Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 37 of 121
Found at i:6567366 original size:3 final size:3
Alignment explanation
Indices: 6567354--6567396 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
6567344 GTAGTAGTAG
*
6567354 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6567397 CGACTCCAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6570438 original size:23 final size:23
Alignment explanation
Indices: 6570408--6570451 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
6570398 TCTTTCTCTT
6570408 TCTCTAAAACT-AAACCAATTCTC
1 TCTCT-AAACTCAAACCAATTCTC
6570431 TCTCTAAACTCAAACCAATTC
1 TCTCTAAACTCAAACCAATTC
6570452 ACAAACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.30
Consensus pattern (23 bp):
TCTCTAAACTCAAACCAATTCTC
Found at i:6573259 original size:53 final size:53
Alignment explanation
Indices: 6573163--6573271 Score: 132
Period size: 53 Copynumber: 2.1 Consensus size: 53
6573153 TCATGCACCC
* * * *
6573163 ATACCTATGTGGACCATCTTTGTCACATTTAGTTCACTTCAACATACATACTT
1 ATACCTATGTGGACCATCTTAGTCACATTTAGTTCACTCCAACACACATACCT
* *
6573216 ATACCTATGTGGACCCTCTTAGTCTC-TTGTAG-TCTACTCCAACACACATACCT
1 ATACCTATGTGGACCATCTTAGTCACATT-TAGTTC-ACTCCAACACACATACCT
6573269 ATA
1 ATA
6573272 AAGATGTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
52 4 0.08
53 44 0.92
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (53 bp):
ATACCTATGTGGACCATCTTAGTCACATTTAGTTCACTCCAACACACATACCT
Found at i:6573524 original size:89 final size:89
Alignment explanation
Indices: 6573369--6573544 Score: 228
Period size: 89 Copynumber: 2.0 Consensus size: 89
6573359 CCTATGTGAA
* *
6573369 GTCTATCTCATAAAATCATACAACTCTCTTATACCTTTTTTTTATACTTAACCCTATAGAGACTT
1 GTCTATCTCATAAAATCATACAACTCTCTTACACCTTTTTCTTATACTTAACCCTATAGAGACTT
*
6573434 CACCTATTTTTTAATATACAAAGT
66 CACCTATTTGTTAATATACAAAGT
* * * * * * *
6573458 GTCTATC-CTATAAAATCTTACAATTCTTTTACATCTTTTTCTTATATTTAACCTTATAGAGTCT
1 GTCTATCTC-ATAAAATCATACAACTCTCTTACACCTTTTTCTTATACTTAACCCTATAGAGACT
* *
6573522 TCACTTATTTGTTAGTATACAAA
65 TCACCTATTTGTTAATATACAAA
6573545 CTTGCCTATT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 1 0.01
89 73 0.99
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.44
Consensus pattern (89 bp):
GTCTATCTCATAAAATCATACAACTCTCTTACACCTTTTTCTTATACTTAACCCTATAGAGACTT
CACCTATTTGTTAATATACAAAGT
Found at i:6577220 original size:65 final size:62
Alignment explanation
Indices: 6577099--6577220 Score: 147
Period size: 65 Copynumber: 1.9 Consensus size: 62
6577089 TTTTTGACAG
** * * * *
6577099 AAAACACCTTCAATAATCTTTTAAAATTTTTTTTAAGGGATTATTAAAGGCGTTTTTTACCT
1 AAAACACCTTCAATAATCTTAAAAAATTTTGTTGAAGGGATTATAAAAGACGTTTTTTACCT
*
6577161 AAAACACCTTCAATAATCCGTATAAAAAATTTTGTTGAGGGGATTATAAAAGAC-TTTTTT
1 AAAACACCTTCAATAAT-C-T-TAAAAAATTTTGTTGAAGGGATTATAAAAGACGTTTTTT
6577221 GGCAAAAACA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
62 17 0.34
63 1 0.02
64 7 0.14
65 25 0.50
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.39
Consensus pattern (62 bp):
AAAACACCTTCAATAATCTTAAAAAATTTTGTTGAAGGGATTATAAAAGACGTTTTTTACCT
Found at i:6577446 original size:12 final size:12
Alignment explanation
Indices: 6577418--6577459 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
6577408 TTTTTCTATG
6577418 TTCATATAAATATA
1 TTCATAT-AA-ATA
6577432 TTCATATAAATA
1 TTCATATAAATA
*
6577444 TTCATACAAATA
1 TTCATATAAATA
6577456 TTCA
1 TTCA
6577460 ATTTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 18 0.67
13 2 0.07
14 7 0.26
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (12 bp):
TTCATATAAATA
Found at i:6582075 original size:27 final size:28
Alignment explanation
Indices: 6582025--6582105 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 28
6582015 TACATGCTCT
* *
6582025 GGTC-AAATAAAAAAAGAAGAAA-AGAGA
1 GGTCAAAAAAAAAAAAAAAGAAAGAG-GA
*
6582052 GGTCAAAAAAAAAAAAAAAGAAAGAGGG
1 GGTCAAAAAAAAAAAAAAAGAAAGAGGA
6582080 GGTGGCAAAAACAAAAAAAAAAGAAA
1 GGT--CAAAAA-AAAAAAAAAAGAAA
6582106 AAAAAAAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 4 0.09
28 20 0.43
29 2 0.04
30 6 0.13
31 14 0.30
ACGTcount: A:0.68, C:0.05, G:0.22, T:0.05
Consensus pattern (28 bp):
GGTCAAAAAAAAAAAAAAAGAAAGAGGA
Found at i:6582106 original size:11 final size:11
Alignment explanation
Indices: 6582086--6582121 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
6582076 AGGGGGTGGC
*
6582086 AAAAACAAAAA
1 AAAAAGAAAAA
6582097 AAAAAGAAAAA
1 AAAAAGAAAAA
6582108 AAAAAGTAAAAA
1 AAAAAG-AAAAA
6582120 AA
1 AA
6582122 GTGAGTTGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.89, C:0.03, G:0.06, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:6585527 original size:293 final size:290
Alignment explanation
Indices: 6585161--6586192 Score: 1146
Period size: 291 Copynumber: 3.5 Consensus size: 290
6585151 GATAAACGCC
* ** * ** *
6585161 TTGAATAATTCATTAATTATTCAAGGCATTTTTAGCTAGAAACGCCTTCAATAAACCCATTCAAT
1 TTGAATAATCCACAAATTATTCAAGGCATTTTTAGCCAGAAATACCTTCAATAACCCCATTCAAT
* * * * * *
6585226 ATTTTGTAAAAGATTATTGAAGGTGTTTTTTGGCTAAAAACGCTTCAATAATCTCAT-TGTAAAA
66 ATTTTGTAAAGGATTATTCAAGGTATTTTCTAGCTAAAAACGCTTCAATAATC-CATCT-AAAAA
* * * *
6585290 TTTGAATGGGATTATTAAAGGCATTTTCTGGCCAAAACACCTTGAATATTCGAAAAAAAATGTTA
129 ATTGAAAGGGATTATTAAAGGCATTTTCTGGCCAAAAAACCTTGATTATTCGAAAAAAAATGTTA
* * * *
6585355 AAATTATTGAAGGCATTTTTTACAAAAAATGCCTTCAATAATTCCCAATGAATGAATAATTCGTG
194 AGATTATTGAAGGCATTTTTTACAGAAAACGCCTTCAATAATTCCCAATGAATGAATAATTTGTG
* ** * *
6585420 GGTTATATAACGTGTTTTTGGGCAAAAAATGCA
259 GGTTATATAAGGCATTTTT-GGCTAAAAATACA
* ** *
6585453 TTGAATAACCCATGAATTATTCAAGGCATTTTTAGCCAGAAAATGCCTTCAATAACCCCATTCAA
1 TTGAATAATCCACAAATTATTCAAGGCATTTTTAGCCAG-AAATACCTTCAATAACCCCATTCAA
