCTTAATCTAGACAAGAAAACATATT
Found at i:9567786 original size:28 final size:28
Alignment explanation
Indices: 9567658--9567801 Score: 164
Period size: 29 Copynumber: 5.0 Consensus size: 28
9567648 GGGTGTTACA
* *
9567658 TGTCTTAATTTAGATAAGAAAACATGTT
1 TGTCTTAATTTAGACAAGAAAACATATT
*
9567686 TAGTCTTAATTTAGACAAGAAAATATATT
1 T-GTCTTAATTTAGACAAGAAAACATATT
* * * *
9567715 TGTCTTAATTAAAGAAAAGAAAATATTTTT
1 TGTCTTAATT-TAGACAAGAAAACA-TATT
*
9567745 TGTCTTAATCTAGACAAGAAAACATATT
1 TGTCTTAATTTAGACAAGAAAACATATT
*
9567773 TGTCTAAATTTAGACAAGATAAA-ATATT
1 TGTCTTAATTTAGACAAGA-AAACATATT
9567801 T
1 T
9567802 TTGTCTTGAT
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 36 0.36
29 51 0.52
30 12 0.12
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (28 bp):
TGTCTTAATTTAGACAAGAAAACATATT
Found at i:9567985 original size:17 final size:17
Alignment explanation
Indices: 9567963--9567995 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9567953 ATAATAATAA
9567963 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
9567980 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
9567996 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:9568981 original size:19 final size:19
Alignment explanation
Indices: 9568957--9569001 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9568947 CCAAGGAGAC
9568957 AAAATAAAATTTT-TAGAAT
1 AAAATAAAATTTTATAG-AT
* *
9568976 AAAATAATATTTTATTGAT
1 AAAATAAAATTTTATAGAT
9568995 AAAATAA
1 AAAATAA
9569002 TATTAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAATAAAATTTTATAGAT
Found at i:9569673 original size:28 final size:29
Alignment explanation
Indices: 9569630--9569699 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
9569620 GGAGTGTAAA
*
9569630 AGAGAAACCAAAGAACAAAGAAGAAA-CG-G
1 AGAGAAA-GAAAGAACAAAG-AGAAACCGAG
9569659 AGAGAAAGAAAGAACAAAGAGAAAGCCGAG
1 AGAGAAAGAAAGAACAAAGAGAAA-CCGAG
9569689 AGAGAAAGAAA
1 AGAGAAAGAAA
9569700 AATAAAAGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 5 0.14
28 11 0.30
29 9 0.24
30 12 0.32
ACGTcount: A:0.63, C:0.10, G:0.27, T:0.00
Consensus pattern (29 bp):
AGAGAAAGAAAGAACAAAGAGAAACCGAG
Found at i:9570164 original size:5 final size:5
Alignment explanation
Indices: 9570145--9570191 Score: 69
Period size: 5 Copynumber: 9.4 Consensus size: 5
9570135 AGAGAGAAGG
*
9570145 AAGAGA AAG-A AAGAA AAGAA AAGAA AAGAA AAGAA AGGAA AAGAA AA
1 AAGA-A AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AA
9570192 TAACAAGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 4 0.11
5 31 0.82
6 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:9570259 original size:25 final size:26
Alignment explanation
Indices: 9570200--9570261 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
9570190 AATAACAAGC
* * *
9570200 AAGAA-AAATGGACATGGTCTAATAA
1 AAGAAGAAATGGGCATGGCCCAATAA
*
9570225 AAGAAG-AATGGGCATGGCCCAATTA
1 AAGAAGAAATGGGCATGGCCCAATAA
9570250 AA-AAGAAATGGG
1 AAGAAGAAATGGG
9570262 AGAAGTCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 3 0.10
25 28 0.90
ACGTcount: A:0.48, C:0.10, G:0.26, T:0.16
Consensus pattern (26 bp):
AAGAAGAAATGGGCATGGCCCAATAA
Found at i:9579718 original size:2 final size:2
Alignment explanation
Indices: 9579711--9579757 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
9579701 NNNNNNNNNN
9579711 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9579753 TA TA T
1 TA TA T
9579758 TATTCATTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9579840 original size:30 final size:29
Alignment explanation
Indices: 9579779--9579842 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
9579769 TATGTTAAAA
**
9579779 ATAGTCCTTATTTGTAATTTTTTCCGAAG
1 ATAGTCCTTATTTGTAATTTTCGCCGAAG
*
9579808 ATAGTCCTTATTTGTAATTTTCGCTGGAAG
1 ATAGTCCTTATTTGTAATTTTCGC-CGAAG
9579838 ATAGT
1 ATAGT
9579843 TCCCAATTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (29 bp):
ATAGTCCTTATTTGTAATTTTCGCCGAAG
Found at i:9581812 original size:34 final size:34
Alignment explanation
Indices: 9581764--9581831 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
9581754 AGAAGATAAC
9581764 AGAACATGTTATCTCTGCAAGCAATTCGCAGATT
1 AGAACATGTTATCTCTGCAAGCAATTCGCAGATT
*
9581798 AGAAGATGTTATCTCTGCAAGCAATTCGCAGATT
1 AGAACATGTTATCTCTGCAAGCAATTCGCAGATT
9581832 TTGTCATGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (34 bp):
AGAACATGTTATCTCTGCAAGCAATTCGCAGATT
Found at i:9584527 original size:17 final size:18
Alignment explanation
Indices: 9584500--9584536 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
9584490 TTTTATAAAT
*
9584500 TAATGCTCAATTAATTAA
1 TAATGCTCAATTAAATAA
9584518 TAAT-CTCAATTAAATAA
1 TAATGCTCAATTAAATAA
9584535 TA
1 TA
9584537 TTTTAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.38
Consensus pattern (18 bp):
TAATGCTCAATTAAATAA
Found at i:9591495 original size:9 final size:9
Alignment explanation
Indices: 9591483--9591513 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9591473 AAAAACACAT
9591483 TTAACACGA
1 TTAACACGA
*
9591492 TTAACACGT
1 TTAACACGA
9591501 TTAACACGA
1 TTAACACGA
9591510 TTAA
1 TTAA
9591514 ATAAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (9 bp):
TTAACACGA
Found at i:9591503 original size:18 final size:18
Alignment explanation
Indices: 9591476--9591513 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9591466 CACGATTAAA
9591476 AACACATTTAACACGATT
1 AACACATTTAACACGATT
*
9591494 AACACGTTTAACACGATT
1 AACACATTTAACACGATT
9591512 AA
1 AA
9591514 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (18 bp):
AACACATTTAACACGATT
Found at i:9591818 original size:18 final size:18
Alignment explanation
Indices: 9591775--9591820 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
9591765 TGTCACGTAT
* *
9591775 ACACGTTTAAACATGATA
1 ACACGATTAAACACGATA
*
9591793 ATACGATTAAACACGATA
1 ACACGATTAAACACGATA
*
9591811 ACATGATTAA
1 ACACGATTAA
9591821 GTAAACGTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (18 bp):
ACACGATTAAACACGATA
Found at i:9597075 original size:27 final size:27
Alignment explanation
Indices: 9597024--9597075 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
9597014 ATATCCTGAT
*
9597024 GGTGGAAAATTACAATTTTGCCCCTGG
1 GGTGGAAAATTACAATTTTGACCCTGG
*
9597051 GGTGGTAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
9597076 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTGG
Found at i:9597146 original size:20 final size:20
Alignment explanation
Indices: 9597121--9597166 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
9597111 CTTCTAAACC
*
9597121 TCAAATCATACTCCAATCAG
