Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 40 of 160
Found at i:9316327 original size:18 final size:18
Alignment explanation
Indices: 9316274--9316336 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
9316264 TTGGGGTTTA
9316274 GTTTAGGGTTTCAT-GGATG
1 GTTTA-GGTTTCATAGG-TG
* **
9316293 GCTTAGAGTTTGGTAGGTG
1 GTTTAG-GTTTCATAGGTG
9316312 GTTTAGGTTTCATAGGTG
1 GTTTAGGTTTCATAGGTG
*
9316330 ATTTAGG
1 GTTTAGG
9316337 GTTTGGAGGG
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 17 0.49
19 16 0.46
20 2 0.06
ACGTcount: A:0.17, C:0.05, G:0.37, T:0.41
Consensus pattern (18 bp):
GTTTAGGTTTCATAGGTG
Found at i:9317139 original size:280 final size:280
Alignment explanation
Indices: 9316638--9317198 Score: 905
Period size: 280 Copynumber: 2.0 Consensus size: 280
9316628 AAGAACCATA
* *
9316638 CAAGAACACAAGCAAGCAAGGATGAATAAACCAACATTTAGCTATGAACAAGCTTTGAGGTTTCG
1 CAAGAACACAAGCAAGCAAGGATGAATAAACCAACATTTAGCCATGAACAAGCTTGGAGGTTTCG
* * *
9316703 ACTAAGCATGGGAATGGCTTAGTCGAACCTCTTTAAGGCTTTCCACAACCATGTTTTCATTCCAT
66 ACCAAGCATGGGAATGGCTTAGTCGAACCTCCTTAAGCCTTTCCACAACCATGTTTTCATTCCAT
** *
9316768 TCAACTCACACATACATCAAACATTAAGGTATTCATCATATAGAAGCATTTTAATTGCAAGAGGA
131 TCAACTCACACATACATCAAACATTAAGGTATTCATCATATAGAAGCATTTTAATCACAAGAAGA
9316833 ATTTCATCAAACATGTAACAAACTAAAATAGTAAGGAAACCATAAAAACAAGAACAT-T-AGCCA
196 ATTTCATCAAACATGTAACAAACTAAAATAGTAAGGAAACCATAAAAACAA-AA-ATGTCAGCCA
9316896 AACACCAAACACACATCATTAG
259 AACACCAAACACACATCATTAG
*
9316918 CAAGAACACAAGTAAGCAAGGATGAATAAACCAACATTTAGCCATGAACAAGCTTGGAGGTTTC-
1 CAAGAACACAAGCAAGCAAGGATGAATAAACCAACATTTAGCCATGAACAAGCTTGGAGGTTTCG
* *
9316982 AGCCAAGCATGGGAATGGCTTGGTTGAACCTCCTTAAGACCTTT-CACAACCATGTTTTCATTCC
66 A-CCAAGCATGGGAATGGCTTAGTCGAACCTCCTTAAG-CCTTTCCACAACCATGTTTTCATTCC
* * *
9317046 ATTCAACTCACACATGCATCAAACATTAATGTATTCATTATATAGAAGCATTTTAATCACAAGAA
129 ATTCAACTCACACATACATCAAACATTAAGGTATTCATCATATAGAAGCATTTTAATCACAAGAA
* *
9317111 GAATTTCATCAAACATGTAACAAACTAAAATAGTAAGGAAACCATAAATATAAAAATGTCAGCCA
194 GAATTTCATCAAACATGTAACAAACTAAAATAGTAAGGAAACCATAAAAACAAAAATGTCAGCCA
*
9317176 AACACCAAACACGCATCATTAG
259 AACACCAAACACACATCATTAG
9317198 C
1 C
9317199 TAATCAAAAC
Statistics
Matches: 260, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
278 2 0.01
279 4 0.02
280 250 0.96
281 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (280 bp):
CAAGAACACAAGCAAGCAAGGATGAATAAACCAACATTTAGCCATGAACAAGCTTGGAGGTTTCG
ACCAAGCATGGGAATGGCTTAGTCGAACCTCCTTAAGCCTTTCCACAACCATGTTTTCATTCCAT
TCAACTCACACATACATCAAACATTAAGGTATTCATCATATAGAAGCATTTTAATCACAAGAAGA
ATTTCATCAAACATGTAACAAACTAAAATAGTAAGGAAACCATAAAAACAAAAATGTCAGCCAAA
CACCAAACACACATCATTAG
Found at i:9319583 original size:25 final size:25
Alignment explanation
Indices: 9319554--9319632 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 25
9319544 ATATATTTAG
9319554 TAAATAATTTTTTTATTAAATAATA
1 TAAATAATTTTTTTATTAAATAATA
* * * *
9319579 TAAATTATTATTTTAGATTAATTAGAAA
1 TAAATAATT-TTTT-TATTAAATA-ATA
*
9319607 TAATATAA--TTTTTATTAAAAAATA
1 TAA-ATAATTTTTTTATTAAATAATA
9319631 TA
1 TA
9319633 TTAATATATA
Statistics
Matches: 41, Mismatches: 9, Indels: 9
0.69 0.15 0.15
Matches are distributed among these distances:
24 4 0.10
25 14 0.34
26 8 0.20
27 7 0.17
28 5 0.12
29 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (25 bp):
TAAATAATTTTTTTATTAAATAATA
Found at i:9323246 original size:3 final size:3
Alignment explanation
Indices: 9323240--9323341 Score: 132
Period size: 3 Copynumber: 33.3 Consensus size: 3
9323230 GAATAAAAAA
*
9323240 ATG ATG ATA ATG AATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG -ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
* * ** *
9323286 ATG ATG AATG ATG ATA ATG TTG ATG ATG ATG ATG ACA ACG ATG ATG
1 ATG ATG -ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
9323332 ATG ATG ATG A
1 ATG ATG ATG A
9323342 AGCACATGAG
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
3 81 0.93
4 6 0.07
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:9325569 original size:157 final size:156
Alignment explanation
Indices: 9325305--9325587 Score: 451
Period size: 157 Copynumber: 1.8 Consensus size: 156
9325295 GTGATTGTTG
* *
9325305 AACATTGTAGATGAATGGTATTGAACTATATAGTGTTTTGTACTTATTGAGATGCAATGACTTTG
1 AACATTATAGATGAATGGTATTGAACTATATAGTGTTTTGTACTTATTGAGATGCAATGACTTTA
* * *
9325370 TGAAGGTGAAAACTATTGTGTATTTTGCTTTATTATTTTGGTTGTGTATTATGATTGTTGATGAA
66 TAAAGGTGAAAACTATTGTGTATTTTGCTTTATTATTATGGTTATGTATTATGATTGTTGATGAA
9325435 AAGATAATGTAGTAATTGAAAAACTA
131 AAGATAATGTAGTAATTGAAAAACTA
* * *
9325461 AACATTATAAGATGAATGGTATTGAACTATATAGTGTTTTGTGCTTATTGAGATGTAATTACTTT
1 AACATTAT-AGATGAATGGTATTGAACTATATAGTGTTTTGTACTTATTGAGATGCAATGACTTT
* *
9325526 ATAAAGGTGAAAATTATTGTGTATTTTGCTTT-TTAATTATGGTTATGTATTGTGATTGTTGA
65 ATAAAGGTGAAAACTATTGTGTATTTTGCTTTATT-ATTATGGTTATGTATTATGATTGTTGA
9325588 CAAAATATCT
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
156 9 0.08
157 106 0.92
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (156 bp):
AACATTATAGATGAATGGTATTGAACTATATAGTGTTTTGTACTTATTGAGATGCAATGACTTTA
TAAAGGTGAAAACTATTGTGTATTTTGCTTTATTATTATGGTTATGTATTATGATTGTTGATGAA
AAGATAATGTAGTAATTGAAAAACTA
Found at i:9325743 original size:259 final size:258
Alignment explanation
Indices: 9325366--9325863 Score: 626
Period size: 259 Copynumber: 1.9 Consensus size: 258
9325356 ATGCAATGAC
* * **
9325366 TTTGTGAAGGTGAAAACTATTGTGTATTTTGCTTTATTATTTTGGTTGTGTATTATGATTGTTGA
1 TTTGTGAAGGTGAAAACTATTGTGTATTTTGCTTTATGATTCTAATTGTGTATTATGATTGTTGA
* *
9325431 TGAAAAGATAATGTAGTAATTGAAAAACTAAACATTATAAGATGAATGGTATTGAACTATATAGT
66 TGAAAAGATAATGTAGTAATTGAAAAACTAAACATTATAAGACGAAAGGTATTGAACTATATAGT
* * ** * * * *** *
9325496 GTTTTGTGCTTATTGAGATGTAATTACTTTATAAAGGTGAAAATTATTGTGTATTTTGCTTTTTA
131 GTTTTATGCATATTGAGATACAATGACTTTATAAAGATGAAAACTATTACATATTTTGCTTTGTA
* * *
9325561 ATTATGGTTATGTATTGTGATTGTTGACAAAATATCTTTATAGTATATTGCAATGAGATTACA
196 ATTATAGTTATGTATTATGATTATTGACAAAATATCTTTATAGTATATTGCAATGAGATTACA
*
9325624 TTTGTGAAAGGTGAAAA-TATTGCT-TATTTTGCTTTGTGATTCTAATTGTGTATTAT-AGTTGT
1 TTTGTG-AAGGTGAAAACTATTG-TGTATTTTGCTTTATGATTCTAATTGTGTATTATGA-TTGT
* * * * *
9325686 TGATGAAGTAGATAGTGTAGTAATTGAAAGACTAAATATTGCT-AGACGAAAGGTATTGAACTAT
63 TGATGAA-AAGATAATGTAGTAATTGAAAAACTAAACATT-ATAAGACGAAAGGTATTGAACTAT
* *
9325750 ATAGTGTTTTATGCATATTGAGATACAATGACTTTATGAATATGAAAACTATTACATATTTTGCT
126 ATAGTGTTTTATGCATATTGAGATACAATGACTTTATAAAGATGAAAACTATTACATATTTTGCT
* * ** *
9325815 TTGTGATTCTAGTTATGTATTATGATTATTGATGAACTATCTTTATAGT
191 TTGTAATTATAGTTATGTATTATGATTATTGACAAAATATCTTTATAGT
9325864 GTAGTAATTA
Statistics
Matches: 202, Mismatches: 33, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
257 1 0.00
258 49 0.24
259 151 0.75
260 1 0.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (258 bp):
TTTGTGAAGGTGAAAACTATTGTGTATTTTGCTTTATGATTCTAATTGTGTATTATGATTGTTGA
TGAAAAGATAATGTAGTAATTGAAAAACTAAACATTATAAGACGAAAGGTATTGAACTATATAGT
GTTTTATGCATATTGAGATACAATGACTTTATAAAGATGAAAACTATTACATATTTTGCTTTGTA
ATTATAGTTATGTATTATGATTATTGACAAAATATCTTTATAGTATATTGCAATGAGATTACA
Found at i:9327978 original size:18 final size:17
Alignment explanation
Indices: 9327957--9327997 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
9327947 TGGAGGTTTT
9327957 TTTTTTGTTTTTGTGTTG
1 TTTTTTGTTTTT-TGTTG
*
9327975 TTTTTTGTTTTTTTTTG
1 TTTTTTGTTTTTTGTTG
9327992 TTTTTT
1 TTTTTT
9327998 TTTAACTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (17 bp):
TTTTTTGTTTTTTGTTG
Found at i:9327997 original size:10 final size:10
Alignment explanation
Indices: 9327952--9328000 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
9327942 TGTGTTGGAG
9327952 GTTTTTTTTT
1 GTTTTTTTTT
* *
9327962 -TGTTTTTGT
1 GTTTTTTTTT
*
9327971 GTTGTTTTTT
1 GTTTTTTTTT
9327981 GTTTTTTTTT
1 GTTTTTTTTT
9327991 GTTTTTTTTT
1 GTTTTTTTTT
9328001 AACTTCTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 7 0.22
10 25 0.78
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (10 bp):
GTTTTTTTTT
Found at i:9328127 original size:50 final size:50
Alignment explanation
Indices: 9328073--9328395 Score: 296
Period size: 50 Copynumber: 6.6 Consensus size: 50
9328063 ACATGGGTAG
* *
9328073 GTGACTTTGAAAAAATCTCAATTT-AAAAGTGCTTCTATAGACATTGATAA
1 GTGACTTT-AAAAAATCTCAATTTGAAAAGTGCTTCTATAGACATAGACAA
9328123 GTGACTTT-AAAAATCTCAATTTGAAAAGTG-TTCCTATAGACATATG-C-A
1 GTGACTTTAAAAAATCTCAATTTGAAAAGTGCTT-CTATAGACATA-GACAA
* * * *** ** *
9328171 GATGACTTTAAAAAATCTCAATTTAAAAACTACCGATATAGGTATAGGCAA
1 G-TGACTTTAAAAAATCTCAATTTGAAAAGTGCTTCTATAGACATAGACAA
* *
9328222 GTGACTTTAAAAAATTCTCAATTTGAAAAGTGCTCCTATAGACATAGATAA
1 GTGACTTTAAAAAA-TCTCAATTTGAAAAGTGCTTCTATAGACATAGACAA
* * * *
9328273 ATGACTTT--AAAA----GA-TTGAAAAGTGCTTCTACAGACATAGGCAA
1 GTGACTTTAAAAAATCTCAATTTGAAAAGTGCTTCTATAGACATAGACAA
* *
9328316 GTGACTTTAAAAGATCTCAATTTGAAAAGTG-TTCCTACT-GACATAGGCAA
1 GTGACTTTAAAAAATCTCAATTTGAAAAGTGCTT-CTA-TAGACATAGACAA
* *
9328366 GTGACTATAGAAAATCTCAATTTGAAAAGT
1 GTGACTTTAAAAAATCTCAATTTGAAAAGT
9328396 TTTGAAAGTC
Statistics
Matches: 222, Mismatches: 33, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
43 32 0.14
44 1 0.00
45 3 0.01
48 18 0.08
49 32 0.14
50 101 0.45
51 35 0.16
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (50 bp):
GTGACTTTAAAAAATCTCAATTTGAAAAGTGCTTCTATAGACATAGACAA
Found at i:9328292 original size:43 final size:43
Alignment explanation
Indices: 9328244--9328330 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
9328234 AATTCTCAAT
* *
9328244 TTGAAAAGTGCTCCTATAGACATAGATAAATGACTTTAAAAGA
1 TTGAAAAGTGCTCCTACAGACATAGACAAATGACTTTAAAAGA
* * *
9328287 TTGAAAAGTGCTTCTACAGACATAGGCAAGTGACTTTAAAAGA
1 TTGAAAAGTGCTCCTACAGACATAGACAAATGACTTTAAAAGA
9328330 T
1 T
9328331 CTCAATTTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (43 bp):
TTGAAAAGTGCTCCTACAGACATAGACAAATGACTTTAAAAGA
Found at i:9328362 original size:144 final size:145
Alignment explanation
Indices: 9328073--9328395 Score: 365
Period size: 144 Copynumber: 2.2 Consensus size: 145
9328063 ACATGGGTAG
* * *
9328073 GTGACTTTGAAAAAATCTCAATTT-AAAAGTGCTTCTATAGACATTGATAAGTGACTTTAAAAAT
1 GTGACTTT-AAAAAATCTCAATTTGAAAAGTGCTCCTATAGACATAGATAAATGACTTTAAAAA-
* *