*
6585518 TATTTTGTAAAGGATTATTCAAGG-ATTTTCTAGCTAAAAATGCCTTCAATAATCCCATCTAAAA
65 TATTTTGTAAAGGATTATTCAAGGTATTTTCTAGCTAAAAACG-CTTCAATAAT-CCATCTAAAA
* * **
6585582 AATTGAAAGGGATTATTGAAGGCGTTTTCTGGCCTAAAATGCCTTGATTATTC-AAAAAAAATGT
128 AATTGAAAGGGATTATTAAAGGCATTTTCTGGCC-AAAAAACCTTGATTATTCGAAAAAAAATGT
* * * *
6585646 TAGGATTATTGAAGGCATTTTTTACAGAAAACACCTTCAATAATCCCCAATGAATGAATAATTTA
192 TAAGATTATTGAAGGCATTTTTTACAGAAAACGCCTTCAATAATTCCCAATGAATGAATAATTTG
* * *
6585711 TAGGTTATATAAGGCATTTTTTGCTAAAAATACC
257 TGGGTTATATAAGGCATTTTTGGCTAAAAATACA
* * * *
6585745 TTGAATAATCTACAAATTATTGAAGGCATTGTTAGCCAGAAATACCTTTAATAACCCCATTCAAT
1 TTGAATAATCCACAAATTATTCAAGGCATTTTTAGCCAGAAATACCTTCAATAACCCCATTCAAT
* *
6585810 ATTTTGTAAGGGATTAGTCAAGGTATTTTCT-GACTAAAAATAC-CTTCAATAATCCTATCTAAA
66 ATTTTGTAAAGGATTATTCAAGGTATTTTCTAG-CT-AAAA-ACGCTTCAATAATCC-ATCTAAA
* * *
6585873 AAATTGAAAGGGATTATTAAAGGCATTTTAT-GACAAAAAATGCCATGATTATT-GAAAAAAAAT
127 AAATTGAAAGGGATTATTAAAGGCATTTTCTGGCCAAAAAA--CCTTGATTATTCGAAAAAAAAT
* * ** * * * *
6585936 GTTATGTTTATTGAAGGTGTTTTTAACAGAAAACGCTTTCAA-CAGTCCCTAATGAA-GAATAAT
190 GTTAAGATTATTGAAGGCATTTTTTACAGAAAACGCCTTCAATAATTCCC-AATGAATGAATAAT
* * *
6585999 TTGTGGGTTATATAAGGCATTTTTGGCTGAAAACACT
254 TTGTGGGTTATATAAGGCATTTTTGGCTAAAAATACA
* ** * * *
6586036 TTGAATAATCCACAAATTACTCAAGATATTTTTAACAAAAAATACCTTCAATAACCCCATTCAAT
1 TTGAATAATCCACAAATTATTCAAGGCATTTTTAGCCAGAAATACCTTCAATAACCCCATTCAAT
* * * * * *
6586101 ATTTTATAAGGGATTATTAAAGGCATTTTCTAGCTAAAAACAACTTTAATAATCCCATCTAAAAA
66 ATTTTGTAAAGGATTATTCAAGGTATTTTCTAGCTAAAAAC-GCTTCAATAAT-CCATCTAAAAA
* * * * *
6586166 AATGGAGGGGATTAGTGAAGGCATTTT
129 ATTGAAAGGGATTATTAAAGGCATTTT
6586193 TGACAAAAAA
Statistics
Matches: 632, Mismatches: 90, Indels: 37
0.83 0.12 0.05
Matches are distributed among these distances:
289 2 0.00
290 8 0.01
291 216 0.34
292 208 0.33
293 180 0.28
294 18 0.03
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (290 bp):
TTGAATAATCCACAAATTATTCAAGGCATTTTTAGCCAGAAATACCTTCAATAACCCCATTCAAT
ATTTTGTAAAGGATTATTCAAGGTATTTTCTAGCTAAAAACGCTTCAATAATCCATCTAAAAAAT
TGAAAGGGATTATTAAAGGCATTTTCTGGCCAAAAAACCTTGATTATTCGAAAAAAAATGTTAAG
ATTATTGAAGGCATTTTTTACAGAAAACGCCTTCAATAATTCCCAATGAATGAATAATTTGTGGG
TTATATAAGGCATTTTTGGCTAAAAATACA
Found at i:6585595 original size:62 final size:63
Alignment explanation
Indices: 6585468--6585626 Score: 175
Period size: 62 Copynumber: 2.5 Consensus size: 63
6585458 TAACCCATGA
* * **
6585468 ATTATTCAAGGCATTTT-TAGCCAGAAAATGCCTTCAATAACCCCATTCAATATTTTGTAAAGG
1 ATTATTCAAGGCATTTTCTAGCTA-AAAATGCCTTCAATAACCCCATTCAAAAAATTGTAAAGG
*
6585531 ATTATTCAAGG-ATTTTCTAGCTAAAAATGCCTTCAATAATCCCA-TCTAAAAAATTG-AAAGGG
1 ATTATTCAAGGCATTTTCTAGCTAAAAATGCCTTCAATAACCCCATTC-AAAAAATTGTAAA-GG
* * *
6585593 ATTATTGAAGGCGTTTTCTGGCCT-AAAATGCCTT
1 ATTATTCAAGGCATTTTCTAG-CTAAAAATGCCTT
6585627 GATTATTCAA
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
61 5 0.06
62 43 0.52
63 33 0.40
64 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (63 bp):
ATTATTCAAGGCATTTTCTAGCTAAAAATGCCTTCAATAACCCCATTCAAAAAATTGTAAAGG
Found at i:6585889 original size:292 final size:291
Alignment explanation
Indices: 6585159--6586192 Score: 1198
Period size: 292 Copynumber: 3.5 Consensus size: 291
6585149 ACGATAAACG
* ** * ** *
6585159 CCTTGAATAATTCATTAATTATTCAAGGCATTTTTAGCTAGAAACGCCTTCAATAAACCCATTCA
1 CCTTGAATAATCCACAAATTATTCAAGGCATTTTTAGCCAGAAATACCTTCAATAACCCCATTCA
* * * * * * *
6585224 ATATTTTGTAAAAGATTATTGAAGGTGTTTTTTGGCT-AAAA-ACGCTTCAATAATCTCAT-TGT
66 ATATTTTGTAAAGGATTATTCAAGGTATTTTCTAGCTAAAAATAC-CTTCAATAATCCCATCT-A
* * ** *
6585286 AAAATTTGAATGGGATTATTAAAGGCATTTTCTGGCCAAAACACCTTGAATATTCGAAAAAAAAT
129 AAAAATTGAAAGGGATTATTAAAGGCATTTTCTGGCCAAAATGCCTTGATTATTC-AAAAAAAAT
* * * *
6585351 GTTAAAATTATTGAAGGCATTTTTTACAAAAAATGCCTTCAATAATTCCCAATGAATGAATAATT
193 GTTAAGATTATTGAAGGCATTTTTTACAGAAAACGCCTTCAATAATCCCCAATGAATGAATAATT
* * ** * *
6585416 CGTGGGTTATATAACGTGTTTTTGGGCAAAAAATG
258 TGTGGGTTATATAAGGCATTTTT-GGCTAAAAATA
* * ** *
6585451 CATTGAATAACCCATGAATTATTCAAGGCATTTTTAGCCAGAAAATGCCTTCAATAACCCCATTC
1 CCTTGAATAATCCACAAATTATTCAAGGCATTTTTAGCCAG-AAATACCTTCAATAACCCCATTC
*
6585516 AATATTTTGTAAAGGATTATTCAAGG-ATTTTCTAGCTAAAAATGCCTTCAATAATCCCATCTAA
65 AATATTTTGTAAAGGATTATTCAAGGTATTTTCTAGCTAAAAATACCTTCAATAATCCCATCTAA
* *
6585580 AAAATTGAAAGGGATTATTGAAGGCGTTTTCTGGCCTAAAATGCCTTGATTATTCAAAAAAAATG
130 AAAATTGAAAGGGATTATTAAAGGCATTTTCTGGCC-AAAATGCCTTGATTATTCAAAAAAAATG
* *
6585645 TTAGGATTATTGAAGGCATTTTTTACAGAAAACACCTTCAATAATCCCCAATGAATGAATAATTT
194 TTAAGATTATTGAAGGCATTTTTTACAGAAAACGCCTTCAATAATCCCCAATGAATGAATAATTT
* * *
6585710 ATAGGTTATATAAGGCATTTTTTGCTAAAAATA
259 GTGGGTTATATAAGGCATTTTTGGCTAAAAATA
* * * *
6585743 CCTTGAATAATCTACAAATTATTGAAGGCATTGTTAGCCAGAAATACCTTTAATAACCCCATTCA
1 CCTTGAATAATCCACAAATTATTCAAGGCATTTTTAGCCAGAAATACCTTCAATAACCCCATTCA
* * *
6585808 ATATTTTGTAAGGGATTAGTCAAGGTATTTTCT-GACTAAAAATACCTTCAATAATCCTATCTAA
66 ATATTTTGTAAAGGATTATTCAAGGTATTTTCTAG-CTAAAAATACCTTCAATAATCCCATCTAA
* * * * *
6585872 AAAATTGAAAGGGATTATTAAAGGCATTTTATGACAAAAAATGCCATGATTATTGAAAAAAAATG
130 AAAATTGAAAGGGATTATTAAAGGCATTTTCTGGC-CAAAATGCCTTGATTATTCAAAAAAAATG
* * ** * * * * *
6585937 TTATGTTTATTGAAGGTGTTTTTAACAGAAAACGCTTTCAACAGTCCCTAATGAA-GAATAATTT
194 TTAAGATTATTGAAGGCATTTTTTACAGAAAACGCCTTCAATAATCCCCAATGAATGAATAATTT
* *
6586001 GTGGGTTATATAAGGCATTTTTGGCTGAAAACA
259 GTGGGTTATATAAGGCATTTTTGGCTAAAAATA
* * ** * * *
6586034 CTTTGAATAATCCACAAATTACTCAAGATATTTTTAACAAAAAATACCTTCAATAACCCCATTCA
1 CCTTGAATAATCCACAAATTATTCAAGGCATTTTTAGCCAGAAATACCTTCAATAACCCCATTCA
* * * * * * *
6586099 ATATTTTATAAGGGATTATTAAAGGCATTTTCTAGCTAAAAACAACTTTAATAATCCCATCTAAA
