Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 49 of 117
Found at i:9032809 original size:3 final size:3
Alignment explanation
Indices: 9032801--9032889 Score: 169
Period size: 3 Copynumber: 29.7 Consensus size: 3
9032791 TAGATAGTTC
9032801 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
9032849 ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9032890 GTTTTTCTCA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9033187 original size:3 final size:3
Alignment explanation
Indices: 9033179--9033268 Score: 144
Period size: 3 Copynumber: 30.0 Consensus size: 3
9033169 TAGATAGTTC
* *
9033179 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
9033227 ATT ACT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9033269 CTTTCCATTT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:9034166 original size:18 final size:19
Alignment explanation
Indices: 9034125--9034171 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
9034115 TGATCGCATG
* *
9034125 TTTTTCTTTTTTCATTTTA
1 TTTTTATTTTTTCATTTGA
*
9034144 TTTTTATTTTTTGATTTGA
1 TTTTTATTTTTTCATTTGA
9034163 -TTTTATTTT
1 TTTTTATTTT
9034172 ATTTTTAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTTTCATTTGA
Found at i:9035393 original size:18 final size:17
Alignment explanation
Indices: 9035366--9035411 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
9035356 AATGATGTAA
*
9035366 AAAATAAAAAGATAAAAG
1 AAAATGAAAAGA-AAAAG
*
9035384 AAAATGAAAAGAAAAGG
1 AAAATGAAAAGAAAAAG
9035401 AAATATGAAAA
1 AAA-ATGAAAA
9035412 AATGAGGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (17 bp):
AAAATGAAAAGAAAAAG
Found at i:9035709 original size:11 final size:12
Alignment explanation
Indices: 9035693--9035737 Score: 58
Period size: 11 Copynumber: 3.9 Consensus size: 12
9035683 ATGAAGTAAA
9035693 AAAAAT-AAAAG
1 AAAAATGAAAAG
*
9035704 AAAAATGAGAA-
1 AAAAATGAAAAG
9035715 AAAAATGAAAAG
1 AAAAATGAAAAG
*
9035727 AAAAACGAAAA
1 AAAAATGAAAA
9035738 ATAAGAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 16 0.55
12 13 0.45
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (12 bp):
AAAAATGAAAAG
Found at i:9036561 original size:15 final size:16
Alignment explanation
Indices: 9036541--9036580 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
9036531 TAGAGTTGTA
9036541 TTCATAAACATTGC-T
1 TTCATAAACATTGCAT
9036556 TTCAT--ACATTGCAT
1 TTCATAAACATTGCAT
9036570 TT-ATAAACATT
1 TTCATAAACATT
9036581 ACACTCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 9 0.41
14 3 0.14
15 10 0.45
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.42
Consensus pattern (16 bp):
TTCATAAACATTGCAT
Found at i:9037311 original size:43 final size:43
Alignment explanation
Indices: 9037155--9037314 Score: 160
Period size: 44 Copynumber: 3.7 Consensus size: 43
9037145 ATAAGAATCT
** * * * *
9037155 TTTTTATATTTTTTAAAGTTGTTGAGCTTCTGTTAAGA-TAAG
1 TTTTTATATTTTCAAAAGTTGTTAAGCCTCTGTTAAGAGGAAC
* * * * * *
9037197 TCTTCTATATTTTTCAAAAGTTGTTGAGTCTCTATTGAGAGGAGC
1 T-TTTTATA-TTTTCAAAAGTTGTTAAGCCTCTGTTAAGAGGAAC
*
9037242 GTTTTATATCTTTCAAAAGTTGTTAAGCCTCTGTTAAGAGGAAC
1 TTTTTATAT-TTTCAAAAGTTGTTAAGCCTCTGTTAAGAGGAAC
*
9037286 TTTTTATATTTACAAAAGTTGTTAAGCCT
1 TTTTTATATTTTCAAAAGTTGTTAAGCCT
9037315 TTGCCTTTTA
Statistics
Matches: 95, Mismatches: 19, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
42 1 0.01
43 26 0.27
44 67 0.71
45 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (43 bp):
TTTTTATATTTTCAAAAGTTGTTAAGCCTCTGTTAAGAGGAAC
Found at i:9037498 original size:43 final size:43
Alignment explanation
Indices: 9037320--9037499 Score: 141
Period size: 43 Copynumber: 4.1 Consensus size: 43
9037310 AGCCTTTGCC
* * * *
9037320 TTTTATA-TTTTCAAAAGTCATTGAACCTCTGTTAAGAGAAAATT
1 TTTTATATTTTTCAAAA-TTATTGAGCCTCTATTGAGAGAAAA-T
* * * * ** *
9037364 TTTATATATTTTTCAAAGTTTTTGAGTCTCTGTTGAGAGGGACT
1 TTT-TATATTTTTCAAAATTATTGAGCCTCTATTGAGAGAAAAT
* * * **
9037408 CTTTATATTTTTCAAAGTTATCT-AGTCTCTATTGAGATGAGCA-
1 TTTTATATTTTTCAAAATTAT-TGAGCCTCTATTGAGA-GAAAAT
*
9037451 TTTTATATTTTTCAAAATTATTGAGCCTCTATTTAGAGAAAAT
1 TTTTATATTTTTCAAAATTATTGAGCCTCTATTGAGAGAAAAT
9037494 TTTTAT
1 TTTTAT
9037500 GTTGTTTAAA
Statistics
Matches: 109, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
42 4 0.04
43 67 0.61
44 9 0.08
45 21 0.19
46 8 0.07
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (43 bp):
TTTTATATTTTTCAAAATTATTGAGCCTCTATTGAGAGAAAAT
Found at i:9041371 original size:45 final size:45
Alignment explanation
Indices: 9041320--9041410 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
9041310 AAAAGAGCTT
9041320 AGGAGGAAACTAAAAACAAAAAAGAACTTCAGAAACAGTAAAAAA
1 AGGAGGAAACTAAAAACAAAAAAGAACTTCAGAAACAGTAAAAAA
9041365 AGGAGGAAACTAAAAACAAAAAAGAACTTCAGAAACAGTAAAAAA
1 AGGAGGAAACTAAAAACAAAAAAGAACTTCAGAAACAGTAAAAAA
9041410 A
1 A
9041411 AAAAAAAGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.65, C:0.11, G:0.15, T:0.09
Consensus pattern (45 bp):
AGGAGGAAACTAAAAACAAAAAAGAACTTCAGAAACAGTAAAAAA
Found at i:9043325 original size:30 final size:30
Alignment explanation
Indices: 9043289--9043349 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
9043279 AAAGTTATTA
9043289 AAAATTAGTTTTAAACAAATAAAATTAAAT
1 AAAATTAGTTTTAAACAAATAAAATTAAAT
9043319 AAAATTAGTTTTAAACAAATAAAATTAAAT
1 AAAATTAGTTTTAAACAAATAAAATTAAAT
9043349 A
1 A
9043350 TAGCATTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAATTAGTTTTAAACAAATAAAATTAAAT
Found at i:9045464 original size:20 final size:21
Alignment explanation
Indices: 9045416--9045465 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
9045406 AAATTTTATA
*
9045416 TATATATTATTTTAATAAAATT
1 TATATA-TATTTAAATAAAATT
9045438 T-TAATATATTTAAAT-AAATT
1 TAT-ATATATTTAAATAAAATT
9045458 TATATATA
1 TATATATA
9045466 AAATAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.44
21 10 0.40
22 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATATATATTTAAATAAAATT
Found at i:9045523 original size:18 final size:19
Alignment explanation
Indices: 9045493--9045533 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
9045483 TTATAAAAAT
9045493 TTAA-AAAATATATATAAA
1 TTAATAAAATATATATAAA
*
9045511 TTAATAAAA-ATATATAAT
1 TTAATAAAATATATATAAA
9045529 TTAAT
1 TTAAT
9045534 TTGATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAATAAAATATATATAAA
Found at i:9052974 original size:18 final size:20
Alignment explanation
Indices: 9052951--9052987 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9052941 TTGAATTGAA
9052951 ATTTATT-A-TTTTAATTTG
1 ATTTATTAATTTTTAATTTG
9052969 ATTTATTAATTTTTAATTT
1 ATTTATTAATTTTTAATTT
9052988 TTTTTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTATTAATTTTTAATTTG
Found at i:9053031 original size:21 final size:21
Alignment explanation
Indices: 9052991--9053044 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
9052981 TTAATTTTTT
*
9052991 TTATATATATTATTTTAATAAGA
1 TTATATATA-TATTTAAAT-AGA
*
9053014 TTTTA-ATATATTTAAATAGA
1 TTATATATATATTTAAATAGA
9053034 TTATATATATA
1 TTATATATATA
9053045 AAATAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 7 0.26
21 13 0.48
22 3 0.11
23 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
TTATATATATATTTAAATAGA
Found at i:9053108 original size:17 final size:18
Alignment explanation
Indices: 9053072--9053109 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
9053062 TTATAAAAAT
9053072 TTAAAAAAAATATATGTAA
1 TTAAAAAAAATATA-GTAA
*
9053091 TTAATAAAAATATA-TAA
1 TTAAAAAAAATATAGTAA
9053108 TT
1 TT
9053110 TAATTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
19 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TTAAAAAAAATATAGTAA
Found at i:9053171 original size:13 final size:13
Alignment explanation
Indices: 9053152--9053185 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9053142 TTTTGATCCG
9053152 AATTTAATATATA
1 AATTTAATATATA
* *
9053165 TATTTAATATTTA
1 AATTTAATATATA
9053178 AATTTAAT
1 AATTTAAT
9053186 TCAAATCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTTAATATATA
Found at i:9058915 original size:2 final size:2
Alignment explanation
Indices: 9058908--9058941 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9058898 CTGTCGGATT
9058908 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
9058942 AAAAAACCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9060456 original size:66 final size:67
Alignment explanation
Indices: 9060347--9060472 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 67
9060337 TCCTATGTGG
* * * *
9060347 ACGGCTTAAAATGTTAACATGTAGATGGTCTTAAAAATTACCATGTGACATCTAATAAATGTTTT
1 ACGGCTTAAAATGTTAACATATAAATGGTCTTAAAAATCACCATGTGACATATAATAAATGTTTT
9060412 TT
66 TT
*
9060414 ACGGCTTAAAATGTT-GCATATAAATGGTCTTAAAAATCACCATGTGACATATAATAAAT
1 ACGGCTTAAAATGTTAACATATAAATGGTCTTAAAAATCACCATGTGACATATAATAAAT
9060473 ACATATTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 39 0.72
67 15 0.28
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (67 bp):
ACGGCTTAAAATGTTAACATATAAATGGTCTTAAAAATCACCATGTGACATATAATAAATGTTTT
TT
Found at i:9061045 original size:629 final size:628
Alignment explanation
Indices: 9059847--9061062 Score: 2001
Period size: 629 Copynumber: 1.9 Consensus size: 628
9059837 GATAGAATGG
9059847 TATTATTTAATCTAATTATATTTACAATATTATCTTATCCTATCTTATTATAATTTTGTGTATCA
1 TATTATTTAATCTAATTATATTTACAATATTATCTTATCCTATCTTATTATAATTTTGTGTATCA
*
9059912 AACACATCCTTATTAATTTAATCTTATCTAATTATTAGGCATCTAAAACTCTATTAATGAACAAT
66 AACACATCCTTATTAATTTAATCTTATCTAATTATTAGGCATCTAAAACCCTATTAATGAACAAT
* *
9059977 TAGGAAGAGCAACCAAATCAACCATATTCATGGATTTTTTTTCGTGGTTAGGATTTTTTTCTACT
131 TAGGAAGAGCAACCAAATCAACCATATTCATCGATTTTTTTTCATGGTTAGGATTTTTTTCTACT
*
9060042 GATAAGTAACATCCTATATTTATTTAAGTAATTCATAACGATTCTAATAACACATTCTTGATTTT
196 AATAAGTAACATCCTATATTTATTTAAGTAATTCATAACGATTCTAATAACACATTCTTGATTTT
* * * *
9060107 TTTTAAATCGTTCTTTAACTTTATAACTCAATTTTATATTAATAAAATTAATAATTGTTGAAATT
261 TTTTAAATCCTTCTTTAACTTTATAACTCAATTTAATATTAATAAAATTAATAACTGCTGAAATT
* * *
9060172 AGAATTAGATATTTGTGTAAAAAATAAAACTATATAACGGGTTTAGTACGATAAGAAAAAGGTTA
326 AGAATTAGATATTTGTGTAAAAAATAAAACTATATAACGGGTTTAATACGACAAGAAAAAGATTA
*
9060237 AAGATTCGAAATCCTTTCTCTTTATACCTTCTCGTATATATAAAATTACATCTTATATAAATATA
391 AAGATTCCAAATCCTTTCTCTTTATACCTTCTCGTATATATAAAATTACATCTTATATAAATATA
* * * *
9060302 TAAACGCCAAAGCTTTTTGGCCAAAATAAAAAAAATCCTATGTGGACGGCTTAAAATGTTAACAT
456 TAAAAGCCAAAGCTTTTTGGCAAAAATAAAAAAAATCCTATGTGGAAGCCTTAAAATGTTAACAT
* * *
9060367 GTAGATGGTCTTAAAAATTACCATGTGACATCTAATAAATGTTTTTTACGGCTTAAAATGTTGCA
521 GTAGATGGTCTTAAAAATCACCATGTGACATCTAATAAATGTATTTTACGGCTTAAAATATTG-A
9060432 TATAAATGGTCTTAAAAATCACCATGTGACATATAATAAATACA
585 TATAAATGGTCTTAAAAATCACCATGTGACATATAATAAATACA
* *
9060476 TATTATTTAATCTAATTATATTTATAATATTATCTTATCCTATCTTGTTATAATTTTGTGTATCA
1 TATTATTTAATCTAATTATATTTACAATATTATCTTATCCTATCTTATTATAATTTTGTGTATCA
* * * * *
9060541 AATACATCCTTATTAATTTAATTTTATCTAATTATTAGTCATCTAAAGCCCTATTAATGGACAAT
66 AACACATCCTTATTAATTTAATCTTATCTAATTATTAGGCATCTAAAACCCTATTAATGAACAAT
*
9060606 TAGGAAGAGCAACCAAATCAACCATATTTATCGATTTTTTTTCATGGTTAGGATTTTTTTTCTAC
131 TAGGAAGAGCAACCAAATCAACCATATTCATCGATTTTTTTTCATGGTTAGGA-TTTTTTTCTAC
9060671 TAATAAGTAACAT-CTGATATTTATTTAAGTAATTCATAACGATTCTAATAACACCATTCTTGA-
195 TAATAAGTAACATCCT-ATATTTATTTAAGTAATTCATAACGATTCTAATAACA-CATTCTTGAT
* * *
9060734 TTTTTTTAAATCCTTCTTGTAGCTTTTTAACTCAATTTAATATTAATGAAATTAATAACTGCT-A
258 TTTTTTTAAATCCTTCTT-TAACTTTATAACTCAATTTAATATTAATAAAATTAATAACTGCTGA
* * *
9060798 AAGTTAGAATTAGATATTTGTGTAAAAAATAAAACTGTATAACGGGTTTAATATGGCAAGAAAAA
322 AA-TTAGAATTAGATATTTGTGTAAAAAATAAAACTATATAACGGGTTTAATACGACAAGAAAAA
*
9060863 GATTAAAGATTCCAAATCCTTTCTCTTTATACCTTCTCGTATATATAAAATTATATCTTATATAA
386 GATTAAAGATTCCAAATCCTTTCTCTTTATACCTTCTCGTATATATAAAATTACATCTTATATAA
*
9060928 ATATATAAAAGCCAAAGC-TTTTGGCAAAAAT-GAAAAAATCCTATGTGGAAGCCTTAAAATGTT
451 ATATATAAAAGCCAAAGCTTTTTGGCAAAAATAAAAAAAATCCTATGTGGAAGCCTTAAAATGTT
* **
9060991 GACATGTAGATGGTCTTAAAAATCGTCATGTGACATCTAATAAATGTATTTTACGGCTTAAAATA
516 AACATGTAGATGGTCTTAAAAATCACCATGTGACATCTAATAAATGTATTTTACGGCTTAAAATA
9061056 TTGATAT
581 TTGATAT
9061063 GTAGATGATT
Statistics
Matches: 544, Mismatches: 38, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
628 4 0.01
629 265 0.49
630 92 0.17
631 183 0.34
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (628 bp):
TATTATTTAATCTAATTATATTTACAATATTATCTTATCCTATCTTATTATAATTTTGTGTATCA
AACACATCCTTATTAATTTAATCTTATCTAATTATTAGGCATCTAAAACCCTATTAATGAACAAT
TAGGAAGAGCAACCAAATCAACCATATTCATCGATTTTTTTTCATGGTTAGGATTTTTTTCTACT
AATAAGTAACATCCTATATTTATTTAAGTAATTCATAACGATTCTAATAACACATTCTTGATTTT
TTTTAAATCCTTCTTTAACTTTATAACTCAATTTAATATTAATAAAATTAATAACTGCTGAAATT