9328137 CTCAATTTGAAAAGTGTTCCTATAGACATATGCAGATGACTTTAAAAAATCTCAATTTAAAAACT
64 --CAATTTGAAAAGTGTTCCTACAGACATAGGCAGATGACTTTAAAAAATCTCAATTTAAAAACT
**
9328202 ACCGATATAGGTATAGGCAA
127 ACC-ATATAGACATAGGCAA
9328222 GTGACTTTAAAAAATTCTCAATTTGAAAAGTGCTCCTATAGACATAGATAAATGACTTT-AAAA-
1 GTGACTTTAAAAAA-TCTCAATTTGAAAAGTGCTCCTATAGACATAGATAAATGACTTTAAAAAC
* * **
9328285 GA-TTGAAAAGTGCTT-CTACAGACATAGGCA-AGTGACTTTAAAAGATCTCAATTTGAAAAGTG
65 AATTTGAAAAGTG-TTCCTACAGACATAGGCAGA-TGACTTTAAAAAATCTCAATTT-AAAA-AC
*
9328347 TTCC-TACT-GACATAGGCAA
126 TACCATA-TAGACATAGGCAA
* *
9328366 GTGACTATAGAAAATCTCAATTTGAAAAGT
1 GTGACTTTAAAAAATCTCAATTTGAAAAGT
9328396 TTTGAAAGTC
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
143 17 0.11
144 67 0.44
145 8 0.05
146 3 0.02
148 6 0.04
149 21 0.14
150 31 0.20
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (145 bp):
GTGACTTTAAAAAATCTCAATTTGAAAAGTGCTCCTATAGACATAGATAAATGACTTTAAAAACA
ATTTGAAAAGTGTTCCTACAGACATAGGCAGATGACTTTAAAAAATCTCAATTTAAAAACTACCA
TATAGACATAGGCAA
Found at i:9328407 original size:24 final size:25
Alignment explanation
Indices: 9328375--9328421 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9328365 AGTGACTATA
9328375 GAAAATCTCA-ATTTGAAAAGTTTT
1 GAAAATCTCATATTTGAAAAGTTTT
* *
9328399 GAAAGTCTCATCTTTGAAAAGTT
1 GAAAATCTCATATTTGAAAAGTT
9328422 GGGTTGTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (25 bp):
GAAAATCTCATATTTGAAAAGTTTT
Found at i:9329071 original size:10 final size:10
Alignment explanation
Indices: 9329057--9329090 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9329047 GTTCTTTCAT
*
9329057 CATTTCATTT
1 CATTTCATTC
9329067 CATTTCATTC
1 CATTTCATTC
*
9329077 CATTCCATTC
1 CATTTCATTC
9329087 CATT
1 CATT
9329091 CAAATGGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (10 bp):
CATTTCATTC
Found at i:9330179 original size:140 final size:133
Alignment explanation
Indices: 9329517--9330266 Score: 414
Period size: 138 Copynumber: 5.6 Consensus size: 133
9329507 TAGTGAAATC
* * * ** * *
9329517 CAAAACTACGTACAAAATTGAAAAGGCAAAGATTTTTTC-AAGCCAATAAAATAATGTACATACA
1 CAAAACTATGTACAAAA-TAAAAAGGCAAAGATTCTCCCTAA-CAAATGAAATAATGTACATACA
* * * * * * * * *
9329581 AAAATGTTTACATTGATAAAAATGTATATGCAAATATATGTATGCAATACATAGTAAAAAAAATA
64 AAGATATTTACATGGAT----ATGTATATGCTAATACAAGTATGCAATACATAGTGAAAACAAGA
* *
9329646 ATCCATATC
125 ATTCATATT
* * * * * *
9329655 CAAAACTCTGTACAAAATTGAAAAGGCAAAGATTTTTCCAAACAAATGAAATAATGTAAATACAA
1 CAAAACTATGTACAAAA-TAAAAAGGCAAAGATTCTCCCTAACAAATGAAATAATGTACATACAA
* * * * ** * *
9329720 ACATATTTATATGGATGTATGTGTATGCAAATACGTGTATGTAATGCATAGT------AAGAATT
65 AGATATTTACATGGA--TATGTATATGCTAATACAAGTATGCAATACATAGTGAAAACAAGAATT
9329779 CATATT
128 CATATT
* * * * * * ** * **
9329785 CACAACTGTATAC-AAATCATGAAAGGCAAAAATTAC-CCCAAATTAATGGAATAATGTGTATAC
1 CAAAACTATGTACAAAAT-A-AAAAGGCAAAGATT-CTCCCTAACAAATGAAATAATGTACATAC
* * * *** * ***
9329848 AAA-AAATGTT---T-G-CATG-A-ATGCAAATACAAGTATATGATACATAG-CAGTGCCAAGAA
63 AAAGATAT-TTACATGGATATGTATATGCTAATACAAGTATGCAATACATAGTGA-AAACAAGAA
9329904 TTCATATT
126 TTCATATT
* * * * * *
9329912 CACAACTATGTGCAAAATTGAAAAGGCAAAGATTTTCCATAACAAATGAAATAATTTACATACAA
1 CAAAACTATGTACAAAA-TAAAAAGGCAAAGATTCTCCCTAACAAATGAAATAATGTACATACAA
* * * * * * *
9329977 AGATTTTTTGCATGG--ATGTATATGCTAGTACAAGTATGCAATGCTTAGTGAATACAAAAATTC
65 AGA-TATTTACATGGATATGTATATGCTAATACAAGTATGCAATACATAGTGAAAACAAGAATTC
9330040 ATATT
129 ATATT
*
9330045 CAAAACTATGTACAAAACTAAAAATGGCAAAGATTCTCCCCAAGCAAATGAAATAATGTACATAC
1 CAAAACTATGTACAAAA-TAAAAA-GGCAAAGATTCTCCCTAA-CAAATGAAATAATGTACATAC
* *
9330110 ATAGATATTTACATGGATAAAAATGTATATG-TAAATACATGTATGCAATACATAGT-AACAACA
63 AAAGATATTTACATGGAT----ATGTATATGCT-AATACAAGTATGCAATACATAGTGAA-AACA
9330173 AGAATTCATATT
122 AGAATTCATATT
* * *
9330185 TAAAACTATGTACAAAATTAAAACGACAAAGATTGC-CCCTAAACAAATGAAATAATGTACATA-
1 CAAAACTATGTACAAAA-TAAAAAGGCAAAGATT-CTCCCT-AACAAATGAAATAATGTACATAC
*
9330248 AAATGATGTTTACATGGAT
63 AAA-GATATTTACATGGAT
9330267 GCATGTATGT
Statistics
Matches: 481, Mismatches: 92, Indels: 77
0.74 0.14 0.12
Matches are distributed among these distances:
121 22 0.05
123 3 0.01
126 1 0.00
127 58 0.12
128 7 0.01
129 8 0.02
130 58 0.12
131 4 0.01
132 2 0.00
133 53 0.11
134 25 0.05
135 24 0.05
136 29 0.06
138 69 0.14
139 51 0.11
140 67 0.14
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (133 bp):
CAAAACTATGTACAAAATAAAAAGGCAAAGATTCTCCCTAACAAATGAAATAATGTACATACAAA
GATATTTACATGGATATGTATATGCTAATACAAGTATGCAATACATAGTGAAAACAAGAATTCAT
ATT
Found at i:9331053 original size:44 final size:44
Alignment explanation
Indices: 9330933--9331055 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
9330923 ATACCAATCC
* * * *
9330933 AAATAATCAAATAAATTAGTATACATGAAAAATTAAAATCTACA
1 AAATAAACAAATAAATTAGTACACATGAAAAATCAAAAGCTACA
** *
9330977 AAATAAACAAATAAATTAGTACACACAAAAAATCATAAGCTACA
1 AAATAAACAAATAAATTAGTACACATGAAAAATCAAAAGCTACA
** ** *
9331021 AAATAAATGAATAGGTTAGTACACATGTAAAATCA
1 AAATAAACAAATAAATTAGTACACATGAAAAATCA
9331056 CAAATAATTA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.58, C:0.11, G:0.07, T:0.24
Consensus pattern (44 bp):
AAATAAACAAATAAATTAGTACACATGAAAAATCAAAAGCTACA
Found at i:9332155 original size:10 final size:10
Alignment explanation
Indices: 9332142--9332171 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9332132 AAATCCTACA
9332142 TTTTCCTTTT
1 TTTTCCTTTT
9332152 TTTT-CTTTT
1 TTTTCCTTTT
9332161 TTTTCCTTTT
1 TTTTCCTTTT
9332171 T
1 T
9332172 GTTGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTCCTTTT
Found at i:9332180 original size:19 final size:19
Alignment explanation
Indices: 9332142--9332183 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9332132 AAATCCTACA
* *
9332142 TTTTCCTTTTTTTTCTTTT
1 TTTTCCTTTTTGTTCATTT
*
9332161 TTTTCCTTTTTGTTGATTT
1 TTTTCCTTTTTGTTCATTT
9332180 TTTT
1 TTTT
9332184 TTTACCAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTCCTTTTTGTTCATTT
Found at i:9332230 original size:12 final size:12
Alignment explanation
Indices: 9332213--9332242 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9332203 GACTAAAAAA
9332213 CAAAAATTAAAC
1 CAAAAATTAAAC
9332225 CAAAAATTAAAC
1 CAAAAATTAAAC
*
9332237 TAAAAA
1 CAAAAA
9332243 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAATTAAAC
Found at i:9332427 original size:22 final size:22
Alignment explanation
Indices: 9332402--9332461 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
9332392 TTTAGTTGTT
* *
9332402 AATTATTGATAATTTAGTAACA
1 AATTAATGATAATTTAATAACA
** *
9332424 AATTAATGATAACCTAATAATA
1 AATTAATGATAATTTAATAACA
*
9332446 AATTAGTGATAATTTA
1 AATTAATGATAATTTA
9332462 TTGGTAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.38
Consensus pattern (22 bp):
AATTAATGATAATTTAATAACA
Found at i:9332562 original size:44 final size:44
Alignment explanation
Indices: 9332499--9332588 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
9332489 AATTAATTGA
* *
9332499 TAGTAATGAATCATAAATAACTTAGTAGTAAATCAATGATAATT
1 TAGTAATGAATAATAAATAACTTAGTAGTAAATCAATGAAAATT
* * * *
9332543 TAGTAATGAATAATTAATAATTTAGTAGTTAATCATTGAAAATT
1 TAGTAATGAATAATAAATAACTTAGTAGTAAATCAATGAAAATT
9332587 TA
1 TA
9332589 AAAATAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (44 bp):
TAGTAATGAATAATAAATAACTTAGTAGTAAATCAATGAAAATT
Found at i:9332642 original size:43 final size:44
Alignment explanation
Indices: 9332559--9332665 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 44
9332549 TGAATAATTA
* *
9332559 ATAATTTAGTAGTTAATCATTGAAAATTTAAAAATAAATTAGT-
1 ATAATTTAGTAGTAAATCATTGAAAACTTAAAAATAAATTAGTG
* * * *
9332602 ATAATTTAGTAGTAAATTATT-AATAACTTAAGAGTTAATTAGTG
1 ATAATTTAGTAGTAAATCATTGAA-AACTTAAAAATAAATTAGTG
* *
9332646 ATAACTTAATAGTAAATCAT
1 ATAATTTAGTAGTAAATCAT
9332666 GCAGAATTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
42 2 0.04
43 34 0.64
44 17 0.32
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (44 bp):
ATAATTTAGTAGTAAATCATTGAAAACTTAAAAATAAATTAGTG
Found at i:9332662 original size:65 final size:66
Alignment explanation
Indices: 9332515--9332858 Score: 197
Period size: 65 Copynumber: 5.3 Consensus size: 66
9332505 TGAATCATAA
* * * *
9332515 ATAACTTAGTAGTAAATCAATGATAATTTAGTAATGAATAATTAATAATTTAGTAGTTAATCATT
1 ATAACTTAATAGTAAATCAATGATAATTTAGTAATAAATAATTAATAATTAAGTAGTTAATCAGT
9332580 G
66 G
* * * * * * * * *
9332581 AAAATTTAAAAATAAATTAGT-ATAATTTAGTAGTAAATTATTAATAACTTAAG-AGTTAATTAG
1 ATAACTTAATAGTAAATCAATGATAATTTAGTAATAAATAATTAATAA-TTAAGTAGTTAATCAG
9332644 TG
65 TG
* **
9332646 ATAACTTAATAGTAAATC-ATGCAGAATTTAGT-ATAAATCAA-TAATAATTTGGTA-TTGAATC
1 ATAACTTAATAGTAAATCAATG-ATAATTTAGTAATAAAT-AATTAATAATTAAGTAGTT-AATC
9332707 A-TAG
63 AGT-G
* * * * * * * * * * * *
9332711 ATAATTTAGTAATAAACCAATGATAATTTTGTAGTAAATAATCAAAAATTAAGTAATAAATAAAT
1 ATAACTTAATAGTAAATCAATGATAATTTAGTAATAAATAATTAATAATTAAGTAGTTAATCAGT
9332776 G
66 G
* * * * * * * * * * *
9332777 ATAACATAGTAGTAAAT-ATATAAAAATATAATAGTAACTAATTGATAATTTAGTAG-TAA--AT
1 ATAACTTAATAGTAAATCA-ATGATAATTTAGTAATAAATAATTAATAATTAAGTAGTTAATCAG
9332838 TG
65 TG
*
9332840 ATAACTTAGTAGTAAATCA
1 ATAACTTAATAGTAAATCA
9332859 CTAATAACAT
Statistics
Matches: 208, Mismatches: 56, Indels: 30
0.71 0.19 0.10
Matches are distributed among these distances:
63 19 0.09
64 8 0.04
65 90 0.43
66 89 0.43
67 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (66 bp):
ATAACTTAATAGTAAATCAATGATAATTTAGTAATAAATAATTAATAATTAAGTAGTTAATCAGT
G
Found at i:9332838 original size:19 final size:19
Alignment explanation
Indices: 9332816--9332856 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
9332806 AATAGTAACT
*
9332816 AATTGATAATTTAGTAGTA
1 AATTGATAACTTAGTAGTA
9332835 AATTGATAACTTAGTAGTA
1 AATTGATAACTTAGTAGTA
9332854 AAT
1 AAT
9332857 CACTAATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.39
Consensus pattern (19 bp):
AATTGATAACTTAGTAGTA
Found at i:9332888 original size:63 final size:62
Alignment explanation
Indices: 9332771--9332921 Score: 144
Period size: 63 Copynumber: 2.4 Consensus size: 62
9332761 AAGTAATAAA
* * * * * *
9332771 TAAA-TGATAACATAGTAGTAAATATATAAAAATATAATAGTAACTAATTGATAATTTAGTAG
1 TAAATTGATAACTTAGTAGTAAATATATAAAAACATAATAGTAAATAACTAATAA-TTAATAG