66 ATATTTTGTAAAGGATTATTCAAGGTATTTTCTAGCTAAAAATACCTTCAATAATCCCATCTAAA
* * * * *
6586164 AAAATGGAGGGGATTAGTGAAGGCATTTT
131 AAATTGAAAGGGATTATTAAAGGCATTTT
6586193 TGACAAAAAA
Statistics
Matches: 637, Mismatches: 96, Indels: 19
0.85 0.13 0.03
Matches are distributed among these distances:
291 216 0.34
292 223 0.35
293 181 0.28
294 17 0.03
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (291 bp):
CCTTGAATAATCCACAAATTATTCAAGGCATTTTTAGCCAGAAATACCTTCAATAACCCCATTCA
ATATTTTGTAAAGGATTATTCAAGGTATTTTCTAGCTAAAAATACCTTCAATAATCCCATCTAAA
AAATTGAAAGGGATTATTAAAGGCATTTTCTGGCCAAAATGCCTTGATTATTCAAAAAAAATGTT
AAGATTATTGAAGGCATTTTTTACAGAAAACGCCTTCAATAATCCCCAATGAATGAATAATTTGT
GGGTTATATAAGGCATTTTTGGCTAAAAATA
Found at i:6585935 original size:22 final size:22
Alignment explanation
Indices: 6585907--6585950 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6585897 ATTTTATGAC
6585907 AAAAAATGCCATGATTATTGAA
1 AAAAAATGCCATGATTATTGAA
** *
6585929 AAAAAATGTTATGTTTATTGAA
1 AAAAAATGCCATGATTATTGAA
6585951 GGTGTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (22 bp):
AAAAAATGCCATGATTATTGAA
Found at i:6586391 original size:189 final size:186
Alignment explanation
Indices: 6586062--6586426 Score: 470
Period size: 189 Copynumber: 1.9 Consensus size: 186
6586052 TTACTCAAGA
6586062 TATTTTTAACAAAAAATACCTTCAATAACCCCATTCAATATTTTATAAGGGATTATTAAAGGCAT
1 TATTTTTAACAAAAAATACCTTCAATAACCCCATTCAATATTTTATAAGGGATTATTAAAGGCAT
* *
6586127 TTTCTAGCTAAAAACAACTTTAATAATCCCATCTAAAAAAATGGAGGGGATTAGTGAAGGCATTT
66 TTTCTAGCTAAAAACAACTTGAATAATCCCATCTAAAAAAATGAAGGGGATTAGTGAAGGCATTT
*
6586192 TTGACAAAAAAATGCCTTC-AATAATCCA-CTTATAAAAAATCTAAAGGGATTATTGAAGG
131 TTGAC-AAAAAATACC-TCGAATAAT--ATCTTATAAAAAAT-TAAAGGGATTATTGAAGG
* * * * * * * **
6586251 TATTTTTGACCAAAAATACTTTCAATAACCCTATTCAATTTTTTGTAAGGGATTATTTAAGGTGT
1 TATTTTTAACAAAAAATACCTTCAATAACCCCATTCAATATTTTATAAGGGATTATTAAAGGCAT
* * * * *
6586316 TTTCTAGGCTAAAATC-CCTTGATTAATCCCTGTCT-AAAAAATGAAGGGGATTATTGAAGGCAC
66 TTTCTA-GCTAAAAACAACTTGAATAATCCC-ATCTAAAAAAATGAAGGGGATTAGTGAAGGCA-
6586379 TTTTTG-CAAAAAATACCTCGAATAATATCTTATAAAAAATTAAAGGGA
128 TTTTTGACAAAAAATACCTCGAATAATATCTTATAAAAAATTAAAGGGA
6586427 ATAATCCCCT
Statistics
Matches: 154, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
186 9 0.06
187 14 0.09
188 15 0.10
189 99 0.64
190 17 0.11
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (186 bp):
TATTTTTAACAAAAAATACCTTCAATAACCCCATTCAATATTTTATAAGGGATTATTAAAGGCAT
TTTCTAGCTAAAAACAACTTGAATAATCCCATCTAAAAAAATGAAGGGGATTAGTGAAGGCATTT
TTGACAAAAAATACCTCGAATAATATCTTATAAAAAATTAAAGGGATTATTGAAGG
Found at i:6593835 original size:15 final size:15
Alignment explanation
Indices: 6593815--6593850 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
6593805 AGTGTAACTC
*
6593815 TTTATCTATGTTTGT
1 TTTATCGATGTTTGT
6593830 TTTATCGATGTTTGT
1 TTTATCGATGTTTGT
6593845 TTTATC
1 TTTATC
6593851 AGACTTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.08, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTATCGATGTTTGT
Found at i:6594020 original size:24 final size:24
Alignment explanation
Indices: 6593980--6594026 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6593970 AAAACATATT
* *
6593980 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
6594003 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
6594027 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:6595191 original size:3 final size:3
Alignment explanation
Indices: 6595185--6595213 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6595175 AATAATTATT
6595185 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
6595214 TTTTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:6595652 original size:5 final size:5
Alignment explanation
Indices: 6595632--6595665 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
6595622 GAACATTAGC
6595632 AAAAT ATAAA- AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAAA
6595666 ACTCTAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 3 0.11
5 21 0.78
6 3 0.11
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:6595849 original size:26 final size:26
Alignment explanation
Indices: 6595800--6595850 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
6595790 TATTATTTTT
* *
6595800 AAAATTGATTTCTTGATTACTTAAAA
1 AAAATAGATTTCTTGATAACTTAAAA
* *
6595826 AAAATAGATTTGTTGATAATTTAAA
1 AAAATAGATTTCTTGATAACTTAAA
6595851 TGTATATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATAGATTTCTTGATAACTTAAAA
Found at i:6597316 original size:11 final size:11
Alignment explanation
Indices: 6597302--6597344 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
6597292 AAAAAACATG
*
6597302 AAAAGGAAAAA
1 AAAAAGAAAAA
*
6597313 AAAAACAAAAA
1 AAAAAGAAAAA
6597324 AAAAAGAAAAA
1 AAAAAGAAAAA
**
6597335 TTAAAGAAAA
1 AAAAAGAAAA
6597345 CGTGGAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.05
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:6599005 original size:18 final size:18
Alignment explanation
Indices: 6598982--6599020 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6598972 AAATGCCTTC
6598982 ATTAATCCAATCTAAAAA
1 ATTAATCCAATCTAAAAA
*
6599000 ATTAATCCCATCTAAAAA
1 ATTAATCCAATCTAAAAA
6599018 ATT
1 ATT
6599021 GGAAGGGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTAATCCAATCTAAAAA
Found at i:6603809 original size:68 final size:68
Alignment explanation
Indices: 6603662--6603788 Score: 211
Period size: 68 Copynumber: 1.9 Consensus size: 68
6603652 GCATTACATT
* *
6603662 AATGAATAAGATGTTTATAAAATTATTTTTACTGCTATATAAATGGATGATTACCTTTTGTATAT
1 AATGAATAAGATGTTTATAAAATTATTTCTACTGCTATATAAATGGATGATTACCTTCTGTATAT
6603727 ATG
66 ATG
*