AGAATTAGATATTTGTGTAAAAAATAAAACTATATAACGGGTTTAATACGACAAGAAAAAGATTA
AAGATTCCAAATCCTTTCTCTTTATACCTTCTCGTATATATAAAATTACATCTTATATAAATATA
TAAAAGCCAAAGCTTTTTGGCAAAAATAAAAAAAATCCTATGTGGAAGCCTTAAAATGTTAACAT
GTAGATGGTCTTAAAAATCACCATGTGACATCTAATAAATGTATTTTACGGCTTAAAATATTGAT
ATAAATGGTCTTAAAAATCACCATGTGACATATAATAAATACA
Found at i:9061096 original size:67 final size:67
Alignment explanation
Indices: 9060980--9061110 Score: 181
Period size: 67 Copynumber: 2.0 Consensus size: 67
9060970 ATGTGGAAGC
* * *** *
9060980 CTTAAAATGTTGACATGTAGATGGTCTTAAAAATCGTCATGTGACATCTAATAAATGTATTTTAC
1 CTTAAAATATTGACATGTAGATGATCTTAAAAATCGTCACACGACATCTAATAAATGCATTTTAC
9061045 GG
66 GG
* * *
9061047 CTTAAAATATTGATATGTAGATGATTTTAAAAATCGTCACACGATATCTAATAAATGCATTTTA
1 CTTAAAATATTGACATGTAGATGATCTTAAAAATCGTCACACGACATCTAATAAATGCATTTTA
9061111 TTTTATTTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (67 bp):
CTTAAAATATTGACATGTAGATGATCTTAAAAATCGTCACACGACATCTAATAAATGCATTTTAC
GG
Found at i:9061625 original size:271 final size:270
Alignment explanation
Indices: 9061137--9062510 Score: 1091
Period size: 271 Copynumber: 5.0 Consensus size: 270
9061127 TTTAATTTAA
* *
9061137 AAATA-ATTCAAAAAATTAAATTGATTATATTTATGTTTTTATTATTAACTTTAAATCACTCTCA
1 AAATATATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTAATTTTAAATCACTCTCA
* * *
9061201 ATTCAATTCATACTAAAAGTATTAAAATTTTAAAATTTTCTTAATTTGACAAATTAAATCAATCA
66 ATTCAATTCATATTAAAAGTATTAAAATTTTAAAAATTTCTTAATTTGAAAAATTAAATCAATCA
* * *
9061266 ATCA-ATAATTAATAAATTAATAAATACTACAATTACAATTATAAAATAATTGATTCTCTAATCA
131 AT-ATATAATTAATAAATTAATAAATACTATAATTACAATTATAAAATAGTTGATTCTCTAATTA
* *
9061330 ATTATTTGA-AAATTTTATATTTGATTAAATATAGTATCCAGTAATTAATGTATTTCATGTGTAA
195 ATTATTTGATACA-TTTATATTTGATTAAATATAGTATCCAGTAATTGATGTATTTCATGTGTAA
9061394 AATATATAAAGC
259 AATATATAAAGC
*
9061406 AAATATCATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTGATTTTAAATCACTCTC
1 AAATAT-ATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTAATTTTAAATCACTCTC
* *
9061471 AATTCAATTCATATTAAAAGTATTAAAATTTTAAAAATTTCTTAATTTAAAAAATTAAATTAATC
65 AATTCAATTCATATTAAAAGTATTAAAATTTTAAAAATTTCTTAATTTGAAAAATTAAATCAATC
*
9061536 AATATATAATTAATAAATTAATAAATACTATAATTACAATTATAAAATAGTTAATTCTCTAATTA
130 AATATATAATTAATAAATTAATAAATACTATAATTACAATTATAAAATAGTTGATTCTCTAATTA
*
9061601 ATTATTTGATACATTTATATTTGATTAAATAGAGTATCCATTTGAGTAATTGATGTATTTCATGA
195 ATTATTTGATACATTTATATTTGATTAAATATAGTATCC-----AGTAATTGATGTATTTCATG-
9061666 TGTATTTCATGTGTAAATATATAAAGC
254 TG----T-A-----AAATATATAAAGC
* * * * ** *
9061693 AAATATA-TCAAATTAATTCTCCATAATTAAATTAATGGAATAAAATATTTTATTAATTTATATT
1 AAATATATTCAAA--AA-ACT--A-AATT-GATT-AT--ATTTATGT-TTTTATT-ATTAAT-TT
* * * * * ** ** * * *
9061757 T-GATTAAT-AC-ATT-TATTTTTCATTAAATA-TGATT-TCA-TTT--GATTTTCTT-ATAT-A
53 TAAATCACTCTCAATTCAATTCAT-ATTAAA-AGT-ATTAAAATTTTAAAAATTTCTTAATTTGA
* ** ** * * * *
9061811 AATATATAAA--AGCCAA-AGCT-TTTGGCAA-AAATGGAA-AAAAATCT-T-ATGTGAACAACT
115 AAAAT-TAAATCAATCAATATATAATT---AATAAAT-TAATAAATA-CTATAAT-T--ACAATT
* ** ** ** * * * *** *
9061868 -TAAAAT-GTTGATATGT-GGA-TGGTT-TTAAAAATCA-TCACATGACATCTAAA-AAATGTAT
171 ATAAAATAGTTGAT-TCTCTAATTAATTATTTGATA-CATTTATATTTGAT-TAAATATA-GTAT
** * * * **
9061926 --TTTATATT-ATTTAATACAT-T-TTTAAT-T-T-AA--
232 CCAGTA-ATTGATGTATTTCATGTGTAAAATATATAAAGC
*
9061956 AAATA-ATTCAAAAAACTAAATTGATTATA--TA--TTTTT-TTATTAATCTTAAATCACTCTCA
1 AAATATATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTAATTTTAAATCACTCTCA
* *
9062015 ATTCAATTCATATTAAAAGTATTAAAATTTTCAAAATTTCTTAATTTGACAAATTAAATCAATCA
66 ATTCAATTCATATTAAAAGTATTAAAATTTTAAAAATTTCTTAATTTGAAAAATTAAATCAATCA
* * * *
9062080 ATATATAATTAATAAATTAATAAATACTACAATTACAATTATAAAATAGTTGATTTTCTAATCAG
131 ATATATAATTAATAAATTAATAAATACTATAATTACAATTATAAAATAGTTGATTCTCTAATTAA
* * **
9062145 TTATTTCATACATTTATATTTGATTAAATATAATATTTAGTAATTGATGTATTTCATGTGT-AAA
196 TTATTTGATACATTTATATTTGATTAAATATAGTATCCAGTAATTGATGTATTTCATGTGTAAAA
*
9062209 TATATAATGC
261 TATATAAAGC
* *
9062219 AAATATAATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTGATTTTAAATAACTCTC
1 AAATAT-ATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTAATTTTAAATCACTCTC
* * * *
9062284 AATTCAATTAATATTAAAAATATTAAAATTTTAAAAATTTCTTAATTTGAAATATTAAATCAATT
65 AATTCAATTCATATTAAAAGTATTAAAATTTTAAAAATTTCTTAATTTGAAAAATTAAATCAATC
* *
9062349 AATATATAATTAATAAATTAATAAATAATATAA-TAGCAATTATAAAATAGTTGAGTCTCTAATT
130 AATATATAATTAATAAATTAATAAATACTATAATTA-CAATTATAAAATAGTTGATTCTCTAATT
*
9062413 AATTATTTGATACATTTATATTTGATTAAATATAGTAGCCATTTGAGTAATTGATGTATTTCATG
194 AATTATTTGATACATTTATATTTGATTAAATATAGTATCC-----AGTAATTGATGTATTTCATG
*
9062478 ATGTATGTATATATATAAAGC
254 -TGTA---AAATATATAAAGC
9062499 AAATATA-TCAAA
1 AAATATATTCAAA
9062511 TTAATTCTTC
Statistics
Matches: 863, Mismatches: 137, Indels: 201
0.72 0.11 0.17
Matches are distributed among these distances:
245 2 0.00
246 9 0.01
247 7 0.01
248 15 0.02
249 8 0.01
251 8 0.01
252 12 0.01
253 19 0.02
254 20 0.02
255 18 0.02
256 20 0.02
257 14 0.02
258 5 0.01
259 2 0.00
260 3 0.00
261 3 0.00
262 1 0.00
263 15 0.02
265 26 0.03
266 1 0.00
267 3 0.00
268 3 0.00
269 12 0.01
270 169 0.20
271 208 0.24
272 2 0.00
274 1 0.00
275 20 0.02
276 22 0.03
277 2 0.00
278 5 0.01
279 2 0.00
280 17 0.02
281 11 0.01
282 4 0.00
285 5 0.01
286 1 0.00
287 35 0.04
288 19 0.02
289 20 0.02
290 20 0.02
291 16 0.02
292 10 0.01
293 2 0.00
294 7 0.01
295 15 0.02
296 12 0.01
297 9 0.01
298 3 0.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (270 bp):
AAATATATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTAATTTTAAATCACTCTCA
ATTCAATTCATATTAAAAGTATTAAAATTTTAAAAATTTCTTAATTTGAAAAATTAAATCAATCA
ATATATAATTAATAAATTAATAAATACTATAATTACAATTATAAAATAGTTGATTCTCTAATTAA
TTATTTGATACATTTATATTTGATTAAATATAGTATCCAGTAATTGATGTATTTCATGTGTAAAA
TATATAAAGC
Found at i:9061666 original size:12 final size:12
Alignment explanation
Indices: 9061651--9061680 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9061641 TTTGAGTAAT
9061651 TGATGTATTTCA
1 TGATGTATTTCA
9061663 TGATGTATTTCA
1 TGATGTATTTCA
9061675 TG-TGTA
1 TGATGTA
9061681 AATATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.50
Consensus pattern (12 bp):
TGATGTATTTCA
Found at i:9062412 original size:813 final size:810
Alignment explanation
Indices: 9061047--9062607 Score: 2537
Period size: 813 Copynumber: 1.9 Consensus size: 810
9061037 TATTTTACGG
* * *
9061047 CTTAAAATATTGATATGTAGATGATTTTAAAAATCGTCACACGATATCTAATAAATGCATTTTAT
1 CTTAAAATATTGATATGTAGATGATTTTAAAAATCATCACACGACATCTAAAAAATGCATTTTAT
* * *
9061112 TTTATTTAATATATTTTTAATTTAAAAATAATTCAAAAAATTAAATTGATTATATTTATGTTTTT
66 ATTATTTAATACATTTTTAATTTAAAAATAATTCAAAAAACTAAATTGATTATA-TTA-GTTTTT
9061177 ATTATTAACTTTAAATCACTCTCAATTCAATTCATACTAAAAGTATTAAAATTTTAAAATTTTCT
129 ATTATTAACTTTAAATCACTCTCAATTCAATTCATACTAAAAGTATTAAAATTTTAAAATTTTCT
9061242 TAATTTGACAAATTAAATCAATCAATCAATAATTAATAAATTAATAAATACTACAATTACAATTA
194 TAATTTGACAAATTAAATCAATCAATCAATAATTAATAAATTAATAAATACTACAATTACAATTA
* *
9061307 TAAAATAATTGATTCTCTAATCAATTATTTGAAAATTTTATATTTGATTAAATATAGTATCCAGT
259 TAAAATAATTGATTCTCTAATCAATTATTTCAAAATTTTATATTTGATTAAATATAATATCCAGT
*
9061372 AATTAATGTATTTCATGTGTAAAATATATAAAGCAAATATCATTCAAAAAACTAAATTGATTATA
324 AATTAATGTATTTCATGTGTAAAATATATAAAGCAAATATAATTCAAAAAACTAAATTGATTATA
* * *
9061437 TTTATGTTTTTATTATTGATTTTAAATCACTCTCAATTCAATTCATATTAAAAGTATTAAAATTT
389 TTTATGTTTTTATTATTGATTTTAAATAACTCTCAATTCAATTAATATTAAAAATATTAAAATTT
* *
9061502 TAAAAATTTCTTAATTTAAAAAATTAAATTAATCAATATATAATTAATAAATTAATAAATACTAT
454 TAAAAATTTCTTAATTTAAAAAATTAAATCAATCAATATATAATTAATAAATTAATAAATAATAT
*
9061567 AATTACAATTATAAAATAGTTAATTCTCTAATTAATTATTTGATACATTTATATTTGATTAAATA
519 AATTACAATTATAAAATAGTTAAGTCTCTAATTAATTATTTGATACATTTATATTTGATTAAATA
*
9061632 GAGTATCCATTTGAGTAATTGATGTATTTCATGATGTATTTCATGTGTAAATATATAAAGCAAAT
584 GAGTAGCCATTTGAGTAATTGATGTATTTCATGATG----T-A--TGTAAATATATAAAGCAAAT
*
9061697 ATATCAAATTAATTCTCCATAATTAAATTAATGGAATAAAATATTTTATTAATTTATATTTGATT
642 ATATCAAATTAATTCTCCATAATTAAATTAATGGAATAAAATATTTTATGAATTTATATTTGATT
* *
9061762 AATACATTTATTTTTCATTAAATATGATTTCATTTGATTTTCTTATATAAATATATAAAAGCCAA
707 AATAAATTTATATTTCATTAAATATGATTTCATTTGATTTTCTTATATAAATATATAAAAGCCAA
9061827 AGCTTTTGGCAAAAATGGAAAAAAATCTTATGTGAACAA
772 AGCTTTTGGCAAAAATGGAAAAAAATCTTATGTGAACAA
* * * * *
9061866 CTTAAAATGTTGATATGTGGATGGTTTTAAAAATCATCACATGACATCTAAAAAATGTATTTTAT
1 CTTAAAATATTGATATGTAGATGATTTTAAAAATCATCACACGACATCTAAAAAATGCATTTTAT
9061931 ATTATTTAATACATTTTTAATTTAAAAATAATTCAAAAAACTAAATTGATTATA-TA-TTTTT-T
66 ATTATTTAATACATTTTTAATTTAAAAATAATTCAAAAAACTAAATTGATTATATTAGTTTTTAT
*
9061993 TATTAA-TCTTAAATCACTCTCAATTCAATTCATATTAAAAGTATTAAAATTTTCAAAA-TTTCT
131 TATTAACT-TTAAATCACTCTCAATTCAATTCATACTAAAAGTATTAAAATTTT-AAAATTTTCT
9062056 TAATTTGACAAATTAAATCAATCAAT-ATATAATTAATAAATTAATAAATACTACAATTACAATT
194 TAATTTGACAAATTAAATCAATCAATCA-ATAATTAATAAATTAATAAATACTACAATTACAATT
* * * * **
9062120 ATAAAATAGTTGATTTTCTAATCAGTTATTTCATACA-TTTATATTTGATTAAATATAATATTTA
258 ATAAAATAATTGATTCTCTAATCAATTATTTCA-AAATTTTATATTTGATTAAATATAATATCCA
* *
9062184 GTAATTGATGTATTTCATGTGT-AAATATATAATGCAAATATAATTCAAAAAACTAAATTGATTA
322 GTAATTAATGTATTTCATGTGTAAAATATATAAAGCAAATATAATTCAAAAAACTAAATTGATTA
9062248 TATTTATGTTTTTATTATTGATTTTAAATAACTCTCAATTCAATTAATATTAAAAATATTAAAAT
387 TATTTATGTTTTTATTATTGATTTTAAATAACTCTCAATTCAATTAATATTAAAAATATTAAAAT
* * *
9062313 TTTAAAAATTTCTTAATTTGAAATATTAAATCAATTAATATATAATTAATAAATTAATAAATAAT
452 TTTAAAAATTTCTTAATTTAAAAAATTAAATCAATCAATATATAATTAATAAATTAATAAATAAT
*
9062378 ATAA-TAGCAATTATAAAATAGTTGAGTCTCTAATTAATTATTTGATACATTTATATTTGATTAA
517 ATAATTA-CAATTATAAAATAGTTAAGTCTCTAATTAATTATTTGATACATTTATATTTGATTAA
* *
9062442 ATATAGTAGCCATTTGAGTAATTGATGTATTTCATGATGTATGTATATATATAAAGCAAATATAT
581 ATAGAGTAGCCATTTGAGTAATTGATGTATTTCATGATGTATGTAAATATATAAAGCAAATATAT
* * * *
9062507 CAAATTAATTCTTCATAATTAAATTAATGGAGTAAAATATTTTATGAATTTATATTTTATTGATA
646 CAAATTAATTCTCCATAATTAAATTAATGGAATAAAATATTTTATGAATTTATATTTGATTAATA
*
9062572 AATTTATATTTCATTAAATATGATTTCATTTTATTT
711 AATTTATATTTCATTAAATATGATTTCATTTGATTT
9062608 CATTTGATAA
Statistics
Matches: 693, Mismatches: 44, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
806 116 0.17
808 1 0.00
809 1 0.00
812 2 0.00
813 260 0.38
814 192 0.28
815 11 0.02
817 2 0.00
819 108 0.16
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (810 bp):
CTTAAAATATTGATATGTAGATGATTTTAAAAATCATCACACGACATCTAAAAAATGCATTTTAT
ATTATTTAATACATTTTTAATTTAAAAATAATTCAAAAAACTAAATTGATTATATTAGTTTTTAT
TATTAACTTTAAATCACTCTCAATTCAATTCATACTAAAAGTATTAAAATTTTAAAATTTTCTTA
ATTTGACAAATTAAATCAATCAATCAATAATTAATAAATTAATAAATACTACAATTACAATTATA
AAATAATTGATTCTCTAATCAATTATTTCAAAATTTTATATTTGATTAAATATAATATCCAGTAA
TTAATGTATTTCATGTGTAAAATATATAAAGCAAATATAATTCAAAAAACTAAATTGATTATATT
TATGTTTTTATTATTGATTTTAAATAACTCTCAATTCAATTAATATTAAAAATATTAAAATTTTA
AAAATTTCTTAATTTAAAAAATTAAATCAATCAATATATAATTAATAAATTAATAAATAATATAA
TTACAATTATAAAATAGTTAAGTCTCTAATTAATTATTTGATACATTTATATTTGATTAAATAGA
GTAGCCATTTGAGTAATTGATGTATTTCATGATGTATGTAAATATATAAAGCAAATATATCAAAT
TAATTCTCCATAATTAAATTAATGGAATAAAATATTTTATGAATTTATATTTGATTAATAAATTT
ATATTTCATTAAATATGATTTCATTTGATTTTCTTATATAAATATATAAAAGCCAAAGCTTTTGG
CAAAAATGGAAAAAAATCTTATGTGAACAA
Found at i:9063076 original size:653 final size:663
Alignment explanation
Indices: 9062246--9063573 Score: 1770
Period size: 648 Copynumber: 2.0 Consensus size: 663
9062236 CTAAATTGAT
* * * *
9062246 TATATTTATGTTTTTATTATTGATTTTAAATAACTCTCAATTCAATTAATATTAAAAATATTAAA
1 TATATTTATGTTTTTATTATTGACTTTAAATAACTCTAAATTCAATTAATATCAAAAATATAAAA
*
9062311 ATTTTAAAAATTTCTTAATTTGAAATATTAAATCAATTAATATATAATTAATAAATTAATAAATA
66 ATTTTAAAAATTTCTTAATTTGAAATATTAAATCAATCAATATATAATTAATAAATTAATAAATA
* * *
9062376 ATATAATAGCAATTATAAAATAGTTGAGTCTCTAATTAATTATTTGATACATTTATATTTGATTA
131 ATACAATAGCAATTATAAAATAATTGAGTCTCTAATCAATTATTTGATACATTTATATTTGATTA
* * *
9062441 AATATAGTAGCCATTTGAGTAATTGATGTATTTCATGATGTATGTATATATATAAAGCAAATATA
196 AATATAGTAGCCATTTGAGTAATTGATATATTTCATG-TGTA---A-ATATAGAAAACAAATATA
* * * *
9062506 TCAAATTAATTCTTCATAATTAAATTAATGGAGTAAAATATTTTATGAATTTATATTTTATTGAT
256 TCAAATTAATTCTCCATAATTAAATTAATGAAATAAAATATTTTATGAATTTATATTTGATTGAT
9062571 AAATTTATATTTCATTAAATATGATTTCATTT-T-AT-T-T-CA-TTTG-A-TAAAATATTAAT-
321 AAATTTATATTTCATTAAATATGATTTCATTTGTAATATATGCACTTTGTATTAAAATATTAATG
* *
9062627 C-CGTGTTGATTTAATTTTG-TAACATTT-TA-TAATTT-T-AT-TT--TTTA-ATATTAATGCA
386 CAC-T-TGGATTTAA-TTAGATAACATTTGTATTAATTTATAATCTTAATTTAGATATTAATGCA
*
9062682 TGTTGATTTAATTAAAATTCAATTTGTTTTATTGTCATTATTAAATACAATAAATTTAATTTGTT
448 TGTTGATTTAATTAAAATTCAATTTGTTTTATTGCCATTATTAAATACAATAAATTTAATTTGTT