* * * *
9332833 TAAATTGATAACTTAGTAGTAAATCA-CTAATAACATAATAGTAAATTACTAATAATTAATTG
1 TAAATTGATAACTTAGTAGTAAAT-ATATAAAAACATAATAGTAAATAACTAATAATTAATAG
*
9332895 TAAATTAATGATAATTTAGTAGTAAAT
1 TAAA-T--TGATAACTTAGTAGTAAAT
9332922 TAGTTAATCA
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
62 13 0.18
63 41 0.56
64 1 0.01
65 18 0.25
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (62 bp):
TAAATTGATAACTTAGTAGTAAATATATAAAAACATAATAGTAAATAACTAATAATTAATAG
Found at i:9332922 original size:22 final size:22
Alignment explanation
Indices: 9332515--9332923 Score: 169
Period size: 22 Copynumber: 18.9 Consensus size: 22
9332505 TGAATCATAA
* *
9332515 ATAACTTAGTAGTAAATCAATG
1 ATAATTTAGTAGTAAATTAATG
* * *
9332537 ATAATTTAGTAATGAA-TAATTA
1 ATAATTTAGTAGTAAATTAA-TG
* * *
9332559 ATAATTTAGTAGTTAATCATTG
1 ATAATTTAGTAGTAAATTAATG
* ** * *
9332581 AAAATTTAAAAATAAATTAGT-
1 ATAATTTAGTAGTAAATTAATG
* *
9332602 ATAATTTAGTAGTAAATTATTA
1 ATAATTTAGTAGTAAATTAATG
* * *
9332624 ATAACTTAAG-AGTTAATTAGTG
1 ATAA-TTTAGTAGTAAATTAATG
* * *
9332646 ATAACTTAATAGTAAA-TCATG
1 ATAATTTAGTAGTAAATTAATG
* * *
9332667 CAGAATTTAGTA-TAAATCAATA
1 -ATAATTTAGTAGTAAATTAATG
* * * *
9332689 ATAATTTGGTATTGAA-TCATAG
1 ATAATTTAGTAGTAAATTAAT-G
* **
9332711 ATAATTTAGTAATAAACCAATG
1 ATAATTTAGTAGTAAATTAATG
* *
9332733 ATAATTTTGTAGTAAA-TAATCA
1 ATAATTTAGTAGTAAATTAAT-G
* * * *
9332755 AAAATTAAGTAATAAATAAATG
1 ATAATTTAGTAGTAAATTAATG
** *
9332777 ATAACATAGTAGTAAA-TATATA
1 ATAATTTAGTAGTAAATTA-ATG
* * * *
9332799 AAAATATAATAGT-AACTAATTG
1 ATAATTTAGTAGTAAATTAA-TG
9332821 ATAATTTAGTAGTAAA-T--TG
1 ATAATTTAGTAGTAAATTAATG
* * * *
9332840 ATAACTTAGTAGTAAATCACTA
1 ATAATTTAGTAGTAAATTAATG
** * * *
9332862 ATAACATAATAGTAAATTACTA
1 ATAATTTAGTAGTAAATTAATG
* *
9332884 ATAA-TTAATTGTAAATTAATG
1 ATAATTTAGTAGTAAATTAATG
9332905 ATAATTTAGTAGTAAATTA
1 ATAATTTAGTAGTAAATTA
9332924 GTTAATCACT
Statistics
Matches: 282, Mismatches: 85, Indels: 40
0.69 0.21 0.10
Matches are distributed among these distances:
19 17 0.06
21 62 0.22
22 191 0.68
23 12 0.04
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATTAATG
Found at i:9332966 original size:19 final size:19
Alignment explanation
Indices: 9332917--9332966 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
9332907 AATTTAGTAG
*
9332917 TAAATTAGTTAATCACTGA
1 TAAATTAGTAAATCACTGA
* *
9332936 TAACTTTTAGTAAATCATTGA
1 TAA--ATTAGTAAATCACTGA
9332957 TAAATTAGTA
1 TAAATTAGTA
9332967 GTAAATCAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 9 0.36
21 16 0.64
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (19 bp):
TAAATTAGTAAATCACTGA
Found at i:9332971 original size:22 final size:21
Alignment explanation
Indices: 9332935--9332997 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
9332925 TTAATCACTG
*
9332935 ATAACTTT-TAGTAAATCATT
1 ATAAATTTATAGTAAATCATT
9332955 GATAAA-TTAGTAGTAAATCAGTT
1 -ATAAATTTA-TAGTAAATCA-TT
*
9332978 ATAAATTTATAATAAATCAT
1 ATAAATTTATAGTAAATCAT
9332998 CAATAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 2 0.06
21 5 0.14
22 24 0.67
23 5 0.14
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (21 bp):
ATAAATTTATAGTAAATCATT
Found at i:9333003 original size:22 final size:21
Alignment explanation
Indices: 9332981--9333101 Score: 93
Period size: 22 Copynumber: 5.6 Consensus size: 21
9332971 ATCAGTTATA
9332981 AATTTATAATAAATCATCAAT
1 AATTTATAATAAATCATCAAT
* *
9333002 AATTTAGTGATAAATCACCAAT
1 AATTTA-TAATAAATCATCAAT
9333024 AATTTAATAA-AAATCATTC-AT
1 AATTT-ATAATAAATCA-TCAAT
* * *
9333045 AATTTGATGACAAATCATTCATT
1 AATTT-ATAATAAATCA-TCAAT
* ** *
9333068 AATTAATTGTAAATCATTAAT
1 AATTTATAATAAATCATCAAT
9333089 AATTTAGTAATAA
1 AATTTA-TAATAA
9333102 TCTATTGATA
Statistics
Matches: 78, Mismatches: 16, Indels: 11
0.74 0.15 0.10
Matches are distributed among these distances:
21 30 0.38
22 42 0.54
23 6 0.08
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTTATAATAAATCATCAAT
Found at i:9333047 original size:43 final size:44
Alignment explanation
Indices: 9332981--9333101 Score: 108
Period size: 43 Copynumber: 2.8 Consensus size: 44
9332971 ATCAGTTATA
9332981 AATTT-ATAATAAATCA-TCAATAATTTAGTGATAAATCA-CCAAT
1 AATTTAATAA-AAATCATTC-ATAATTTAGTGATAAATCATCCAAT
* * *
9333024 AATTTAATAAAAATCATTCATAATTT-GATGACAAATCATTCATT
1 AATTTAATAAAAATCATTCATAATTTAG-TGATAAATCATCCAAT
** * *
9333068 AA-TTAATTGTAAATCATTAATAATTTAGTAATAA
1 AATTTAA-TAAAAATCATTCATAATTTAGTGATAA
9333102 TCTATTGATA
Statistics
Matches: 64, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.02
43 31 0.48
44 31 0.48
45 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (44 bp):
AATTTAATAAAAATCATTCATAATTTAGTGATAAATCATCCAAT
Found at i:9333606 original size:22 final size:22
Alignment explanation
Indices: 9333475--9333615 Score: 99
Period size: 22 Copynumber: 6.3 Consensus size: 22
9333465 CAATTTCAGT
9333475 TTAATAG-TAATTAATTGATAAAC
1 TTAATAGTTAATTAA-TGAT-AAC
* * * *
9333498 TTAATAGTAAATCACA-AATTAC
1 TTAATAGTTAATTA-ATGATAAC
* * * *
9333520 TTAGTAGTTAATCATTGAAAAC
1 TTAATAGTTAATTAATGATAAC
* *
9333542 TTAAAAGTAAATTAAT-ATAAC
1 TTAATAGTTAATTAATGATAAC
* *
9333563 TTAATAATAATAAATAATTGATAAC
1 TTAATAGT--TAATTAA-TGATAAC
9333588 TTAATAGTTAATTAATGATAAC
1 TTAATAGTTAATTAATGATAAC
9333610 TTAATA
1 TTAATA
9333616 AGAAATCAAG
Statistics
Matches: 89, Mismatches: 22, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
21 10 0.11
22 41 0.46
23 20 0.22
24 5 0.06
25 13 0.15
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (22 bp):
TTAATAGTTAATTAATGATAAC
Found at i:9333967 original size:22 final size:21
Alignment explanation
Indices: 9333940--9334031 Score: 103
Period size: 22 Copynumber: 4.2 Consensus size: 21
9333930 TGAATTAATT
*
9333940 ATAACTTTATAATAAATCATC
1 ATAACTTAATAATAAATCATC
9333961 AGTAACTTAATAATAAATCATC
1 A-TAACTTAATAATAAATCATC
* * *
9333983 AATAATTTATTAGTAAATCATTC
1 -ATAACTTAATAATAAATCA-TC
*
9334006 ATAACTTAATAGTAAATCATTC
1 ATAACTTAATAATAAATCA-TC
9334028 ATAA
1 ATAA
9334032 ATTAGTAGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
21 1 0.02
22 58 0.94
23 3 0.05
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (21 bp):
ATAACTTAATAATAAATCATC
Found at i:9334040 original size:22 final size:22
Alignment explanation
Indices: 9333952--9334118 Score: 117
Period size: 22 Copynumber: 7.6 Consensus size: 22
9333942 AACTTTATAA
* *
9333952 TAAATCA-TCAGTAACTTAATAA
1 TAAATCATTCA-TAACTTAGTAG
* *
9333974 TAAATCA-TCAATAATTTATTAG
1 TAAATCATTC-ATAACTTAGTAG
*
9333996 TAAATCATTCATAACTTAATAG
1 TAAATCATTCATAACTTAGTAG
*
9334018 TAAATCATTCATAAATTAGTAG
1 TAAATCATTCATAACTTAGTAG
** * * *
9334040 TACTTCAATGC-TAATTTGGTAG
1 TAAATC-ATTCATAACTTAGTAG
* * *
9334062 TAAATTATTGATAATTTAGTAG
1 TAAATCATTCATAACTTAGTAG
* * *
9334084 TATATCATTGATAACGTAGTA-
1 TAAATCATTCATAACTTAGTAG
*
9334105 TAAATCATTGATAA
1 TAAATCATTCATAA
9334119 AATAGTACCA
Statistics
Matches: 118, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
21 15 0.13
22 97 0.82
23 6 0.05
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (22 bp):
TAAATCATTCATAACTTAGTAG
Found at i:9334041 original size:44 final size:44
Alignment explanation
Indices: 9333952--9334125 Score: 131
Period size: 44 Copynumber: 4.0 Consensus size: 44
9333942 AACTTTATAA
* * *
9333952 TAAATCA-TCAGTAACTTAATAATAAATCA-TCAATAATTTATTAG
1 TAAATCATTCA-TAACTTAATAGTAAATCATTC-ATAAATTAGTAG
9333996 TAAATCATTCATAACTTAATAGTAAATCATTCATAAATTAGTAG
1 TAAATCATTCATAACTTAATAGTAAATCATTCATAAATTAGTAG
** * * ** * * *
9334040 TACTTCAATGC-TAATTTGGTAGTAAATTATTGATAATTTAGTAG
1 TAAATC-ATTCATAACTTAATAGTAAATCATTCATAAATTAGTAG
* * * * * *
9334084 TATATCATTGATAACGTAGTA-TAAATCATTGATAAAATAGTA
1 TAAATCATTCATAACTTAATAGTAAATCATTCATAAATTAGTA
9334126 CCAAATTGAT
Statistics
Matches: 104, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
43 20 0.19
44 76 0.73
45 8 0.08
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (44 bp):
TAAATCATTCATAACTTAATAGTAAATCATTCATAAATTAGTAG
Found at i:9334104 original size:19 final size:20
Alignment explanation
Indices: 9334080--9334118 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
9334070 TGATAATTTA
9334080 GTAGTAT-ATCATTGATAAC
1 GTAGTATAATCATTGATAAC
9334099 GTAGTATAAATCATTGATAA
1 GTAGTAT-AATCATTGATAA
9334119 AATAGTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (20 bp):
GTAGTATAATCATTGATAAC
Found at i:9334441 original size:20 final size:20
Alignment explanation
Indices: 9334417--9334455 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
9334407 ATAATTATCA
9334417 AAAATA-TATTATAAGTTACC
1 AAAATATTATTA-AAGTTACC
9334437 AAAATATTATTAAAGTTAC
1 AAAATATTATTAAAGTTAC
9334456 ATCAAGAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAATATTATTAAAGTTACC
Found at i:9334446 original size:32 final size:33
Alignment explanation
Indices: 9334410--9334490 Score: 76
Period size: 33 Copynumber: 2.5 Consensus size: 33
9334400 TTTATCTATA
*
9334410 ATTATCAAAAATATATTATA-A-GTTACCAAAAT
1 ATTATCAAAAATATATCA-AGAGGTTACCAAAAT
* ** *
9334442 ATTATTAAAGTTACATCAAGAGGTTACCAAAAT
1 ATTATCAAAAATATATCAAGAGGTTACCAAAAT
*
9334475 TTTATCAAAAACTATA
1 ATTATCAAAAA-TATA
9334491 AAAATTGTAT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
31 1 0.03
32 14 0.39
33 18 0.50
34 3 0.08
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.33
Consensus pattern (33 bp):
ATTATCAAAAATATATCAAGAGGTTACCAAAAT
Found at i:9334603 original size:21 final size:21
Alignment explanation
Indices: 9334507--9334601 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 21
9334497 GTATTAATGA
* * *
9334507 TTACTAAAATTATATCATAAT
1 TTACCAAAATTATATCAAAAG
* * *
9334528 TTATCAAAATAATGTC-AAAG
1 TTACCAAAATTATATCAAAAG
* *
9334548 ATTACCAAAATTATATCGAAGG
1 -TTACCAAAATTATATCAAAAG
*
9334570 TTACCAAAATTTTATCAAAAG
1 TTACCAAAATTATATCAAAAG
*
9334591 TTATCAAAATT
1 TTACCAAAATT
9334602 TTGAAATCAA
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
20 2 0.03
21 53 0.91
22 3 0.05
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (21 bp):
TTACCAAAATTATATCAAAAG
Found at i:9334705 original size:80 final size:79
Alignment explanation
Indices: 9334616--9334895 Score: 301
Period size: 80 Copynumber: 3.4 Consensus size: 79
9334606 AATCAAAATT
* *