1 TCAAATCATACTCCAATAAG
* *
9597141 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCCAATAAG
9597161 TCAAAT
1 TCAAAT
9597167 GGGGTCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.30
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:9598499 original size:21 final size:20
Alignment explanation
Indices: 9598473--9598513 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
9598463 TTTAAGCTAT
9598473 AAGTATCAATACATTTGTCAA
1 AAGTATCAATACATTT-TCAA
*
9598494 AAGTATCAATATATTTTCAA
1 AAGTATCAATACATTTTCAA
9598514 TAGAATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (20 bp):
AAGTATCAATACATTTTCAA
Found at i:9598571 original size:21 final size:21
Alignment explanation
Indices: 9598527--9598589 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
9598517 AATGGTTCTA
* *
9598527 TCCAAAACGTATGGATA-TTT
1 TCCAAAATGTATGGATACATT
9598547 TCCAAAATGTATGGATACATT
1 TCCAAAATGTATGGATACATT
**
9598568 TCCAAAATGTATCAATACATT
1 TCCAAAATGTATGGATACATT
9598589 T
1 T
9598590 GGTCCGGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (21 bp):
TCCAAAATGTATGGATACATT
Found at i:9599109 original size:37 final size:36
Alignment explanation
Indices: 9599068--9599140 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
9599058 CCTAGAAACG
* * *
9599068 TTAAAAGGGTTGTGCTTGATCCATAAAAGGCATTGTA
1 TTAAAA-GGTTATACTTCATCCATAAAAGGCATTGTA
* *
9599105 TTAAAAGGTTATACTTCATCCTTGAAAGGCATTGTA
1 TTAAAAGGTTATACTTCATCCATAAAAGGCATTGTA
9599141 AAGGTTATGC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
36 25 0.81
37 6 0.19
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (36 bp):
TTAAAAGGTTATACTTCATCCATAAAAGGCATTGTA
Found at i:9600179 original size:355 final size:354
Alignment explanation
Indices: 9599527--9600242 Score: 1371
Period size: 355 Copynumber: 2.0 Consensus size: 354
9599517 CAAAGTTTAA
9599527 TTTATTCAAAAGAATTTTTATAAATCCAATTCACCTCCCCTTGGATATTTTCTTATTTATTATAA
1 TTTATTCAAAAGAATTTTTATAAATCCAATTCACCTCCCCTTGGATATTTTCTTATTTATTATAA
9599592 AGCTAACTGTTGGCATGAGCCCTGCAGCCAATTGGGATTACTTAAGGTTTGATTCCAATCATGCA
66 AGCTAACTGTTGGCATGAGCCCTGCAGCCAATTGGGATTACTTAAGGTTTGATTCCAATCATGCA
* *
9599657 ACAGTATCATTCATGTTGAATGATTAGAGGTTTTTCTTCATCAATAGGACATTAATTATAATGAG
131 ACAGTATCATTCATGTTGAATGATTAGAGGTTTTTCTTCATCAATAAGACATCAATTATAATGAG
*
9599722 TTATGAGTCTAATTGGATGAAGTACATGAGATTAATATGCATTGGAAGGGAACTGTAATGGTTTG
196 TTATAAGTCTAATTGGATGAAGTACATGAGATTAATATGCATTGGAAGGGAACTGTAATGGTTTG
9599787 CAGTTATGAGATCCTTATGCATCAAAAGATAATCTCAAAATGTTCTTGGTCAATGTATCATTGAG
261 CAGTTATGAGATCCTTATGCATCAAAAGATAATCTCAAAATGTTCTTGGTCAATGTATCATTGAG
9599852 ACTGGACATCAATGATACTTAGAGACTGG
326 ACTGGACATCAATGATACTTAGAGACTGG
9599881 TNTTATTCAAAAGAATTTTTATAAATCCAATTCACCTCCCCTTGGATATTTTCTTATTTATTATA
1 T-TTATTCAAAAGAATTTTTATAAATCCAATTCACCTCCCCTTGGATATTTTCTTATTTATTATA
9599946 AAGCTAACTGTTGGCATGAGCCCTGCAGCCAATTGGGATTACTTAAGGTTTGATTCCAATCATGC
65 AAGCTAACTGTTGGCATGAGCCCTGCAGCCAATTGGGATTACTTAAGGTTTGATTCCAATCATGC
9600011 AACAGTATCATTCATGTTGAATGATTAGAGGTTTTTCTTCATCAATAAGACATCAATTATAATGA
130 AACAGTATCATTCATGTTGAATGATTAGAGGTTTTTCTTCATCAATAAGACATCAATTATAATGA
9600076 GTTATAAGTCTAATTGGATGAAGTACATGAGATTAATATGCATTGGAAGGGAACTGTAATGGTTT
195 GTTATAAGTCTAATTGGATGAAGTACATGAGATTAATATGCATTGGAAGGGAACTGTAATGGTTT
9600141 GCAGTTATGAGATCCTTATGCATC-AAAGCATAATCTCAAAATGTTCTTGGTCAATGTATCATTG
260 GCAGTTATGAGATCCTTATGCATCAAAAG-ATAATCTCAAAATGTTCTTGGTCAATGTATCATTG
9600205 AGACTGGACATCAATGATACTTAGAGACTGG
324 AGACTGGACATCAATGATACTTAGAGACTGG
*
9600236 TATATTC
1 TTTATTC
9600243 TATATTCCTT
Statistics
Matches: 356, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
354 10 0.03
355 346 0.97
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (354 bp):
TTTATTCAAAAGAATTTTTATAAATCCAATTCACCTCCCCTTGGATATTTTCTTATTTATTATAA
AGCTAACTGTTGGCATGAGCCCTGCAGCCAATTGGGATTACTTAAGGTTTGATTCCAATCATGCA
ACAGTATCATTCATGTTGAATGATTAGAGGTTTTTCTTCATCAATAAGACATCAATTATAATGAG
TTATAAGTCTAATTGGATGAAGTACATGAGATTAATATGCATTGGAAGGGAACTGTAATGGTTTG
CAGTTATGAGATCCTTATGCATCAAAAGATAATCTCAAAATGTTCTTGGTCAATGTATCATTGAG
ACTGGACATCAATGATACTTAGAGACTGG
Found at i:9607297 original size:19 final size:19
Alignment explanation
Indices: 9607261--9607305 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9607251 TAATTTAGTT
*
9607261 ATTTT-TAAAATTAATTTA
1 ATTTTATAAAAGTAATTTA
* *
9607279 TTTTTATAAAAGTATTTTA
1 ATTTTATAAAAGTAATTTA
9607298 ATTTTATA
1 ATTTTATA
9607306 CTTATTTACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTTATAAAAGTAATTTA
Found at i:9614122 original size:22 final size:23
Alignment explanation
Indices: 9614094--9614140 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
9614084 ATTTTTATGT
9614094 ATTACTAT-AAGAACTAAG-CTAA
1 ATTACTATCAA-AACTAAGTCTAA
*
9614116 ATTACTATCAAAATTAAGTCTAA
1 ATTACTATCAAAACTAAGTCTAA
9614139 AT
1 AT
9614141 AACTCTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (23 bp):
ATTACTATCAAAACTAAGTCTAA
Found at i:9616734 original size:24 final size:26
Alignment explanation
Indices: 9616693--9616745 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
9616683 CACAAACTTG
*
9616693 AAATGAAAGAAGAAAAAGAG-GAAGA
1 AAATGAAAGAAGAAAAAGAGAAAAGA
**
9616718 AAAT-AAAGAAGCCAAAGAGAAAAGA
1 AAATGAAAGAAGAAAAAGAGAAAAGA
9616743 AAA
1 AAA
9616746 AATCTTACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.70, C:0.04, G:0.23, T:0.04
Consensus pattern (26 bp):
AAATGAAAGAAGAAAAAGAGAAAAGA
Found at i:9617778 original size:16 final size:16
Alignment explanation
Indices: 9617757--9617787 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9617747 CATCATCCTT
9617757 TTATAGAATTTTTATA
1 TTATAGAATTTTTATA
9617773 TTATAGAATTTTTAT
1 TTATAGAATTTTTAT
9617788 CTTTTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TTATAGAATTTTTATA
Found at i:9618041 original size:21 final size:20
Alignment explanation
Indices: 9618015--9618078 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 20
9618005 CAAAAGGTAG
9618015 AAAGGTTGTGCTTGATCCTTA
1 AAAGGTTGTGCTTGAT-CTTA
*
9618036 AAAGG-TAT--TTGAT-TGT-
1 AAAGGTTGTGCTTGATCT-TA
9618052 AAAGGTTGTGCTTGATTCTTA
1 AAAGGTTGTGCTTGA-TCTTA
9618073 AAAGGT
1 AAAGGT
9618079 ATTTAGTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
16 6 0.18
17 3 0.09
18 5 0.15
19 4 0.12
20 4 0.12
21 12 0.35
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.39
Consensus pattern (20 bp):
AAAGGTTGTGCTTGATCTTA
Found at i:9618056 original size:37 final size:38
Alignment explanation
Indices: 9618015--9618152 Score: 158
Period size: 37 Copynumber: 3.7 Consensus size: 38
9618005 CAAAAGGTAG