* * * *
9062747 TTATTGTTCTAAATTAAGGAATCTCTAAATGTTAATGGCAGAATAAAATATTTTAATATTAATCA
513 TTATTGTTCTAAATTAAGG-ATCTCTAAATATTAATGACAGAATAAAATATTTCAATATCAATCA
* *
9062812 ACTTGTCATTGGTAGACCATTATTCACTTACAAGTTTTATTATTTCAATATTAACATTCAT-ATT
577 ACTTGCCATTGGTAGACCATTATTCACTCACAAGTTTTATTATTTCAATATTAACATTCATAATT
9062876 T-AAATTATCTTATTAATCGAC
642 TAAAATTATCTTATTAATCGAC
* * *
9062897 TATATTTATGTTTTTATTATTGACTTTAAATTACTCTAAATTCAATTCATATCAAAAGTATAAAA
1 TATATTTATGTTTTTATTATTGACTTTAAATAACTCTAAATTCAATTAATATCAAAAATATAAAA
9062962 ATTTT-AAAATTTCTTAATTTGACAA-ATT-AATCAATCAATATATAATTAATTAATAATTTAAT
66 ATTTTAAAAATTTCTTAATTTGA-AATATTAAATCAATCAATATATAATTAA-T-A-AA-TTAAT
* * * *
9063024 AAATACTACAATTA-CAATTATAAAATAATTGATTCTTTAATCAATTATTTGATATATTTATATT
126 AAATAATACAA-TAGCAATTATAAAATAATTGAGTCTCTAATCAATTATTTGATACATTTATATT
*
9063088 TGATTAAATATAGTATCCATTTGAGTAATTGATATATTTCATGTGTAAATATAGAAAACAAATAT
190 TGATTAAATATAGTAGCCATTTGAGTAATTGATATATTTCATGTGTAAATATAGAAAACAAATAT
*
9063153 ATCAAATTAATTCTCCATAATTAAATTAATGAAATAAAATATTTTATTAATTTATATTTGATTGA
255 ATCAAATTAATTCTCCATAATTAAATTAATGAAATAAAATATTTTATGAATTTATATTTGATTGA
*
9063218 TAGATTTATATTTCATTAAATATGATTTCATTTGGTAAAATACTAATGCACGTTTGATTTTATTT
320 TAAATTTATATTTCATTAAATATGATTTCATTT-GT--AATA-T-ATGCAC-TTTG----TA--T
* ** **
9063283 GGTAAAATATTAATGCACTTGGATTTTATTAGATTTCATTTGTATTGCTTTATAATCTTAAAATT
373 --TAAAATATTAATGCACTTGGATTTAATTAGATAACATTTGTATTAATTTATAATCTT--AATT
* * *
9063348 TAGATATTAATGTATGTTGATTTAATTAAAATTTAATTTGTTTTATTGCCATTATTAGATACAAT
434 TAGATATTAATGCATGTTGATTTAATTAAAATTCAATTTGTTTTATTGCCATTATTAAATACAAT
*
9063413 AAATTTAATTTGTTTTATTGTTCTAAATTAAGGATCTTTAAATATTAATGACAGAATAAAATATT
499 AAATTTAATTTGTTTTATTGTTCTAAATTAAGGATCTCTAAATATTAATGACAGAATAAAATATT
* * * *
9063478 TCAATATCAATCAACTTGCCATTGTTAGATCATTATTCACTCATAATTTTTATTATTTCAATATT
564 TCAATATCAATCAACTTGCCATTGGTAGACCATTATTCACTCACAAGTTTTATTATTTCAATATT
*
9063543 AACTTTCATAATTTAAAATTATCTTATTAAT
629 AACATTCATAATTTAAAATTATCTTATTAAT
9063574 TAACTTATAA
Statistics
Matches: 586, Mismatches: 48, Indels: 56
0.85 0.07 0.08
Matches are distributed among these distances:
648 107 0.18
649 21 0.04
650 22 0.04
651 66 0.11
652 6 0.01
653 102 0.17
654 2 0.00
655 1 0.00
657 1 0.00
658 2 0.00
660 4 0.01
665 1 0.00
669 3 0.01
670 25 0.04
671 4 0.01
672 5 0.01
673 1 0.00
674 2 0.00
675 2 0.00
679 98 0.17
680 95 0.16
681 16 0.03
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (663 bp):
TATATTTATGTTTTTATTATTGACTTTAAATAACTCTAAATTCAATTAATATCAAAAATATAAAA
ATTTTAAAAATTTCTTAATTTGAAATATTAAATCAATCAATATATAATTAATAAATTAATAAATA
ATACAATAGCAATTATAAAATAATTGAGTCTCTAATCAATTATTTGATACATTTATATTTGATTA
AATATAGTAGCCATTTGAGTAATTGATATATTTCATGTGTAAATATAGAAAACAAATATATCAAA
TTAATTCTCCATAATTAAATTAATGAAATAAAATATTTTATGAATTTATATTTGATTGATAAATT
TATATTTCATTAAATATGATTTCATTTGTAATATATGCACTTTGTATTAAAATATTAATGCACTT
GGATTTAATTAGATAACATTTGTATTAATTTATAATCTTAATTTAGATATTAATGCATGTTGATT
TAATTAAAATTCAATTTGTTTTATTGCCATTATTAAATACAATAAATTTAATTTGTTTTATTGTT
CTAAATTAAGGATCTCTAAATATTAATGACAGAATAAAATATTTCAATATCAATCAACTTGCCAT
TGGTAGACCATTATTCACTCACAAGTTTTATTATTTCAATATTAACATTCATAATTTAAAATTAT
CTTATTAATCGAC
Found at i:9063311 original size:31 final size:32
Alignment explanation
Indices: 9063241--9063312 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
9063231 CATTAAATAT
* *
9063241 GATTTCATTTGGTAAAATACTAATGCACGTTT
1 GATTTTATTTGGTAAAATACTAATGCACGTTG
*
9063273 GATTTTATTTGGTAAAATATTAATGCAC-TTG
1 GATTTTATTTGGTAAAATACTAATGCACGTTG
9063304 GATTTTATT
1 GATTTTATT
9063313 AGATTTCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
31 11 0.30
32 26 0.70
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (32 bp):
GATTTTATTTGGTAAAATACTAATGCACGTTG
Found at i:9065482 original size:22 final size:22
Alignment explanation
Indices: 9065452--9065505 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
9065442 AATATGTATG
* * *
9065452 TATGAGCTCTCTGGTGTGCTCT
1 TATGGGCTCTCTAGTGTACTCT
9065474 TATGGGCTCTCTAGTGTACTCT
1 TATGGGCTCTCTAGTGTACTCT
* *
9065496 CATAGGCTCT
1 TATGGGCTCT
9065506 AAGTGTGGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (22 bp):
TATGGGCTCTCTAGTGTACTCT
Found at i:9065489 original size:487 final size:487
Alignment explanation
Indices: 9064517--9065491 Score: 1812
Period size: 487 Copynumber: 2.0 Consensus size: 487
9064507 CTAGATTATA
9064517 ATTCAAAGGTTGTCAAATTATAAATTATTATTTTATTTATTTCTTTACTTCTATCTGTGAAATCT
1 ATTCAAAGGTTGTCAAATTATAAATTATTATTTTATTTATTTCTTTACTTCTATCTGTGAAATCT
* *
9064582 ATTGGCTTATAAAATAAAATGATACTTACTTCAAAGATAGCAAGAAATACTGGAGAAATAATTGT
66 ATTGGCTCATAAAATAAAATGATACTTACTTCAAAGATAGCAAGAAATACCGGAGAAATAATTGT
*
9064647 TGCATCTTTATTTCAACAACTTATGAAAAAAGCTTCCATAAAAAAAGTTTGTATACGAGATTGAT
131 TGCATCTTTATTTCAACAACTTATGAAAAAAGCTCCCATAAAAAAAGTTTGTATACGAGATTGAT
9064712 TTTAAAGATGAAAATTTTAATTTCTTAAAATCGAAAACATTATTATCTTTTGTTTAGAGATTATT
196 TTTAAAGATGAAAATTTTAATTTCTTAAAATCGAAAACATTATTATCTTTTGTTTAGAGATTATT
9064777 TGGATTTAATAAATTATAGTTTGAGTTTTTTTTTTTAAATGGATGATAATTGTGTTGAGATATGT
261 TGGATTTAATAAATTATAGTTTGAGTTTTTTTTTTTAAATGGATGATAATTGTGTTGAGATATGT
9064842 TTCACACGTGAGTAAAAATTTCACATAATTAAAAAATCTGAATTAAATGTCTTATATATGCATGA
326 TTCACACGTGAGTAAAAATTTCACATAATTAAAAAATCTGAATTAAATGTCTTATATATGCATGA
*
9064907 AGGACCCAAGAACCTAATAGCTTAAGCTTTTGGGCTCAAGTAATGTTAATATGCATGTATGGGCT
391 AGGACCCAAGAACCTAATAGCTTAAGCTTTTGGGCTCAAGTAATGTTAATATGCATGTATGAGCT
9064972 CTCTGCTGTGCTCTTATGGGCTCTTCTAGTGT
456 CTCTGCTGTGCTCTTATGGGCTCTTCTAGTGT
9065004 ATTCAACA-GTTGTCAAATTATAAATTATTATTTTATTTATTTCTTTAAC-TCTATCTGTGAAAT
1 ATTCAA-AGGTTGTCAAATTATAAATTATTATTTTATTTATTTCTTT-ACTTCTATCTGTGAAAT
*
9065067 CTATTGGCTCATAAAATAAAATGATACTTACTTCAAAGATTGCAAGAAATACCGGAGAAATAATT
64 CTATTGGCTCATAAAATAAAATGATACTTACTTCAAAGATAGCAAGAAATACCGGAGAAATAATT
* *
9065132 GTTGCATCTTTGTTTCAACAACTTATGAAAAAATCTCCCATAAAAAAAGTTTGTATACGAGATTG
129 GTTGCATCTTTATTTCAACAACTTATGAAAAAAGCTCCCATAAAAAAAGTTTGTATACGAGATTG
*
9065197 ATTTTAAAGATGAAAATTTTAATTTCTTAAAATCGAAAATATTATTATCTTTTGTTTAGAGATTA
194 ATTTTAAAGATGAAAATTTTAATTTCTTAAAATCGAAAACATTATTATCTTTTGTTTAGAGATTA
9065262 TTTGGATTTAATAAATTATAGTTTGAGTTTTTTTTTTTAAATGGATGATAATTGTGTTGAGATAT
259 TTTGGATTTAATAAATTATAGTTTGAGTTTTTTTTTTTAAATGGATGATAATTGTGTTGAGATAT
9065327 GTTTCACACGTGAGTAAAAAATTTCACATAATTAAAAAATCTGAATTAAATGTCTTATATATGCA
324 GTTTCACACGTGAGT-AAAAATTTCACATAATTAAAAAATCTGAATTAAATGTCTTATATATGCA
*
9065392 TGAAGGACCCAAGAACCTAATAGCTTAAGCTTTTGGGCTCAAGTAATGTTAATATGTATGTATGA
388 TGAAGGACCCAAGAACCTAATAGCTTAAGCTTTTGGGCTCAAGTAATGTTAATATGCATGTATGA
*
9065457 GCTCTCTGGTGTGCTCTTATGGGCTC-TCTAGTGT
453 GCTCTCTGCTGTGCTCTTATGGGCTCTTCTAGTGT
9065491 A
1 A
9065492 CTCTCATAGG
Statistics
Matches: 475, Mismatches: 10, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
487 335 0.71
488 140 0.29
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (487 bp):
ATTCAAAGGTTGTCAAATTATAAATTATTATTTTATTTATTTCTTTACTTCTATCTGTGAAATCT
ATTGGCTCATAAAATAAAATGATACTTACTTCAAAGATAGCAAGAAATACCGGAGAAATAATTGT
TGCATCTTTATTTCAACAACTTATGAAAAAAGCTCCCATAAAAAAAGTTTGTATACGAGATTGAT
TTTAAAGATGAAAATTTTAATTTCTTAAAATCGAAAACATTATTATCTTTTGTTTAGAGATTATT
TGGATTTAATAAATTATAGTTTGAGTTTTTTTTTTTAAATGGATGATAATTGTGTTGAGATATGT
TTCACACGTGAGTAAAAATTTCACATAATTAAAAAATCTGAATTAAATGTCTTATATATGCATGA
AGGACCCAAGAACCTAATAGCTTAAGCTTTTGGGCTCAAGTAATGTTAATATGCATGTATGAGCT
CTCTGCTGTGCTCTTATGGGCTCTTCTAGTGT
Found at i:9067926 original size:2 final size:2
Alignment explanation
Indices: 9067921--9067945 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9067911 CTTTTTTCCG
9067921 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 T
9067946 TTTTTTTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9068754 original size:26 final size:26
Alignment explanation
Indices: 9068707--9068768 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
9068697 ATTTAAAAAT
*
9068707 TATA-AAAT-AAATTTGTTAATTTAA
1 TATATAAATAAAATTTATTAATTTAA
9068731 TATAATAAATAAAATTTATT-ATTTAA
1 TAT-ATAAATAAAATTTATTAATTTAA
*
9068757 TATATTAATAAA
1 TATATAAATAAA
9068769 TAATTTGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 3 0.09
25 9 0.27
26 13 0.39
27 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TATATAAATAAAATTTATTAATTTAA
Found at i:9068773 original size:27 final size:27
Alignment explanation
Indices: 9068695--9068774 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 27
9068685 TTACATTTTT
* *
9068695 TTATTTAA-AAATT-ATAAAATAAATTTG
1 TTATTTAATATATTAAT-AAAT-AATTTA
*
9068722 TTAATTTAATATAATAA-ATAA-AATTTA
1 TT-ATTTAATATATTAATA-AATAATTTA
9068749 TTATTTAATATATTAATAAATAATTT
1 TTATTTAATATATTAATAAATAATTT
9068775 GAATAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
26 15 0.35
27 15 0.35
28 7 0.16
29 5 0.12
30 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (27 bp):
TTATTTAATATATTAATAAATAATTTA
Found at i:9068830 original size:17 final size:18
Alignment explanation
Indices: 9068796--9068830 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9068786 ATTATTTATT
9068796 AATAAAATTTATATAATG
1 AATAAAATTTATATAATG
*
9068814 AATAAATTTTATA-AATG
1 AATAAAATTTATATAATG
9068831 TAAAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AATAAAATTTATATAATG
Found at i:9072293 original size:16 final size:17
Alignment explanation
Indices: 9072272--9072304 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9072262 GCTATTTTTT
9072272 ATATTTA-AAAATATAA
1 ATATTTACAAAATATAA
*
9072288 ATATTTACTAAATATAA
1 ATATTTACAAAATATAA
9072305 TAATTGAGTT
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATTTACAAAATATAA
Found at i:9080229 original size:62 final size:59
Alignment explanation
Indices: 9080038--9080218 Score: 139
Period size: 64 Copynumber: 2.9 Consensus size: 59
9080028 TTCTCTGAAG
* * * * *
9080038 TTTTTTGAATGAATTTATTAAAGGTATTTTTTGTATAATATGCCTTCAATAATCCTTCCA
1 TTTTTTAAAAGAATTTATTAAAGGAATTTTTTGCATAATATGCCTTCAATAATCCTT-AA
* * * * ** * * *
9080098 TTTTTATCAAAGGAATATCAATGAAAGTAATTTTCTACCA-AAAATACCTTCAATAATGTACTCT
1 TTTTT-T-AAAAGAAT-T-TATTAAAGGAATTTT-TTGCATAATATGCCTTCAATAA--TCCT-T
9080162 AA
58 AA
*
9080164 TTTTTTAAAAGAATTTATTAAAGGCATTTTTTGCATAATATGCCTTCAATAATCC
1 TTTTTTAAAAGAATTTATTAAAGGAATTTTTTGCATAATATGCCTTCAATAATCC
9080219 CCTTAAATTT
Statistics
Matches: 89, Mismatches: 23, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
60 7 0.08
61 4 0.04
62 31 0.35
63 2 0.02
64 32 0.36
65 3 0.03
66 9 0.10
67 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (59 bp):
TTTTTTAAAAGAATTTATTAAAGGAATTTTTTGCATAATATGCCTTCAATAATCCTTAA
Found at i:9081057 original size:564 final size:560
Alignment explanation
Indices: 9079924--9080945 Score: 1229
Period size: 564 Copynumber: 1.8 Consensus size: 560
9079914 AATTTTTTTG
* *
9079924 GGATTATTAAAAGCATTTTTTAGTAAAAAATACCTTCAATAATCTCATAGTAAAATTTTAAAGAG
1 GGATTATTAAAAGCATCTTTTAGTAAAAAAAACCTTCAATAATCTCATAGTAAAATTTTAAAGAG
* * **
9079989 ATTATTGAAGGCGTTTTTTACTACAAATGCCTGTACTAATTCTCTGAAGTTTTTTGAATGAATTT
66 ATTATTGAAGACGTTTTTTACTACAAATGCCTGTACTAATTCTCTGAAATTTTTTGAAAAAATTT
* ** * *
9080054 ATTAAAGGTATTTTTTGTATAATATGCCTTCAATAATCCTTCCATTTTTATCAAAGGAATATCAA
131 ATTAAAGGTATTTTTTGCATAATACACCTTCAATAATCCTTCCATTTTTATCAAAGAAACATCAA
* *
9080119 TGAAAGTAATTTTCTACCAAAAATACCTTCAATAATGTACTCTAATTTTTTAAAAGAATTTATTA
196 CGAAAGTAATTTTCTACCAAAAATACCTTCAATAATGTACTCCAATTTTTTAAAAGAATTTATTA
** * *
9080184 AAGGCATTTTTTGCATAATATGCCTTCAATAATCCCCTTAAATTTTAACAAATAGATTTTTGAAG
261 AAGGCATTTTTTGCATAATACACCTTCAATAATCCCATTAAATTTTAACAAAGAGATTTTTGAAG
** *
9080249 GTGTTTTTGACTAAAACCACTTTCAATAATCTCTTTTTCAAAATTAAAAAAAAAATTTATTGGAG
326 GCATTTTTGACTAAAACCACTTTCAATAATCTCTTCTTCAAAATTAAAAAAAAAATTTATTGGAG
** ** *
9080314 GCATTGTTTTATAAAACGCCTTTTATAATCCTTGTAATATTTTTGGACAAGATTATTGAAGGCAT
391 GCATTGTTTTATAAAACGCCTTCAATAATCCTCATAATATTTTTGGACAAGATTATTGAAAGCAT
* ** ** *
9080379 TTTTGACATAAAATGCCTTCAATAAACAAGGTTTTGAAAAAATAGGTCGAATTATTGAAGGCATT
456 TTTTGACAAAAAATGCCTTCAATAAACAACCTTTT-AAAAAATAGGTAAAATTATTAAAGGCATT
* * * * ** *
9080444 TAAAAAAAATACCTTCAATAAATTTCTTTTAAATTTTTTTT
520 TAAAAAAAACACCTTCAATAAATTACTGTCAAATTTTAATA
* *
9080485 GAGATTATTAAATGCATCTTTTAG-AAAAAAAACACTTTCAATAATCTCGTAGTAAAATTTTAAA
1 G-GATTATTAAAAGCATCTTTTAGTAAAAAAAAC-C-TTCAATAATCTCATAGTAAAATTTTAAA
* * * * *
9080549 GGGATTATTGAAGATG-TTTTTACTACGAATGCCT-TCACTAATTCTTTTAAATTTTTTGAAAAA
63 GAGATTATTGAAGACGTTTTTTACTACAAATGCCTGT-ACTAATTCTCTGAAATTTTTTGAAAAA
* * * *
9080612 ATTTATTAAAGGTTTTTTTTTGCATAATACACCTTTAATAATTCTTTCCATTTTTATTAGAA-AA
127 ATTTATTAAAGG-TATTTTTTGCATAATACACCTTCAATAA-TCCTTCCATTTTTATCA-AAGAA
* * * * * * *
9080676 ACATCAGCGAAGGTAATTTTTTACTAAAAATGCCTTCAATAATTTACTCCAATTTTTT-AGAGTA
189 ACATCAACGAAAGTAATTTTCTACCAAAAATACCTTCAATAATGTACTCCAATTTTTTAAAAG-A