9334616 ATATCAAAAGTTATCAAATTTTACTTATAATATAAAAAATACAAATTAAATTGTTTGTATATATC
1 ATATCAAAAGTTATTAAATTTTACTTATATTATAAAAAATACAAATTAAATTGTTTGTATATATC
*
9334681 ATTATTATTAAAAGC
66 ATTATTA-TCAAAGC
* * * * *
9334696 ATATCAAAAGTTATTAAATTTTACTTATATTATACCAAAATTAAAAAATATATTATTAT-TATCA
1 ATATCAAAAGTTATTAAATTTTACTTATATTATA--AAAAATACAAATTAAATTGTT-TGTAT-A
* * * *
9334760 TCATCATCATCATCATAGT
62 T-ATCATTATTATCAAAGC
** * * *
9334779 ATCAAAAAATTTATTTATTAAATTTTACTTATAGTATAAAAAATACAAATTAAATTGTTTGTATT
1 AT-ATCAAA---AGTTATTAAATTTTACTTATATTATAAAAAATACAAATTAAATTGTTTGTATA
9334844 TATCATTATTATCAAAGC
62 TATCATTATTATCAAAGC
*
9334862 ATATCAAAAGTTATTAAATTGTACTTATATTATA
1 ATATCAAAAGTTATTAAATTTTACTTATATTATA
9334896 CCAAAATAAA
Statistics
Matches: 159, Mismatches: 31, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
79 23 0.14
80 32 0.20
82 23 0.14
83 24 0.15
84 14 0.09
85 19 0.12
87 24 0.15
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (79 bp):
ATATCAAAAGTTATTAAATTTTACTTATATTATAAAAAATACAAATTAAATTGTTTGTATATATC
ATTATTATCAAAGC
Found at i:9334821 original size:167 final size:166
Alignment explanation
Indices: 9334626--9334968 Score: 598
Period size: 167 Copynumber: 2.0 Consensus size: 166
9334616 ATATCAAAAG
*
9334626 TTATCAAATTTTACTTATAATATAAAAAATACAAATTAAATTGTTTGTATATATCATTATTATTA
1 TTATTAAATTTTACTTATAATATAAAAAATACAAATTAAATTGTTTGTATATATCATTATTA-TA
*
9334691 AAAGCATATCAAAAGTTATTAAATTTTACTTATATTATACCAAAATTAAAAAATATATTATTATT
65 AAAGCATATCAAAAGTTATTAAATTGTACTTATATTATACCAAAA-TAAAAAATATATTATTATT
9334756 ATCATCATCATC-ATCATCATAGTATCAAAAAATTTAT
129 ATCATCATCATCTATCATCATAGTATCAAAAAATTTAT
* * *
9334793 TTATTAAATTTTACTTATAGTATAAAAAATACAAATTAAATTGTTTGTATTTATCATTATTATCA
1 TTATTAAATTTTACTTATAATATAAAAAATACAAATTAAATTGTTTGTATATATCATTATTATAA
9334858 AAGCATATCAAAAGTTATTAAATTGTACTTATATTATACCAAAATAAAAAATATATTATTATTAT
66 AAGCATATCAAAAGTTATTAAATTGTACTTATATTATACCAAAATAAAAAATATATTATTATTAT
9334923 CATCATCATCATTATCATCATAGTATCAAAAAATTTAT
131 CATCATCATC--TATCATCATAGTATCAAAAAATTTAT
9334961 TTATTAAA
1 TTATTAAA
9334969 ATGAATTTTT
Statistics
Matches: 168, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
165 31 0.18
166 45 0.27
167 59 0.35
168 33 0.20
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (166 bp):
TTATTAAATTTTACTTATAATATAAAAAATACAAATTAAATTGTTTGTATATATCATTATTATAA
AAGCATATCAAAAGTTATTAAATTGTACTTATATTATACCAAAATAAAAAATATATTATTATTAT
CATCATCATCTATCATCATAGTATCAAAAAATTTAT
Found at i:9335034 original size:2 final size:2
Alignment explanation
Indices: 9335027--9335057 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9335017 AACTAGTATG
9335027 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 T
9335058 GAGGAATCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9336206 original size:20 final size:21
Alignment explanation
Indices: 9336181--9336220 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9336171 ATAACTATAT
*
9336181 ATTACT-CAATTAAACAAAAC
1 ATTACTACAATGAAACAAAAC
*
9336201 ATTACTACTATGAAACAAAA
1 ATTACTACAATGAAACAAAA
9336221 TACACTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.25
Consensus pattern (21 bp):
ATTACTACAATGAAACAAAAC
Found at i:9337987 original size:13 final size:12
Alignment explanation
Indices: 9337960--9338000 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
9337950 TTATGTAATT
*
9337960 TAAAAATTTTAA
1 TAAAAATTGTAA
9337972 TAAAAATTGT-A
1 TAAAAATTGTAA
*
9337983 TATAAATT-TAA
1 TAAAAATTGTAA
9337994 TAAAAAT
1 TAAAAAT
9338001 AAAAATTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
10 1 0.04
11 15 0.60
12 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
TAAAAATTGTAA
Found at i:9338431 original size:13 final size:13
Alignment explanation
Indices: 9338413--9338439 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9338403 TTCAAGTTTT
9338413 TAAAAATTTTAAA
1 TAAAAATTTTAAA
9338426 TAAAAATTTTAAA
1 TAAAAATTTTAAA
9338439 T
1 T
9338440 TTATTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAAAATTTTAAA
Found at i:9338438 original size:22 final size:22
Alignment explanation
Indices: 9338410--9338451 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9338400 CTATTCAAGT
9338410 TTTTAAAAATT-TTAAATAAAAA
1 TTTT-AAAATTATTAAATAAAAA
*
9338432 TTTTAAATTTATTAAATAAA
1 TTTTAAAATTATTAAATAAA
9338452 TTTATCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTAAAATTATTAAATAAAAA
Found at i:9338470 original size:17 final size:17
Alignment explanation
Indices: 9338448--9338486 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9338438 ATTTATTAAA
* *
9338448 TAAATTTATCATAATTT
1 TAAATTAATCAAAATTT
*
9338465 TAAATTAATTAAAATTT
1 TAAATTAATCAAAATTT
9338482 TAAAT
1 TAAAT
9338487 CGAATCTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATTAATCAAAATTT
Found at i:9340909 original size:11 final size:11
Alignment explanation
Indices: 9340893--9340921 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
9340883 CCCATAAGAG
9340893 ATTTGTTTGAA
1 ATTTGTTTGAA
9340904 ATTTGTTTGAA
1 ATTTGTTTGAA
9340915 ATTTGTT
1 ATTTGTT
9340922 AGATATTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.59
Consensus pattern (11 bp):
ATTTGTTTGAA
Found at i:9341007 original size:52 final size:52
Alignment explanation
Indices: 9340945--9341096 Score: 216
Period size: 52 Copynumber: 2.9 Consensus size: 52
9340935 TGGACAAGAA
* *
9340945 GACTTACAAGAGAAAAATTTTAAGGGGAAAGAGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAAAATTCTAAGGGGAAAGAGATTCTTAATAGGCAAGTTT
* * *
9340997 GACTTGCAAGAGAAAAATTCTAAGGGGAAAAAGATTCTTAATATGCAAGTTT
1 GACTTACAAGAGAAAAATTCTAAGGGGAAAGAGATTCTTAATAGGCAAGTTT
* * *
9341049 GACTTACAAGAGAAGAATTCTAAGAGGAAATG-GATTCTTAATGGGCAA
1 GACTTACAAGAGAAAAATTCTAAGGGGAAA-GAGATTCTTAATAGGCAA
9341097 ATTTATATGA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 88 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (52 bp):
GACTTACAAGAGAAAAATTCTAAGGGGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:9341678 original size:25 final size:26
Alignment explanation
Indices: 9341650--9341706 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
9341640 CGAAACATAG
*
9341650 GAAGAGTCAAAT-GTTCGAGATGTGA
1 GAAGAGTCAAATGGTTCGAGATATGA
**
9341675 GAAGAG-CCGATGGTTCGAGATATGA
1 GAAGAGTCAAATGGTTCGAGATATGA
*
9341700 AAAGAGT
1 GAAGAGT
9341707 TGACAGTTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (26 bp):
GAAGAGTCAAATGGTTCGAGATATGA
Found at i:9342174 original size:52 final size:51
Alignment explanation
Indices: 9342022--9342177 Score: 177
Period size: 52 Copynumber: 3.0 Consensus size: 51
9342012 TGGATAAGAA
* * * * * *
9342022 GACTTGCAAAAGAAGAATTCTAAAAGAAAAAGAATTTTTAGTAGGTAAATTT
1 GACTTACAAAAGAAGAATTCTAAAAGGAAAAG-ATTCTTAATAGGCAAGTTT
* **
9342074 GACTTGCAAAAGAAGAATTCTAAGGGGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTACAAAAGAAGAATTCTAAAAGGAAA-AGATTCTTAATAGGCAAGTTT
** *
9342126 GACTTACAGGAGAAGAATTCTAAAAGGAAAATGATTCTTAATGGGCAAGTTT
1 GACTTACAAAAGAAGAATTCTAAAAGGAAAA-GATTCTTAATAGGCAAGTTT
9342178 ATATGGTTAT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 1 0.01
52 86 0.97
53 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (51 bp):
GACTTACAAAAGAAGAATTCTAAAAGGAAAAGATTCTTAATAGGCAAGTTT
Found at i:9352256 original size:19 final size:19
Alignment explanation
Indices: 9352234--9352273 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
9352224 TTTCTGCCAG
*
9352234 ATCAGCAATTTCACTGTTC
1 ATCAGCAATTTCACTCTTC
9352253 ATCAGCAATTTCACTCTTC
1 ATCAGCAATTTCACTCTTC
9352272 AT
1 AT
9352274 ATCATATCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (19 bp):
ATCAGCAATTTCACTCTTC
Found at i:9353519 original size:91 final size:91
Alignment explanation
Indices: 9353354--9353519 Score: 215
Period size: 91 Copynumber: 1.8 Consensus size: 91
9353344 AGATGTTCTC
* * * * *
9353354 ATTAGTTAATTGATTTAAAGTTAAAATAAAATTGTTGAAATTTTAAAATTGATGTTGAGTATACA
1 ATTAGTTAATTGATTTAAAGTAAAAATAAAATTGTTCAAACTTTAAAATTGATGTTAAGTATAAA
* **
9353419 TTCTTTTCATAGATGCTTGCATTGTT
66 CTCCATTCATAGATGCTTGCATTGTT
* * * * *
9353445 ATTAGTTGATTGATTTAAAGTAAAAATGAAATTGTTCAAACTTTAATATTTATTTTAAGTATAAA
1 ATTAGTTAATTGATTTAAAGTAAAAATAAAATTGTTCAAACTTTAAAATTGATGTTAAGTATAAA
9353510 CTCCATTCAT
66 CTCCATTCAT
9353520 CATTATATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
91 62 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (91 bp):
ATTAGTTAATTGATTTAAAGTAAAAATAAAATTGTTCAAACTTTAAAATTGATGTTAAGTATAAA
CTCCATTCATAGATGCTTGCATTGTT
Found at i:9354465 original size:20 final size:20
Alignment explanation
Indices: 9354432--9354469 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9354422 TTGATATCAT
9354432 ACATCAATTTTTTTTTCAAA
1 ACATCAATTTTTTTTTCAAA
9354452 ACAT-AATTTCTTTTTTCA
1 ACATCAATTT-TTTTTTCA
9354470 TCCACTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.53
Consensus pattern (20 bp):
ACATCAATTTTTTTTTCAAA
Found at i:9357013 original size:16 final size:16
Alignment explanation
Indices: 9356986--9357031 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
9356976 TTATTTTGGG
9356986 TTGAAGTTAATTTAAAT
1 TTGAA-TTAATTTAAAT
*
9357003 TTGGATTAATTTAAAT
1 TTGAATTAATTTAAAT
*
9357019 TTTAATTAATTTA
1 TTGAATTAATTTA
9357032 TTGATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 22 0.85
17 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (16 bp):
TTGAATTAATTTAAAT
Found at i:9357936 original size:2 final size:2
Alignment explanation
Indices: 9357931--9357965 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9357921 CACACACGTG
*
9357931 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9357966 GTTCCAGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9364407 original size:2 final size:2
Alignment explanation
Indices: 9364402--9364438 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9364392 TTTTTTCTTT
9364402 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 T
9364439 TATCGTTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9371453 original size:13 final size:14
Alignment explanation
Indices: 9371420--9371457 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
9371410 GAAATGTAAT
*
9371420 AAATTCCTTAAATC
1 AAATACCTTAAATC
9371434 AAATACCTTAAATC
1 AAATACCTTAAATC
9371448 -AATACCTTAA
1 AAATACCTTAA