6603730 AATGAATAAGATGTTTATAAAATTATTTCTACTAG-TATATGAATGGATGATTACCTTCT
1 AATGAATAAGATGTTTATAAAATTATTTCTACT-GCTATATAAATGGATGATTACCTTCT
6603789 TACTTTTTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
68 54 0.98
69 1 0.02
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (68 bp):
AATGAATAAGATGTTTATAAAATTATTTCTACTGCTATATAAATGGATGATTACCTTCTGTATAT
ATG
Found at i:6604695 original size:55 final size:55
Alignment explanation
Indices: 6604615--6604762 Score: 174
Period size: 55 Copynumber: 2.7 Consensus size: 55
6604605 TTGTCAATAA
* * *
6604615 AATATAA-TAAAAAAATTAAAACATATAAGTCTATACTGATAATTTCTAA-CTGTC
1 AATATAAGTAAAAAAATTAAAACATATAAGTCTATACTGACAATCTCTAATC-ATC
* * * *
6604669 AATATAAGTAAGAAAATTAAAGCATATAATTCCATACTGACAATCTCTAATCATC
1 AATATAAGTAAAAAAATTAAAACATATAAGTCTATACTGACAATCTCTAATCATC
* * *
6604724 AATATAGGTAAAAAAATTAAAAAAATACAAGTCTATACT
1 AATATAAGTAAAAAAATT-AAAACATATAAGTCTATACT
6604763 AATAGATATT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 7 0.09
55 54 0.70
56 16 0.21
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (55 bp):
AATATAAGTAAAAAAATTAAAACATATAAGTCTATACTGACAATCTCTAATCATC
Found at i:6605008 original size:49 final size:49
Alignment explanation
Indices: 6604915--6605008 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
6604905 AACATAAAAA
* * *
6604915 TCTATACTGATGGGCATTAAGCATCAATATAGCTAAAAACAATTACAAG
1 TCTATACTGATGGGCATTAACCATCAATATAGCGAAAAAAAATTACAAG
* **
6604964 TCTATACTGATGGGCATTTACCATCGGTATAG-GAAAGAAAAATTA
1 TCTATACTGATGGGCATTAACCATCAATATAGCGAAA-AAAAATTA
6605009 AAACATACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.08
49 35 0.92
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (49 bp):
TCTATACTGATGGGCATTAACCATCAATATAGCGAAAAAAAATTACAAG
Found at i:6605758 original size:7 final size:7
Alignment explanation
Indices: 6605742--6605848 Score: 83
Period size: 7 Copynumber: 15.3 Consensus size: 7
6605732 CTCAAATTTA
*
6605742 AAACCTT
1 AAACCCT
6605749 AAACCCT
1 AAACCCT
*
6605756 AAATCCT
1 AAACCCT
6605763 AAA-CCT
1 AAACCCT
*
6605769 CAAACCCC
1 -AAACCCT
*
6605777 AAATCCT
1 AAACCCT
*
6605784 AAACCAT
1 AAACCCT
6605791 AAACCCT
1 AAACCCT
6605798 AAACCCT
1 AAACCCT
* *
6605805 AAGCCCC
1 AAACCCT
6605812 AAACTCC-
1 AAAC-CCT
*
6605819 AAACTCT
1 AAACCCT
*
6605826 AAACCTT
1 AAACCCT
* *
6605833 AGACCCC
1 AAACCCT
6605840 AAACCCT
1 AAACCCT
6605847 AA
1 AA
6605849 CTTAGACCCC
Statistics
Matches: 77, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
6 4 0.05
7 69 0.90
8 4 0.05
ACGTcount: A:0.43, C:0.39, G:0.02, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:6605766 original size:21 final size:21
Alignment explanation
Indices: 6605742--6605806 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
6605732 CTCAAATTTA
6605742 AAACCTTAAACCCTAAATCCT
1 AAACCTTAAACCCTAAATCCT
* *
6605763 AAACCTCAAACCCCAAATCCT
1 AAACCTTAAACCCTAAATCCT
* *
6605784 AAACCATAAACCCTAAACCCT
1 AAACCTTAAACCCTAAATCCT
6605805 AA
1 AA
6605807 GCCCCAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACCTTAAACCCTAAATCCT
Found at i:6605794 original size:42 final size:42
Alignment explanation
Indices: 6605742--6605848 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
6605732 CTCAAATTTA
* *
6605742 AAACCTTAAACCCTAAATCCTAAACCTCAAACCCCAAA-TCCT
1 AAACCTTAAACCCTAAACCCTAAACCCCAAACCCCAAACT-CT
* * *
6605784 AAACCATAAACCCTAAACCCTAAGCCCCAAACTCCAAACTCT
1 AAACCTTAAACCCTAAACCCTAAACCCCAAACCCCAAACTCT
* *
6605826 AAACCTTAGACCCCAAACCCTAA
1 AAACCTTAAACCCTAAACCCTAA
6605849 CTTAGACCCC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 55 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.39, G:0.02, T:0.16
Consensus pattern (42 bp):
AAACCTTAAACCCTAAACCCTAAACCCCAAACCCCAAACTCT
Found at i:6605841 original size:21 final size:21
Alignment explanation
Indices: 6605742--6605862 Score: 88
Period size: 21 Copynumber: 5.9 Consensus size: 21
6605732 CTCAAATTTA
*
6605742 AAACCTTAAACCCTAAA-TCCT
1 AAACCTTAAACCCCAAACT-CT
*
6605763 AAACCTCAAACCCCAAA-TCCT
1 AAACCTTAAACCCCAAACT-CT
* * *
6605784 AAACCATAAACCCTAAACCCT
1 AAACCTTAAACCCCAAACTCT
* ** *
6605805 AAGCCCCAAACTCCAAACTCT
1 AAACCTTAAACCCCAAACTCT
* *
6605826 AAACCTTAGACCCCAAACCCT
1 AAACCTTAAACCCCAAACTCT
*
6605847 -AA-CTTAGACCCCAAAC
1 AAACCTTAAACCCCAAAC
6605863 CAACCTAAAA
Statistics
Matches: 81, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
19 14 0.17
20 2 0.02
21 65 0.80
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.16
Consensus pattern (21 bp):
AAACCTTAAACCCCAAACTCT
Found at i:6607495 original size:21 final size:21
Alignment explanation
Indices: 6607471--6607511 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6607461 CATTATTTTT
6607471 TTAAAATAA-ATAAAATTTATC
1 TTAAAATAATAT-AAATTTATC
*
6607492 TTAAAATTATATAAATTTAT
1 TTAAAATAATATAAATTTAT
6607512 AAGTGCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAAATAATATAAATTTATC
Found at i:6607969 original size:21 final size:20
Alignment explanation
Indices: 6607928--6607970 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
6607918 GTTTATATAA
* *
6607928 TTTAAATTATTAATGTAATT
1 TTTAAATTAATAATATAATT
*
6607948 TTTAAATTAAATAATATCATT
1 TTTAAATT-AATAATATAATT
6607969 TT
1 TT
6607971 ATTTTGTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTAAATTAATAATATAATT
Found at i:6608032 original size:125 final size:126
Alignment explanation
Indices: 6607823--6608079 Score: 437
Period size: 125 Copynumber: 2.0 Consensus size: 126
6607813 ATGAATAAAA
6607823 TTAAATTAAATAATATCATCTTATTTTTGTATTTGATGTATACAAGAATTTAGATAGAATAATCT
1 TTAAATTAAATAATATCATCTTATTTTTGTATTTGATGTATACAAGAATTTAGATAGAATAATCT
* * *
6607888 ATTTATTTGTTAAAATTATC-TTTTCTTAAAGTTTATATAATTTAAATTATTAATGTAATTT
66 ATTTATTCGTTAAAATTATCATTCT-TTAAAGTTTATATAATTTAAATTATTAATATAATTT