* *
9080740 ATTTATTGAAGGCATTTTTTGCATAATACACCTTCAATAATCCTATTAAATTTTAAC-AAGAGAT
253 ATTTATTAAAGGCATTTTTTGCATAATACACCTTCAATAATCCCATTAAATTTTAACAAAGAGAT
* ** **
9080804 TTTTGAAGGCATTTTTGACTAACAACGC-CTTT-AATAATCTGC-TCTTCACAATTTTTAAAGGA
318 TTTTGAAGGCATTTTTGACTAA-AAC-CACTTTCAATAATCT-CTTCTTCA-AAATTAAAAAAAA
* * *
9080866 AA-TTATTGGAGGCATTTTTTTTATAAAATGCCTTCAATAATCCTCATAATATTTTTGTAC-AGA
379 AATTTATTGGAGGCA-TTGTTTTATAAAACGCCTTCAATAATCCTCATAATATTTTTGGACAAG-
*
9080929 ATTATTGAAAGTATTTT
442 ATTATTGAAAGCATTTT
9080946 CTAAAAGAAA
Statistics
Matches: 393, Mismatches: 54, Indels: 25
0.83 0.11 0.05
Matches are distributed among these distances:
561 10 0.03
562 72 0.18
563 119 0.30
564 189 0.48
565 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.40
Consensus pattern (560 bp):
GGATTATTAAAAGCATCTTTTAGTAAAAAAAACCTTCAATAATCTCATAGTAAAATTTTAAAGAG
ATTATTGAAGACGTTTTTTACTACAAATGCCTGTACTAATTCTCTGAAATTTTTTGAAAAAATTT
ATTAAAGGTATTTTTTGCATAATACACCTTCAATAATCCTTCCATTTTTATCAAAGAAACATCAA
CGAAAGTAATTTTCTACCAAAAATACCTTCAATAATGTACTCCAATTTTTTAAAAGAATTTATTA
AAGGCATTTTTTGCATAATACACCTTCAATAATCCCATTAAATTTTAACAAAGAGATTTTTGAAG
GCATTTTTGACTAAAACCACTTTCAATAATCTCTTCTTCAAAATTAAAAAAAAAATTTATTGGAG
GCATTGTTTTATAAAACGCCTTCAATAATCCTCATAATATTTTTGGACAAGATTATTGAAAGCAT
TTTTGACAAAAAATGCCTTCAATAAACAACCTTTTAAAAAATAGGTAAAATTATTAAAGGCATTT
AAAAAAAACACCTTCAATAAATTACTGTCAAATTTTAATA
Found at i:9081498 original size:28 final size:28
Alignment explanation
Indices: 9081457--9081528 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
9081447 TTAAATATTG
* *
9081457 TGGTTTACTAAATGGTATTGTATGATAT
1 TGGTTTGCTAAATGGTATTGTATAATAT
*
9081485 TGTTTTGCTAAATGGTATTGTATAATAT
1 TGGTTTGCTAAATGGTATTGTATAATAT
9081513 TGGTTTGCTAAATGGT
1 TGGTTTGCTAAATGGT
9081529 TTGCTGAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.47
Consensus pattern (28 bp):
TGGTTTGCTAAATGGTATTGTATAATAT
Found at i:9081530 original size:12 final size:12
Alignment explanation
Indices: 9081488--9081590 Score: 71
Period size: 12 Copynumber: 8.1 Consensus size: 12
9081478 ATGATATTGT
9081488 TTTGCTAAATGG
1 TTTGCTAAATGG
*
9081500 TATTGTATAATATTGG
1 T-TTG-CTAA-A-TGG
9081516 TTTGCTAAATGG
1 TTTGCTAAATGG
*
9081528 TTTGCTGAATGG
1 TTTGCTAAATGG
** *
9081540 TGTTTTTGAATGG
1 T-TTGCTAAATGG
* *
9081553 TTTCCTGAATGG
1 TTTGCTAAATGG
* *
9081565 TGTTTCTGAATGG
1 T-TTGCTAAATGG
9081578 TTTGCTAAATGG
1 TTTGCTAAATGG
9081590 T
1 T
9081591 GTTTCTGAAC
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
12 36 0.48
13 25 0.33
14 6 0.08
15 4 0.05
16 4 0.05
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.46
Consensus pattern (12 bp):
TTTGCTAAATGG
Found at i:9081551 original size:13 final size:13
Alignment explanation
Indices: 9081523--9081599 Score: 88
Period size: 13 Copynumber: 6.2 Consensus size: 13
9081513 TGGTTTGCTA
*
9081523 AATGGT-TTGCTG
1 AATGGTGTTTCTG
*
9081535 AATGGTGTTTTTG
1 AATGGTGTTTCTG
*
9081548 AATGGT-TTCCTG
1 AATGGTGTTTCTG
9081560 AATGGTGTTTCTG
1 AATGGTGTTTCTG
* *
9081573 AATGGT-TTGCTA
1 AATGGTGTTTCTG
9081585 AATGGTGTTTCTG
1 AATGGTGTTTCTG
9081598 AA
1 AA
9081600 CACATTGCTG
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
12 26 0.49
13 27 0.51
ACGTcount: A:0.19, C:0.08, G:0.29, T:0.44
Consensus pattern (13 bp):
AATGGTGTTTCTG
Found at i:9081560 original size:25 final size:25
Alignment explanation
Indices: 9081523--9081599 Score: 127
Period size: 25 Copynumber: 3.1 Consensus size: 25
9081513 TGGTTTGCTA
*
9081523 AATGGTTTGCTGAATGGTGTTTTTG
1 AATGGTTTGCTGAATGGTGTTTCTG
*
9081548 AATGGTTTCCTGAATGGTGTTTCTG
1 AATGGTTTGCTGAATGGTGTTTCTG
*
9081573 AATGGTTTGCTAAATGGTGTTTCTG
1 AATGGTTTGCTGAATGGTGTTTCTG
9081598 AA
1 AA
9081600 CACATTGCTG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.19, C:0.08, G:0.29, T:0.44
Consensus pattern (25 bp):
AATGGTTTGCTGAATGGTGTTTCTG
Found at i:9081607 original size:25 final size:25
Alignment explanation
Indices: 9081560--9081608 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9081550 TGGTTTCCTG
****
9081560 AATGGTGTTTCTGAATGGTTTGCTA
1 AATGGTGTTTCTGAACACATTGCTA
9081585 AATGGTGTTTCTGAACACATTGCT
1 AATGGTGTTTCTGAACACATTGCT
9081609 GATTAGTTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.41
Consensus pattern (25 bp):
AATGGTGTTTCTGAACACATTGCTA
Found at i:9083909 original size:116 final size:114
Alignment explanation
Indices: 9083788--9083998 Score: 271
Period size: 116 Copynumber: 1.8 Consensus size: 114
9083778 AAACTCATGC
* * *
9083788 TTTTA-TACATAAAAAATTGATAATTTCAACTTTTCCTCAAAAAATTTTTTTTTGAAAAATTTAT
1 TTTTATTACAAAAAAAATTGACAATTTCAACTTTTCCT-AAAAAATATTTTTTTGAAAAATTTAT
* *
9083852 TTTTCAAGGAAAATTGACATTTTCAACATTTTCTTAAAAACGTTTTTGACAA
65 TTCT-AAGGAAAATTGACACTTTCAAC-TTTTCTTAAAAACGTTTTTGACAA
** * * * *
9083904 TTTTATTTTAAAAAAAATTGACATTTTCAACTTTTTCTTAAAAATATTTTTTTGAAAATTTTATT
1 TTTTATTACAAAAAAAATTGACAATTTCAACTTTTCCTAAAAAATATTTTTTTGAAAAATTTATT
* *
9083969 TCTAATGAAAATTGATACTTTCAACTTTTC
66 TCTAAGGAAAATTGACACTTTCAACTTTTC
9083999 CTCAAAAAAT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
114 5 0.06
115 19 0.23
116 31 0.38
117 26 0.32
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.47
Consensus pattern (114 bp):
TTTTATTACAAAAAAAATTGACAATTTCAACTTTTCCTAAAAAATATTTTTTTGAAAAATTTATT
TCTAAGGAAAATTGACACTTTCAACTTTTCTTAAAAACGTTTTTGACAA
Found at i:9083934 original size:117 final size:118
Alignment explanation
Indices: 9083798--9084204 Score: 326
Period size: 127 Copynumber: 3.4 Consensus size: 118
9083788 TTTTATACAT
* * *
9083798 AAAAAATTGATAATTTCAACTTTTCCTCAAAAAATTTTTTTTTGAAAAATTTATTTTTCAAGGAA
1 AAAAAATTGACAATTTCAACTTTTCCT-AAAAAATATTTTTTTGAAAAATTTATTTCT-AAGGAA
* * * *
9083863 AATTGACATTTTCAACATTTT-CT-TAAAAACG-TTTTTGACAATTTTA-TTTTAA
64 AATTGACACTTTCAAC-TTTTCCTCAAAAAACGTTTTTTAAAAATTTTATTTTTAA
* * * * *
9083915 AAAAAATTGACATTTTCAACTTTTTCTTAAAAATATTTTTTTGAAAATTTTATTTCTAATGAAAA
1 AAAAAATTGACAATTTCAACTTTTCCTAAAAAATATTTTTTTGAAAAATTTATTTCTAAGGAAAA
* *
9083980 TTGATACTTTCAACTTTTCCTCAAAAAATGTTTTTTAAAAATTTTATTTTTAA
66 TTGACACTTTCAACTTTTCCTCAAAAAACGTTTTTTAAAAATTTTATTTTTAA
* * * * * *
9084033 GAAAAATTGAGAAAATTGATACTTTTAACTTTTTCTCAGAAAACA-TTTTTTGAAAATTTTATTT
1 AAAAAATT--GACAATT--T-C----AACTTTTCCT-AAAAAATATTTTTTTGAAAAATTTATTT
* * * * * ** *
9084097 TTAAGGAAAATTGATAATTTCAATTTTTTCTCCAAAAATATATTTTTT-AAAATTTTATTTTCAA
56 CTAAGGAAAATTGACACTTTCAACTTTTCCT-CAAAAA-ACGTTTTTTAAAAATTTTATTTTTAA
* * * * *
9084161 GAAAAATTGATACTTTCAATTTTTCCT-CAAAATA-TTTTTTGAAA
1 AAAAAATTGACAATTTCAACTTTTCCTAAAAAATATTTTTTTGAAA
9084205 CTTTTTTTTT
Statistics
Matches: 241, Mismatches: 33, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
114 4 0.02
115 21 0.09
116 32 0.13
117 52 0.22
118 13 0.05
119 8 0.03
120 5 0.02
122 1 0.00
123 2 0.01
124 1 0.00
126 5 0.02
127 55 0.23
128 34 0.14
129 8 0.03
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (118 bp):
AAAAAATTGACAATTTCAACTTTTCCTAAAAAATATTTTTTTGAAAAATTTATTTCTAAGGAAAA
TTGACACTTTCAACTTTTCCTCAAAAAACGTTTTTTAAAAATTTTATTTTTAA
Found at i:9083995 original size:59 final size:60
Alignment explanation
Indices: 9083800--9084214 Score: 363
Period size: 59 Copynumber: 6.9 Consensus size: 60
9083790 TTATACATAA
* * * * *
9083800 AAAATTGATAATTTCAACTTTTCCTCAAAAAATTTTTTTTTGAAAAATTTATTTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCTC-AAAAATATTTTTTTGAAAATTTTATTTTTAAAGG
* * * * ** * *
9083861 AAAATTGACATTTTCAACATTTTCT-TAAAA-ACGTTTTTGACAATTTTA-TTTTAAA-A
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAATTTTATTTTTAAAGG
* * * * *
9083917 AAAATTGACATTTTCAACTTTTTCTTAAAAATATTTTTTTGAAAATTTTATTTCT-AATG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAATTTTATTTTTAAAGG
* *
9083976 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ATGTTTTTTAAAAATTTTATTTTTAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTTTGAAAATTTTATTTTT-----AAA-
9084040 TGAG
59 -G-G
* *
9084044 AAAATTGATACTTTTAACTTTTTCTCAGAAAACA-TTTTTTGAAAATTTTATTTTT-AAGG
1 AAAATTGATACTTTCAACTTTTTCTCA-AAAATATTTTTTTGAAAATTTTATTTTTAAAGG
* * * *
9084103 AAAATTGATAATTTCAATTTTTTCTCCAAAAATATATTTTTT-AAAATTTTA-TTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCT-CAAAAATAT-TTTTTTGAAAATTTTATTTTTAAAGG
*
9084163 AAAATTGATACTTTCAA-TTTTTCCTC-AAAATA-TTTTTTGAAACTTTT-TTTTT
1 AAAATTGATACTTTCAACTTTTT-CTCAAAAATATTTTTTTGAAAATTTTATTTTT
9084215 GAAAATTTTA
Statistics
Matches: 295, Mismatches: 36, Indels: 50
0.77 0.09 0.13
Matches are distributed among these distances:
56 30 0.10
57 21 0.07
58 38 0.13
59 91 0.31
60 33 0.11
61 27 0.09
62 2 0.01
65 2 0.01
68 46 0.16
69 4 0.01
70 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.47
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAATTTTATTTTTAAAGG
Found at i:9084050 original size:68 final size:68
Alignment explanation
Indices: 9083975--9084110 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 68
9083965 TATTTCTAAT
**
9083975 GAAAATTGATACTTTCAACTTTTCCTCAAAAAATGTTTTTTAAAAATTTTATTTTTAAGAAAAAT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAAACATTTTTTAAAAATTTTATTTTTAAGAAAAAT
9084040 TGA
66 TGA
* * * * *
9084043 GAAAATTGATACTTTTAACTTTTTCTCAGAAAACATTTTTTGAAAATTTTATTTTTAAGGAAAAT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAAACATTTTTTAAAAATTTTATTTTTAAGAAAAAT
9084108 TGA
66 TGA
9084111 TAATTTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (68 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAAACATTTTTTAAAAATTTTATTTTTAAGAAAAAT
TGA
Found at i:9084066 original size:127 final size:128
Alignment explanation
Indices: 9083917--9084170 Score: 363
Period size: 127 Copynumber: 2.0 Consensus size: 128
9083907 TATTTTAAAA
* * *
9083917 AAAATTGACATTTTCAACTTTTTCTTA-AAAATATTTTTTTGAAAATTTTATTTCTAATGAAAAT
1 AAAATTGACATTTTCAACTTTTTCTCAGAAAACA-TTTTTTGAAAATTTTATTTCTAAGGAAAAT
* * *
9083981 TGATACTTTCAACTTTTCCT-CAAAAA-ATGTTTTTTAAAAATTTTATTTTTAAGAAAAATTGAG
65 TGATAATTTCAACTTTTCCTCCAAAAATATATTTTTT-AAAATTTTATTTTCAAGAAAAATTGAG
* *
9084044 AAAATTGATACTTTT-AACTTTTTCTCAGAAAACATTTTTTGAAAATTTTATTTTTAAGGAAAAT
1 AAAATTGACA-TTTTCAACTTTTTCTCAGAAAACATTTTTTGAAAATTTTATTTCTAAGGAAAAT
* *
9084108 TGATAATTTCAATTTTTTCTCCAAAAATATATTTTTTAAAATTTTATTTTCAAGAAAAATTGA
65 TGATAATTTCAACTTTTCCTCCAAAAATATATTTTTTAAAATTTTATTTTCAAGAAAAATTGA
9084171 TACTTTCAAT
Statistics
Matches: 113, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
127 65 0.58
128 40 0.35
129 8 0.07
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.46
Consensus pattern (128 bp):
AAAATTGACATTTTCAACTTTTTCTCAGAAAACATTTTTTGAAAATTTTATTTCTAAGGAAAATT
GATAATTTCAACTTTTCCTCCAAAAATATATTTTTTAAAATTTTATTTTCAAGAAAAATTGAG
Found at i:9084249 original size:95 final size:97
Alignment explanation
Indices: 9084137--9084312 Score: 293
Period size: 95 Copynumber: 1.8 Consensus size: 97
9084127 TCCAAAAATA
* *
9084137 TATTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTC-AAAATA-TTTTT
1 TATTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
* *
9084200 TGAAACTTTTTTTTTGAAAATTTTATTATTAT
66 TGAAAATTTTATTTTGAAAATTTTATTATTAT
9084232 TATTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTT
1 TATTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCCC-AAAAATATTTTT
9084297 TTGAAAATTTTATTTT
65 TTGAAAATTTTATTTT
9084313 AAGAGAATCA
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
95 50 0.68
97 6 0.08
98 18 0.24
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (97 bp):
TATTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
TGAAAATTTTATTTTGAAAATTTTATTATTAT
Found at i:9086038 original size:86 final size:86
Alignment explanation
Indices: 9085684--9086099 Score: 351
Period size: 86 Copynumber: 4.8 Consensus size: 86
9085674 AATGCAAGTT
* * * *
9085684 AAAGAAGGATCTGACATAAGTTAAAAT-CTACAACAAAATGACCTAGACT-AAACCTGAAGTCT-
1 AAAGAAGGATCTGACATAAGTTAAAATCCAAAAACAAAATGACCTGGA-TGGAACC-GAAGTCTG
*
9085746 AGAATGAATAA-TCTGGACTAAACT
64 A-AATGAATAACT-TGGACTAAACC
* * * * ** * * *
9085770 AAAAAAGGAT-TTAGCATAGGCTAAAATCCAAAAACAAAATGACCTAAATTGAACCAAAATCTGA
1 AAAGAAGGATCTGA-CATAAGTTAAAATCCAAAAACAAAATGACCTGGATGGAACCGAAGTCTGA
* * * *
9085834 AACGAGT-ACTTAGACTAAGCC
65 AATGAATAACTTGGACTAAACC
* * * * * * *
9085855 GAAGAAAGATTTGACATAAGTTAAAATCCAAAAACAAAATGACCTGGATGAAACCAAAGCCTAAA
1 AAAGAAGGATCTGACATAAGTTAAAATCCAAAAACAAAATGACCTGGATGGAACCGAAGTCTGAA
* *
9085920 ATGAATAATTTGGACTAAACT
66 ATGAATAACTTGGACTAAACC
* * * *
9085941 AGAGAAAGATCTGACATAAGTTGAAATCCAAAAACAAAATGACCTGGATGGAATCGAAGTCTGAA
1 AAAGAAGGATCTGACATAAGTTAAAATCCAAAAACAAAATGACCTGGATGGAACCGAAGTCTGAA
* *
9086006 ATGAATAACTTGGATTAAGCC
66 ATGAATAACTTGGACTAAACC
* ** *** * * *
9086027 AAAGAAGGATCT-AGCATATGCCAAAATTTGAAAATAGAATGACCTGGATTGAACCGAAGTCTGA