9371458 GATAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATACCTTAAATC
Found at i:9372212 original size:27 final size:27
Alignment explanation
Indices: 9372143--9372217 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
9372133 TTTATGGATG
* **
9372143 ATTTTTTTTATAT-ATTTAATTAATTTT
1 ATTTTTTTTACATAATTTAATT-ATAAT
9372170 ATTTTTTTTACA-AATTTAATTATAAT
1 ATTTTTTTTACATAATTTAATTATAAT
* *
9372196 ATTTTATTTAGATAA-TTAATTA
1 ATTTTTTTTACATAATTTAATTA
9372218 ATATTAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (27 bp):
ATTTTTTTTACATAATTTAATTATAAT
Found at i:9372416 original size:35 final size:37
Alignment explanation
Indices: 9372376--9372497 Score: 144
Period size: 39 Copynumber: 3.3 Consensus size: 37
9372366 ATGAAATATG
* *
9372376 AAAATATTA-TAAATTAATATAGTA-TAATATATTATT
1 AAAATATTATTAAAATAATATAATATTAA-ATATTATT
*
9372412 -AAATA-TATTAAAATAATTTAATATTAAATATTATT
1 AAAATATTATTAAAATAATATAATATTAAATATTATT
*
9372447 AAAATATTATTAAAATAATTTAAAATATTAAATATTATT
1 AAAATATTATTAAAATAA--TATAATATTAAATATTATT
*
9372486 AAAATAATATTA
1 AAAATATTATTA
9372498 GTATTAAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
34 2 0.03
35 25 0.34
36 8 0.11
37 11 0.15
39 28 0.38
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (37 bp):
AAAATATTATTAAAATAATATAATATTAAATATTATT
Found at i:9372417 original size:10 final size:10
Alignment explanation
Indices: 9372404--9372488 Score: 69
Period size: 10 Copynumber: 9.1 Consensus size: 10
9372394 ATAGTATAAT
9372404 ATATTATTAA
1 ATATTATTAA
9372414 ATA-TATTAA
1 ATATTATTAA
*
9372423 A-ATAATT--
1 ATATTATTAA
*
9372430 -TAATATTAA
1 ATATTATTAA
9372439 ATATTATTAAA
1 ATATTATT-AA
9372450 ATATTATTAA
1 ATATTATTAA
*
9372460 A-ATAATTTAA
1 ATATTA-TTAA
9372470 A-A-TATTAA
1 ATATTATTAA
9372478 ATATTATTAA
1 ATATTATTAA
9372488 A
1 A
9372489 ATAATATTAG
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
7 4 0.07
8 6 0.10
9 15 0.25
10 25 0.42
11 10 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATATTATTAA
Found at i:9372454 original size:46 final size:44
Alignment explanation
Indices: 9372369--9372483 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 44
9372359 AAGTGCTATG
* *
9372369 AAATATGAAAATATTATAA-ATTAATATAGTATAATATATTATTA
1 AAATATTAAAATATT-TAATATTAATATAGTATAAAATATTATTA
*
9372413 AATATATTAAAATAATTTAATATTAA-ATATTATTAAAATATTATTA
1 AA-ATATTAAAAT-ATTTAATATTAATATAGTA-TAAAATATTATTA
*
9372459 AAATAATTTAAAATATTAAATATTA
1 AAAT-A-TTAAAATATTTAATATTA
9372484 TTAAAATAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
44 2 0.03
45 19 0.31
46 33 0.54
47 7 0.11
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (44 bp):
AAATATTAAAATATTTAATATTAATATAGTATAAAATATTATTA
Found at i:9372485 original size:39 final size:36
Alignment explanation
Indices: 9372404--9372497 Score: 145
Period size: 39 Copynumber: 2.5 Consensus size: 36
9372394 ATAGTATAAT
9372404 ATATTATT-AAATATATTAAAATAATTTAATATTAA
1 ATATTATTAAAATATATTAAAATAATTTAATATTAA
9372439 ATATTATTAAAATATTATTAAAATAATTTAAAATATTAA
1 ATATTATTAAAATA-TATTAAAATAATTT--AATATTAA
9372478 ATATTATTAAAATAATATTA
1 ATATTATTAAAAT-ATATTA
9372498 GTATTAAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
35 8 0.15
36 5 0.09
37 14 0.26
39 26 0.48
40 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (36 bp):
ATATTATTAAAATATATTAAAATAATTTAATATTAA
Found at i:9372504 original size:17 final size:16
Alignment explanation
Indices: 9372482--9372513 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
9372472 TATTAAATAT
9372482 TATTAAAATAATATTAG
1 TATTAAAATAA-ATTAG
9372499 TATTAAAATAAATTA
1 TATTAAAATAAATTA
9372514 TGTAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TATTAAAATAAATTAG
Found at i:9372507 original size:28 final size:28
Alignment explanation
Indices: 9372443--9372508 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
9372433 TATTAAATAT
9372443 TATTAAAATATTATTAAAATAATTTAAAA
1 TATTAAAATATTATTAAAATAATTT-AAA
*
9372472 TATT-AAATATTATTAAAATAATATT-AG
1 TATTAAAATATTATTAAAATAAT-TTAAA
9372499 TATTAAAATA
1 TATTAAAATA
9372509 AATTATGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
27 5 0.15
28 23 0.68
29 6 0.18
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (28 bp):
TATTAAAATATTATTAAAATAATTTAAA
Found at i:9372607 original size:17 final size:17
Alignment explanation
Indices: 9372572--9372624 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
9372562 AAAATTAATG
*
9372572 AAATAATATTAAATTTT
1 AAATAATATTAAATATT
9372589 AAATAATA-TATAATATT
1 AAATAATATTA-AATATT
* *
9372606 AAAATTATATTATATATT
1 -AAATAATATTAAATATT
9372624 A
1 A
9372625 CATATTGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 2 0.07
17 14 0.47
18 12 0.40
19 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATAATATTAAATATT
Found at i:9372615 original size:18 final size:18
Alignment explanation
Indices: 9372572--9372624 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
9372562 AAAATTAATG
* *
9372572 AAATAATATTAAAT-TTT
1 AAATAATATTATATATTA
9372589 AAATAATA-TATAATATTA
1 AAATAATATTAT-ATATTA
*
9372607 AAATTATATTATATATTA
1 AAATAATATTATATATTA
9372625 CATATTGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 2 0.07
17 10 0.33
18 15 0.50
19 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAATATTATATATTA
Found at i:9372676 original size:36 final size:36
Alignment explanation
Indices: 9372636--9372714 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
9372626 ATATTGCTAA
* *
9372636 ATTAAAT-TTTAATATTAAAATATTATTCCAATTAAT
1 ATTAAATACTTAATATTAAAATATTATTACAA-TAAT
*
9372672 ATT-AATACTTAATATTGAAATATTATTACAATAAT
1 ATTAAATACTTAATATTAAAATATTATTACAATAAT
9372707 ATTAAATA
1 ATTAAATA
9372715 TTATTAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 10 0.26
36 28 0.74
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (36 bp):
ATTAAATACTTAATATTAAAATATTATTACAATAAT
Found at i:9372704 original size:11 final size:10
Alignment explanation
Indices: 9372684--9372913 Score: 57
Period size: 10 Copynumber: 22.8 Consensus size: 10
9372674 TAATACTTAA
9372684 TATTGAAATAT
1 TATT-AAATAT
*
9372695 TATTACAATAA
1 TATTA-AATAT
9372706 TATTAAATAT
1 TATTAAATAT
*
9372716 TATTAAATTAA
1 TATTAAA-TAT
9372727 TAGTT-AATA-
1 TA-TTAAATAT
*
9372736 -A-AAAATAT
1 TATTAAATAT
9372744 TATTAAA-A-
1 TATTAAATAT
*
9372752 TATTTAATAT
1 TATTAAATAT
9372762 TATTTATGAAT-T
1 TA-TTA--AATAT
9372774 T-TT-AATAT
1 TATTAAATAT
* *
9372782 TTTTAAATCAA
1 TATTAAAT-AT
*
9372793 TATTTAATAT
1 TATTAAATAT
* * *
9372803 CATGAAATTAA
1 TATTAAA-TAT
*
9372814 TATTTAATAT
1 TATTAAATAT
* * *
9372824 TGTTCAATAA
1 TATTAAATAT
9372834 TA-TATAATAT
1 TATTA-AATAT
*
9372844 TATTAAATTAA
1 TATTAAA-TAT
* *
9372855 TAATGAATAT
1 TATTAAATAT
* *
9372865 TATAAGAATAA
1 TATTA-AATAT
*
9372876 TATAAAATAT
1 TATTAAATAT
* * *
9372886 TTTTAATTAA
1 TATTAAATAT
*
9372896 TATTTAATAT
1 TATTAAATAT
*
9372906 AATTAAAT
1 TATTAAAT
9372914 TAATATTTAA
Statistics
Matches: 154, Mismatches: 44, Indels: 43
0.64 0.18 0.18
Matches are distributed among these distances:
7 7 0.05
8 9 0.06
9 6 0.04
10 73 0.47
11 52 0.34
12 4 0.03
13 3 0.02
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (10 bp):
TATTAAATAT
Found at i:9372718 original size:21 final size:21
Alignment explanation
Indices: 9372671--9372943 Score: 118
Period size: 21 Copynumber: 12.8 Consensus size: 21
9372661 TTCCAATTAA
9372671 TATTAATACTTAATATTGAAATAT
1 TATTAA-A-TTAATATT-AAATAT
9372695 TATTACAA-TAATATTAAATAT
1 TATTA-AATTAATATTAAATAT
9372716 TATTAAATTAATAGTT-AATA-
1 TATTAAATTAATA-TTAAATAT
* *
9372736 -A--AAAATATTATTAAAATATTT
1 TATTAAATTAATATT-AAATA--T
* * * *
9372757 AATATTATTTATGAATTTTTAATAT
1 --TATTA--AATTAATATTAAATAT
* * *
9372782 TTTTAAATCAATATTTAATAT
1 TATTAAATTAATATTAAATAT
* * *
9372803 CATGAAATTAATATTTAATAT
1 TATTAAATTAATATTAAATAT
* *
9372824 TGTTCAA-TAATA-TATAATAT
1 TATTAAATTAATATTA-AATAT
* *
9372844 TATTAAATTAATAATGAATAT
1 TATTAAATTAATATTAAATAT
* *
9372865 TA-TAAGAATAATATAAAATAT
1 TATTAA-ATTAATATTAAATAT
* *
9372886 T-TTTAATTAATATTTAATAT
1 TATTAAATTAATATTAAATAT
* *
9372906 AATTAAATTAATATTTAACT-T
1 TATTAAATTAATA-TTAAATAT
* *
9372927 TATGAAATTACTATTAA
1 TATTAAATTAATATTAA
9372944 TACTTAATAT
Statistics
Matches: 188, Mismatches: 39, Indels: 48
0.68 0.14 0.17
Matches are distributed among these distances:
16 2 0.01
17 7 0.04
18 4 0.02
19 2 0.01
20 36 0.19
21 100 0.53
22 14 0.07
23 4 0.02
24 7 0.04
25 2 0.01
26 1 0.01
27 4 0.02
28 5 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (21 bp):
TATTAAATTAATATTAAATAT
Found at i:9372761 original size:46 final size:50
Alignment explanation
Indices: 9372666--9372765 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 50
9372656 TATTATTCCA
**
9372666 ATTAATATTAATACTTAATATTGAAATATTATTACAATAATATTAAATATT
1 ATTAATATTAATACTTAATATAAAAATATTATTA-AATAATATTAAATATT
* *
9372717 ATTAA-ATTAATAGTTAATA-AAAAATATTATT-AA-AATATTTAATATT
1 ATTAATATTAATACTTAATATAAAAATATTATTAAATAATATTAAATATT
9372763 ATT
1 ATT
9372766 TATGAATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
46 15 0.33
47 2 0.04
49 10 0.22
50 13 0.29
51 5 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (50 bp):
ATTAATATTAATACTTAATATAAAAATATTATTAAATAATATTAAATATT
Found at i:9372801 original size:41 final size:40
Alignment explanation
Indices: 9372750--9372923 Score: 132
Period size: 41 Copynumber: 4.2 Consensus size: 40
9372740 ATATTATTAA
* * *
9372750 AATATTTAATATTATTTATGAATTTTTAATATTTTTAAAT
1 AATATTTAATATTATTAATGAATATTTAATATTGTTAAAT
* * * *
9372790 CAATATTTAATATCATGAAATTAATATTTAATATTGTTCAAT
1 -AATATTTAATATTAT-TAATGAATATTTAATATTGTTAAAT
* * * * * *
9372832 AATATATAATATTATTAAATTAATAATGAATATTATAAGAAT
1 AATATTTAATATTATT-AATGAATATTTAATATTGTTA-AAT
** * * **
9372874 AATATAAAATATTTTTAATTAATATTTAATATAATTAAATT
1 AATATTTAATATTATTAATGAATATTTAATATTGTTAAA-T
9372915 AATATTTAA
1 AATATTTAA
9372924 CTTTATGAAA
Statistics
Matches: 106, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 2 0.02
41 68 0.64
42 36 0.34
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (40 bp):
AATATTTAATATTATTAATGAATATTTAATATTGTTAAAT
Found at i:9372842 original size:62 final size:60
Alignment explanation
Indices: 9372750--9372967 Score: 183
Period size: 62 Copynumber: 3.6 Consensus size: 60
9372740 ATATTATTAA
* * * * *