* *
6607949 TTAAATTAAATAATATCATTTTA-TTTTGTGTTTGATGTATACAAGAATTTAGATAGAATAATCT
1 TTAAATTAAATAATATCATCTTATTTTTGTATTTGATGTATACAAGAATTTAGATAGAATAATCT
*
6608013 ATTTATTCGTTAAAATTATCATTCTTTAAAGTTTATATAATTTAAATTATTGATATAATTT
66 ATTTATTCGTTAAAATTATCATTCTTTAAAGTTTATATAATTTAAATTATTAATATAATTT
6608074 TTAAAT
1 TTAAAT
6608080 GTATAATTGA
Statistics
Matches: 124, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
125 99 0.80
126 25 0.20
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (126 bp):
TTAAATTAAATAATATCATCTTATTTTTGTATTTGATGTATACAAGAATTTAGATAGAATAATCT
ATTTATTCGTTAAAATTATCATTCTTTAAAGTTTATATAATTTAAATTATTAATATAATTT
Found at i:6608056 original size:16 final size:18
Alignment explanation
Indices: 6608037--6608073 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6608027 ATTATCATTC
6608037 TTTAAAGT-TT-ATATAA
1 TTTAAAGTATTGATATAA
*
6608053 TTTAAATTATTGATATAA
1 TTTAAAGTATTGATATAA
6608071 TTT
1 TTT
6608074 TTAAATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTAAAGTATTGATATAA
Found at i:6608414 original size:16 final size:16
Alignment explanation
Indices: 6608393--6608444 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
6608383 AAGACAGAAT
6608393 AAAAACAGAAAAAAAA
1 AAAAACAGAAAAAAAA
* ***
6608409 AAAAACTGAAATTTAA
1 AAAAACAGAAAAAAAA
* *
6608425 AAGAACCGAAAAAAAA
1 AAAAACAGAAAAAAAA
6608441 AAAA
1 AAAA
6608445 CGTTGCGAAT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAAACAGAAAAAAAA
Found at i:6615700 original size:17 final size:16
Alignment explanation
Indices: 6615678--6615709 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6615668 TCGACATCCC
*
6615678 AAAAAAATTCCCAAAA
1 AAAAAAAATCCCAAAA
6615694 AAAAAAAATCCCAAAA
1 AAAAAAAATCCCAAAA
6615710 CACTTATCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.19, G:0.00, T:0.09
Consensus pattern (16 bp):
AAAAAAAATCCCAAAA
Found at i:6616154 original size:12 final size:12
Alignment explanation
Indices: 6616137--6616186 Score: 63
Period size: 11 Copynumber: 4.5 Consensus size: 12
6616127 GCTTTGGGGA
6616137 AAAAAGAAGAAG
1 AAAAAGAAGAAG
6616149 AAAAAGAA-AAG
1 AAAAAGAAGAAG
*
6616160 AAAAA-AAAAAG
1 AAAAAGAAGAAG
6616171 AAAAA-AAGAA-
1 AAAAAGAAGAAG
6616181 AAAAAG
1 AAAAAG
6616187 GAATATCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
10 7 0.20
11 20 0.57
12 8 0.23
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAGAAGAAG
Found at i:6616160 original size:17 final size:16
Alignment explanation
Indices: 6616138--6616186 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
6616128 CTTTGGGGAA
6616138 AAAAGAAGAAGAAAAAG
1 AAAAGAAGAA-AAAAAG
*
6616155 AAAAGAAAAAAAAAAG
1 AAAAGAAGAAAAAAAG
*
6616171 AAAAAAAGAAAAAAAG
1 AAAAGAAGAAAAAAAG
6616187 GAATATCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 20 0.69
17 9 0.31
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAGAAAAAAAG
Found at i:6616183 original size:6 final size:6
Alignment explanation
Indices: 6616137--6616175 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
6616127 GCTTTGGGGA
*
6616137 AAAAAG AAGAAG AAAAAG -AAAAG AAAAA- AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
6616176 AAGAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6616183 original size:25 final size:25
Alignment explanation
Indices: 6616136--6616182 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
6616126 GGCTTTGGGG
*
6616136 AAAAAAGAAGAAGAAAAAGAAAAGA
1 AAAAAAAAAGAAGAAAAAGAAAAGA
6616161 AAAAAAAAAGAA-AAAAAGAAAA
1 AAAAAAAAAGAAGAAAAAGAAAA
6616183 AAAGGAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAGAAGAAAAAGAAAAGA
Found at i:6616753 original size:33 final size:34
Alignment explanation
Indices: 6616716--6616791 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
6616706 AGGCTATGGC
* **
6616716 ACTTTAAAA-AC-TCTTATAACTAGAGGTGATAAA
1 ACTTTAAAACACTTC-TATAACTAAAGGCCATAAA
*
6616749 ACTTTAAAACACTTCTATAACTAAAGGCCATGAA
1 ACTTTAAAACACTTCTATAACTAAAGGCCATAAA
6616783 ACTTTAAAA
1 ACTTTAAAA
6616792 GAACTTCTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 9 0.24
34 26 0.70
35 2 0.05
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (34 bp):
ACTTTAAAACACTTCTATAACTAAAGGCCATAAA
Found at i:6616785 original size:34 final size:33
Alignment explanation
Indices: 6616716--6616819 Score: 93
Period size: 35 Copynumber: 3.1 Consensus size: 33
6616706 AGGCTATGGC
* ** *
6616716 ACTTTAAAAAC-TCTTATAACTAGAGGTGATAAA
1 ACTTTAAAAACTTC-TATAACTAAAGGCCATGAA
6616749 ACTTTAAAACACTTCTATAACTAAAGGCCATGAA
1 ACTTTAAAA-ACTTCTATAACTAAAGGCCATGAA
** * *
6616783 ACTTTAAAAGAACTTCTCCAATTAAAGGCTATGAA
1 ACTTT-AAA-AACTTCTATAACTAAAGGCCATGAA
6616818 AC
1 AC
6616820 CTCTTTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
33 9 0.15
34 22 0.37
35 27 0.46
36 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (33 bp):
ACTTTAAAAACTTCTATAACTAAAGGCCATGAA
Found at i:6617102 original size:34 final size:34
Alignment explanation
Indices: 6616984--6617129 Score: 100
Period size: 34 Copynumber: 4.3 Consensus size: 34
6616974 CCCAGATGCT
*
6616984 ATGATACTTGAAAAAAACT-TCTCTAACTAGAGGCA
1 ATGATACTT-AAAAAAACTAT-TCTAACTAAAGGCA
* ** * * *
6617019 ATGGAT-TTTAAAGGAACT-TCTTTAACCAAAGGCT
1 AT-GATACTTAAAAAAACTAT-TCTAACTAAAGGCA
* ** * * *
6617053 ATGACACTTTGAAAAACTCTTTTAACTAAAGGTA
1 ATGATACTTAAAAAAACTATTCTAACTAAAGGCA
* *
6617087 ATGATACTTAAAAAAACTATTCTAATTAGAGGCA
1 ATGATACTTAAAAAAACTATTCTAACTAAAGGCA
6617121 ATGATACTT
1 ATGATACTT
6617130 GAAATTAAAT
Statistics
Matches: 84, Mismatches: 24, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
33 2 0.02
34 74 0.88
35 5 0.06
36 3 0.04
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (34 bp):
ATGATACTTAAAAAAACTATTCTAACTAAAGGCA