1 AAAGAAGGATCTGA-CATAAGTTAAAATCCAAAAACAAAATGACCTGGATGGAACCGAAGTCTGA
9086091 AATGAATAA
65 AATGAATAA
9086100 TCTAGACTAA
Statistics
Matches: 262, Mismatches: 60, Indels: 16
0.78 0.18 0.05
Matches are distributed among these distances:
85 65 0.25
86 175 0.67
87 22 0.08
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (86 bp):
AAAGAAGGATCTGACATAAGTTAAAATCCAAAAACAAAATGACCTGGATGGAACCGAAGTCTGAA
ATGAATAACTTGGACTAAACC
Found at i:9096577 original size:4 final size:4
Alignment explanation
Indices: 9096568--9096599 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
9096558 GAATAAAGAG
9096568 AAAT AAAT AAAT AAAT AAAT AAAT AAACT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAA
9096600 ACATCATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:9106416 original size:24 final size:24
Alignment explanation
Indices: 9106384--9106435 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9106374 CCAGACTTGA
9106384 AGACCAGAACACAGATTCAGCCAG
1 AGACCAGAACACAGATTCAGCCAG
* * *
9106408 AGACGAGAACACAGATTTAGCTAG
1 AGACCAGAACACAGATTCAGCCAG
9106432 AGAC
1 AGAC
9106436 AAAGCAAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.23, G:0.23, T:0.12
Consensus pattern (24 bp):
AGACCAGAACACAGATTCAGCCAG
Found at i:9108020 original size:30 final size:30
Alignment explanation
Indices: 9107891--9108020 Score: 115
Period size: 30 Copynumber: 4.4 Consensus size: 30
9107881 TTTAAGGAAA
*
9107891 GTTTAGGGTTTTGATTTTAAGGTTTA--GG
1 GTTTAGGGTTTTGATTTTAGGGTTTAGGGG
* * **
9107919 GATTAGGTTTTTGATTTTAGGGTTTAAAAGG
1 GTTTAGGGTTTTGATTTTAGGGTTT-AGGGG
* * *
9107950 GTTTAAGGTTTT-AGTTTTACGATTT-GGAGG
1 GTTTAGGGTTTTGA-TTTTAGGGTTTAGG-GG
* *
9107980 ATTTAAGGTTTTGATTTTAGGGTTTAGGGG
1 GTTTAGGGTTTTGATTTTAGGGTTTAGGGG
9108010 GTTTAGGGTTT
1 GTTTAGGGTTT
9108021 AGAAATTTAG
Statistics
Matches: 80, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
28 22 0.28
29 1 0.01
30 34 0.43
31 23 0.29
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.48
Consensus pattern (30 bp):
GTTTAGGGTTTTGATTTTAGGGTTTAGGGG
Found at i:9108066 original size:72 final size:75
Alignment explanation
Indices: 9107972--9108121 Score: 202
Period size: 72 Copynumber: 2.0 Consensus size: 75
9107962 AGTTTTACGA
* *
9107972 TTTGGAGGATTTAAGGTTTTGATTTTAGGGTTTAGG-GGGTTTAGGGTTTAGAAATTTA-GG-TT
1 TTTGGAGGATTTAAGGTGTTGATTTCAGGGTTT-GGAGGGTTTAGGGTTTAG-AATTTAGGGTTT
9108034 TG-ATTTTAGGG
64 TGAATTTTAGGG
* * *
9108045 TTTGGAGG-TTTAAGGTGTTGATTTCAGGGTTTGGAGTGTTTAGGGTTTTGATTTTAGGGTTTTG
1 TTTGGAGGATTTAAGGTGTTGATTTCAGGGTTTGGAGGGTTTAGGGTTTAGAATTTAGGGTTTTG
9108109 AATTTTAGGG
66 AATTTTAGGG
9108119 TTT
1 TTT
9108122 AGAGAAAACG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
71 7 0.10
72 37 0.54
73 12 0.18
74 12 0.18
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.47
Consensus pattern (75 bp):
TTTGGAGGATTTAAGGTGTTGATTTCAGGGTTTGGAGGGTTTAGGGTTTAGAATTTAGGGTTTTG
AATTTTAGGG
Found at i:9108074 original size:29 final size:29
Alignment explanation
Indices: 9108029--9108106 Score: 113
Period size: 30 Copynumber: 2.7 Consensus size: 29
9108019 TTAGAAATTT
9108029 AGGTTTGATTTTAGGGTTTGGAG-GTTTA
1 AGGTTTGATTTTAGGGTTTGGAGTGTTTA
*
9108057 AGGTGTTGATTTCAGGGTTTGGAGTGTTTA
1 AGGT-TTGATTTTAGGGTTTGGAGTGTTTA
*
9108087 GGGTTTTGATTTTAGGGTTT
1 AGG-TTTGATTTTAGGGTTT
9108107 TGAATTTTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 4 0.09
29 18 0.41
30 21 0.48
31 1 0.02
ACGTcount: A:0.15, C:0.01, G:0.36, T:0.47
Consensus pattern (29 bp):
AGGTTTGATTTTAGGGTTTGGAGTGTTTA
Found at i:9108096 original size:30 final size:30
Alignment explanation
Indices: 9108032--9108121 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 30
9108022 GAAATTTAGG
*
9108032 TTTGATTTTAGGGTTTGGAG-GTTTAAGGT
1 TTTGATTTTAGGGTTTGGAGTGTTTAGGGT
* *
9108061 GTTGATTTCAGGGTTTGGAGTGTTTAGGGT
1 TTTGATTTTAGGGTTTGGAGTGTTTAGGGT
* *
9108091 TTTGATTTTAGGGTTTTGAAT-TTTAGGGT
1 TTTGATTTTAGGGTTTGGAGTGTTTAGGGT
9108120 TT
1 TT
9108122 AGAGAAAACG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
29 28 0.53
30 25 0.47
ACGTcount: A:0.16, C:0.01, G:0.33, T:0.50
Consensus pattern (30 bp):
TTTGATTTTAGGGTTTGGAGTGTTTAGGGT
Found at i:9108115 original size:15 final size:15
Alignment explanation
Indices: 9108011--9108121 Score: 88
Period size: 15 Copynumber: 7.7 Consensus size: 15
9108001 GTTTAGGGGG
* *
9108011 TTTAGGGTTTAGAAA
1 TTTAGGGTTTTGAAT
9108026 TTTA-GG-TTTG-AT
1 TTTAGGGTTTTGAAT
* **
9108038 TTTAGGGTTTGGAGG
1 TTTAGGGTTTTGAAT
* *
9108053 TTTAAGGTGTTG-AT
1 TTTAGGGTTTTGAAT
* * *
9108067 TTCAGGGTTTGGAGT
1 TTTAGGGTTTTGAAT
9108082 GTTTAGGGTTTTG-AT
1 -TTTAGGGTTTTGAAT
9108097 TTTAGGGTTTTGAAT
1 TTTAGGGTTTTGAAT
9108112 TTTAGGGTTT
1 TTTAGGGTTT
9108122 AGAGAAAACG
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
12 5 0.07
13 5 0.07
14 25 0.35
15 27 0.38
16 10 0.14
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.49
Consensus pattern (15 bp):
TTTAGGGTTTTGAAT
Found at i:9110164 original size:36 final size:36
Alignment explanation
Indices: 9110077--9110183 Score: 99
Period size: 36 Copynumber: 3.0 Consensus size: 36
9110067 TAAAGAAAAT
*
9110077 GACCAGGACAACACCGCGAGTCAAAAAATAAAGAAC
1 GACCAGGACAACACCACGAGTCAAAAAATAAAGAAC
* * * * *
9110113 GACCGGGATATCACCATGAGTCAAGAAA-AAAGAATC
1 GACCAGGACAACACCACGAGTCAAAAAATAAAGAA-C
* * ** *
9110149 GACTAGGACAACACCACAAGTTGAATAATAAAGAA
1 GACCAGGACAACACCACGAGTCAAAAAATAAAGAA
9110184 AATGATTGGG
Statistics
Matches: 53, Mismatches: 16, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
35 6 0.11
36 41 0.77
37 6 0.11
ACGTcount: A:0.49, C:0.21, G:0.20, T:0.11
Consensus pattern (36 bp):
GACCAGGACAACACCACGAGTCAAAAAATAAAGAAC
Found at i:9110246 original size:37 final size:36
Alignment explanation
Indices: 9110086--9110324 Score: 117
Period size: 37 Copynumber: 6.5 Consensus size: 36
9110076 TGACCAGGAC
* * **
9110086 AACACCGCGAGTCAAAAAATAAAGAA-CGACCGGGAT
1 AACACCACGAGTC-AAAAATAAAAAATCGATTGGGAT
* * * * * *
9110122 ATCACCATGAGTCAAGAAA-AAAGAATCGACTAGGAC
1 AACACCACGAGTCAA-AAATAAAAAATCGATTGGGAT
* * * *
9110158 AACACCACAAGTTGAATAATAAAGAAAAT-GATTGGGAC
1 AACACCACGAG-TCAAAAAT-AA-AAAATCGATTGGGAT
*** * *
9110196 AACATTGCAAGTCAGAAAATAAAAAATGGATTGGGAT
1 AACACCACGAGTCA-AAAATAAAAAATCGATTGGGAT
*
9110233 AACACCATGAGTCAAAAA-ACAAGAAATCGATTGGGAT
1 AACACCACGAGTCAAAAATA-AA-AAATCGATTGGGAT
** * * * *
9110270 AACACTGCGAGTCAAATAATAAAAAATCAATCGAGAC
1 AACACCACGAGTCAAA-AATAAAAAATCGATTGGGAT
* *
9110307 AACACCACAAGTTAAAAA
1 AACACCACGAGTCAAAAA
9110325 ACAAGAAATA
Statistics
Matches: 154, Mismatches: 37, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
35 9 0.06
36 43 0.28
37 72 0.47
38 25 0.16
39 5 0.03
ACGTcount: A:0.50, C:0.17, G:0.18, T:0.15
Consensus pattern (36 bp):
AACACCACGAGTCAAAAATAAAAAATCGATTGGGAT
Found at i:9110333 original size:74 final size:73
Alignment explanation
Indices: 9110155--9110333 Score: 191
Period size: 74 Copynumber: 2.4 Consensus size: 73
9110145 AATCGACTAG
* *
9110155 GACAACACCACAAGTTGAATAATA-AAGAAAATGATTGGGACAACATTGCAAGTCAGAAAATAAA
1 GACAACACCACAAGTT-AA-AAAACAAG-AAATGATTGGGACAACACTGCAAGTCAGAAAATAAA
** * *
9110219 AAATGGATTGG
63 AAATCAATCGA
* ** * * *
9110230 GATAACACCATGAGTCAAAAAACAAGAAATCGATTGGGATAACACTGCGAGTCA-AATAATAAAA
1 GACAACACCACAAGTTAAAAAACAAGAAAT-GATTGGGACAACACTGCAAGTCAGAA-AATAAAA
9110294 AATCAATCGA
64 AATCAATCGA
9110304 GACAACACCACAAGTTAAAAAACAAGAAAT
1 GACAACACCACAAGTTAAAAAACAAGAAAT
9110334 AAACTGGGAC
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
73 9 0.11
74 64 0.75
75 12 0.14
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (73 bp):
GACAACACCACAAGTTAAAAAACAAGAAATGATTGGGACAACACTGCAAGTCAGAAAATAAAAAA
TCAATCGA
Found at i:9110413 original size:36 final size:36
Alignment explanation
Indices: 9110341--9110518 Score: 141
Period size: 36 Copynumber: 4.9 Consensus size: 36
9110331 AATAAACTGG
* * * *
9110341 GACAATACCCCAAGTCAAAATT-ATGAATCGACCGA
1 GACAACACCGCAAGTCAAAATTAAAGAATCGATCGA
* * *
9110376 GACAAGACCGAAAGTTAAAATTAAAGAATCGATCGA
1 GACAACACCGCAAGTCAAAATTAAAGAATCGATCGA
* *
9110412 GACAACACCGCAGGTCGAGAAA-TAAAGAATTGATCGA
1 GACAACACCGCAAGTC-A-AAATTAAAGAATCGATCGA
** *
9110449 GACAACATAGCAAGTCAAAATTAAAGAAGT-GA-CTGG
1 GACAACACCGCAAGTCAAAATTAAAGAA-TCGATC-GA
* *
9110485 GACAACATCGCAAGTTGAGAAA-TAAAGAATCGAT
1 GACAACACCGCAAG-TCA-AAATTAAAGAATCGAT
9110519 TGGGATCATA
Statistics
Matches: 116, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
35 22 0.19
36 48 0.41
37 40 0.34
38 6 0.05
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.16
Consensus pattern (36 bp):
GACAACACCGCAAGTCAAAATTAAAGAATCGATCGA
Found at i:9110447 original size:37 final size:37
Alignment explanation
Indices: 9110397--9110514 Score: 134
Period size: 37 Copynumber: 3.2 Consensus size: 37
9110387 AAGTTAAAAT
* * *
9110397 TAAAGAATCGATCGAGACAACACCGCAGGTCGAGAAA
1 TAAAGAATTGATCGAGACAACATCGCAAGTCGAGAAA
*
9110434 TAAAGAATTGATCGAGACAACATAGCAAGTC-A-AAA
1 TAAAGAATTGATCGAGACAACATCGCAAGTCGAGAAA
* * *
9110469 TTAAAGAAGTGA-CTGGGACAACATCGCAAGTTGAGAAA
1 -TAAAGAATTGATC-GAGACAACATCGCAAGTCGAGAAA
9110507 TAAAGAAT
1 TAAAGAAT
9110515 CGATTGGGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
35 4 0.06
36 26 0.38
37 35 0.51
38 3 0.04
ACGTcount: A:0.47, C:0.15, G:0.22, T:0.16
Consensus pattern (37 bp):
TAAAGAATTGATCGAGACAACATCGCAAGTCGAGAAA
Found at i:9110569 original size:22 final size:22
Alignment explanation
Indices: 9110539--9110603 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
9110529 CTGTGAATCA
9110539 AAATTATGCTCAAAGGTCTTA-
1 AAATTATGCTCAAAGGTCTTAG
*
9110560 AAGATTATGCTCAAAAGTCTTAG
1 AA-ATTATGCTCAAAGGTCTTAG
* * *
9110583 AAATCATGTTCGAAGGTCTTA
1 AAATTATGCTCAAAGGTCTTA
9110604 CAGAATCGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (22 bp):
AAATTATGCTCAAAGGTCTTAG
Found at i:9110741 original size:132 final size:131
Alignment explanation
Indices: 9110504--9110845 Score: 409
Period size: 132 Copynumber: 2.6 Consensus size: 131
9110494 GCAAGTTGAG
* * * *
9110504 AAATAAAGAATCGATTGGGATCATACTGTGAATCAAAATTATGCTCAAAGGTCTTAAAGATTATG
1 AAATAAAGAATCGATCGGGATAACACTGTGAATCAAAATTATGCT-AGAGGTCTTAAAGATTATG
* * * *
9110569 CTC-AAAAGTCTTAGAAATCATGTTCGAAGGTCTTACAGAATCGACCAAGAAAACACCGTAAATT
65 CTCGAAGA-TCTTAAAAATCATGTTCGAAGGTCATACAGAATCGACCAAGAAAACACCGCAAATT
9110633 AAA
129 AAA
* *
9110636 AAATAAAGAATCAATCGGGATAACACCGTGAATCAAAATTATGCCTAGAGGTCTTAAAGATTATG
1 AAATAAAGAATCGATCGGGATAACACTGTGAATCAAAATTATG-CTAGAGGTCTTAAAGATTATG
* * * * * * *
9110701 ATCGAAGATCTTAAAAATCATGCTT-GGAGGTCATATAGAATTGACCAGGACAACACCGCAAGTT
65 CTCGAAGATCTTAAAAATCATG-TTCGAAGGTCATACAGAATCGACCAAGAAAACACCGCAAATT
*
9110765 GAA
129 AAA
* * * * *
9110768 AAATAAAGAATCGATCGGGACAACATTGTGAATCAAAATTATGTCTAGAGGTTTTAAAAATCATG
1 AAATAAAGAATCGATCGGGATAACACTGTGAATCAAAATTATG-CTAGAGGTCTTAAAGATTATG
*
9110833 CTCGAAGGTCTTA
65 CTCGAAGATCTTA
9110846 CAGAATTAAT
Statistics
Matches: 179, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
132 172 0.96
133 7 0.04
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.25
Consensus pattern (131 bp):
AAATAAAGAATCGATCGGGATAACACTGTGAATCAAAATTATGCTAGAGGTCTTAAAGATTATGC
TCGAAGATCTTAAAAATCATGTTCGAAGGTCATACAGAATCGACCAAGAAAACACCGCAAATTAA
A
Found at i:9110871 original size:110 final size:108
Alignment explanation
Indices: 9110706--9111065 Score: 373
Period size: 110 Copynumber: 3.3 Consensus size: 108
9110696 TTATGATCGA
* * * * * * *
9110706 AGATCTTAAAAATCATGCTTGGAGGTCATATAGAATTGA-CCAGGACAACACCGCAAGTTGAAAA
1 AGATTTTAAAAATCATGCTCGAAGGTCTTACAGAATTAATCGA-GACAACA-CGCAAGTTGAAAA
* * *
9110770 ATAAAGAATCGATCGGGACAACATTGTGAATCAAAATTATGTCTAG
64 ATAAAGAATCGATCAGGACAACACTATGAATCAAAATTATG-CTAG
* **
9110816 AGGTTTTAAAAATCATGCTCGAAGGTCTTACAGAATTAATCGAGACAACATCGCAAGTCAAAAAA
1 AGATTTTAAAAATCATGCTCGAAGGTCTTACAGAATTAATCGAGACAACA-CGCAAGTTGAAAAA
* * * *
9110881 TAAAGAATCAATCAGGACAATACTACGAATCAAAATTATGCCATG
65 TAAAGAATCGATCAGGACAACACTATGAATCAAAATTATGCTA-G
* * * * *
9110926 AGATTTTAGAAATCATG-TCCAGAGGTCTTACAGAATCAATCGGGACAACACTACAAGTTGAAAA
1 AGATTTTAAAAATCATGCTCGA-AGGTCTTACAGAATTAATCGAGACAACAC-GCAAGTTGAAAA
* * * *
9110990 ATAAAGAATCGATTAGGATAACACCATGAATCAAAATTATGCTTGG
64 ATAAAGAATCGATCAGGACAACACTATGAATCAAAATTATGC-TAG
* * *
9111036 AGATCTTAAAGATTATGCTCGAAGGTCTTA
1 AGATTTTAAAAATCATGCTCGAAGGTCTTA
9111066 AAAATCATGC
Statistics
Matches: 205, Mismatches: 39, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
109 6 0.03
110 194 0.95
111 5 0.02
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (108 bp):
AGATTTTAAAAATCATGCTCGAAGGTCTTACAGAATTAATCGAGACAACACGCAAGTTGAAAAAT
AAAGAATCGATCAGGACAACACTATGAATCAAAATTATGCTAG
Found at i:9111064 original size:22 final size:22
Alignment explanation