9372750 AATATTTAATATTATTTATGAATTTTTAATATTTTTAAATCAATATTTAATATCATGAAATT
1 AATATTTAATATT-TTAAT-AATATTTAATATTATTAAATTAATATTTAATATTATGAAATT
* * * *
9372812 AATATTTAATATTGTTCAATAATATATAATATTATTAAATTAATAATGAATATTAT-AAGAAT
1 AATATTTAATATT-TT-AATAATATTTAATATTATTAAATTAATATTTAATATTATGAA-ATT
** *
9372874 AATATAAAATATTTTTAATTAATATTTAATATAATTAAATTAATATTTAACT-TTATGAAATT
1 AATATTTAATA-TTTTAA-TAATATTTAATATTATTAAATTAATATTTAA-TATTATGAAATT
* * * * *
9372936 ACTA-TTAATA-CTTAATATTAATTAATAATATT
1 AATATTTAATATTTTAATAATATTTAATATTATT
9372968 TTAATTATTA
Statistics
Matches: 125, Mismatches: 25, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
58 13 0.10
59 4 0.03
61 8 0.06
62 93 0.74
63 7 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (60 bp):
AATATTTAATATTTTAATAATATTTAATATTATTAAATTAATATTTAATATTATGAAATT
Found at i:9372984 original size:103 final size:101
Alignment explanation
Indices: 9372777--9373014 Score: 224
Period size: 103 Copynumber: 2.4 Consensus size: 101
9372767 ATGAATTTTT
* * * **
9372777 AATATTTTTAAATCAATATTTAATATCATGAAATTAATATTTAATATTGTTCAATAATATATAAT
1 AATATTTTT-AATTAATATTTAATATCATTAAATTAATATTTAATATTATGAAATAATATATAAT
9372842 ATTATTAAATTAATAATGAATATTATAAGAATAATATAA
65 ATTA-TAAATTAATAATGAATATTATAAGAATAATAT-A
* *
9372881 AATATTTTTAATTAATATTTAATATAATTAAATTAATATTTAACT-TTATGAAATTACTAT-TAA
1 AATATTTTTAATTAATATTTAATATCATTAAATTAATATTTAA-TATTATGAAA-TAATATATAA
* * ** *
9372944 TACTTA-ATATTAATTAAT-AATATTTTAATTATTATAATA
64 TA-TTATAAATTAA-TAATGAATATTATAAGAATAAT-ATA
*
9372983 AATA----TAATTAATATTTGAT-TCATTAAATTAAT
1 AATATTTTTAATTAATATTTAATATCATTAAATTAAT
9373015 TAATAATTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 17
0.79 0.10 0.12
Matches are distributed among these distances:
97 12 0.10
98 14 0.12
102 24 0.21
103 47 0.41
104 18 0.16
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (101 bp):
AATATTTTTAATTAATATTTAATATCATTAAATTAATATTTAATATTATGAAATAATATATAATA
TTATAAATTAATAATGAATATTATAAGAATAATATA
Found at i:9375010 original size:12 final size:12
Alignment explanation
Indices: 9374977--9375013 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 12
9374967 AATTATAAAT
9374977 TTTCAAGGAAAA
1 TTTCAAGGAAAA
9374989 TTTCATAAGGAAAA
1 TTTC--AAGGAAAA
9375003 TTTCAAGGAAA
1 TTTCAAGGAAA
9375014 GCCCAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (12 bp):
TTTCAAGGAAAA
Found at i:9378873 original size:64 final size:64
Alignment explanation
Indices: 9378744--9378864 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 64
9378734 TTTTTTACAG
* ** * *
9378744 AAAATGCCTTCAACAATACTCTCTAAAAAATTGGATGGGATTATTAAAGGCGTTTTTAGCCAAA
1 AAAATGCCATCAACAATACTCTCTAAAAAATTAAAAGGGATTATTAAAGGCATTTTTAGCCAAA
* * *
9378808 AAAATGCCATCAATAAT-CTCCTCTAAAAAATTAAAAGGGATTATTGAAGGTATTTTT
1 AAAATGCCATCAACAATACT-CTCTAAAAAATTAAAAGGGATTATTAAAGGCATTTTT
9378865 GATTAAAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 2 0.04
64 46 0.96
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (64 bp):
AAAATGCCATCAACAATACTCTCTAAAAAATTAAAAGGGATTATTAAAGGCATTTTTAGCCAAA
Found at i:9381759 original size:32 final size:32
Alignment explanation
Indices: 9381723--9381791 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
9381713 GTTTTTAAAC
* * *
9381723 ATAAATGCTACTAATTTAGCGATTTTTTTTAT-
1 ATAAACGCTACTAATTTAACG-GTTTTTTTATG
*
9381755 ATAAACGTTACTAATTTAACGGTTTTTTTATG
1 ATAAACGCTACTAATTTAACGGTTTTTTTATG
9381787 ATAAA
1 ATAAA
9381792 AATGTCACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.46
Consensus pattern (32 bp):
ATAAACGCTACTAATTTAACGGTTTTTTTATG
Found at i:9381783 original size:34 final size:34
Alignment explanation
Indices: 9381745--9381810 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
9381735 AATTTAGCGA
* * *
9381745 TTTTTTT-T-ATATAAACGTTACTAATTTAACGG
1 TTTTTTTATGATAAAAACGTCACTAAATTAACGG
*
9381777 TTTTTTTATGATAAAAATGTCACTAAATTAACGG
1 TTTTTTTATGATAAAAACGTCACTAAATTAACGG
9381811 CGTCTCAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 7 0.25
33 1 0.04
34 20 0.71
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (34 bp):
TTTTTTTATGATAAAAACGTCACTAAATTAACGG
Found at i:9381784 original size:31 final size:33
Alignment explanation
Indices: 9381731--9381791 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
9381721 ACATAAATGC
* *
9381731 TACTAATTTAGCGATTTTTTTTAT-ATAAACGT
1 TACTAATTTAACGAGTTTTTTTATGATAAACGT
9381763 TACTAATTTAACG-GTTTTTTTATGATAAA
1 TACTAATTTAACGAGTTTTTTTATGATAAA
9381792 AATGTCACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (33 bp):
TACTAATTTAACGAGTTTTTTTATGATAAACGT
Found at i:9384300 original size:2 final size:2
Alignment explanation
Indices: 9384293--9384335 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
9384283 GTTGAATCTA
9384293 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9384334 AT
1 AT
9384336 TACAACATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:9387060 original size:13 final size:13
Alignment explanation
Indices: 9387042--9387068 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9387032 TGTTGCCTTT
9387042 TCAAAAAATAAAA
1 TCAAAAAATAAAA
9387055 TCAAAAAATAAAA
1 TCAAAAAATAAAA
9387068 T
1 T
9387069 TCTCTTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (13 bp):
TCAAAAAATAAAA
Found at i:9392430 original size:55 final size:55
Alignment explanation
Indices: 9392371--9392544 Score: 269
Period size: 55 Copynumber: 3.2 Consensus size: 55
9392361 ACTTATATTT
9392371 TTTAATTTTCTTACCTATTTTGATAGTTAGAGATTATCAGTATAGAATTGTATGC
1 TTTAATTTTCTTACCTATTTTGATAGTTAGAGATTATCAGTATAGAATTGTATGC
* *
9392426 TTTAATTTTCTTACCTATTTTGATAATTAGAGATTGTCAGTATAGAATTGTATGC
1 TTTAATTTTCTTACCTATTTTGATAGTTAGAGATTATCAGTATAGAATTGTATGC
* * * * *
9392481 TTTAATTTTCTTAACT-TTATCGATAGTTAGAGATTATCAGTATAGACTTATATGT
1 TTTAATTTTCTTACCTATT-TTGATAGTTAGAGATTATCAGTATAGAATTGTATGC
9392536 TTTAATTTT
1 TTTAATTTT
9392545 TTTATTATAT
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
54 2 0.02
55 107 0.98
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (55 bp):
TTTAATTTTCTTACCTATTTTGATAGTTAGAGATTATCAGTATAGAATTGTATGC
Found at i:9392671 original size:24 final size:24
Alignment explanation
Indices: 9392639--9392685 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9392629 ATTTTTTAAA
* *
9392639 AATTATATTTTTAATTATTAATATT
1 AATTATATTTATAATCA-TAATATT
9392664 AATT-TATTTATAATCATAATAT
1 AATTATATTTATAATCATAATAT
9392686 AATATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTATATTTATAATCATAATATT
Found at i:9392836 original size:15 final size:15
Alignment explanation
Indices: 9392816--9392852 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
9392806 TACTAAGTTT
* *
9392816 GATAAAACAAATATC
1 GATAAAACAAACATA
9392831 GATAAAACAAACATA
1 GATAAAACAAACATA
9392846 GATAAAA
1 GATAAAA
9392853 AGTTACACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.65, C:0.11, G:0.08, T:0.16
Consensus pattern (15 bp):
GATAAAACAAACATA
Found at i:9403446 original size:21 final size:22
Alignment explanation
Indices: 9403413--9403454 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9403403 CAAAAATTTG
*
9403413 ATGACCAAGAGCAAC-ACTTGA
1 ATGACCAACAGCAACAACTTGA
*
9403434 ATGAGCAACAGCAACAACTTG
1 ATGACCAACAGCAACAACTTG
9403455 TAGCTTTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.14
Consensus pattern (22 bp):
ATGACCAACAGCAACAACTTGA
Found at i:9409363 original size:61 final size:61
Alignment explanation
Indices: 9409268--9409387 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 61
9409258 TTGTCTTCGC
* * *
9409268 GACTTGAAACATATGATGCATTGTCATTCCCTGTTACTCTATCTTTTTATTACCATTCCCT
1 GACTTGAAACATATGACGCATTGTCATTCCCTGTTACTCCATCTCTTTATTACCATTCCCT
* *
9409329 GACTTGAGACATATGACGCATTGTCATTCCCTGTTACTCCATCTCTTTATTGCCATTCC
1 GACTTGAAACATATGACGCATTGTCATTCCCTGTTACTCCATCTCTTTATTACCATTCC
9409388 GTACCAGGTC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.40
Consensus pattern (61 bp):
GACTTGAAACATATGACGCATTGTCATTCCCTGTTACTCCATCTCTTTATTACCATTCCCT
Found at i:9411053 original size:29 final size:28
Alignment explanation
Indices: 9411005--9411062 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
9410995 ACATACCAAA
* *
9411005 TAATTTTTATATTATAAATTCAATATTT
1 TAATTTTTATACTAAAAATTCAATATTT
9411033 TAATTTTTAATACTAAAAATTCAATATTT
1 TAATTTTT-ATACTAAAAATTCAATATTT
9411062 T
1 T
9411063 TTATTGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (28 bp):
TAATTTTTATACTAAAAATTCAATATTT
Found at i:9411395 original size:21 final size:20
Alignment explanation
Indices: 9411356--9411424 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 20
9411346 ATTTCATACT
9411356 TAAAA-AAT-TAAAAA-ATA
1 TAAAATAATATAAAAATATA
*
9411373 TAAAATAATATAATAAATGTA
1 TAAAATAATATAA-AAATATA
*
9411394 TAAAGTATATATTTAAAAATATA
1 TAAA--ATA-ATATAAAAATATA
9411417 TAAAATAA
1 TAAAATAA
9411425 GTTTAACTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
17 5 0.12
18 3 0.07
19 3 0.07
20 4 0.10
21 9 0.21
23 13 0.31
24 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
TAAAATAATATAAAAATATA
Found at i:9415123 original size:17 final size:17
Alignment explanation
Indices: 9415098--9415131 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9415088 AGTACATGTT
*
9415098 TTATCCAAATATTTAAA
1 TTATCCAAATATATAAA
*
9415115 TTATTCAAATATATAAA
1 TTATCCAAATATATAAA
9415132 AAAAGCATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (17 bp):
TTATCCAAATATATAAA
Found at i:9419038 original size:13 final size:13
Alignment explanation
Indices: 9419020--9419044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9419010 TATTTACTTA
9419020 CTTATTTATTTTG
1 CTTATTTATTTTG
9419033 CTTATTTATTTT
1 CTTATTTATTTT
9419045 AAATATTTTA
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:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
CTTATTTATTTTG
Found at i:9425049 original size:51 final size:49
Alignment explanation
Indices: 9424994--9425125 Score: 124
Period size: 50 Copynumber: 2.6 Consensus size: 49
9424984 TTGTTGTTTC
* *
9424994 TTGATTCTATTGCATGTTCTTAGGTTTAATCTA-ATTTAGTTAAAGTTTAAT
1 TTGATT-TATTGCATGTT-TTAGGTTTAATCTAGAGTTAGAT-AAGTTTAAT
* *
9425045 TTGATTAATTTGCATGTTTTAGGGATTAAT-TAGAGTTAGATAAGTTTAAT
1 TTGATTTA-TTGCATGTTTTA-GGTTTAATCTAGAGTTAGATAAGTTTAAT