9618015 AAAGGTTGTGCTTGATCCTTAAAAGGTATTTGA-TTGT
1 AAAGGTTGTGCTTGATCCTTAAAAGGTATTTGATTTGT
* *
9618052 AAAGGTTGTGCTTGATTCTTAAAAGGTATTT-AGTTGT
1 AAAGGTTGTGCTTGATCCTTAAAAGGTATTTGATTTGT
* *
9618089 AAAGGTTGTGCTCGATCC-TAAATAGGTA-GTGACTTTTGT
1 AAAGGTTGTGCTTGATCCTTAAA-AGGTATTTGA--TTTGT
* * *
9618128 ATACGTTGTGCTTGATCCTTGAAAG
1 AAAGGTTGTGCTTGATCCTTAAAAG
9618153 ATAGTTTATA
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
36 6 0.07
37 56 0.65
39 21 0.24
40 3 0.03
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.39
Consensus pattern (38 bp):
AAAGGTTGTGCTTGATCCTTAAAAGGTATTTGATTTGT
Found at i:9621921 original size:21 final size:21
Alignment explanation
Indices: 9621879--9621921 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9621869 CTTGTACCGG
*
9621879 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
9621900 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
9621921 T
1 T
9621922 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:9632546 original size:254 final size:249
Alignment explanation
Indices: 9631952--9632822 Score: 735
Period size: 254 Copynumber: 3.4 Consensus size: 249
9631942 ATTTTTTACA
* * *
9631952 TTAATTCTTATAAGTTTAGGTCCAA-GTTTTTCAATTGCTAATTTTCACTATAATTATTTTTATC
1 TTAATTCTTACAAGTTTACGT-CAAGGTTTTTCAATTGCTAATTTTCATTATAATTATTTTTATC
* * * * * * * ** * **
9632016 TTTGTTATTATTTCGTTATAAATTAAAAATTGTAAATCGTTAAATACTTTTAATTCAAGAATGCA
65 -TTATTATTATTCCATTATAAATTAAAATTTGTAAACCGTTAAAAACTTGTAGCTCAACAATATA
* * * * * *
9632081 AATTCAAAT--TTAATTTTTCAAAAAAATCATATTTATTTTGACTTAA-TAGACTTGTTACATTA
129 AATTAAAATGCTT-ACTTTTCATAAAAAT-A-AATTATTTTGACTTAATTA-ACTTGCTACACTA
* * * * * * * * * * **
9632143 AATATGACATATTTACATCAATA-TTTTAGTAATGCTTGTTCTACCTTTACAACT-TTTTAAG
190 AACATCATACATTAACAACAATACTTTGA-CAATGCTAGTTCCACCTTTATTA-TATTTT-AG
* * * * * *
9632204 TTAATTTTTACAGGTTTACGTCAAGTTTTTTCAGTTGCTAATTTTCACTATAATTATTTTAATTC
1 TTAATTCTTACAAGTTTACGTCAAGGTTTTTCAATTGCTAATTTTCATTATAATTATTTTTA-TC
* * * *
9632269 TTATTATTATT-CATTTATAAATTAAAATTTGTAAACTG-TACATTATACTTTTAGCTCGACAAT
65 TTATTATTATTCCA-TTATAAATTAAAATTTGTAAACCGTTA-A--AAACTTGTAGCTCAACAAT
* * * *
9632332 ATCAATTCAAAATGTTTACTTTGTCCA-AAAAA-AAATTATTTTGACTTAATTGACTTGCTATAC
126 ATAAATT-AAAATGCTTACTTT-T-CATAAAAATAAATTATTTTGACTTAATTAACTTGCTACAC
* * * ***
9632395 TGAACATCTTACATTTACGTTAATA-TGTTGACAATGCTAGTTCCACCTTTATTATATTTTATG
188 TAAACATCATACATTAACAACAATACT-TTGACAATGCTAGTTCCACCTTTATTATATTTTA-G
* * * *
9632458 TTACTTCTTACATGTTTATGTCAAGGTTTTTGAATTGCTAATTTTCATTAT-ATGTATTTTTATC
1 TTAATTCTTACAAGTTTACGTCAAGGTTTTTCAATTGCTAATTTTCATTATAAT-TATTTTTAT-
* * * *
9632522 CTTACTAGTATTCCATTGTAAATTAAAATTT-TGAAACCGTTAAAAACTTGTAGCTCAATAATAT
64 CTTATTATTATTCCATTATAAATTAAAATTTGT-AAACCGTTAAAAACTTGTAGCTCAACAATAT
* * * * * *
9632586 AAATTTAAATGCTTAGTTTTCATAAAAATTTTATTTATTTTGACTTAATTAACTTGTTACATTAA
128 AAATTAAAATGCTTACTTTTCATAAAAA--TAAATTATTTTGACTTAATTAACTTGCTACACTAA
* * * *
9632651 ATATCATACATTAACAACAATACTTTGATAATGCTTGTTCCACCTTTATTATTTTTTAG
191 ACATCATACATTAACAACAATACTTTGACAATGCTAGTTCCACCTTTATTATATTTTAG
*
9632710 ATTAATTCTTACAAGTTTACG-CAAAAGTTTTTCAATTGCTAATTTTCATTATAATTATTTTTAT
1 -TTAATTCTTACAAGTTTACGTC-AAGGTTTTTCAATTGCTAATTTTCATTATAATTATTTTTAT
* * *
9632774 CTTATTATTATTCCTTTATAAATTAAAATTTGTAAACGGTTAAATACTT
64 CTTATTATTATTCCATTATAAATTAAAATTTGTAAACCGTTAAAAACTT
9632823 TAAACTTGAG
Statistics
Matches: 502, Mismatches: 88, Indels: 58
0.77 0.14 0.09
Matches are distributed among these distances:
249 2 0.00
250 6 0.01
251 17 0.03
252 147 0.29
253 136 0.27
254 167 0.33
255 13 0.03
256 4 0.01
257 8 0.02
258 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (249 bp):
TTAATTCTTACAAGTTTACGTCAAGGTTTTTCAATTGCTAATTTTCATTATAATTATTTTTATCT
TATTATTATTCCATTATAAATTAAAATTTGTAAACCGTTAAAAACTTGTAGCTCAACAATATAAA
TTAAAATGCTTACTTTTCATAAAAATAAATTATTTTGACTTAATTAACTTGCTACACTAAACATC
ATACATTAACAACAATACTTTGACAATGCTAGTTCCACCTTTATTATATTTTAG
Found at i:9644717 original size:15 final size:16
Alignment explanation
Indices: 9644685--9644717 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9644675 AATAATTCGT
*
9644685 TAAATTTATAAAATAA
1 TAAATTTATAAAAAAA
9644701 TAAATTT-TAAAAAAA
1 TAAATTTATAAAAAAA
9644716 TA
1 TA
9644718 CATAGGTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAATTTATAAAAAAA
Found at i:9645585 original size:11 final size:11
Alignment explanation
Indices: 9645566--9645599 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9645556 AAATCATTGT
*
9645566 ATTTTCAACGG
1 ATTTTCAACGA
*
9645577 ATTTGCAACGA
1 ATTTTCAACGA
9645588 ATTTTCAACGA
1 ATTTTCAACGA
9645599 A
1 A
9645600 ATTTAATTAA
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:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (11 bp):
ATTTTCAACGA
Found at i:9645731 original size:38 final size:38
Alignment explanation
Indices: 9645666--9645741 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
9645656 GAAATTTTCG
* *
9645666 TTGGAAAATTAAATTTCCAAGGGAAAATTCCGTTGGAA
1 TTGGAAAATTAAATTTCCAACGAAAAATTCCGTTGGAA
* **
9645704 TTGGAAAATTAAATTTTCAACGAAAAATTTTGTTGGAA
1 TTGGAAAATTAAATTTCCAACGAAAAATTCCGTTGGAA
9645742 ATTTGATTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (38 bp):
TTGGAAAATTAAATTTCCAACGAAAAATTCCGTTGGAA
Found at i:9646924 original size:13 final size:13
Alignment explanation
Indices: 9646906--9646930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9646896 GAAAAAATTG
9646906 TGATTTTATAAAA
1 TGATTTTATAAAA
9646919 TGATTTTATAAA
1 TGATTTTATAAA
9646931 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:9651085 original size:129 final size:129
Alignment explanation
Indices: 9650855--9651108 Score: 427
Period size: 129 Copynumber: 2.0 Consensus size: 129
9650845 TTAAACGGTA
* * *
9650855 ACTGCAGTGGTGGGGGTTTTCGTGGACTACCTATGAGAGGCGCACGGTAACCCAATTATATATTT
1 ACTGCAGTGGTGGGGGTTTCCGTGGACTACCTATGAGAGGAGCACGATAACCCAATTATATATTT
9650920 ACCTCCGGGGGGAGATGTTGGATGAAGTATCTCTTGAGGTAAGATTCGAATGCACCTCACTGTC
66 ACCTCCGGGGGGAGATGTTGGATGAAGTATCTCTTGAGGTAAGATTCGAATGCACCTCACTGTC
* *
9650984 ACTGCAGTGGTGGGGGTTTCCGTGGACTGCCTATGAGAGGAGCACGATAACTCAATTATATATTT
1 ACTGCAGTGGTGGGGGTTTCCGTGGACTACCTATGAGAGGAGCACGATAACCCAATTATATATTT
* * * *
9651049 ACCTCCGGGGGGAGATGTTGGGTGAAGTATCTCTTGAGGTATGATTTGAGTGCACCTCAC
66 ACCTCCGGGGGGAGATGTTGGATGAAGTATCTCTTGAGGTAAGATTCGAATGCACCTCAC
9651109 GTTCTGGCCA
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 116 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (129 bp):
ACTGCAGTGGTGGGGGTTTCCGTGGACTACCTATGAGAGGAGCACGATAACCCAATTATATATTT
ACCTCCGGGGGGAGATGTTGGATGAAGTATCTCTTGAGGTAAGATTCGAATGCACCTCACTGTC