Found at i:6617263 original size:33 final size:33
Alignment explanation
Indices: 6617226--6617342 Score: 135
Period size: 33 Copynumber: 3.5 Consensus size: 33
6617216 GGCTCTTAAA
* * *
6617226 TTTAAAAACTCCTATAACTAGAGGTTATGATAC
1 TTTAAAAACTCCTCTAACTAGAAGCTATGATAC
* * *
6617259 TTTAAAACCTCCTCTAACTAGAAGCAATGAAAC
1 TTTAAAAACTCCTCTAACTAGAAGCTATGATAC
** * *
6617292 TTTAAAAACTTATCTAACCAGAAGCTATAATAC
1 TTTAAAAACTCCTCTAACTAGAAGCTATGATAC
*
6617325 TTTAAAGACTCCTCTAAC
1 TTTAAAAACTCCTCTAAC
6617343 CAACGATTAT
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (33 bp):
TTTAAAAACTCCTCTAACTAGAAGCTATGATAC
Found at i:6619719 original size:99 final size:98
Alignment explanation
Indices: 6619541--6619737 Score: 270
Period size: 99 Copynumber: 2.0 Consensus size: 98
6619531 TTTATTTTTT
6619541 ATAAGGCTCATTTTAACACATATTTATTGTGTGCGGTTAGGTTTTCATCCATGACAGTGATTTAA
1 ATAAGGCTCATTTTAACACATATTTATTGTGTGCGGTTAGGTTTTCATCCATGACAGTGATTTAA
*
6619606 AAAAAAAAAGGACTTAAAATGTGAGGTTGAAAAA
66 AAAAAAAAAGGACTTAAAATATGAGGTT-AAAAA
* * * * *
6619640 ATAAGGCTCATTTTCACGCATATTTATTGTGTGCGGTTAGGTTTTCATCCATTATAGTGATTTTT
1 ATAAGGCTCATTTTAACACATATTTATTGTGTGCGGTTAGGTTTTCATCCATGACAGTGA-TTTA
**** *
6619705 TTTTAATAAA-GACTTAAAATATGAGGTTAAAAA
65 AAAAAAAAAAGGACTTAAAATATGAGGTTAAAAA
6619738 TTTTGTTTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
98 5 0.06
99 73 0.85
100 8 0.09
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (98 bp):
ATAAGGCTCATTTTAACACATATTTATTGTGTGCGGTTAGGTTTTCATCCATGACAGTGATTTAA
AAAAAAAAAGGACTTAAAATATGAGGTTAAAAA
Found at i:6619998 original size:16 final size:14
Alignment explanation
Indices: 6619981--6620031 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
6619971 TTTAAAAAAT
6619981 AATAATAATAGTAAA
1 AATAA-AATAGTAAA
6619996 TAAT-AAATATGTAAA
1 -AATAAAATA-GTAAA
*
6620011 AATAAAAATAATAAA
1 AAT-AAAATAGTAAA
6620026 AATAAA
1 AATAAA
6620032 GATTTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 10 0.32
15 13 0.42
16 8 0.26
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (14 bp):
AATAAAATAGTAAA
Found at i:6620311 original size:13 final size:13
Alignment explanation
Indices: 6620293--6620337 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
6620283 TTTGTGAAAT
6620293 CCTAAAATAGAAC
1 CCTAAAATAGAAC
* *
6620306 CCTAAAATAAAAA
1 CCTAAAATAGAAC
6620319 CCTAAAAT-GAAAC
1 CCTAAAATAG-AAC
6620332 CCTAAA
1 CCTAAA
6620338 CCTTAGGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.58, C:0.22, G:0.04, T:0.16
Consensus pattern (13 bp):
CCTAAAATAGAAC
Found at i:6620422 original size:26 final size:27
Alignment explanation
Indices: 6620366--6620423 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
6620356 ACCCTAAATG
* *
6620366 AAACCTTAAAGTCCTAAGTTAAACCTA
1 AAACCTTAAAGTCCTAAGTGAAACCCA
* *
6620393 AAACCTTAAA-TTCTAGGTGAAACCCA
1 AAACCTTAAAGTCCTAAGTGAAACCCA
6620419 AAACC
1 AAACC
6620424 CTAGGCCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (27 bp):
AAACCTTAAAGTCCTAAGTGAAACCCA
Found at i:6620642 original size:18 final size:18
Alignment explanation
Indices: 6620621--6620656 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
6620611 ATTTCATATT
6620621 TTAA-AATAATAAATTAAA
1 TTAAGAATAA-AAATTAAA
6620639 TTAAGAATAAAAATTAAA
1 TTAAGAATAAAAATTAAA
6620657 AATTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TTAAGAATAAAAATTAAA
Found at i:6626143 original size:17 final size:16
Alignment explanation
Indices: 6626123--6626177 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
6626113 TAAAAGAAAT
6626123 AAAAAAATAAAACAAAG
1 AAAAAAA-AAAACAAAG
*
6626140 AAAAAAAAAGACAAA-
1 AAAAAAAAAAACAAAG
* * *
6626155 AAAATAAAAAAGAAGG
1 AAAAAAAAAAACAAAG
6626171 AAAAAAA
1 AAAAAAA
6626178 GACAAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 11 0.35
16 13 0.42
17 7 0.23
ACGTcount: A:0.84, C:0.04, G:0.09, T:0.04
Consensus pattern (16 bp):
AAAAAAAAAAACAAAG
Found at i:6626144 original size:10 final size:9
Alignment explanation
Indices: 6626123--6626187 Score: 58
Period size: 10 Copynumber: 6.8 Consensus size: 9
6626113 TAAAAGAAAT
*
6626123 AAAAAAATA
1 AAAAAAAGA
*
6626132 AAACAAAGAA
1 AAAAAAAG-A
6626142 AAAAAAAGA
1 AAAAAAAGA
*
6626151 CAAAAAAATA
1 -AAAAAAAGA
*
6626161 AAAAAGAAGG
1 AAAAA-AAGA
6626171 AAAAAAAGA
1 AAAAAAAGA
6626180 CAAAAAAA
1 -AAAAAAA
6626188 ATGGTTATGA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
9 15 0.33
10 30 0.67
ACGTcount: A:0.83, C:0.05, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:6626155 original size:21 final size:20
Alignment explanation
Indices: 6626114--6626188 Score: 73
Period size: 20 Copynumber: 3.7 Consensus size: 20
6626104 GGAGGCATGT
*
6626114 AAAAGAAATAAAAAA-ATAAA
1 AAAAGAAA-AAAAAAGACAAA
6626134 ACAAAGAAAAAAAAAGACAAA
1 A-AAAGAAAAAAAAAGACAAA
* * *
6626155 AAAATAAAAAAGAAG-GAAA
1 AAAAGAAAAAAAAAGACAAA
6626174 AAAAGACAAAAAAAA
1 AAAAGA-AAAAAAAA
6626189 TGGTTATGAC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 8 0.17
20 26 0.57
21 12 0.26
ACGTcount: A:0.83, C:0.04, G:0.09, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAAAAAAGACAAA
Found at i:6626155 original size:29 final size:28
Alignment explanation
Indices: 6626123--6626187 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 28
6626113 TAAAAGAAAT
6626123 AAAAAAATAAAACAAAGAA-AAAAAAAGAC
1 AAAAAAAT-AAA-AAAGAAGAAAAAAAGAC
6626152 AAAAAAATAAAAAAGAAGGAAAAAAAGAC
1 AAAAAAATAAAAAAGAA-GAAAAAAAGAC
6626181 AAAAAAA
1 AAAAAAA
6626188 ATGGTTATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 6 0.18
28 3 0.09
29 25 0.74
ACGTcount: A:0.83, C:0.05, G:0.09, T:0.03
Consensus pattern (28 bp):
AAAAAAATAAAAAAGAAGAAAAAAAGAC
Found at i:6626188 original size:30 final size:30