* * *
9425095 TTGTTTTGGTTGCATGCTGTTAGGTTTAATC
1 TTGATTT-ATTGCATG-TTTTAGGTTTAATC
9425126 AATAATCTAG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
50 34 0.52
51 32 0.48
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.49
Consensus pattern (49 bp):
TTGATTTATTGCATGTTTTAGGTTTAATCTAGAGTTAGATAAGTTTAAT
Found at i:9425485 original size:20 final size:19
Alignment explanation
Indices: 9425437--9425485 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
9425427 AAGTTGCTGT
**
9425437 TTTAGTTTTTGCTTGTTAA
1 TTTAGTTTAAGCTTGTTAA
*
9425456 TTTCAATTTAAGCTTGTTTAA
1 TTT-AGTTTAAGCTTG-TTAA
9425477 TTTAGTTTA
1 TTTAGTTTA
9425486 TTGTATAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.12
20 14 0.58
21 7 0.29
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.59
Consensus pattern (19 bp):
TTTAGTTTAAGCTTGTTAA
Found at i:9425738 original size:18 final size:18
Alignment explanation
Indices: 9425715--9425749 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9425705 AAATAACAGG
9425715 AAACCATCAACAAAAAAC
1 AAACCATCAACAAAAAAC
9425733 AAACCATCAACAAAAAA
1 AAACCATCAACAAAAAA
9425750 GACCAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.26, G:0.00, T:0.06
Consensus pattern (18 bp):
AAACCATCAACAAAAAAC
Found at i:9435001 original size:16 final size:17
Alignment explanation
Indices: 9434972--9435004 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9434962 GGTGATTATA
*
9434972 TTTTTGTTCTTGTTCTG
1 TTTTTGTACTTGTTCTG
9434989 TTTTTGTAC-TGTTCTG
1 TTTTTGTACTTGTTCTG
9435005 ATCCAGGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.03, C:0.12, G:0.18, T:0.67
Consensus pattern (17 bp):
TTTTTGTACTTGTTCTG
Found at i:9437506 original size:2 final size:2
Alignment explanation
Indices: 9437499--9437539 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
9437489 CTATGTTCAG
*
9437499 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9437540 GTTTGTCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9438973 original size:14 final size:14
Alignment explanation
Indices: 9438954--9438994 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
9438944 TCTTTCTTAC
*
9438954 ATCATATATCATAT
1 ATCATATATAATAT
9438968 ATCATATATAATAT
1 ATCATATATAATAT
9438982 -T-ATATTATAATAT
1 ATCATA-TATAATAT
9438995 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 3 0.12
13 9 0.36
14 13 0.52
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (14 bp):
ATCATATATAATAT
Found at i:9441138 original size:130 final size:131
Alignment explanation
Indices: 9440902--9441157 Score: 313
Period size: 130 Copynumber: 2.0 Consensus size: 131
9440892 GGCAATGATC
** ** * *
9440902 ACATTTTTTTACATATAAAATGTAGTTGATCATAGGCAATAAAATAAAATAAAATTTTATATTTT
1 ACATTTTTTTACATATAAAACATAGTTGATCATAGAAAATAAAACAAAATAAAATTTTACATTTT
* * * * * *
9440967 TCGATATTAACAACGTTTCTTATGGTGGAAACGTAGCAATTGATAAAATGT-GATAATTGATTAG
66 TAGATATCAACAACATTTCTTATGATGGAAACATAACAATTGATAAAATGTAG-TAATTGATTAG
9441031 TG
130 TG
* *
9441033 ACATTTTTTTACATATAAAACATATTTGAT-AGTATAAAATAATAACAAAAT-AAA-TTTACATT
1 ACATTTTTTTACATATAAAACATAGTTGATCA-TAGAAAATAA-AACAAAATAAAATTTTACATT
* *
9441095 TTTAGATATCAACAACATTTCTTATTATGGAAACATAATAATTGATAAAATGTAGTAATTGAT
64 TTTAGATATCAACAACATTTCTTATGATGGAAACATAACAATTGATAAAATGTAGTAATTGAT
9441158 CAGTTATCAC
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
130 61 0.58
131 38 0.36
132 7 0.07
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (131 bp):
ACATTTTTTTACATATAAAACATAGTTGATCATAGAAAATAAAACAAAATAAAATTTTACATTTT
TAGATATCAACAACATTTCTTATGATGGAAACATAACAATTGATAAAATGTAGTAATTGATTAGT
G
Found at i:9441705 original size:56 final size:55
Alignment explanation
Indices: 9441587--9441714 Score: 148
Period size: 56 Copynumber: 2.3 Consensus size: 55
9441577 TTAAATGTTT
* * * * *
9441587 TTGATCTATTAAATGTGTTTTTTCTATTTATTATTTGTTCAATATGGCTTAAATT
1 TTGATCTATTAAATGTATTCTTACTATTTATTATTTGTTCAATATGACTTAAATC
* * ** * *
9441642 TTTATCTACTTAAATGTATTCTTACTATTTGTTATTTGTTGGATGTGACTTAGATC
1 TTGATCTA-TTAAATGTATTCTTACTATTTATTATTTGTTCAATATGACTTAAATC
9441698 TTGATCTATTAAATGTA
1 TTGATCTATTAAATGTA
9441715 CATTGTTACT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 16 0.27
56 44 0.73
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (55 bp):
TTGATCTATTAAATGTATTCTTACTATTTATTATTTGTTCAATATGACTTAAATC
Found at i:9443256 original size:15 final size:16
Alignment explanation
Indices: 9443238--9443272 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9443228 ATTTTCTATA
*
9443238 TATTATTT-ATGTTTT
1 TATTATTTGATGTATT
9443253 TATTATTTGATGTATT
1 TATTATTTGATGTATT
9443269 TATT
1 TATT
9443273 CTATTACTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (16 bp):
TATTATTTGATGTATT
Found at i:9445776 original size:123 final size:123
Alignment explanation
Indices: 9445500--9445902 Score: 366
Period size: 123 Copynumber: 3.3 Consensus size: 123
9445490 TTAAGGCGTT
** * **
9445500 TATAAAAGAGAAAAATTTCATGCTTGTCAAATATTATGTTTTATTTAATTAATCAATTTTAGGAT
1 TATAAAA-AGAAAAATCACGTGCTTGTCAAATATTATGTTTTATTTAATTAATTGATTTTAGGAT
* * * * ** * *
9445565 TA-TTAACTTTGCAATTATAA-CAACAAAAACGTTGTGCTTATCCAATATTAGAGCATT
65 TATTTAACATTGCGATTATAATGAACAAAAACATCATACTTATCCAATATTAGAGCATG
* * * *
9445622 TATAAAAAGAAAAA-CATTGTACTTGTTAAATATCATGTTTTATTTAATTAATTGATTTTAGGAT
1 TATAAAAAGAAAAATCA-CGTGCTTGTCAAATATTATGTTTTATTTAATTAATTGATTTTAGGAT
* * * * * *
9445686 TATTTGAACATTGCGTTTATAATGATC-AAAACATCATACTTGTCCTATATTAGGGTATG
65 TATTT-AACATTGCGATTATAATGAACAAAAACATCATACTTATCCAATATTAGAGCATG
* * *
9445745 TATAAAAAGAAAAATGACGTGCTTGTCAAATATTATGTTTTATTTAATTAATTGATTTTAAGATA
1 TATAAAAAGAAAAATCACGTGCTTGTCAAATATTATGTTTTATTTAATTAATTGATTTTAGGATT
* * * ** * * * * *
9445810 ATTCAAACAATGCGCTTATAATG-ACTGAAACATCGTGCTTATCTAATATTAAAGCATT
66 ATT-TAACATTGCGATTATAATGAACAAAAACATCATACTTATCCAATATTAGAGCATG
* *** *
9445868 TATAAAAAGGAAAATGTTGTGCTTGTTAAATATTA
1 TATAAAAAGAAAAATCACGTGCTTGTCAAATATTA
9445903 CACGCTTTTA
Statistics
Matches: 226, Mismatches: 48, Indels: 13
0.79 0.17 0.05
Matches are distributed among these distances:
121 49 0.22
122 10 0.04
123 164 0.73
124 3 0.01
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (123 bp):
TATAAAAAGAAAAATCACGTGCTTGTCAAATATTATGTTTTATTTAATTAATTGATTTTAGGATT
ATTTAACATTGCGATTATAATGAACAAAAACATCATACTTATCCAATATTAGAGCATG
Found at i:9447134 original size:29 final size:30
Alignment explanation
Indices: 9447060--9447145 Score: 106
Period size: 29 Copynumber: 2.9 Consensus size: 30
9447050 AATGATTAAT
* *
9447060 ATTTTT-A-ATAATATGTAAATTATAATAAA
1 ATTTTTAATATAATATTTAAATTATTA-AAA
9447089 ATTTTTAATATAATATTTAAATT-TTAAAA
1 ATTTTTAATATAATATTTAAATTATTAAAA
* *
9447118 ATTTTTAATGTATTATTTAAATTATTAA
1 ATTTTTAATATAATATTTAAATTATTAA
9447146 TTTATTAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
29 30 0.60
30 7 0.14
31 13 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTTTTAATATAATATTTAAATTATTAAAA
Found at i:9447145 original size:20 final size:20
Alignment explanation
Indices: 9447116--9447157 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9447106 TAAATTTTAA
* *
9447116 AAATTTTTAATGTATTATTT
1 AAATTATTAATGTATTAATT
*
9447136 AAATTATTAATTTATTAATT
1 AAATTATTAATGTATTAATT
9447156 AA
1 AA
9447158 TATTGTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AAATTATTAATGTATTAATT
Found at i:9447673 original size:23 final size:22
Alignment explanation
Indices: 9447647--9447689 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
9447637 TATGTGTGAG
9447647 TTTA-TTAGTTAATTAAGTTATAA
1 TTTATTTA-TTAATTAA-TTATAA
9447670 TTTATTTATTAATTAATTAT
1 TTTATTTATTAATTAATTAT
9447690 TCAGTGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 12 0.63
24 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
TTTATTTATTAATTAATTATAA
Found at i:9448956 original size:32 final size:33
Alignment explanation
Indices: 9448887--9448965 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
9448877 AAGCAATTGT
*
9448887 ATTTGAAAGATTCCCTTAAACAAAGGCCATGAA
1 ATTTGAAAGATTCCCTTAAACAAAGGCAATGAA
* * *
9448920 ATTTGAAAGATTTCTTTAAACAGAGG-AATGAA
1 ATTTGAAAGATTCCCTTAAACAAAGGCAATGAA
9448952 ATTTGAAAGATTCC
1 ATTTGAAAGATTCC
9448966 TCTAAATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 18 0.44
33 23 0.56
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (33 bp):
ATTTGAAAGATTCCCTTAAACAAAGGCAATGAA
Found at i:9449058 original size:22 final size:23
Alignment explanation
Indices: 9449030--9449104 Score: 95
Period size: 22 Copynumber: 3.4 Consensus size: 23
9449020 AATACTTCTA
*
9449030 AAATGATGTTTGAG-GGACTTTG
1 AAATGATGCTTGAGAGGACTTTG
9449052 AAATGATGCTTG-GAGGACTTT-
1 AAATGATGCTTGAGAGGACTTTG
*
9449073 AAATTGATGCCT-AGAGGACTTTG
1 AAA-TGATGCTTGAGAGGACTTTG
9449096 AAATGATGC
1 AAATGATGC
9449105 CATGAGGACT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.09
22 40 0.85
23 3 0.06
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (23 bp):
AAATGATGCTTGAGAGGACTTTG
Found at i:9449105 original size:22 final size:22
Alignment explanation
Indices: 9449044--9449115 Score: 94
Period size: 22 Copynumber: 3.3 Consensus size: 22
9449034 GATGTTTGAG
* *
9449044 GGACTTTGAAATGATGCTTGGA
1 GGACTTTGAAATGATGCCTAGA
9449066 GGACTTT-AAATTGATGCCTAGA
1 GGACTTTGAAA-TGATGCCTAGA
9449088 GGACTTTGAAATGATGCC-ATGA
1 GGACTTTGAAATGATGCCTA-GA
9449110 GGACTT
1 GGACTT
9449116 AGAAGATTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.09
22 38 0.84
23 3 0.07
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (22 bp):
GGACTTTGAAATGATGCCTAGA
Found at i:9449133 original size:23 final size:22
Alignment explanation
Indices: 9449030--9449144 Score: 90
Period size: 22 Copynumber: 5.2 Consensus size: 22
9449020 AATACTTCTA
*
9449030 AAATGATG-TTTGAGGGACTTTG
1 AAATGATGCTTTGA-GGACTTAG
*
9449052 AAATGATGCTTGGAGGACTTTA-
1 AAATGATGCTTTGAGGAC-TTAG
* * * *
9449074 AATTGATGCCTAGAGGACTTTG
1 AAATGATGCTTTGAGGACTTAG
**
9449096 AAATGATGCCATGAGGACTTAG
1 AAATGATGCTTTGAGGACTTAG
* * *
9449118 AAGATTATGCTTTGAGGTCTTAT
1 AA-ATGATGCTTTGAGGACTTAG
9449141 AAAT
1 AAAT
9449145 CTAATCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
21 2 0.03
22 49 0.66
23 23 0.31
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (22 bp):
AAATGATGCTTTGAGGACTTAG