Found at i:9652318 original size:25 final size:24
Alignment explanation
Indices: 9652281--9652332 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
9652271 AACATGAAAA
9652281 CACAGCACAAACACAAACATTGTT
1 CACAGCACAAACACAAACATTGTT
* *
9652305 CACATCACAGAACATAAACATTGTT
1 CACAGCACA-AACACAAACATTGTT
9652330 CAC
1 CAC
9652333 CCTATCCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.44, C:0.29, G:0.08, T:0.19
Consensus pattern (24 bp):
CACAGCACAAACACAAACATTGTT
Found at i:9654426 original size:37 final size:37
Alignment explanation
Indices: 9654385--9654544 Score: 171
Period size: 37 Copynumber: 4.1 Consensus size: 37
9654375 GTTGTGTGAG
9654385 GATGTT-GAAGTGTGCGAGTAGGGAGTCCACACATGAT
1 GATGTTAG-AGTGTGCGAGTAGGGAGTCCACACATGAT
9654422 GATGTTAGAGTGTGCGAGTAGGGAGTGCACACATGCACACATGAT
1 GATGTTAGAGTGTGCGAGTAGGGAGT-----C---CACACATGAT
* *
9654467 GATGTTAGAGTGTGCGAGTAGGGAATGCACACATGAT
1 GATGTTAGAGTGTGCGAGTAGGGAGTCCACACATGAT
* * *
9654504 GATGTT-GAAATGTGTGAGTAGGGAGTGCACACATGAT
1 GATGTTAG-AGTGTGCGAGTAGGGAGTCCACACATGAT
9654541 GATG
1 GATG
9654545 AATGCATATG
Statistics
Matches: 108, Mismatches: 5, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
36 1 0.01
37 70 0.65
38 1 0.01
42 1 0.01
45 35 0.32
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.24
Consensus pattern (37 bp):
GATGTTAGAGTGTGCGAGTAGGGAGTCCACACATGAT
Found at i:9654476 original size:45 final size:45
Alignment explanation
Indices: 9654412--9654501 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
9654402 GTAGGGAGTC
*
9654412 CACACATGATGATGTTAGAGTGTGCGAGTAGGGAGTGCACACATG
1 CACACATGATGATGTTAGAGTGTGCGAGTAGGGAATGCACACATG
9654457 CACACATGATGATGTTAGAGTGTGCGAGTAGGGAATGCACACATG
1 CACACATGATGATGTTAGAGTGTGCGAGTAGGGAATGCACACATG
9654502 ATGATGTTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (45 bp):
CACACATGATGATGTTAGAGTGTGCGAGTAGGGAATGCACACATG
Found at i:9654523 original size:82 final size:82
Alignment explanation
Indices: 9654385--9654538 Score: 240
Period size: 82 Copynumber: 1.9 Consensus size: 82
9654375 GTTGTGTGAG
* *
9654385 GATGTTGAAGTGTGCGAGTAGGGAGTCCACACATGATGATGTTAGAGTGTGCGAGTAGGGAGTGC
1 GATGTTGAAGTGTGCGAGTAGGGAATCCACACATGATGATGTTAGAATGTGCGAGTAGGGAGTGC
9654450 ACACATGCACACATGAT
66 ACACATGCACACATGAT
* *
9654467 GATGTT-AGAGTGTGCGAGTAGGGAATGCACACATGATGATGTT-GAAATGTGTGAGTAGGGAGT
1 GATGTTGA-AGTGTGCGAGTAGGGAATCCACACATGATGATGTTAG-AATGTGCGAGTAGGGAGT
9654530 GCACACATG
64 GCACACATG
9654539 ATGATGAATG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
81 2 0.03
82 64 0.97
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.24
Consensus pattern (82 bp):
GATGTTGAAGTGTGCGAGTAGGGAATCCACACATGATGATGTTAGAATGTGCGAGTAGGGAGTGC
ACACATGCACACATGAT
Found at i:9656902 original size:13 final size:13
Alignment explanation
Indices: 9656884--9656908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9656874 TTCCAAAAAA
9656884 TTTATAAAATCAT
1 TTTATAAAATCAT
9656897 TTTATAAAATCA
1 TTTATAAAATCA
9656909 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9660563 original size:26 final size:25
Alignment explanation
Indices: 9660534--9660736 Score: 161
Period size: 26 Copynumber: 8.2 Consensus size: 25
9660524 ATTACTTGAT
*
9660534 TAGTTTCTGATAAGGCATTGCATGAC
1 TAGTTTCTGAT-AGGCATTGCGTGAC
** *
9660560 TAGTTAATAATAGGCATTGCGTGAC
1 TAGTTTCTGATAGGCATTGCGTGAC
** *
9660585 TAGTTAATAATAGGCATTGCGTGAC
1 TAGTTTCTGATAGGCATTGCGTGAC
*
9660610 T-GACTT-TG---GGCATTGCGTGAC
1 TAG-TTTCTGATAGGCATTGCGTGAC
* *
9660631 TAGTTTTTTTATAAGGCATTGCGTGAC
1 TAG-TTTCTGAT-AGGCATTGCGTGAC
* *
9660658 TAGTTTCTGATAAGGTATTACGTGAC
1 TAGTTTCTGAT-AGGCATTGCGTGAC
* **
9660684 TAGTTTCTGATAAGACATTGTATGAC
1 TAGTTTCTGAT-AGGCATTGCGTGAC
9660710 TAG--T-TGATAGGCATTGCGTGAC
1 TAGTTTCTGATAGGCATTGCGTGAC
9660732 TAGTT
1 TAGTT
9660737 CATAAGGTAT
Statistics
Matches: 146, Mismatches: 22, Indels: 20
0.78 0.12 0.11
Matches are distributed among these distances:
21 14 0.10
22 17 0.12
23 5 0.03
24 3 0.02
25 40 0.27
26 51 0.35
27 16 0.11
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (25 bp):
TAGTTTCTGATAGGCATTGCGTGAC
Found at i:9660755 original size:124 final size:123
Alignment explanation
Indices: 9660472--9660732 Score: 278
Period size: 124 Copynumber: 2.1 Consensus size: 123
9660462 GACTAGTTTT
* * * * * * * *
9660472 TAGGCATTACGTGACTAACTTT-GGACAGTACGTGATTA-ATTTTTTATAAGACATTACTTGATT
1 TAGGCATTGCGTGACTGACTTTAGG-CATTGCGTGACTAGTTTTTTTATAAGACATTACGTGACT
* * *
9660535 AGTTTCTGATAAGGCATTGCATGACTAGTTAATAATAGGCATTGCGTGACTAGTTAATAA
65 AGTTTCTGATAAGGCATTACATGACTAGTTAATAATAGACATTGCATGACTAGTT-ATAA
* * *
9660595 TAGGCATTGCGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTTTATAAGGCATTGCGTGACTA
1 TAGGCATTGCGTGACTGACTTTAGGCATTGCGTGACTAGTTTTTTTATAAGACATTACGTGACTA
* * ** * * *
9660660 GTTTCTGATAAGGTATTACGTGACTAGTTTCTGATAAGACATTGTATGACTAG-T-TGA
66 GTTTCTGATAAGGCATTACATGACTAGTTAATAAT-AGACATTGCATGACTAGTTATAA
9660717 TAGGCATTGCGTGACT
1 TAGGCATTGCGTGACT
9660733 AGTTCATAAG
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
122 18 0.16
123 30 0.26
124 53 0.46
125 14 0.12
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (123 bp):
TAGGCATTGCGTGACTGACTTTAGGCATTGCGTGACTAGTTTTTTTATAAGACATTACGTGACTA
GTTTCTGATAAGGCATTACATGACTAGTTAATAATAGACATTGCATGACTAGTTATAA
Found at i:9660808 original size:22 final size:21
Alignment explanation
Indices: 9660767--9660845 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 21
9660757 AGGCATTGCT
* * *
9660767 TAAAAATTAGTCATGCAATGTA
1 TAAAAACTAGTCACGTAATG-A
*
9660789 TAAAAACTAGTCACGTAATGCC
1 TAAAAACTAGTCACGTAATG-A
* *
9660811 T-AAAACTAATCACATAATGA
1 TAAAAACTAGTCACGTAATGA
9660831 CTAAAAACTAGTCAC
1 -TAAAAACTAGTCAC
9660846 ACGGTGATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.37
22 29 0.63
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.25
Consensus pattern (21 bp):
TAAAAACTAGTCACGTAATGA
Found at i:9660846 original size:22 final size:22
Alignment explanation
Indices: 9660789--9660846 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
9660779 ATGCAATGTA
* *
9660789 TAAAAACTAGTCACGTAATGCC
1 TAAAAACTAGTCACATAATGAC
*
9660811 T-AAAACTAATCACATAATGAC
1 TAAAAACTAGTCACATAATGAC
9660832 TAAAAACTAGTCACA
1 TAAAAACTAGTCACA
9660847 CGGTGATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.22
Consensus pattern (22 bp):
TAAAAACTAGTCACATAATGAC
Found at i:9663608 original size:13 final size:13
Alignment explanation
Indices: 9663590--9663614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9663580 ACATAGGATA
9663590 AATATAATATAAC
1 AATATAATATAAC
9663603 AATATAATATAA