Alignment explanation
Indices: 6626114--6626189 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 30
6626104 GGAGGCATGT
*
6626114 AAAAGAAATAAAAAAATAAAACAAAGAAAAA
1 AAAAGACA-AAAAAAATAAAACAAAGAAAAA
6626145 AAAAGAC-AAAAAAAT-AAA-AAAGAAGGAAA
1 AAAAGACAAAAAAAATAAAACAAAGAA--AAA
6626174 AAAAGACAAAAAAAAT
1 AAAAGACAAAAAAAAT
6626190 GGTTATGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
27 6 0.15
28 3 0.07
29 18 0.44
30 8 0.20
31 6 0.15
ACGTcount: A:0.82, C:0.04, G:0.09, T:0.05
Consensus pattern (30 bp):
AAAAGACAAAAAAAATAAAACAAAGAAAAA
Found at i:6627666 original size:32 final size:32
Alignment explanation
Indices: 6627627--6627700 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
6627617 GCACCCAAGT
*
6627627 TTTAAGCCCACATTATCTAGCA-CTAATGAA-A
1 TTTAAGCCCACATTAGCTAGCATC-AATGAAGA
* **
6627658 TCTTAAGCCTAGTTTAGCTAGCATCAATGAAGA
1 T-TTAAGCCCACATTAGCTAGCATCAATGAAGA
6627691 TTTAAGCCCA
1 TTTAAGCCCA
6627701 GCTTAGTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
31 1 0.03
32 31 0.89
33 3 0.09
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (32 bp):
TTTAAGCCCACATTAGCTAGCATCAATGAAGA
Found at i:6627778 original size:21 final size:21
Alignment explanation
Indices: 6627754--6627794 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6627744 AATCAAAATT
* * *
6627754 TAAGCCTAGATTAGCTGGCAA
1 TAAGCCCAAATTAGATGGCAA
6627775 TAAGCCCAAATTAGATGGCA
1 TAAGCCCAAATTAGATGGCA
6627795 TGTAAGTTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (21 bp):
TAAGCCCAAATTAGATGGCAA
Found at i:6628068 original size:32 final size:32
Alignment explanation
Indices: 6628005--6628078 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
6627995 TCAAGAAAAG
**
6628005 ATTTAAACCTAGCTTAGTTGGTACCCAATGAA
1 ATTTAAACCTAGCTTAGTTGACACCCAATGAA
* * * *
6628037 ATTTAAGCCTAGTTTAGTTGACACTCGATGAA
1 ATTTAAACCTAGCTTAGTTGACACCCAATGAA
6628069 AGTTTAAACC
1 A-TTTAAACC
6628079 CAGATTATCT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 27 0.79
33 7 0.21
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (32 bp):
ATTTAAACCTAGCTTAGTTGACACCCAATGAA
Found at i:6628218 original size:131 final size:131
Alignment explanation
Indices: 6628031--6628272 Score: 289
Period size: 131 Copynumber: 1.8 Consensus size: 131
6628021 GTTGGTACCC
** *
6628031 AATGAAATTTAAGCCTAGTTTAGTTGACACTCGATGAAAGTTTAAACCCAGATTATC-TAGCACT
1 AATGAAATTTAAGCCTAGTCGAGTAGACACTCGATGAAAGTTTAAACCCAGATTATCTTA-CACT
6628095 -AATGGAAAATTTTAAGCCCAACTTACTTGGCATCCAATG-AAATTTAAGCCTAATTAGCAAGCA
65 CAAT-GAAAATTTTAAGCCCAACTTACTTGGCATCCAATGAAAATTTAAGCCTAATTAGCAAGCA
6628158 TAT
129 TAT
* *
6628161 AATGAAATTTAAGCCTAGTCGAGCTAG-CA-TCTATGAAAAGATTTCAACCCA-ATTTATCTTAC
1 AATGAAATTTAAGCCTAGTCGAG-TAGACACTCGATG-AAAG-TTTAAACCCAGA-TTATCTTAC
* ** * * *
6628223 ACTCAATGCAAATTTTAAGCCCAGTTTAGTTGGGATCTAATGAAAATTTA
62 ACTCAATGAAAATTTTAAGCCCAACTTACTTGGCATCCAATGAAAATTTA
6628273 GCACTCATGA
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
129 5 0.05
130 28 0.30
131 49 0.52
132 12 0.13
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (131 bp):
AATGAAATTTAAGCCTAGTCGAGTAGACACTCGATGAAAGTTTAAACCCAGATTATCTTACACTC
AATGAAAATTTTAAGCCCAACTTACTTGGCATCCAATGAAAATTTAAGCCTAATTAGCAAGCATA
T
Found at i:6628452 original size:33 final size:32
Alignment explanation
Indices: 6628407--6628488 Score: 103
Period size: 33 Copynumber: 2.6 Consensus size: 32
6628397 TAGTTGGTAC
*
6628407 CCAATG-AAATTTAAGCCTAATTTAACTAGCA
1 CCAATGAAAATTTAAGCCTAAATTAACTAGCA
** *
6628438 CCTAATGAAAATTTAAGCCTAAATTATTTTGCA
1 CC-AATGAAAATTTAAGCCTAAATTAACTAGCA
*
6628471 CCAATAAAAATTTAAGCC
1 CCAATGAAAATTTAAGCC
6628489 CAATATAGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
31 2 0.05
32 19 0.43
33 23 0.52
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (32 bp):
CCAATGAAAATTTAAGCCTAAATTAACTAGCA
Found at i:6628502 original size:32 final size:33
Alignment explanation
Indices: 6628413--6628503 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 33
6628403 GTACCCAATG
* * *
6628413 AAATTTAAGCCTAATTTAACTAGCACCTAATGA
1 AAATTTAAGCCTAATATAACTTGCACCTAATAA
**
6628446 AAATTTAAGCCTAA-ATTATTTTGCACC-AATAA
1 AAATTTAAGCCTAATA-TAACTTGCACCTAATAA
* *
6628478 AAATTTAAGCCCAATATAGCTTGCAC
1 AAATTTAAGCCTAATATAACTTGCAC
6628504 GTAAGCTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
32 25 0.52
33 23 0.48
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.31
Consensus pattern (33 bp):
AAATTTAAGCCTAATATAACTTGCACCTAATAA
Found at i:6628609 original size:23 final size:23
Alignment explanation
Indices: 6628537--6628602 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
6628527 TATGAAAATT
*
6628537 TAAGCCC-AGTTTAGTTGGCACG
1 TAAGCCCAAATTTAGTTGGCACG
* *
6628559 TAAGCCTAGAA-TTAGTTGGTACG
1 TAAGCCCA-AATTTAGTTGGCACG
6628582 TAAGCCCAAATTTAGTTGGCA
1 TAAGCCCAAATTTAGTTGGCA
6628603 TGAAAGCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 8 0.22
23 27 0.75
24 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (23 bp):
TAAGCCCAAATTTAGTTGGCACG
Found at i:6628622 original size:45 final size:45
Alignment explanation
Indices: 6628537--6628637 Score: 116
Period size: 46 Copynumber: 2.3 Consensus size: 45
6628527 TATGAAAATT
* *
6628537 TAAGCCC-AGTTTAGTTGGCACGTAAGCCTAGAATTAGTTGGTACG
1 TAAGCCCAAATTTAGTTGGCACGAAAGCCTAGAATTAGTTGG-ACG
* * * *
6628582 TAAGCCCAAATTTAGTTGGCATGAAAGCTTAG-ATTGGTTGGATG
1 TAAGCCCAAATTTAGTTGGCACGAAAGCCTAGAATTAGTTGGACG
*
6628626 CAAGCCCAAATT
1 TAAGCCCAAATT
6628638 AGTGATCATT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 13 0.27
45 15 0.31
46 20 0.42
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (45 bp):
TAAGCCCAAATTTAGTTGGCACGAAAGCCTAGAATTAGTTGGACG
Found at i:6628780 original size:15 final size:14