Found at i:9449355 original size:23 final size:23
Alignment explanation
Indices: 9449328--9449488 Score: 69
Period size: 23 Copynumber: 7.5 Consensus size: 23
9449318 TATCAAGTTC
9449328 AAGATTCACATTCAAAGGTTCTT
1 AAGATTCACATTCAAAGGTTCTT
* * *
9449351 AAGATTCTCATTGAAA-ATTC--
1 AAGATTCACATTCAAAGGTTCTT
* * *
9449371 AAGATTCATA-TCAAAAAGTTTTT
1 AAGATTCACATTC-AAAGGTTCTT
* *
9449394 GAGATTCACA-TCGAAGG-T-TT
1 AAGATTCACATTCAAAGGTTCTT
* * *
9449414 AGGATTCACATTAAAAGGTTCTC
1 AAGATTCACATTCAAAGGTTCTT
*
9449437 GAGATT--CATCTC-AA-GTTC--
1 AAGATTCACAT-TCAAAGGTTCTT
** * *
9449455 GGGATTCACATTGAAAAGTTCTT
1 AAGATTCACATTCAAAGGTTCTT
9449478 AAGATTCACAT
1 AAGATTCACAT
9449489 CAAGATTCAT
Statistics
Matches: 100, Mismatches: 24, Indels: 28
0.66 0.16 0.18
Matches are distributed among these distances:
18 5 0.05
19 2 0.02
20 30 0.30
21 17 0.17
22 8 0.08
23 38 0.38
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
AAGATTCACATTCAAAGGTTCTT
Found at i:9449492 original size:41 final size:40
Alignment explanation
Indices: 9449311--9449497 Score: 142
Period size: 43 Copynumber: 4.5 Consensus size: 40
9449301 ATTCACATAG
* *
9449311 AGATTCATATCAAGTTCAAGATTCACATTCAAAGGTTCTTA
1 AGATTCACATCAAGTTCAAGATTCACATT-AAAAGTTCTTA
* * * * * * *
9449352 AGATTCTCATTGAAAATTCAAGATTCATATCAAAAAGTTTTTG
1 AGATTCACA-T-CAAGTTCAAGATTCACAT-TAAAAGTTCTTA
* * **
9449395 AGATTCACATCGAAGGTTTAGGATTCACATTAAAAGGTTCTCG
1 AGATTCACATC-AA-GTTCAAGATTCACATTAAAA-GTTCTTA
**
9449438 AGATTCATC-TCAAGTTCGGGATTCACATTGAAAAGTTCTTA
1 AGATTCA-CATCAAGTTCAAGATTCACATT-AAAAGTTCTTA
9449479 AGATTCACATCAAGATTCA
1 AGATTCACATCAAG-TTCA
9449498 TATCAAAGGC
Statistics
Matches: 113, Mismatches: 23, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
40 1 0.01
41 38 0.34
42 17 0.15
43 56 0.50
44 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (40 bp):
AGATTCACATCAAGTTCAAGATTCACATTAAAAGTTCTTA
Found at i:9449788 original size:132 final size:132
Alignment explanation
Indices: 9449608--9449925 Score: 352
Period size: 132 Copynumber: 2.4 Consensus size: 132
9449598 AAGGATCCTC
* * *
9449608 GAGATTCGCATA-AAAGATTCAGGATTCACACTAAAAGGTTCTCAAGATTCGCATCGAGATTTAT
1 GAGATTC-CATATCAAG-TTCAGGATTCACACTAAAAGGTTCTCAAGATTCGCATCGAAATTCAT
* * * *
9449672 ATCAAAAGGCCTTCGAGATTCACATCGAAGGTTTGAGATTCACATCAAAACATTCTCAAGATTCC
64 ATAAAAAAGCCTTCGAGATTCACATCGAAGGTGTGAGATTCACACCAAAACATTCTCAAGATTCC
9449737 CATT
129 CATT
* * ** * *
9449741 GAGATTCCATATCAAGTTCAGGATTCATACTAAAATGTTCTTGAGATTTGCATTGAAATTCATAT
1 GAGATTCCATATCAAGTTCAGGATTCACACTAAAAGGTTCTCAAGATTCGCATCGAAATTCATAT
* * * * ** **
9449806 AAAAAAGCCTTCGAGATTCGCATCGAAGGTGTGGGATTCATACCACAATGTTCTTGAGATTCCCA
66 AAAAAAGCCTTCGAGATTCACATCGAAGGTGTGAGATTCACACCAAAACATTCTCAAGATTCCCA
9449871 TT
131 TT
* * * * * * *
9449873 AAAATT-CATATCAAGTTCAGGATTCACTCTGAAAGATTCTCGAGATTCACATC
1 GAGATTCCATATCAAGTTCAGGATTCACACTAAAAGGTTCTCAAGATTCGCATC
9449926 AAAGGTTTGA
Statistics
Matches: 152, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
131 38 0.25
132 104 0.68
133 10 0.07
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (132 bp):
GAGATTCCATATCAAGTTCAGGATTCACACTAAAAGGTTCTCAAGATTCGCATCGAAATTCATAT
AAAAAAGCCTTCGAGATTCACATCGAAGGTGTGAGATTCACACCAAAACATTCTCAAGATTCCCA
TT
Found at i:9449939 original size:20 final size:21
Alignment explanation
Indices: 9449914--9449963 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 21
9449904 AAAGATTCTC
*
9449914 GAGATTCACA-TCAAAGGTTT
1 GAGATTCACACTAAAAGGTTT
9449934 GAGATTCACACTAAAAGGTTTTT
1 GAGATTCACACTAAAAGG--TTT
9449957 GAGATTC
1 GAGATTC
9449964 GCATAAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.38
21 6 0.23
23 10 0.38
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (21 bp):
GAGATTCACACTAAAAGGTTT
Found at i:9449952 original size:21 final size:21
Alignment explanation
Indices: 9449914--9449970 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 21
9449904 AAAGATTCTC
*
9449914 GAGATTCACATCAAAGG-TTT
1 GAGATTCACATAAAAGGTTTT
9449934 GAGATTCACACTAAAAGGTTTTT
1 GAGATTCACA-TAAAAGG-TTTT
*
9449957 GAGATTCGCATAAA
1 GAGATTCACATAAA
9449971 GATTTATATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.31
21 6 0.19
22 4 0.12
23 12 0.38
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (21 bp):
GAGATTCACATAAAAGGTTTT
Found at i:9450089 original size:42 final size:42
Alignment explanation
Indices: 9450043--9450137 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
9450033 CACTAAGATC
*
9450043 TCACCA-TCGAGAAAATGAAATTCAGATTTTAATACTCGGATA
1 TCACCACT-GAGAAAATGAAATTCAGACTTTAATACTCGGATA
** * * * *
9450085 TCACCACTGAGTGATTGGAATTTAGACTTTAATACTTGGATA
1 TCACCACTGAGAAAATGAAATTCAGACTTTAATACTCGGATA
9450127 TCACCACTGAG
1 TCACCACTGAG
9450138 TGATTTTGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.31
Consensus pattern (42 bp):
TCACCACTGAGAAAATGAAATTCAGACTTTAATACTCGGATA
Found at i:9450138 original size:42 final size:42
Alignment explanation
Indices: 9450061--9450142 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
9450051 GAGAAAATGA
*
9450061 AATTCAGATTTTAATACTCGGATATCACCACTGAGTGATTGG
1 AATTCAGACTTTAATACTCGGATATCACCACTGAGTGATTGG
* *
9450103 AATTTAGACTTTAATACTTGGATATCACCACTGAGTGATT
1 AATTCAGACTTTAATACTCGGATATCACCACTGAGTGATT
9450143 TTGAAAAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (42 bp):
AATTCAGACTTTAATACTCGGATATCACCACTGAGTGATTGG
Found at i:9450824 original size:26 final size:24
Alignment explanation
Indices: 9450781--9450831 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
9450771 TGATGAAGAG
9450781 AATGTCTTTCAAGATACAAATGCA
1 AATGTCTTTCAAGATACAAATGCA
* *
9450805 AATGTCCTTCTCATGATACATATGCA
1 AATGT-CTT-TCAAGATACAAATGCA
9450831 A
1 A
9450832 TGATGCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 3 0.13
26 15 0.65
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (24 bp):
AATGTCTTTCAAGATACAAATGCA
Found at i:9450912 original size:39 final size:40
Alignment explanation
Indices: 9450865--9450960 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 40
9450855 TGTGATGTAT
*
9450865 ATACAATGATGTAAATGCAAATGTCCGTTTCATGATACA-
1 ATACAATGATGTAAATGCAAATGTCAGTTTCATGATACAG
* * * *
9450904 ATATAATGATGCAAATGCAAATGTCATTTTCATGCTACAG
1 ATACAATGATGTAAATGCAAATGTCAGTTTCATGATACAG
*
9450944 ATACAAT-ATGTGAATGC
1 ATACAATGATGTAAATGC
9450961 TTTTATTGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 42 0.88
40 6 0.12
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (40 bp):
ATACAATGATGTAAATGCAAATGTCAGTTTCATGATACAG
Found at i:9451084 original size:40 final size:40
Alignment explanation
Indices: 9450962--9451097 Score: 118
Period size: 40 Copynumber: 3.5 Consensus size: 40
9450952 TGTGAATGCT
* * * *
9450962 TTTATTGTAATACATATGCAATGATGCAAATGCAAATATC
1 TTTATTGTGATGCATATGCAATGACGCAAATGCAAATTTC
* * * *
9451002 TTTCA---TGATGTAGATACAATGATGCAAATGCAAATTTC
1 TTT-ATTGTGATGCATATGCAATGACGCAAATGCAAATTTC
* * **
9451040 TTTATTTTGTTGCATATGCAATGACGCAAATGTGAATGTT-
1 TTTATTGTGATGCATATGCAATGACGCAAATGCAAAT-TTC
9451080 TTTATTGTGATGCATATG
1 TTTATTGTGATGCATATG
9451098 TAAAAAAAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
37 1 0.01
38 30 0.39
40 42 0.55
41 3 0.04
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (40 bp):
TTTATTGTGATGCATATGCAATGACGCAAATGCAAATTTC
Found at i:9452611 original size:106 final size:106
Alignment explanation
Indices: 9452426--9452637 Score: 361
Period size: 106 Copynumber: 2.0 Consensus size: 106
9452416 TCCTTTGCTG
* *
9452426 GGGTTTACTTTGAAAAGAGAAATTTAATAGGCTCAAATGGGTAAAAGGTGGATAATTTTTTTATA
1 GGGTTTACTTTGAAAAGAGAAATTTAATAGGCTCAAATGGGTAAAAAGTGGATAATTTTTCTATA
9452491 TGTGAAAGACAAAGAAAAATTATCATTCATCATTTCAAATA
66 TGTGAAAGACAAAGAAAAATTATCATTCATCATTTCAAATA
* *
9452532 GGGTTTACTTTGGAAAGAGAAATTTAATAGGCTTAAATGGGTAAAAAGTGGATAATTTTTCTATA
1 GGGTTTACTTTGAAAAGAGAAATTTAATAGGCTCAAATGGGTAAAAAGTGGATAATTTTTCTATA
* * *
9452597 TGTGAAGGATAAAGAAATATTATCATTCATCATTTCAAATA
66 TGTGAAAGACAAAGAAAAATTATCATTCATCATTTCAAATA
9452638 TGATCACTTA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (106 bp):
GGGTTTACTTTGAAAAGAGAAATTTAATAGGCTCAAATGGGTAAAAAGTGGATAATTTTTCTATA
TGTGAAAGACAAAGAAAAATTATCATTCATCATTTCAAATA
Found at i:9452707 original size:20 final size:21
Alignment explanation
Indices: 9452679--9452716 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9452669 TTTTGTGTAT
9452679 TTTTATTTTTA-TTTTTTTGG
1 TTTTATTTTTAGTTTTTTTGG
9452699 TTTT-TTTTTAGTTTTTTT
1 TTTTATTTTTAGTTTTTTT
9452717 TTTTTTTGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (21 bp):
TTTTATTTTTAGTTTTTTTGG
Found at i:9453901 original size:29 final size:27
Alignment explanation
Indices: 9453820--9453907 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 27
9453810 TCGTTATATG
9453820 CAAGATTGGTGGTGCACATGAAATGCAA
1 CAAGATTGGTGGTGCA-ATGAAATGCAA
* * *** *
9453848 CAATATTTGCAATGACAATGCAAATGTATA
1 CAAGATTGGTGGTG-CAATG-AAATGCA-A
*
9453878 CAAGATTGGTGGTGCATATGAAATACAA
1 CAAGATTGGTGGTGCA-ATGAAATGCAA
9453906 CA
1 CA
9453908 TTTACATTGA
Statistics
Matches: 43, Mismatches: 13, Indels: 8
0.67 0.20 0.12
Matches are distributed among these distances:
28 15 0.35
29 15 0.35
30 13 0.30
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.25
Consensus pattern (27 bp):
CAAGATTGGTGGTGCAATGAAATGCAA
Found at i:9455515 original size:26 final size:26
Alignment explanation
Indices: 9455486--9455541 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
9455476 TTGGATTTGA
* *
9455486 CCCAAACA-CAAATAGGCCTAATTGGG
1 CCCAAACATCAAAGA-GCCTAATCGGG
* *
9455512 CCCAGACATCAACGAGCCTAATCGGG
1 CCCAAACATCAAAGAGCCTAATCGGG
9455538 CCCA
1 CCCA
9455542 GATGTCAACG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.34, C:0.34, G:0.20, T:0.12
Consensus pattern (26 bp):
CCCAAACATCAAAGAGCCTAATCGGG
Found at i:9455542 original size:26 final size:26
Alignment explanation
Indices: 9455501--9455575 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
9455491 ACACAAATAG
* *
9455501 GCCTAATTGGGCCCAGACATCAACGA
1 GCCTAATCGGGCCCAGATATCAACGA
* *
9455527 GCCTAATCGGGCCCAGATGTCAACGG
1 GCCTAATCGGGCCCAGATATCAACGA
* *
9455553 GCCTAATCTGGCCTAGATATCAA
1 GCCTAATCGGGCCCAGATATCAA
9455576 TGGGCCCAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (26 bp):
GCCTAATCGGGCCCAGATATCAACGA
Done.