1 AATATAATATAA
9663615 ACTCTAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATAATATAAC
Found at i:9665306 original size:25 final size:22
Alignment explanation
Indices: 9665260--9665308 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 22
9665250 AAAATAATAA
9665260 TAACATAAAATATAATAAAATT
1 TAACATAAAATATAATAAAATT
9665282 TAACATAAGTAATATACATAAAATT
1 TAACATAA--AATATA-ATAAAATT
9665307 TA
1 TA
9665309 TTATCATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 8 0.33
24 6 0.25
25 10 0.42
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (22 bp):
TAACATAAAATATAATAAAATT
Found at i:9666767 original size:21 final size:21
Alignment explanation
Indices: 9666743--9666810 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
9666733 TGTGACTAAG
9666743 TTTTAGTCATTACGTGATTGA
1 TTTTAGTCATTACGTGATTGA
* *
9666764 TTTTAGGT-ATTACGTGAGTAGT
1 TTTTA-GTCATTACGTGA-TTGA
*
9666786 TTTTA-TACATTACGTGACTGA
1 TTTTAGT-CATTACGTGATTGA
9666807 TTTT
1 TTTT
9666811 TAAGCAATGC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
20 1 0.03
21 19 0.50
22 18 0.47
ACGTcount: A:0.24, C:0.09, G:0.19, T:0.49
Consensus pattern (21 bp):
TTTTAGTCATTACGTGATTGA
Found at i:9666810 original size:22 final size:22
Alignment explanation
Indices: 9666734--9666812 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
9666724 TAATCACCCT
* * *
9666734 GTGACTAAGTTTTAGTCATTAC
1 GTGACTGATTTTTAGACATTAC
* **
9666756 GTGATTGA-TTTTAGGTATTAC
1 GTGACTGATTTTTAGACATTAC
* *
9666777 GTGAGT-AGTTTTTATACATTAC
1 GTGACTGA-TTTTTAGACATTAC
9666799 GTGACTGATTTTTA
1 GTGACTGATTTTTA
9666813 AGCAATGCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.02
21 16 0.36
22 27 0.60
23 1 0.02
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (22 bp):
GTGACTGATTTTTAGACATTAC
Found at i:9666862 original size:23 final size:23
Alignment explanation
Indices: 9666831--9666935 Score: 129
Period size: 23 Copynumber: 4.4 Consensus size: 23
9666821 CTAAGTTACA
**
9666831 CAATGCCTTACGAATTAGTCACG
1 CAATGCCTTACGAACAAGTCACG
* *
9666854 CAATACCTTACTAACAAGTCACG
1 CAATGCCTTACGAACAAGTCACG
*
9666877 CAATGCCTTACTAACAAGTCACG
1 CAATGCCTTACGAACAAGTCACG
*
9666900 CAATGCCTTATCAGAAACTAGTCACG
1 CAATGCCTTA-C-G-AACAAGTCACG
9666926 CAATGCCTTA
1 CAATGCCTTA
9666936 TCAAAAACTA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
23 51 0.71
24 1 0.01
26 20 0.28
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (23 bp):
CAATGCCTTACGAACAAGTCACG
Found at i:9666929 original size:26 final size:25
Alignment explanation
Indices: 9666846--9667093 Score: 168
Period size: 26 Copynumber: 10.3 Consensus size: 25
9666836 CCTTACGAAT
* *
9666846 TAGTCACGCAATACCTTA-C-TAAC
1 TAGTCACGCAATGCCTTATCAAAAC
* *
9666869 AAGTCACGCAATGCCTTA-C-TAAC
1 TAGTCACGCAATGCCTTATCAAAAC
*
9666892 AAGTCACGCAATGCCTTATCAGAAAC
1 TAGTCACGCAATGCCTTATCA-AAAC
9666918 TAGTCACGCAATGCCTTATCAAAAAC
1 TAGTCACGCAATGCCTTATC-AAAAC
* * **
9666944 TAGTTACGCAATACC----CAAAGT
1 TAGTCACGCAATGCCTTATCAAAAC
* * *
9666965 TAATCATGCAATACC-TATC--AAC
1 TAGTCACGCAATGCCTTATCAAAAC
9666987 TAGTCACGCAATGCCTTATCAGAAAC
1 TAGTCACGCAATGCCTTATCA-AAAC
*
9667013 TAGTCACGCAATGCC----C-AAAG
1 TAGTCACGCAATGCCTTATCAAAAC
* * *
9667033 TCAGTTACACAATGTCTTATCAAAAAC
1 T-AGTCACGCAATGCCTTATC-AAAAC
* *
9667060 TAGTCACGCAATGTCTTATCAAAAA
1 TAGTCACGCAATGCCTTATCAAAAC
9667085 TCAGTCACG
1 T-AGTCACG
9667094 TAATACCCAA
Statistics
Matches: 182, Mismatches: 24, Indels: 35
0.76 0.10 0.15
Matches are distributed among these distances:
20 4 0.02
21 26 0.14
22 15 0.08
23 43 0.24
24 2 0.01
25 6 0.03
26 81 0.45
27 5 0.03
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (25 bp):
TAGTCACGCAATGCCTTATCAAAAC
Found at i:9667071 original size:95 final size:93
Alignment explanation
Indices: 9666870--9667045 Score: 198
Period size: 95 Copynumber: 1.9 Consensus size: 93
9666860 CTTACTAACA
*
9666870 AGTCACGCAATGCCTTACTAACAAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTT
1 AGTCACGCAATACCTTACTAACAAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCC--
* * **
9666935 ATCAAAAACTAGTTACGCAATACCCAAAGTT
64 -TCAAAAACTAGTTACACAATACCAAAAACT
* * *
9666966 AATCATGCAATACC-TA-TCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCC-
1 AGTCACGCAATACCTTACT-AACAAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCT
**
9667028 CAAAGTC-AGTTACACAAT
65 CAAAAACTAGTTACACAAT
9667046 GTCTTATCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
90 10 0.14
91 5 0.07
94 1 0.01
95 45 0.62
96 11 0.15
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (93 bp):
AGTCACGCAATACCTTACTAACAAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTC
AAAAACTAGTTACACAATACCAAAAACT
Found at i:9667078 original size:73 final size:71
Alignment explanation
Indices: 9666893--9667118 Score: 260
Period size: 73 Copynumber: 3.2 Consensus size: 71
9666883 CTTACTAACA
* * *
9666893 AGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAACTAGTTACGCAATAC
1 AGTCACACAATGACTTATCA-AAACTAGTCACGCAATGCCTTATC-AAAACTAGTCACGCAATAC
*
9666958 CCAAAGTT
64 CCAAAGTC
* ** * *
9666966 AATCATGCAAT-ACCTATC--AACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCC
1 AGTCACACAATGACTTATCAAAACTAGTCACGCAATGCCTTATCA-AAACTAGTCACGCAATACC
9667028 CAAAGTC
65 CAAAGTC
* * * * *
9667035 AGTTACACAATGTCTTATCAAAAACTAGTCACGCAATGTCTTATCAAAAATCAGTCACGTAATAC
1 AGTCACACAATGACTTATC-AAAACTAGTCACGCAATGCCTTATCAAAACT-AGTCACGCAATAC
9667100 CCAAAGTC
64 CCAAAGTC
9667108 AGTCACACAAT
1 AGTCACACAAT
9667119 ATCCAAAGTG
Statistics
Matches: 129, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
68 1 0.01
69 53 0.41
70 5 0.04
72 9 0.07
73 61 0.47
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.23
Consensus pattern (71 bp):
AGTCACACAATGACTTATCAAAACTAGTCACGCAATGCCTTATCAAAACTAGTCACGCAATACCC
AAAGTC
Found at i:9667109 original size:21 final size:21
Alignment explanation
Indices: 9667085--9667127 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9667075 TTATCAAAAA
**
9667085 TCAGTCACGTAATACCCAAAG
1 TCAGTCACACAATACCCAAAG
*
9667106 TCAGTCACACAATATCCAAAG
1 TCAGTCACACAATACCCAAAG
9667127 T
1 T
9667128 GAATCACGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.21
Consensus pattern (21 bp):
TCAGTCACACAATACCCAAAG
Found at i:9667134 original size:21 final size:21
Alignment explanation
Indices: 9667095--9667139 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9667085 TCAGTCACGT
*
9667095 AATACCCAAAGTCAGTCACAC
1 AATACCCAAAGTCAATCACAC
* * *
9667116 AATATCCAAAGTGAATCACGC
1 AATACCCAAAGTCAATCACAC
9667137 AAT
1 AAT