Indices: 9111025--9111067 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9111015 ATGAATCAAA
* *
9111025 ATTATGCTTGGAGATCTTAAAG
1 ATTATGCTCGAAGATCTTAAAG
*
9111047 ATTATGCTCGAAGGTCTTAAA
1 ATTATGCTCGAAGATCTTAAA
9111068 AATCATGCCC
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:0.12, G:0.21, T:0.35
Consensus pattern (22 bp):
ATTATGCTCGAAGATCTTAAAG
Found at i:9111082 original size:22 final size:22
Alignment explanation
Indices: 9111039--9111083 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9111029 TGCTTGGAGA
* * * *
9111039 TCTTAAAGATTATGCTCGAAGG
1 TCTTAAAAATCATGCCCAAAGG
9111061 TCTTAAAAATCATGCCCAAAGG
1 TCTTAAAAATCATGCCCAAAGG
9111083 T
1 T
9111084 TTTACAGAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (22 bp):
TCTTAAAAATCATGCCCAAAGG
Found at i:9111122 original size:132 final size:132
Alignment explanation
Indices: 9110935--9111184 Score: 313
Period size: 132 Copynumber: 1.9 Consensus size: 132
9110925 GAGATTTTAG
* * * * * * *
9110935 AAATCATGTCCAGAGGTCTTACAGAATCAATCGGGACAACACTACAAGTTGAAAAATAAAGAATC
1 AAATCATGCCCAAAGGTCTTACAGAATCAACCAGGACAACACCACAAGTTAAAAAATAAAAAATC
* ** *
9111000 GATTAGG-ATAACACCATGAATCAAAATTATGCTTGGAGATCTTAAAGATTATGCTCGAAGGTCT
66 GATT-GGAATAACACCATGAATCAAAATTATGCCTAAAGATCTTAAAAATTATGCTCGAAGGTCT
9111064 TAA
130 TAA
* ** *
9111067 AAATCATGCCCAAAGGTTTTACAGAATTGACCAGGACAACACCGCAAGTTAAAAAATAAAAAATC
1 AAATCATGCCCAAAGGTCTTACAGAATCAACCAGGACAACACCACAAGTTAAAAAATAAAAAATC
* * * *
9111132 GATTGGAATAACATCGTGAATTAAGATTATGCCTAAAGATCTTAAAAATTATG
66 GATTGGAATAACACCATGAATCAAAATTATGCCTAAAGATCTTAAAAATTATG
9111185 TTCGGAAGTA
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
131 2 0.02
132 96 0.98
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.25
Consensus pattern (132 bp):
AAATCATGCCCAAAGGTCTTACAGAATCAACCAGGACAACACCACAAGTTAAAAAATAAAAAATC
GATTGGAATAACACCATGAATCAAAATTATGCCTAAAGATCTTAAAAATTATGCTCGAAGGTCTT
AA
Found at i:9111845 original size:41 final size:40
Alignment explanation
Indices: 9111797--9111905 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 40
9111787 AGTGCAAATA
** * *
9111797 CAAGTGATGCAAATACGAATGTCTTTCTTGTGATGCAGATG
1 CAAGTGATGCAAATACGAATGTCTTT-TAATGATGCACAGG
* * * *
9111838 CAAGTGATGCAAATGCAAATATCCCTTTAATGATGCACAGG
1 CAAGTGATGCAAATACGAATGT-CTTTTAATGATGCACAGG
*
9111879 CAAGTGATGCAACTACGAATGTCTTTT
1 CAAGTGATGCAAATACGAATGTCTTTT
9111906 TTTGTTTTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
40 4 0.07
41 47 0.87
42 3 0.06
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (40 bp):
CAAGTGATGCAAATACGAATGTCTTTTAATGATGCACAGG
Found at i:9111846 original size:15 final size:15
Alignment explanation
Indices: 9111826--9111855 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9111816 TGTCTTTCTT
*
9111826 GTGATGCAGATGCAA
1 GTGATGCAAATGCAA
9111841 GTGATGCAAATGCAA
1 GTGATGCAAATGCAA
9111856 ATATCCCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (15 bp):
GTGATGCAAATGCAA
Found at i:9113341 original size:16 final size:14
Alignment explanation
Indices: 9113319--9113355 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
9113309 GATAAAAGAG
*
9113319 TTTTTTTTTTCCTT
1 TTTTTTTTTTTCTT
9113333 TTCTTTTTTTTTCTT
1 TT-TTTTTTTTTCTT
9113348 TTTTTTTT
1 TTTTTTTT
9113356 GTGATGCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTCTT
Found at i:9120053 original size:16 final size:16
Alignment explanation
Indices: 9120002--9120058 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
9119992 GGGTTTGGTC
*
9120002 TTAGGGTTTAAAGAATT
1 TTAGGGTTTAGA-AATT
*
9120019 TTAGGGCTT-G-AATT
1 TTAGGGTTTAGAAATT
*
9120033 TTAGGGTTTAGAAAGT
1 TTAGGGTTTAGAAATT
9120049 TTAGGGTTTA
1 TTAGGGTTTA
9120059 AAGATTAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
14 12 0.35
15 1 0.03
16 13 0.38
17 8 0.24
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.42
Consensus pattern (16 bp):
TTAGGGTTTAGAAATT
Found at i:9120182 original size:29 final size:29
Alignment explanation
Indices: 9119987--9120233 Score: 145
Period size: 30 Copynumber: 8.4 Consensus size: 29
9119977 GTTTCAAGGG
9119987 TTTTAGGGTTT---GGTCTTAGGGTTTAAAGAA
1 TTTTAGGGTTTGAAGGT-TTAGGGTTT--AG-A
* *
9120017 TTTTAGGGCTTGAA-TTTTAGGGTTTAGAAA
1 TTTTAGGGTTTGAAGGTTTAGGGTTTAG--A
* * * * **
9120047 GTTTAGGGTTT-AAAGATTAGGTTTTTTA
1 TTTTAGGGTTTGAAGGTTTAGGGTTTAGA
* *
9120075 TTTTAGGGTTTAAAGGGTTTAAGGTTTTAG-
1 TTTTAGGGTTTGAA-GGTTT-AGGGTTTAGA
* * *
9120105 TTTTACGATTTGAAGGATTTAGGGTTTTGA
1 TTTTAGGGTTTGAAGG-TTTAGGGTTTAGA
* *
9120135 TTTT-GAAGTTTGGAGGGTTTAGGGTTTAG-
1 TTTTAG-GGTTT-GAAGGTTTAGGGTTTAGA
*
9120164 TTTTAGGGTTTGAATGGTTTAAGGTCTT-GA
1 TTTTAGGGTTTGAA-GGTTTAGGGT-TTAGA
*
9120194 TTTTAGGGTTTTGAA-ATTTAGGGTTTAGA
1 TTTTAGGG-TTTGAAGGTTTAGGGTTTAGA
9120223 TTTTAGGGTTT
1 TTTTAGGGTTT
9120234 AGAGAAAATG
Statistics
Matches: 170, Mismatches: 29, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
28 18 0.11
29 50 0.29
30 75 0.44
31 26 0.15
32 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (29 bp):
TTTTAGGGTTTGAAGGTTTAGGGTTTAGA
Found at i:9120194 original size:59 final size:59
Alignment explanation
Indices: 9120074--9120233 Score: 155
Period size: 59 Copynumber: 2.7 Consensus size: 59
9120064 TAGGTTTTTT
* ** * * * * *
9120074 ATTTTAGGGTTTAAAGGGTTTAAGGTTTTAGTTTTACGATTTGAAGGATTTAGGGTTTTG
1 ATTTTAGAGTTTGGAGGGTTT-AGGGTTTAGTTTTAGGGTTTGAAGGATTTAAGGTCTTG
9120134 ATTTT-GAAGTTTGGAGGGTTTAGGGTTTAGTTTTAGGGTTTGAATGG-TTTAAGGTCTTG
1 ATTTTAG-AGTTTGGAGGGTTTAGGGTTTAGTTTTAGGGTTTGAA-GGATTTAAGGTCTTG
* * **
9120193 ATTTTAGGGTTTTGA-AATTTAGGGTTTAGATTTTAGGGTTT
1 ATTTTAGAGTTTGGAGGGTTTAGGGTTTAG-TTTTAGGGTTT
9120234 AGAGAAAATG
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
58 12 0.14
59 53 0.63
60 19 0.23
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.47
Consensus pattern (59 bp):
ATTTTAGAGTTTGGAGGGTTTAGGGTTTAGTTTTAGGGTTTGAAGGATTTAAGGTCTTG
Found at i:9120234 original size:14 final size:14
Alignment explanation
Indices: 9120152--9120236 Score: 77
Period size: 14 Copynumber: 5.9 Consensus size: 14
9120142 GTTTGGAGGG
9120152 TTTAGGGTTTAG-T
1 TTTAGGGTTTAGAT
9120165 TTTAGGGTTT-GAAT
1 TTTAGGGTTTAG-AT
*
9120179 GGTTTAAGGTCTT-GAT
1 --TTTAGGGT-TTAGAT
* *
9120195 TTTAGGGTTTTGAAA
1 TTTAGGGTTTAG-AT
9120210 TTTAGGGTTTAGAT
1 TTTAGGGTTTAGAT
9120224 TTTAGGGTTTAGA
1 TTTAGGGTTTAGA
9120237 GAAAATGCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
12 1 0.02
13 12 0.20
14 23 0.38
15 12 0.20
16 9 0.15
17 3 0.05
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTAGAT
Found at i:9136997 original size:22 final size:22
Alignment explanation
Indices: 9136984--9137027 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9136974 TATATATTTA
9136984 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCTCTAGAATTAAG
*
9137006 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCTCTAGAATTAAG
9137028 GACACAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCTCTAGAATTAAG
Found at i:9141014 original size:22 final size:22
Alignment explanation
Indices: 9140988--9141031 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9140978 TGTATATTTA
*
9140988 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
9141010 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
9141032 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:9145347 original size:30 final size:28
Alignment explanation
Indices: 9145293--9145350 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
9145283 TATTTTTTAC
* *
9145293 ATTAATGTAATTTTTTTAATAAATATAT
1 ATTAATATAATTTTTTAAATAAATATAT
9145321 ATTAATATATATTTTTTAAATAAA-ATAT
1 ATTAATATA-ATTTTTTAAATAAATATAT
9145349 AT
1 AT
9145351 CAGTTCCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTAATATAATTTTTTAAATAAATATAT
Found at i:9145525 original size:15 final size:15
Alignment explanation
Indices: 9145480--9145518 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
9145470 TGTACTTGAT
9145480 AAATTAAAATGAAAA
1 AAATTAAAATGAAAA
9145495 AAATTAAAATGAAAA
1 AAATTAAAATGAAAA
9145510 AAATTAAAA
1 AAATTAAAA
9145519 AAAAAAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (15 bp):
AAATTAAAATGAAAA
Found at i:9145722 original size:3 final size:3
Alignment explanation
Indices: 9145716--9145776 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
9145706 TTTTTTCATT
9145716 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9145764 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
9145777 CGTCATCAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9150128 original size:3 final size:3
Alignment explanation
Indices: 9150122--9150153 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9150112 AATTTTTTTT
9150122 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9150154 TGTTTTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9150185 original size:9 final size:10
Alignment explanation
Indices: 9150125--9150184 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 10
9150115 TTTTTTTTTA
9150125 TTATTATTA-
1 TTATTATTAT
9150134 TTATTATTA-
1 TTATTATTAT
9150143 TTATTATTAT
1 TTATTATTAT
*
9150153 TTGTT-TT-T
1 TTATTATTAT
*
9150161 GTTATTGTT-T
1 -TTATTATTAT
9150171 TTATT-TTAT
1 TTATTATTAT
9150180 TTATT
1 TTATT
9150185 TATTGAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
8 3 0.07
9 35 0.78
10 7 0.16
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (10 bp):
TTATTATTAT
Found at i:9150834 original size:6 final size:6
Alignment explanation
Indices: 9150823--9150856 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
9150813 TACGGCACTA
* *
9150823 GCCCTC GCCCTC GCCCTC GCCCTC ACCCTT GCCC
1 GCCCTC GCCCTC GCCCTC GCCCTC GCCCTC GCCC
9150857 ACAGGAGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.65, G:0.15, T:0.18
Consensus pattern (6 bp):
GCCCTC
Found at i:9151834 original size:22 final size:22
Alignment explanation
Indices: 9151803--9151848 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
9151793 TCAAGCAATA
* * *
9151803 TCAAATAAATTTTAAACAAATC
1 TCAAACAAATTTCAAAAAAATC
9151825 TCAAACAAATTTCAAAAAAATC
1 TCAAACAAATTTCAAAAAAATC
9151847 TC
1 TC
9151849 TTATGAGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.28
Consensus pattern (22 bp):
TCAAACAAATTTCAAAAAAATC
Found at i:9152175 original size:18 final size:19
Alignment explanation
Indices: 9152150--9152197 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
9152140 TATATTTTTA
**
9152150 ATAAATTTTAATTAAATTT
1 ATAAATTTTAATTAAATAG
9152169 A-AAATTTT-ATTAAATAG
1 ATAAATTTTAATTAAATAG
9152186 ATAAATTTTAAT
1 ATAAATTTTAAT
9152198 AGGTAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 8 0.32
18 14 0.56
19 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATAAATTTTAATTAAATAG
Found at i:9157456 original size:24 final size:25
Alignment explanation
Indices: 9157418--9157476 Score: 93
Period size: 24 Copynumber: 2.4 Consensus size: 25
9157408 AATTGATCAA
9157418 ATCATACTTACTTCACCAATTAAGTT
1 ATCA-ACTTACTTCACCAATTAAGTT
*
9157444 ATCAACTT-CTTCACCGATTAAGTT
1 ATCAACTTACTTCACCAATTAAGTT
9157468 ATCAACTTA
1 ATCAACTTA
9157477 TGCATCAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 23 0.74
25 4 0.13
26 4 0.13
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (25 bp):
ATCAACTTACTTCACCAATTAAGTT
Found at i:9158892 original size:37 final size:37
Alignment explanation
Indices: 9158849--9158922 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
9158839 GTTCAAGGCC
9158849 TTAGCTTGTAAATATTGCAATAGGAAACAATTCAAAG
1 TTAGCTTGTAAATATTGCAATAGGAAACAATTCAAAG
*
9158886 TTAGCTTGTAAATATTGCAATAGGAAACGATTCAAAG
1 TTAGCTTGTAAATATTGCAATAGGAAACAATTCAAAG
9158923 ATTGGATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (37 bp):
TTAGCTTGTAAATATTGCAATAGGAAACAATTCAAAG
Found at i:9159319 original size:18 final size:17
Alignment explanation
Indices: 9159292--9159325 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9159282 GAAGGAAAAA
9159292 AATATATATATATTTAAT
1 AATATATATA-ATTTAAT
*
9159310 AATATTTATAATTTAA
1 AATATATATAATTTAA
9159326 ACGGGTGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATATATAATTTAAT
Found at i:9160686 original size:57 final size:57
Alignment explanation
Indices: 9160599--9160725 Score: 211
Period size: 57 Copynumber: 2.2 Consensus size: 57
9160589 CTCCAAGACA
* *
9160599 ATGGCCC-AATTGTCTACCCGTTTACCCATTTGTCTTTTTCGGGTTTGAAATCCAAC
1 ATGGCCCAAATTGTATACCCGTTTACCCATTTGTCTTCTTCGGGTTTGAAATCCAAC
*
9160655 ATGGCCCAAATTGTATACCCGTTTTCCCATTTGTCTTCTTCGGGTTTGAAATCCAAC
1 ATGGCCCAAATTGTATACCCGTTTACCCATTTGTCTTCTTCGGGTTTGAAATCCAAC
*
9160712 ATGGCCCAATTTGT
1 ATGGCCCAAATTGT
9160726 CTTTCCAATC
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
56 7 0.11
57 59 0.89