9667140 GCCTAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.27, G:0.11, T:0.18
Consensus pattern (21 bp):
AATACCCAAAGTCAATCACAC
Found at i:9667660 original size:43 final size:42
Alignment explanation
Indices: 9667599--9667685 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 42
9667589 AAATAAAATT
9667599 ATAGAGAGGACCATTCTTAAAAATGCCTTATGCCTCAGGCCC
1 ATAGAGAGGACCATTCTTAAAAATGCCTTATGCCTCAGGCCC
9667641 NATAGAGAGGACCATTCTTAAAAATGCCTTATGCCTCAGGCCC
1 -ATAGAGAGGACCATTCTTAAAAATGCCTTATGCCTCAGGCCC
9667684 AT
1 AT
9667686 TTATGAAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 2 0.05
43 42 0.95
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
ATAGAGAGGACCATTCTTAAAAATGCCTTATGCCTCAGGCCC
Found at i:9668020 original size:26 final size:27
Alignment explanation
Indices: 9667981--9668034 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
9667971 GGGTAATCAT
* * *
9667981 TTATAATACGCTTA-TATTTATTTTTA
1 TTATAATACACTTAGTAATTATATTTA
*
9668007 TTATAATATACTTAGTAATTATATTTA
1 TTATAATACACTTAGTAATTATATTTA
9668034 T
1 T
9668035 CTAATTTGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (27 bp):
TTATAATACACTTAGTAATTATATTTA
Found at i:9669841 original size:30 final size:28
Alignment explanation
Indices: 9669807--9669911 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 28
9669797 AATCATTACT
9669807 TATAATAATTTATTTGACTTAAAATAAAAA
1 TATAA-AATTTATTT-ACTTAAAATAAAAA
* *
9669837 TATAAGAGTTTATTTAATTAAAAATAAAAA
1 TATAA-AATTTATTTACTT-AAAATAAAAA
* *
9669867 TATAAAAATTTGATTAAACTT--AATAAAAG
1 TAT-AAAATTT-ATT-TACTTAAAATAAAAA
9669896 TATAAAAGTTTATTTA
1 TATAAAA-TTTATTTA
9669912 AAATTTTTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
27 1 0.02
28 7 0.11
29 16 0.26
30 30 0.48
31 5 0.08
32 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (28 bp):
TATAAAATTTATTTACTTAAAATAAAAA
Found at i:9669912 original size:29 final size:29
Alignment explanation
Indices: 9669828--9669913 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 29
9669818 ATTTGACTTA
*
9669828 AAATAAAAATATAAGAGTTTATTT-AATT
1 AAATAAAAATATAAAAGTTTATTTAAATT
*
9669856 AAAAATAAAAATATAAAAATTTGA-TTAAACTT
1 --AAATAAAAATATAAAAGTTT-ATTTAAA-TT
*
9669888 -AATAAAAGTATAAAAGTTTATTTAAA
1 AAATAAAAATATAAAAGTTTATTTAAA
9669914 ATTTTTTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
28 1 0.02
29 22 0.46
30 20 0.42
31 3 0.06
32 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (29 bp):
AAATAAAAATATAAAAGTTTATTTAAATT
Found at i:9671889 original size:12 final size:13
Alignment explanation
Indices: 9671872--9671902 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
9671862 TAATTATTTT
9671872 TATTTTATTAT-A
1 TATTTTATTATCA
9671884 TATTTTATTATCA
1 TATTTTATTATCA
9671897 TATTTT
1 TATTTT
9671903 CTATTCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTATCA
Found at i:9671913 original size:13 final size:14
Alignment explanation
Indices: 9671876--9671936 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 14
9671866 TATTTTTATT
*
9671876 TTATTATATATTTTA
1 TTATTAT-TATTTTC
*
9671891 TTATCA-TATTTTC
1 TTATTATTATTTTC
*
9671904 -TATTCTTA-TTTC
1 TTATTATTATTTTC
9671916 TTATTATTATTTT-
1 TTATTATTATTTTC
9671929 TT-TTATTA
1 TTATTATTA
9671937 CTTTACATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
12 13 0.34
13 17 0.45
14 3 0.08
15 5 0.13
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTATTATTTTC
Found at i:9676132 original size:10 final size:9
Alignment explanation
Indices: 9676118--9676168 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
9676108 GGAAAACTAA
9676118 TTTTCTTTC
1 TTTTCTTTC
9676127 ATTTTCTTTCC
1 -TTTTCTTT-C
9676138 TTCTT-TTTC
1 TT-TTCTTTC
9676147 TTTTCATTTC
1 TTTTC-TTTC
9676157 TTTTCTCTTC
1 TTTTCT-TTC
9676167 TT
1 TT
9676169 GCTTCATTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.06
9 4 0.11
10 27 0.75
11 3 0.08
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:9676145 original size:24 final size:26
Alignment explanation
Indices: 9676118--9676168 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
9676108 GGAAAACTAA
9676118 TTTTC-TTTCATTT-TCTTTC-CTTCT
1 TTTTCTTTTCATTTCT-TTTCTCTTCT
9676142 TTTTCTTTTCATTTCTTTTCTCTTCT
1 TTTTCTTTTCATTTCTTTTCTCTTCT
9676168 T
1 T
9676169 GCTTCATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.21
25 12 0.50
26 7 0.29
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTCTTTTCATTTCTTTTCTCTTCT
Found at i:9685527 original size:74 final size:73
Alignment explanation
Indices: 9685289--9685688 Score: 405
Period size: 73 Copynumber: 5.5 Consensus size: 73
9685279 TAAATAGAAT
* * * *
9685289 GCTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTTGTCTTTT-TCTCTGAACCTAATTTC
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGT-TTTTGTCTCTGAACCAAATTTT
* *
9685353 TAGCAATAA
65 TGGCAGTAA
* * * * * *
9685362 GCTCTTCGTCGACTAACAATACTTTTTAGTTGATTAAGTCGTCTTTGTCTCTGAACCAAGTTTTT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTTTTTGTCTCTGAACCAAATTTTT
9685427 GGCAGTAA
66 GGCAGTAA
* * * **
9685435 GCTCTTGGTTGACTAACAATGCTTGTTAGTCGATTAAGTTTTTTTTGTCTC-GTAATCCAAATTT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTTTTTGTCTCTG-AA-CCAAATTT
9685499 TTGGCAGTAA
64 TTGGCAGTAA
* * * * * *
9685509 GCTCTTAGTCGACTAACAATACCTT-TTAGTCGATTAAGTCGTCTCTCTCTCTGAACCCAGTTTT
1 GCTCTTAGTCGACTAACAAT-GCTTCTTAGTCGATTAAGTCGTTTTTGTCTCTGAACCAAATTTT
*
9685573 TGGCAGCAA
65 TGGCAGTAA
* * *
9685582 GCTCTTGGTTGACTAACAATGCTTCTTAGTCGATTAAGTAC-TTTCTGTCTCAT-AATCCAAATT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGT-CGTTTTTGTCTC-TGAA-CCAAATT
* * *
9685645 TCTGGTAGCAA
63 TTTGGCAGTAA
* * *
9685656 GCTCTTAGTTGACTAACGATACTTCTTAGTCGA
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGA
9685689 CTCAATATTC
Statistics
Matches: 274, Mismatches: 44, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
72 7 0.03
73 159 0.58
74 104 0.38
75 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (73 bp):
GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTTTTTGTCTCTGAACCAAATTTTT
GGCAGTAA
Found at i:9685560 original size:147 final size:146
Alignment explanation
Indices: 9685289--9685688 Score: 527
Period size: 147 Copynumber: 2.7 Consensus size: 146
9685279 TAAATAGAAT
* * * * *
9685289 GCTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTTGTCTTTT-TCTCTGAA-CCTAATTT
1 GCTCTTGGTTGACTAACAATGCTTCTTAGTCGATTAAGTT-TTTTTTGTCTCT-AATCCAAATTT
* * * * * * *
9685352 CTAGCAATAAGCTCTTCGTCGACTAACAATACTTTTTAGTTGATTAAGTCGTCTTTGTCTCTGAA
64 CTGGCAGTAAGCTCTTAGTCGACTAACAATACCTTTTAGTCGATTAAGTCGTCTCTCTCTCTGAA
*
9685417 CCAAGTTTTTGGCAGTAA
129 CCAAGTTTTTGGCAGCAA
* *
9685435 GCTCTTGGTTGACTAACAATGCTTGTTAGTCGATTAAGTTTTTTTTGTCTCGTAATCCAAATTTT
1 GCTCTTGGTTGACTAACAATGCTTCTTAGTCGATTAAGTTTTTTTTGTCTC-TAATCCAAATTTC
9685500 TGGCAGTAAGCTCTTAGTCGACTAACAATACCTTTTAGTCGATTAAGTCGTCTCTCTCTCTGAAC
65 TGGCAGTAAGCTCTTAGTCGACTAACAATACCTTTTAGTCGATTAAGTCGTCTCTCTCTCTGAAC
*
9685565 CCAGTTTTTGGCAGCAA
130 CAAGTTTTTGGCAGCAA
** *
9685582 GCTCTTGGTTGACTAACAATGCTTCTTAGTCGATTAAGTACTTTCTGTCTCATAATCCAAATTTC
1 GCTCTTGGTTGACTAACAATGCTTCTTAGTCGATTAAGTTTTTTTTGTCTC-TAATCCAAATTTC
* * * *
9685647 TGGTAGCAAGCTCTTAGTTGACTAACGATA-CTTCTTAGTCGA
65 TGGCAGTAAGCTCTTAGTCGACTAACAATACCTT-TTAGTCGA
9685689 CTCAATATTC
Statistics
Matches: 224, Mismatches: 26, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
145 5 0.02
146 45 0.20
147 174 0.78
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (146 bp):
GCTCTTGGTTGACTAACAATGCTTCTTAGTCGATTAAGTTTTTTTTGTCTCTAATCCAAATTTCT
GGCAGTAAGCTCTTAGTCGACTAACAATACCTTTTAGTCGATTAAGTCGTCTCTCTCTCTGAACC
AAGTTTTTGGCAGCAA
Found at i:9690243 original size:43 final size:43
Alignment explanation
Indices: 9690184--9690315 Score: 198
Period size: 43 Copynumber: 3.1 Consensus size: 43
9690174 TTGTGTAATA
* *
9690184 ATGATGACCCAACTATGTGTGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
9690227 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
* *
9690270 ATGATGACCCAGCTATGTGCAAGT-AGGGAGTGCACATGA--TG
1 ATGATGACCCAGCTATGTGC-GGTGTGGGAGTGCACATGAGCTG
9690311 ATGAT
1 ATGAT
9690316 ATTGCATTGT
Statistics
Matches: 84, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
41 7 0.08
43 75 0.89
44 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.24
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
Found at i:9690631 original size:22 final size:22
Alignment explanation
Indices: 9690603--9690647 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9690593 GCTCTGAATT
* *
9690603 TTGCTGCACCGAGAATGGATTC
1 TTGCTGCACCAAAAATGGATTC
*
9690625 TTGCTGCAGCAAAAATGGATTC
1 TTGCTGCACCAAAAATGGATTC
9690647 T
1 T
9690648 CACTGTAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (22 bp):
TTGCTGCACCAAAAATGGATTC
Found at i:9690657 original size:22 final size:22
Alignment explanation
Indices: 9690616--9690658 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9690606 CTGCACCGAG
**
9690616 AATGGATTCTTGCTGCAGCAAA
1 AATGGATTCTCACTGCAGCAAA
*
9690638 AATGGATTCTCACTGTAGCAA
1 AATGGATTCTCACTGCAGCAA
9690659 GAAACTCTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (22 bp):
AATGGATTCTCACTGCAGCAAA
Found at i:9695958 original size:20 final size:21
Alignment explanation
Indices: 9695917--9695961 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
9695907 CCTAGGTGGA
*
9695917 AAAATTCAAGTGAAAAGTGTG
1 AAAATTCAAGTGAAAAGAGTG
9695938 AAAATTCAAG-GAAACA-AGTG
1 AAAATTCAAGTGAAA-AGAGTG
9695958 AAAA
1 AAAA
9695962 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.56, C:0.07, G:0.20, T:0.18
Consensus pattern (21 bp):
AAAATTCAAGTGAAAAGAGTG
Found at i:9695962 original size:21 final size:20
Alignment explanation
Indices: 9695915--9695962 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
9695905 ACCCTAGGTG
9695915 GAAAAATTCAAGTGAAAAGT
1 GAAAAATTCAAGTGAAAAGT
*
9695935 GTGAAAATTCAAG-GAAACAAGT
1 G-AAAAATTCAAGTG-AA-AAGT
9695957 GAAAAA
1 GAAAAA
9695963 AGGTAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 2 0.09
21 16 0.70
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.21, T:0.17
Consensus pattern (20 bp):
GAAAAATTCAAGTGAAAAGT
Found at i:9698482 original size:33 final size:34
Alignment explanation
Indices: 9698412--9698487 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 34
9698402 TATCACGTTT
*
9698412 AAAAAAAAATCAATTAATCTTATCTTATTGTATTA
1 AAAAAAAAATCAATTAATCTTATC-TATTGTACTA
*
9698447 AAAAAAACAATCAGTTAATCTTATC-A-TGTACTA
1 AAAAAAA-AATCAATTAATCTTATCTATTGTACTA
*
9698480 AAATAAAA
1 AAAAAAAA
9698488 GTAATAAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 1 0.03
33 12 0.32
34 1 0.03
35 7 0.19
36 16 0.43
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.33
Consensus pattern (34 bp):
AAAAAAAAATCAATTAATCTTATCTATTGTACTA
Found at i:9699813 original size:311 final size:309
Alignment explanation
Indices: 9699243--9699849 Score: 1178
Period size: 311 Copynumber: 2.0 Consensus size: 309
9699233 TAAAAATTTC
*
9699243 ATAAAATAGAATTTTTTTTTAATTTTTATAAAAATTTGATTTTTATTAATATGTGATGAATTCTG
1 ATAAAATAGAATTTTTTTTTAATTTTAATAAAAATTTGATTTTTATTAATATGTGATGAATTCTG
9699308 TTGTAAGCTTTATAAATATTGAATTTTTTATTTCTAATATATTTTTATGTCTAAAAGTATCCATA
66 TTGTAAGCTTTATAAATATTGAATTTTTTATTTCTAATATATTTTTATGTCTAAAAGTATCCATA
9699373 ATTATATTTTATAAACTTATTTCTTAAGTTTGTAAATTTTATAAAAATATAAAAAAATTAAGAAA
131 ATTATATTTTATAAACTTATTTCTTAAGTTTGTAAATTTTATAAAAATATAAAAAAATTAAGAAA
9699438 AAATTGTAAACATGAAATTAATATTATATTGCTATTAGATATTAAAATCTTTACTAATTTTATGA
196 AAATTGTAAACATGAAATTAATATTATATTGCTATTAGATATTAAAATCTTTACTAATTTTATGA
*
9699503 TTTAAGTTTAATTCTCAATTTTATTTGATTTTTATTAACTAAAAAAAAAG
261 TTTAAGTTTAATTCTCAATTTTACTTGA-TTTTATTAACTAAAAAAAAAG
9699553 ATAAAATNAGAATTTTTTTTTAATTTTAATAAAAATTTGATTTTTATTAATATGTGATGAATTCT
1 ATAAAAT-AGAATTTTTTTTTAATTTTAATAAAAATTTGATTTTTATTAATATGTGATGAATTCT
9699618 GTTGTAAGCTTTATAAATATTGAATTTTTTATTTCTAATATATTTTTATGTCTAAAAGTATCCAT
65 GTTGTAAGCTTTATAAATATTGAATTTTTTATTTCTAATATATTTTTATGTCTAAAAGTATCCAT
9699683 AATTATATTTTATAAACTTATTTCTTAAGTTTGTAAATTTTATAAAAATATAAAAAAATTAAGAA
130 AATTATATTTTATAAACTTATTTCTTAAGTTTGTAAATTTTATAAAAATATAAAAAAATTAAGAA
9699748 AAAATTGTAAACATGAAATTAATATTATATTGCTATTAGATATTAAAATCTTTACTAATTTTATG
195 AAAATTGTAAACATGAAATTAATATTATATTGCTATTAGATATTAAAATCTTTACTAATTTTATG
9699813 ATTTAAGTTTAATTCTCAATTTTACTTGATTTTATTA
260 ATTTAAGTTTAATTCTCAATTTTACTTGATTTTATTA
9699850 TCTCTTTGAT
Statistics
Matches: 294, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
310 15 0.05
311 279 0.95
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (309 bp):
ATAAAATAGAATTTTTTTTTAATTTTAATAAAAATTTGATTTTTATTAATATGTGATGAATTCTG
TTGTAAGCTTTATAAATATTGAATTTTTTATTTCTAATATATTTTTATGTCTAAAAGTATCCATA
ATTATATTTTATAAACTTATTTCTTAAGTTTGTAAATTTTATAAAAATATAAAAAAATTAAGAAA
AAATTGTAAACATGAAATTAATATTATATTGCTATTAGATATTAAAATCTTTACTAATTTTATGA
TTTAAGTTTAATTCTCAATTTTACTTGATTTTATTAACTAAAAAAAAAG
Found at i:9700211 original size:2 final size:2
Alignment explanation
Indices: 9700204--9700242 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9700194 AAAATGTAAT
9700204 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9700243 GATTTTCGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9700685 original size:42 final size:41
Alignment explanation