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (57 bp):
ATGGCCCAAATTGTATACCCGTTTACCCATTTGTCTTCTTCGGGTTTGAAATCCAAC
Found at i:9169904 original size:34 final size:33
Alignment explanation
Indices: 9169835--9169921 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 33
9169825 ACGCTATTGC
*
9169835 ATTAGCGGCATTTGTATCTGAAAAAGTCCATTAT
1 ATTAGCGACATTTGTATCTGAAAAAGTCCA-TAT
* * *
9169869 ATTGGCGACGTTTGTATCTGAAAAACGCTGC-TAT
1 ATTAGCGACATTTGTATCTGAAAAA-G-TCCATAT
*
9169903 ATTAGTGACATTTGTATCT
1 ATTAGCGACATTTGTATCT
9169922 TTGACACGCG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 41 0.93
35 1 0.02
36 2 0.05
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (33 bp):
ATTAGCGACATTTGTATCTGAAAAAGTCCATAT
Found at i:9170874 original size:6 final size:6
Alignment explanation
Indices: 9170863--9170888 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9170853 CAGTAGCCAT
9170863 TTTCTC TTTCTC TTTCTC TTTCTC TT
1 TTTCTC TTTCTC TTTCTC TTTCTC TT
9170889 GTAAATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCTC
Found at i:9170988 original size:69 final size:69
Alignment explanation
Indices: 9170902--9171042 Score: 264
Period size: 69 Copynumber: 2.0 Consensus size: 69
9170892 AATTAGTCAT
*
9170902 ATACAACTATCAAGTTTAATGATTAATTGATAATATATTAAAAAGAGTAAATATTTACTTTTTGT
1 ATACAACTATCAAGTTTAATGATTAATTGATAATATATTAAAAAGAGTAAATATTTACTTTTTAT
9170967 TAAA
66 TAAA
*
9170971 ATACAACTATCAAGTTTAATGATTAATTGATAATATGTTAAAAAGAGTAAATATTTACTTTTTAT
1 ATACAACTATCAAGTTTAATGATTAATTGATAATATATTAAAAAGAGTAAATATTTACTTTTTAT
9171036 TAAA
66 TAAA
9171040 ATA
1 ATA
9171043 GATATTACAA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (69 bp):
ATACAACTATCAAGTTTAATGATTAATTGATAATATATTAAAAAGAGTAAATATTTACTTTTTAT
TAAA
Found at i:9175402 original size:22 final size:21
Alignment explanation
Indices: 9175361--9175402 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9175351 TGGAATCTAA
*
9175361 ATCGATGATTATCATCTAACC
1 ATCGATGATTATCATATAACC
*
9175382 ATCGATGATGTCTCATATAAC
1 ATCGATGAT-TATCATATAAC
9175403 AAAACTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (21 bp):
ATCGATGATTATCATATAACC
Found at i:9178793 original size:186 final size:186
Alignment explanation
Indices: 9177953--9179050 Score: 1150
Period size: 186 Copynumber: 5.8 Consensus size: 186
9177943 AAAAACTATC
* * * * * * * *
9177953 AATAATTTTCTTTTAAAATTTTAG-GAATTATTAAAGGTATTTTTCAGTGAAAAACACCTTTAAT
1 AATAATTTTCTCTTAAAATTTTTGAG-ATTATTAAAGGTGTCTTCCAATGAAAAATACCTTCAAT
* * * * * *
9178017 ATTTCACAATTCAAATTTTAAGATGATTAGTGAAGGTATTTATTCTAGAAAAATACCTTCACTAT
65 TTTTCACAACTCAAATTTTAAGACGATTAGTGAAGGCATTTATTCTAAAAAAATACCTTCACTAA
* ** * * * *
9178082 TTCTTTTTAATTTAAATACATAATTATTGAAGGTATTTTTTTTAGCACAAACGTCTTC
130 TTCCTTTTAATTTATGTACATAATTATTAAAGATA-TTTTTTTAGAACAAACGTCTTT
* * *
9178140 AATAATTTT-TCCTTAAAATTTTTTAGATTATTAAAAGCT-TCTTCCAGTGAAAAATACCTTCAA
1 AATAATTTTCT-CTTAAAATTTTTGAGATTATT-AAAGGTGTCTTCCAATGAAAAATACCTTCAA
* *
9178203 TTTTTCACAACTCAAAATTTAAGACGATTAGTGAAGGCATTTATTCTAGAAAAAAATGCCTTCAC
64 TTTTTCACAACTCAAATTTTAAGACGATTAGTGAAGGCATTTATTCT--AAAAAAATACCTTCAC
** * * *
9178268 TAATTTTTTTTAATTTACGTACATAATTATT-GAGAGCATTTTTTT-GAAACCAAACGTCTTT
127 TAATTCCTTTTAATTTATGTACATAATTATTAAAGA-TATTTTTTTAG-AA-CAAACGTCTTT
* ** * *
9178329 AATAATTTTCTTTTAAAATTTTTGAGATTATTAAAGGCATCTTTCAATGAAAAATACTTTCAATA
1 AATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCCAATGAAAAATACCTTCAAT-
* * * * * *
9178394 TTGT-ACAACTCAAATTTTAAAACGGTTAATGAAGGCGTTTATTCTAGAAAAACGTAAACACCTT
65 TTTTCACAACTCAAATTTTAAGACGATTAGTGAAGGCATTTATTCT---AAAA---AAATACCTT
* * * ***
9178458 CACTAATTCCTTTTAATTTATGTACGTAATTATTGAAGATGTTTTTTTAGAACAAATACCTTT
124 CACTAATTCCTTTTAATTTATGTACATAATTATTAAAGATATTTTTTTAGAACAAACGTCTTT
* * * * * * *
9178521 AATAATTTTTTCTTAAAATATTTAAGATTATTAAAGGCGTCTTCCAGTAAAAAAATGCCTTCAAT
1 AATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCCAAT-GAAAAATACCTTCAAT
** * * * *
9178586 TTTTCACAACTTTAATTTTAAGATGTTTAGTAAAGACATTTATTCTAAAAAAATACCTTCACTAA
65 TTTTCACAACTCAAATTTTAAGACGATTAGTGAAGGCATTTATTCTAAAAAAATACCTTCACTAA
* * * *
9178651 TTCCTTATAATTTACGTACATAATTATTAAAGATATTTTTTTAGAACAAAGGCCTTT
130 TTCCTTTTAATTTATGTACATAATTATTAAAGATATTTTTTTAGAACAAACGTCTTT
* *
9178708 AATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTTCAATGAAAAATGCCTTCAATT
1 AATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCCAATGAAAAATACCTTCAATT
* * ** * *
9178773 TTTCACAACTCAAATTTTAAGA-TAGTTAGTAAAAACATTTATTCTATAAAAATGCCTTCACTAA
66 TTTCACAACTCAAATTTTAAGACGA-TTAGTGAAGGCATTTATTCTAAAAAAATACCTTCACTAA
* * *
9178837 TTCCTTTTAATTTATGTACATAATTATTAAAGATATTTTTTTAGAATAAAGGTCTTC
130 TTCCTTTTAATTTATGTACATAATTATTAAAGATATTTTTTTAGAACAAACGTCTTT
* * * * * *
9178894 AATAATTTTCTCTTAAAATTTTTAAGATTATTAGAGGTGTCTTCCAATAAAAAATGCTTTCAATA
1 AATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCCAATGAAAAATACCTTCAATT
* * * * * * * *
9178959 TTTCACTACTTAAATTTTAAAACGGTTAGTGAAGGCGTTTATTCTAAAAAAATGCATTTACTAAT
66 TTTCACAACTCAAATTTTAAGACGATTAGTGAAGGCATTTATTCTAAAAAAATACCTTCACTAAT
*
9179024 TCTTTTTAATCTT-TGTACATAATTATT
131 TCCTTTTAAT-TTATGTACATAATTATT
9179051 GAAGGTGATT
Statistics
Matches: 772, Mismatches: 117, Indels: 45
0.83 0.13 0.05
Matches are distributed among these distances:
186 259 0.34
187 196 0.25
188 20 0.03
189 138 0.18
190 12 0.02
192 52 0.07
193 91 0.12
194 4 0.01
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (186 bp):
AATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCCAATGAAAAATACCTTCAATT
TTTCACAACTCAAATTTTAAGACGATTAGTGAAGGCATTTATTCTAAAAAAATACCTTCACTAAT
TCCTTTTAATTTATGTACATAATTATTAAAGATATTTTTTTAGAACAAACGTCTTT
Found at i:9185081 original size:14 final size:13
Alignment explanation
Indices: 9185050--9185084 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
9185040 AATTGTTAGA
*
9185050 AAAAATAAATAAT
1 AAAAAGAAATAAT
9185063 AAAAAGAAATAAT
1 AAAAAGAAATAAT
9185076 AGAAAAGAA
1 A-AAAAGAA
9185085 TTTTGACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (13 bp):
AAAAAGAAATAAT
Found at i:9188722 original size:13 final size:13
Alignment explanation
Indices: 9188704--9188736 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
9188694 AATCTATTTA
9188704 AATATATTAAAAT
1 AATATATTAAAAT
9188717 AATATA-TAAAAT
1 AATATATTAAAAT
9188729 ATATATAT
1 A-ATATAT
9188737 ATATATCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:9188732 original size:11 final size:11
Alignment explanation
Indices: 9188703--9188735 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
9188693 AAATCTATTT
9188703 AAATATAT-TA
1 AAATATATATA
9188713 AAATAATATATA
1 AAAT-ATATATA
9188725 AAATATATATA
1 AAATATATATA
9188736 TATATATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 11 0.52
12 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATATATATA
Found at i:9188737 original size:13 final size:13
Alignment explanation
Indices: 9188705--9188737 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
9188695 ATCTATTTAA
9188705 ATATAT-TAAAAT
1 ATATATATAAAAT
9188717 A-ATATATAAAAT
1 ATATATATAAAAT
9188729 ATATATATA
1 ATATATATA
9188738 TATATCTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 8 0.42
13 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATATATAAAAT
Found at i:9189642 original size:5 final size:5
Alignment explanation
Indices: 9189632--9189657 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9189622 TGCGACGTGA
9189632 TTAAT TTAAT TTAAT TTAAT TTAAT T
1 TTAAT TTAAT TTAAT TTAAT TTAAT T
9189658 CTTTAGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:9189652 original size:579 final size:571
Alignment explanation
Indices: 9188516--9189647 Score: 2032
Period size: 582 Copynumber: 2.0 Consensus size: 571
9188506 TCAAAAAATA
9188516 ATTTAAATTTGTAGTATTTGAAACGATTTAGATATTAAATGTATATATTAAGTTCGGATTAAATT
1 ATTTAAATTTGTAGTATTTGAAACGATTTAGATATTAAATGTATATATTAAGTTCGGATTAAATT
9188581 TTAAATCAAAAAATAAAAAAACCAAAAAAAAGAATTAAATTAAATTATATATTTTTATTAGCTTT
66 TTAAATCAAAAAATAAAAAAACCAAAAAAAAGAATTAAATTAAATTATATATTTTTATTAGCTTT
*
9188646 TATGTATATTTTAATCTTTTATAAAATAAAATAGTTATTTTATATCTAAATCTATTTAAATATAT
131 TATGTATATTTTAATCTTTTATAAAATAAAATAGTTATTTTATATCTAAATCTATTAAAATATAT
* * *
9188711 TAAAATAATATATAAAATATATATATATATATCTACATATATATATTTAAAAAAATCGATGAATC
196 TAAAATAATATATAAAAAATATATATATACATATACATATATATATTTAAAAAAATCGATGAATC
*
9188776 AAACTAAATCAAATCAATATAATTCAATTCGAATTAAATATATTTCAAGAAAATTTCGATTCGAA
261 AAACTAAATCAAATCAATATAATTCAATTCAAATTAAATATATTTCAAGAAAATTTCGATTCGAA
*
9188841 TTCGTATCAATTTTAAAAATTCATAATATTATTTATTATCCAAAAAAATTAACTCAAATTTGATT
326 TTCATATCAATTTTAAAAATTCATAATATTATTTATTATCCAAAAAAATTAACTCAAATTTGATT
9188906 TAAATTGGATAGTTATCGCCATACTTCAATATCAGCTTAATTTGCAGGTAATCCAATGTTTATCA
391 TAAATTGGATAGTTATCGCCATACTTCAATATCAGCTTAATTTGCAGGTAATCCAATGTTTATCA
9188971 CCTATATTGAAGTTGGATACGCTTCAAGATTGTTGATTTTGATGAACAAATCTTAAGACAAATGG
456 CCTATATTGAAGTTGGATACGCTTC---A----TGATTTTGATGAACAAATCTTAAGACAAATGG
*
9189036 CATACAAGTTGATGTGACGTGATTAATTTAATTTAATTCTTTAGGTCGAGACTTAAGT
514 CATACAAGTTGATGCGACGTGATTAATTTAATTTAATTCTTTAGGTCGAGACTTAAGT
* *
9189094 ATTTGAAATTTGTAGTATTTGAAATGATTTAGATATTAAATGTATATATTAAGTTTGGATTAAAT
1 ATTT-AAATTTGTAGTATTTGAAACGATTTAGATATTAAATGTATATATTAAGTTCGGATTAAAT
9189159 TTTAAATCAAAAAATAAAAAAACCAAAAAAAAGAATTAAATTAAATTATATATTTTTATTAGCTT
65 TTTAAATCAAAAAATAAAAAAACCAAAAAAAAGAATTAAATTAAATTATATATTTTTATTAGCTT
9189224 TTATGTATATTTTAATCTTTTATAAAATAAAATAGTTATTTTATATCTAAATCTATTAAAATATA
130 TTATGTATATTTTAATCTTTTATAAAATAAAATAGTTATTTTATATCTAAATCTATTAAAATATA
* *
9189289 TTAAAATAATATATAAAAAGAAATATATATCTACATATATATATATATATTTAAAAAAATCGATG
195 TTAAAATAATATAT--AAA-AAATATATATATACATATACATATATATATTTAAAAAAATCGATG
*
9189354 AATCAAACTAAATCAAATCAATATAATTCAATTCAAATTAAATATATTTCAAGAGAATTTCGATT
257 AATCAAACTAAATCAAATCAATATAATTCAATTCAAATTAAATATATTTCAAGAAAATTTCGATT
9189419 CGAATTCATATCAATTTTAAAAATTCATAATATTATTTATTATCCAAAAAAATTAACTCAAATTT
322 CGAATTCATATCAATTTTAAAAATTCATAATATTATTTATTATCCAAAAAAATTAACTCAAATTT
*
9189484 GATTTAAATTGGATAGTTATCGCCATGCTTCAATATCAGCTTAATTTGCAGGTAATCCAATGTTT
387 GATTTAAATTGGATAGTTATCGCCATACTTCAATATCAGCTTAATTTGCAGGTAATCCAATGTTT
*
9189549 ATCATCTATATTGAAGTTGGATACGCTTC-TGATTTTGATGAACAAATCTTAAGACAAATGGCAT
452 ATCACCTATATTGAAGTTGGATACGCTTCATGATTTTGATGAACAAATCTTAAGACAAATGGCAT
9189613 ACAAGTTGATGCGACGTGATTAATTTAATTTAATT
517 ACAAGTTGATGCGACGTGATTAATTTAATTTAATT
9189648 TAATTTAATT
Statistics
Matches: 536, Mismatches: 14, Indels: 12
0.95 0.02 0.02
Matches are distributed among these distances:
574 69 0.13
578 4 0.01
579 201 0.38
581 3 0.01
582 259 0.48
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (571 bp):
ATTTAAATTTGTAGTATTTGAAACGATTTAGATATTAAATGTATATATTAAGTTCGGATTAAATT
TTAAATCAAAAAATAAAAAAACCAAAAAAAAGAATTAAATTAAATTATATATTTTTATTAGCTTT
TATGTATATTTTAATCTTTTATAAAATAAAATAGTTATTTTATATCTAAATCTATTAAAATATAT
TAAAATAATATATAAAAAATATATATATACATATACATATATATATTTAAAAAAATCGATGAATC
AAACTAAATCAAATCAATATAATTCAATTCAAATTAAATATATTTCAAGAAAATTTCGATTCGAA
TTCATATCAATTTTAAAAATTCATAATATTATTTATTATCCAAAAAAATTAACTCAAATTTGATT
TAAATTGGATAGTTATCGCCATACTTCAATATCAGCTTAATTTGCAGGTAATCCAATGTTTATCA
CCTATATTGAAGTTGGATACGCTTCATGATTTTGATGAACAAATCTTAAGACAAATGGCATACAA
GTTGATGCGACGTGATTAATTTAATTTAATTCTTTAGGTCGAGACTTAAGT
Found at i:9200769 original size:26 final size:26
Alignment explanation
Indices: 9200733--9200785 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
9200723 TACGCCAACT
9200733 TGCCAAGCTGCTTATGCCAGATGCAC
1 TGCCAAGCTGCTTATGCCAGATGCAC
9200759 TGCCAAGCTGCTTATGCCAGATGCAC
1 TGCCAAGCTGCTTATGCCAGATGCAC
9200785 T
1 T
9200786 CTCTCTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (26 bp):
TGCCAAGCTGCTTATGCCAGATGCAC
Found at i:9204778 original size:18 final size:19
Alignment explanation
Indices: 9204755--9204793 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9204745 TTATTGATAT
*
9204755 AATATTAACATCT-AATAA
1 AATATTAACATATAAATAA
9204773 AATATTAACATATAAATAA
1 AATATTAACATATAAATAA
9204792 AA
1 AA
9204794 AAAATTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AATATTAACATATAAATAA
Found at i:9204936 original size:19 final size:18
Alignment explanation
Indices: 9204912--9204957 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
9204902 AAATTTAAAA
9204912 AAAATTATTTAACAAATTC
1 AAAATTATTTAA-AAATTC
*
9204931 AAAATTTTTTTAAAAATTC
1 AAAA-TTATTTAAAAATTC
*
9204950 TAAATTAT
1 AAAATTAT
9204958 AAATAATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 3 0.13
19 13 0.57
20 7 0.30
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTATTTAAAAATTC
Found at i:9205079 original size:20 final size:19
Alignment explanation
Indices: 9205056--9205162 Score: 74
Period size: 20 Copynumber: 5.5 Consensus size: 19