Indices: 9700639--9700790 Score: 241
Period size: 42 Copynumber: 3.6 Consensus size: 41
9700629 TCTGATATAC
9700639 TTATGACCCATGCCACTAGGGTTAATTGTGGTTTCGATATGA
1 TTATGACCCATGCCA-TAGGGTTAATTGTGGTTTCGATATGA
9700681 TTATGACCCATGCCAATAGGGTTAATTGTGGTTTCGATATGA
1 TTATGACCCATGCC-ATAGGGTTAATTGTGGTTTCGATATGA
*
9700723 TTATGACCCATGCCAGTAGGGTTAATTGTGGTTTCTGTTATGA
1 TTATGACCCATGCCA-TAGGGTTAATTGTGGTTTC-GATATGA
*
9700766 TTATGACCTATGCCATAGGGGTTAA
1 TTATGACCCATGCCATA-GGGTTAA
9700791 GTATGGTCAT
Statistics
Matches: 104, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
41 1 0.01
42 75 0.72
43 28 0.27
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (41 bp):
TTATGACCCATGCCATAGGGTTAATTGTGGTTTCGATATGA
Found at i:9702406 original size:20 final size:20
Alignment explanation
Indices: 9702368--9702406 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9702358 TAAAAGCACA
***
9702368 TAAATAATAAAATTTAAATT
1 TAAATAATAAAAAACAAATT
9702388 TAAATAATAAAAAACAAAT
1 TAAATAATAAAAAACAAAT
9702407 ATCTCGAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAATAATAAAAAACAAATT
Found at i:9702427 original size:35 final size:34
Alignment explanation
Indices: 9702387--9702460 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 34
9702377 AAATTTAAAT
*
9702387 TTAAATAATAAAAAACAAATATCTCGAA-TATCAAC
1 TTAAATAATAAAAAACAAATAT-TCAAACTAT-AAC
**
9702422 TTAAATAATTTAAAACAAATATTCAAACTATAAC
1 TTAAATAATAAAAAACAAATATTCAAACTATAAC
9702456 TTAAA
1 TTAAA
9702461 CATTACAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 12 0.34
35 23 0.66
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (34 bp):
TTAAATAATAAAAAACAAATATTCAAACTATAAC
Found at i:9703452 original size:2 final size:2
Alignment explanation
Indices: 9703445--9703514 Score: 62
Period size: 2 Copynumber: 37.5 Consensus size: 2
9703435 ACTTCAAAAT
* * *
9703445 TA TA TA TA -A T- TA AA TA -A TA TA TA TA AA TA TA TA -A TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9703483 GTA -A TA TA T- TA TA TA TA TA TA TA TA TA TA TA T
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9703515 GAGAAAATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
1 6 0.11
2 48 0.87
3 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (2 bp):
TA
Found at i:9703467 original size:17 final size:17
Alignment explanation
Indices: 9703445--9703480 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9703435 ACTTCAAAAT
*
9703445 TATATATAATTAAATAA
1 TATATATAAATAAATAA
*
9703462 TATATATAAATATATAA
1 TATATATAAATAAATAA
9703479 TA
1 TA
9703481 AAGTAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TATATATAAATAAATAA
Found at i:9703796 original size:23 final size:23
Alignment explanation
Indices: 9703766--9703811 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9703756 CTATGCTTAC
*
9703766 GATTTCTCTCTCTCACGTTTTCA
1 GATTTCTCTCTCTCACGCTTTCA
* *
9703789 GATTTCTCTTTCTTACGCTTTCA
1 GATTTCTCTCTCTCACGCTTTCA
9703812 AGACACCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.28, G:0.09, T:0.50
Consensus pattern (23 bp):
GATTTCTCTCTCTCACGCTTTCA
Found at i:9704319 original size:45 final size:45
Alignment explanation
Indices: 9704259--9704452 Score: 142
Period size: 45 Copynumber: 4.2 Consensus size: 45
9704249 GTAACAATTT
* *
9704259 TTTTTA-ACCATGACGTGTAACAACCTAATCATAGCGTGTCACATG
1 TTTTTATA-CATGACGTGTAACAACTTAATCATAACGTGTCACATG
* **** ** *
9704304 TTTTTATACATGACGTATCATATGTTTTTGTACATGACGTGTCACATG
1 TTTTTATACATGACGTGT-A-ACAACTTAAT-CATAACGTGTCACATG
* ** **
9704352 TTTTTATATATGGTGTGTAACAACTTAA-CAATAAAATGTCACATG
1 TTTTTATACATGACGTGTAACAACTTAATC-ATAACGTGTCACATG
** * *
9704397 TTTTTGCACATGACGTGTAACAA-TATAATCATAACGTGTAACATA
1 TTTTTATACATGACGTGTAACAACT-TAATCATAACGTGTCACATG
9704442 TTTTTATACAT
1 TTTTTATACAT
9704453 AGTGTGTAAT
Statistics
Matches: 108, Mismatches: 34, Indels: 14
0.69 0.22 0.09
Matches are distributed among these distances:
44 2 0.02
45 68 0.63
46 6 0.06
47 4 0.04
48 28 0.26
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (45 bp):
TTTTTATACATGACGTGTAACAACTTAATCATAACGTGTCACATG
Found at i:9704369 original size:24 final size:24
Alignment explanation
Indices: 9704293--9704359 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
9704283 CTAATCATAG
9704293 CGTGTCACATGTTTTTATACATGA
1 CGTGTCACATGTTTTTATACATGA
* * *
9704317 CGTATCATATGTTTTTGTACATGA
1 CGTGTCACATGTTTTTATACATGA
9704341 CGTGTCACATGTTTTTATA
1 CGTGTCACATGTTTTTATA
9704360 TATGGTGTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (24 bp):
CGTGTCACATGTTTTTATACATGA
Found at i:9704534 original size:20 final size:20
Alignment explanation
Indices: 9704509--9704549 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9704499 TAACTTGATT
9704509 AAAAATAATTAAAATTATAA
1 AAAAATAATTAAAATTATAA
9704529 AAAAATAATTAAAATTATAA
1 AAAAATAATTAAAATTATAA
9704549 A
1 A
9704550 GAAAGGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATAATTAAAATTATAA
Found at i:9704859 original size:14 final size:14
Alignment explanation
Indices: 9704818--9704860 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
9704808 NTTATGAAAT
*
9704818 TAATAATTAATTATA
1 TAATAATTGATTA-A
*
9704833 TAATAAGTGATTAA
1 TAATAATTGATTAA
*
9704847 TATTAATTGATTAA
1 TAATAATTGATTAA
9704861 CTTTTAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
TAATAATTGATTAA
Found at i:9704937 original size:4 final size:4
Alignment explanation
Indices: 9704886--9704957 Score: 63
Period size: 4 Copynumber: 17.5 Consensus size: 4
9704876 ATTAGCTATT
* * * * **
9704886 TTAA TTAA CTAA TTAAA TTAG TTAA TTAG TTATT TTAA TTAA CAAA TTAA
1 TTAA TTAA TTAA TT-AA TTAA TTAA TTAA TTA-A TTAA TTAA TTAA TTAA
*
9704936 TTAG TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TT
9704958 TTAATTATTT
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
4 46 0.87
5 7 0.13
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (4 bp):
TTAA
Found at i:9704972 original size:14 final size:13
Alignment explanation
Indices: 9704886--9704976 Score: 55
Period size: 12 Copynumber: 7.2 Consensus size: 13
9704876 ATTAGCTATT
*
9704886 TTAATTAA-CTAA
1 TTAATTAATTTAA
*
9704898 TTAAATT-AGTTAA
1 TT-AATTAATTTAA
* *
9704911 TTAGTTATTTTAA
1 TTAATTAATTTAA
* *
9704924 TTAA-CAAATTAA
1 TTAATTAATTTAA
*
9704936 TTAGTTAA-TTAA
1 TTAATTAATTTAA
9704948 TTAATTAATTTTAA
1 TTAATTAA-TTTAA
* *
9704962 TTATTTTATTTAA
1 TTAATTAATTTAA
9704975 TT
1 TT
9704977 CTTTAAAACT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
12 25 0.42
13 25 0.42
14 10 0.17
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (13 bp):
TTAATTAATTTAA
Done.