9205046 AGAAATTAGA
*
9205056 AAAAAACTTTAAAATTTTTT
1 AAAAAA-TTTAAAATATTTT
*
9205076 AAAAAATCTAAAA-ATTTT
1 AAAAAATTTAAAATATTTT
** *
9205094 AAAAGTTTCTAAAAAATTTT
1 AAAAAATT-TAAAATATTTT
* * *
9205114 AAAAACTTAAAAATAATTCT
1 AAAAAATTTAAAAT-ATTTT
9205134 AAAAAATTATAAAA-ATTTT
1 AAAAAATT-TAAAATATTTT
**
9205153 TTAAAATTTA
1 AAAAAATTTA
9205163 TAAAAAAAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
18 11 0.16
19 25 0.37
20 28 0.41
21 4 0.06
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (19 bp):
AAAAAATTTAAAATATTTT
Found at i:9205089 original size:28 final size:29
Alignment explanation
Indices: 9205057--9205148 Score: 105
Period size: 28 Copynumber: 3.2 Consensus size: 29
9205047 GAAATTAGAA
*
9205057 AAAAACTTTAAAATTTTTTAAAAAA-TCT
1 AAAAACTTTAAAATTTTCTAAAAAATTCT
* * *
9205085 AAAAATTTTAAAAGTTTCTAAAAAATTTT
1 AAAAACTTTAAAATTTTCTAAAAAATTCT
* * *
9205114 AAAAACTTAAAAATAATTCTAAAAAATTAT
1 AAAAACTTTAAAAT-TTTCTAAAAAATTCT
9205144 AAAAA
1 AAAAA
9205149 TTTTTTAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 22 0.42
29 13 0.25
30 18 0.34
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (29 bp):
AAAAACTTTAAAATTTTCTAAAAAATTCT
Found at i:9205116 original size:10 final size:10
Alignment explanation
Indices: 9205056--9205169 Score: 67
Period size: 10 Copynumber: 11.6 Consensus size: 10
9205046 AGAAATTAGA
*
9205056 AAAAAACTTT
1 AAAAAATTTT
**
9205066 AAAATTTTTT
1 AAAAAATTTT
*
9205076 AAAAAA-TCT
1 AAAAAATTTT
9205085 -AAAAATTTT
1 AAAAAATTTT
*
9205094 -AAAAGTTTCT
1 AAAAAATTT-T
9205104 AAAAAATTTT
1 AAAAAATTTT
* *
9205114 -AAAAACTTA
1 AAAAAATTTT
*
9205123 AAAATAATTCT
1 AAAA-AATTTT
*
9205134 AAAAAATTAT
1 AAAAAATTTT
9205144 -AAAAATTTT
1 AAAAAATTTT
**
9205153 TTAAAATTTAT
1 AAAAAATTT-T
9205164 AAAAAA
1 AAAAAA
9205170 AAAATTATTA
Statistics
Matches: 78, Mismatches: 19, Indels: 13
0.71 0.17 0.12
Matches are distributed among these distances:
8 5 0.06
9 26 0.33
10 28 0.36
11 19 0.24
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:9205309 original size:19 final size:19
Alignment explanation
Indices: 9205246--9205310 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
9205236 AAATTATAGG
*
9205246 AAAATTTAAATCAAT-TATT
1 AAAATTTTAA-CAATATATT
* * *
9205265 AAATTTTCTAA-AAAATTTT
1 AAAATTT-TAACAATATATT
9205284 AAAAATTTTAACAATATATT
1 -AAAATTTTAACAATATATT
9205304 AAAATTT
1 AAAATTT
9205311 ATTTAAAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
18 2 0.06
19 19 0.54
20 14 0.40
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTTTAACAATATATT
Found at i:9205553 original size:28 final size:27
Alignment explanation
Indices: 9205504--9205556 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
9205494 AATTTAACAA
* * *
9205504 AAAATCAAAAAATTTCACAAAAATTTT
1 AAAATCAAAAAATATAAAAAAAATTTT
9205531 AAAATACAAAAAATATAAAAAAAATT
1 AAAAT-CAAAAAATATAAAAAAAATT
9205557 GACATTGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.25
Consensus pattern (27 bp):
AAAATCAAAAAATATAAAAAAAATTTT
Found at i:9205822 original size:11 final size:11
Alignment explanation
Indices: 9205806--9205847 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
9205796 ATCCTTTTTG
9205806 AATTTTCTTAA
1 AATTTTCTTAA
*
9205817 AATTTTC-TAG
1 AATTTTCTTAA
*
9205827 AATTTTTTTAA
1 AATTTTCTTAA
9205838 AATTTT-TTAA
1 AATTTTCTTAA
9205848 TTCTTTTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 12 0.44
11 15 0.56
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (11 bp):
AATTTTCTTAA
Found at i:9205844 original size:10 final size:10
Alignment explanation
Indices: 9205806--9205914 Score: 86
Period size: 10 Copynumber: 11.0 Consensus size: 10
9205796 ATCCTTTTTG
9205806 AATTTTCTTAA
1 AATTTT-TTAA
*
9205817 AATTTTCTAGA
1 AATTTTTTA-A
*
9205828 ATTTTTTTAA
1 AATTTTTTAA
9205838 AATTTTTT--
1 AATTTTTTAA
*
9205846 AATTCTTTTAGG
1 AATT-TTTTA-A
9205858 AA-TTTTTAA
1 AATTTTTTAA
9205867 AA-TTTTTAA
1 AATTTTTTAA
*
9205876 AAGTTTTT--
1 AATTTTTTAA
*
9205884 AATTTTTTTA
1 AATTTTTTAA
9205894 AATTTTTTCAA
1 AATTTTTT-AA
9205905 AATTTTTTAA
1 AATTTTTTAA
9205915 TTTTTAATGT
Statistics
Matches: 82, Mismatches: 7, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
8 11 0.13
9 15 0.18
10 30 0.37
11 24 0.29
12 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:9205901 original size:19 final size:19
Alignment explanation
Indices: 9205800--9205901 Score: 91
Period size: 19 Copynumber: 5.3 Consensus size: 19
9205790 TACTTAATCC
* *
9205800 TTTTTGAATTTTCTTAAAA
1 TTTTTTAATTTTTTTAAAA
*
9205819 TTTTCTAGAATTTTTTTAAAA
1 TTTT-T-TAATTTTTTTAAAA
* *
9205840 TTTTTTAATTCTTTTAGGAA
1 TTTTTTAATTTTTTTA-AAA
**
9205860 -TTTTTAAAATTTTTAAAA
1 TTTTTTAATTTTTTTAAAA
*
9205878 GTTTTTAATTTTTTT-AAA
1 TTTTTTAATTTTTTTAAAA
9205896 TTTTTT
1 TTTTTT
9205902 CAAAATTTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
18 10 0.15
19 37 0.54
20 4 0.06
21 17 0.25
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTTTAATTTTTTTAAAA
Found at i:9205928 original size:10 final size:9
Alignment explanation
Indices: 9205734--9205919 Score: 52
Period size: 9 Copynumber: 19.7 Consensus size: 9
9205724 TAGAATTGTC
9205734 ATTTTTTT-
1 ATTTTTTTA
*
9205742 ATTCTTTTA
1 ATTTTTTTA
*
9205751 ATTTTTTGA
1 ATTTTTTTA
9205760 ATTTTTTTA
1 ATTTTTTTA
** *
9205769 A-AATTTGA
1 ATTTTTTTA
**
9205777 AAATTTTTA
1 ATTTTTTTA
**
9205786 AGTTTACTTA
1 A-TTTTTTTA
*
9205796 ATCCTTTTTGA
1 AT--TTTTTTA
*
9205807 ATTTTCTTAAA
1 ATTTT-TT-TA
**
9205818 ATTTTCTAGA
1 ATTTT-TTTA
9205828 ATTTTTTTAA
1 ATTTTTTT-A
*
9205838 AATTTTTTA
1 ATTTTTTTA
*
9205847 ATTCTTTTA
1 ATTTTTTTA
* *
9205856 GGAATTTTTAA
1 --ATTTTTTTA
* *
9205867 AATTTTTAA
1 ATTTTTTTA
**
9205876 AAGTTTTTA
1 ATTTTTTTA
9205885 ATTTTTTTAA
1 ATTTTTTT-A
*
9205895 ATTTTTTCAA
1 ATTTTTT-TA
*
9205905 AATTTTTTA
1 ATTTTTTTA
9205914 ATTTTT
1 ATTTTT
9205920 AATGTTTTTG
Statistics
Matches: 131, Mismatches: 35, Indels: 23
0.69 0.19 0.12
Matches are distributed among these distances:
8 12 0.09
9 63 0.48
10 36 0.27
11 20 0.15
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:9206068 original size:17 final size:17
Alignment explanation
Indices: 9206048--9206086 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9206038 AAAATTTTAA
*
9206048 AATTTTTTTGAATTTTT
1 AATTTTTTTAAATTTTT
9206065 AATTTTTTTAAATTTTT
1 AATTTTTTTAAATTTTT
*
9206082 TATTT
1 AATTT
9206087 GAATTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
AATTTTTTTAAATTTTT
Found at i:9206101 original size:14 final size:13
Alignment explanation
Indices: 9206067--9206106 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
9206057 GAATTTTTAA
*
9206067 TTTTTTTAAATTT
1 TTTTTTTGAATTT
*
9206080 TTTATTTGAATTAT
1 TTTTTTTGAATT-T
9206094 TTTTTTTGAATTT
1 TTTTTTTGAATTT
9206107 CCCAAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (13 bp):
TTTTTTTGAATTT
Found at i:9206135 original size:11 final size:11
Alignment explanation
Indices: 9206119--9206165 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
9206109 CAAAAAGAAT
*
9206119 AAAATTATTTA
1 AAAATTTTTTA
9206130 AAAATTTTTTA
1 AAAATTTTTTA
*
9206141 AGAA-TTTTTA
1 AAAATTTTTTA
*
9206151 AAATTTTTTTA
1 AAAATTTTTTA
9206162 AAAA
1 AAAA
9206166 AATTTTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 8 0.27
11 22 0.73
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (11 bp):
AAAATTTTTTA
Found at i:9206152 original size:21 final size:22
Alignment explanation
Indices: 9206121--9206162 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
9206111 AAAAGAATAA
9206121 AATTATTTAAAAATTTTTTAAG
1 AATTATTTAAAAATTTTTTAAG
*
9206143 AATT-TTTAAAATTTTTTTAA
1 AATTATTTAAAAATTTTTTAA
9206163 AAAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTATTTAAAAATTTTTTAAG
Found at i:9206365 original size:25 final size:23
Alignment explanation
Indices: 9206320--9206365 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
9206310 AGTGTTAATG
* *
9206320 CAATAGAAAAAATTTTTAAATAC
1 CAATAGAAAAAATTATAAAATAC
9206343 CAATATGATAAAAATTATAAAAT
1 CAATA-GA-AAAAATTATAAAAT
9206366 TTAAGGGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 2 0.11
25 12 0.63
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (23 bp):
CAATAGAAAAAATTATAAAATAC
Found at i:9209967 original size:18 final size:19
Alignment explanation
Indices: 9209946--9209993 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
9209936 CAATTCATAA
9209946 ATTTAATTAAATTTTTA-T
1 ATTTAATTAAATTTTTATT
* *
9209964 ATTTAAATATATTTTTATT
1 ATTTAATTAAATTTTTATT
9209983 ATTTTAATTAA
1 A-TTTAATTAA
9209994 TAAAATATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 15 0.62
19 2 0.08
20 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTAATTAAATTTTTATT
Found at i:9210064 original size:24 final size:26
Alignment explanation
Indices: 9210024--9210091 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
9210014 TTTAAATTCG
*
9210024 AATACAAATAATTAAATTT-TTATTA
1 AATATAAATAATTAAATTTATTATTA
*
9210049 AATATAAA-AATTAAATTTATTTTTA
1 AATATAAATAATTAAATTTATTATTA
* *
9210074 CATATAATGTAATTAAAT
1 AATATAA-ATAATTAAAT
9210092 AAATTTGAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 10 0.28
25 18 0.50
27 8 0.22
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (26 bp):
AATATAAATAATTAAATTTATTATTA
Found at i:9210087 original size:27 final size:24
Alignment explanation
Indices: 9210030--9210091 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
9210020 TTCGAATACA
9210030 AATAATTAAATTTTTATTAAATAT
1 AATAATTAAATTTTTATTAAATAT
* * *
9210054 AAAAATTAAATTTATTTTTACATAT
1 AATAATTAAATTT-TTATTAAATAT
9210079 AATGTAATTAAAT
1 AA--TAATTAAAT
9210092 AAATTTGAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 12 0.39
25 11 0.35
27 8 0.26
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
AATAATTAAATTTTTATTAAATAT
Found at i:9223567 original size:13 final size:13
Alignment explanation
Indices: 9223549--9223573 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9223539 TTCTATTCAA
9223549 CTCATTTTTTTTT
1 CTCATTTTTTTTT
9223562 CTCATTTTTTTT
1 CTCATTTTTTTT
9223574 GGTAATAAGA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (13 bp):
CTCATTTTTTTTT
Found at i:9225007 original size:117 final size:115
Alignment explanation
Indices: 9224628--9225033 Score: 505
Period size: 117 Copynumber: 3.5 Consensus size: 115
9224618 ATAAACTGTA
*
9224628 TGATTAATTTTTTAAATAATTTTGTCTTAAATTTCAAG-AAAATGTTTGGATTTATGTTATCTAA
1 TGATTAATTTTTTAAATAA-TTTATCTTAAATTTCAAGAAAAAT-TTTGGATTTATGTTATCTAA
* * *
9224692 GCTTATAATTAGGTAAATTGATTTGTTTTTTATTTGATCT-TTTGTAAATCGCG
64 GCTTACAATTAGATAAATTGATTTGTTTTTTATTTGAT-TATTTGTAAA-CACG
*
9224745 TGATTAATTTTTTTAAATAATTTCATCTTCAATTTCAAGAAAAATTTTGGATTTATGTTATCTAA
1 TGATTAA-TTTTTTAAATAATTT-ATCTTAAATTTCAAGAAAAATTTTGGATTTATGTTATCTAA
* * * *
9224810 GCTTACAA-T-GATAAATTGATTTGTTTTTTATTTGGTAACTTGTAGACCACG
64 GCTTACAATTAGATAAATTGATTTGTTTTTTATTTGATTATTTGTA-AACACG
* * * * * *
9224861 TAATTAATCTTTTAAATAATCTCATCTTAAATTTCAAGAAAAATTTTGGATTTATATTATTTACG
1 TGATTAATTTTTTAAATAAT-TTATCTTAAATTTCAAGAAAAATTTTGGATTTATGTTATCTAAG
* *
9224926 CTTACAATTAGATAAATTGATTTATTTTTTATTTGATTATTTGTAAACTCG
65 CTTACAATTAGATAAATTGATTTGTTTTTTATTTGATTATTTGTAAACACG
* * * *
9224977 TGATTAACTTTTTCAAATAAATTTACCTTAAATTTCAAGGAGAATTTTGGATTTATG
1 TGATTAA-TTTTTTAAAT-AATTTATCTTAAATTTCAAGAAAAATTTTGGATTTATG
9225034 GAAGTTTGAA
Statistics
Matches: 249, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
115 57 0.23
116 51 0.20
117 81 0.33
118 55 0.22
119 5 0.02
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (115 bp):
TGATTAATTTTTTAAATAATTTATCTTAAATTTCAAGAAAAATTTTGGATTTATGTTATCTAAGC
TTACAATTAGATAAATTGATTTGTTTTTTATTTGATTATTTGTAAACACG
Found at i:9225242 original size:26 final size:28
Alignment explanation
Indices: 9225211--9225268 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
9225201 GAATGTGAAA
* *
9225211 TAAAAATAT-ATATAAATTATATAAATT
1 TAAAATTATAATAAAAATTATATAAATT
* *
9225238 TAAAATTTTAATAAAAATTATATATATT
1 TAAAATTATAATAAAAATTATATAAATT
9225266 TAA
1 TAA
9225269 TAAATATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TAAAATTATAATAAAAATTATATAAATT
Found at i:9225266 original size:28 final size:29
Alignment explanation
Indices: 9225224--9225289 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
9225214 AAATATATAT
9225224 AAATTATATAAATTT-A-AAAT-TTTAATAA
1 AAATTATATAAATTTAATAAATATTT-A-AA
*
9225252 AAATTATATATATTTAATAAATATTTAAA
1 AAATTATATAAATTTAATAAATATTTAAA
9225281 AAATTATAT
1 AAATTATAT
9225290 TTAATATATC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
28 14 0.41
29 12 0.35
30 5 0.15
31 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
AAATTATATAAATTTAATAAATATTTAAA
Done.