Alignment explanation
Indices: 6628760--6628819 Score: 68
Period size: 14 Copynumber: 4.1 Consensus size: 14
6628750 AAAAATGACC
*
6628760 AAAATAGAAAGTAAA
1 AAAATA-AAAATAAA
6628775 AAAATAAAAATAAA
1 AAAATAAAAATAAA
6628789 AGAAA-AAACAATAAA
1 A-AAATAAA-AATAAA
*
6628804 AAAATAAAAAGAAA
1 AAAATAAAAATAAA
6628818 AA
1 AA
6628820 TAAAATTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 21 0.52
15 19 0.47
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:6628784 original size:21 final size:21
Alignment explanation
Indices: 6628760--6628819 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 21
6628750 AAAAATGACC
*
6628760 AAAATAGAAAGTAAAAA-AATA
1 AAAATA-AAAGAAAAAACAATA
6628781 AAAATAAAAGAAAAAACAATAAA
1 AAAATAAAAGAAAAAACAAT--A
6628804 AAAATAAAAAGAAAAA
1 AAAAT-AAAAGAAAAA
6628820 TAAAATTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.26
21 9 0.26
23 6 0.18
24 10 0.29
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.10
Consensus pattern (21 bp):
AAAATAAAAGAAAAAACAATA
Found at i:6628785 original size:6 final size:6
Alignment explanation
Indices: 6628774--6628824 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
6628764 TAGAAAGTAA
* * *
6628774 AAAAAT AAAAAT AAAAGA- AAAAAC AATAA- AAAAAT AAAAAG AAAAAT
1 AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
6628821 AAAA
1 AAAA
6628825 TTTCACCTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
5 5 0.13
6 32 0.84
7 1 0.03
ACGTcount: A:0.84, C:0.02, G:0.04, T:0.10
Consensus pattern (6 bp):
AAAAAT
Found at i:6631153 original size:22 final size:22
Alignment explanation
Indices: 6631125--6631166 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
6631115 TTCACAACCA
6631125 TCATCCTTTTTTATAAGCTCTT
1 TCATCCTTTTTTATAAGCTCTT
6631147 TCATCCTTTTTTATAAGCTC
1 TCATCCTTTTTTATAAGCTC
6631167 ATTTAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.24, G:0.05, T:0.52
Consensus pattern (22 bp):
TCATCCTTTTTTATAAGCTCTT
Found at i:6633473 original size:244 final size:244
Alignment explanation
Indices: 6633044--6633531 Score: 717
Period size: 244 Copynumber: 2.0 Consensus size: 244
6633034 CATCAGTATG
* ** **
6633044 TTAGATTCTAGAATCTTGTTGTGACCTTCAGCATTTGATTGTTAGGTTTCACCATTACTTACAAG
1 TTAGATTCTAGAATCTTATTACGACCTTCAGCATTTGATTGTTAGGTTTCACCATTACCAACAAG
* * ** * *
6633109 GTAATACCTCTGTACTTAACTGTGAAAGCTATTTTTATTTTTGGGTCTTATTGACTCTAAATACT
66 GCAATACCTCTGTACTTAACTATGAAAGCTACCTTCATTTTTAGGTCTTATTGACTCTAAATACT
* * *
6633174 CTCCAAATTTGTTGTAACATTCTGTCTTAAATTTATATACACCATTTTCGGAAGGCTTGCAACAT
131 CTCCAAATTTGCTATAACATTCTGTCTTAAATTTATATACACCATCTTCGGAAGGCTTGCAACAT
** **
6633239 ATGCATCCATCAAACAGTCTTTTTCTATTTGTTGCCTATTTTCTAACTA
196 AACCATCCATCAAACAGTCTGATTCTATTTGTTGCCTATTTTCTAACTA
*
6633288 TTAGATTCTAGAATCTTATTACGACCTTCAGCATTTGATTGTTAGGTTTCACCATTGCCAACAAG
1 TTAGATTCTAGAATCTTATTACGACCTTCAGCATTTGATTGTTAGGTTTCACCATTACCAACAAG
* *
6633353 GCAATATCTCTGTACTTAACTATGAAAGTTACCTTCATTTTTAGGTCTTATTGACT-TCAAATAC
66 GCAATACCTCTGTACTTAACTATGAAAGCTACCTTCATTTTTAGGTCTTATTGACTCT-AAATAC
* * * *
6633417 TCTCTAAATTTGCTATAACATTTTGTCTTAAGTTTATATGCACCATCTTCGGAAGGCTTGCAACA
130 TCTCCAAATTTGCTATAACATTCTGTCTTAAATTTATATACACCATCTTCGGAAGGCTTGCAACA
* *
6633482 TAACCATCTATTAAACAGTCTGATTCTATTTGTTGCCTATTTTCTAACTA
195 TAACCATCCATCAAACAGTCTGATTCTATTTGTTGCCTATTTTCTAACTA
6633532 ATCTTTAACC
Statistics
Matches: 216, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
243 1 0.00
244 215 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (244 bp):
TTAGATTCTAGAATCTTATTACGACCTTCAGCATTTGATTGTTAGGTTTCACCATTACCAACAAG
GCAATACCTCTGTACTTAACTATGAAAGCTACCTTCATTTTTAGGTCTTATTGACTCTAAATACT
CTCCAAATTTGCTATAACATTCTGTCTTAAATTTATATACACCATCTTCGGAAGGCTTGCAACAT
AACCATCCATCAAACAGTCTGATTCTATTTGTTGCCTATTTTCTAACTA
Found at i:6633791 original size:32 final size:32
Alignment explanation
Indices: 6633755--6633817 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
6633745 CTTTCAAGAA
6633755 TTTTTT-CTTTTT-TCATTTTTTCCTTTCTTTTT
1 TTTTTTACTTTTTATC-TTTTTT-CTTTCTTTTT
* *
6633787 TTTTTTAGTTTTTATCTTTTTTTTTTCTTTT
1 TTTTTTACTTTTTATCTTTTTTCTTTCTTTT
6633818 AAAACAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 14 0.52
33 11 0.41
34 2 0.07
ACGTcount: A:0.05, C:0.11, G:0.02, T:0.83
Consensus pattern (32 bp):
TTTTTTACTTTTTATCTTTTTTCTTTCTTTTT
Found at i:6633798 original size:25 final size:23
Alignment explanation
Indices: 6633755--6633818 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
6633745 CTTTCAAGAA
* *
6633755 TTTTTTCTTTTTTCATTTTT-TCC
1 TTTTTTTTTTTTTTATTTTTAT-C
6633778 TTTCTTTTTTTTTTTAGTTTTTATC
1 TTT-TTTTTTTTTTTA-TTTTTATC
6633803 TTTTTTTTTTCTTTTA
1 TTTTTTTTTT-TTTTA
6633819 AAACAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 3 0.09
24 17 0.49
25 14 0.40
26 1 0.03
ACGTcount: A:0.06, C:0.11, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTTTTTTTTTTTATTTTTATC
Found at i:6644859 original size:19 final size:19
Alignment explanation
Indices: 6644823--6644859 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6644813 AGGTTTTCTT
**
6644823 ACTTTGACTTGGCTTTCCC
1 ACTTTGACTTGGAATTCCC
6644842 ACTTTGACTTGGAATTCC
1 ACTTTGACTTGGAATTCC
6644860 TACCTTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.27, G:0.16, T:0.41
Consensus pattern (19 bp):
ACTTTGACTTGGAATTCCC
Found at i:6646159 original size:17 final size:18
Alignment explanation
Indices: 6646122--6646160 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6646112 GAACTTTTTC
* *
6646122 TTTTTGAAAACAAATCAA
1 TTTTGGAAAACAAAGCAA
6646140 TTTTGGAAAACAAAGC-A
1 TTTTGGAAAACAAAGCAA
6646157 TTTT
1 TTTT
6646161 ATTTTTGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (18 bp):
TTTTGGAAAACAAAGCAA
Found at i:6646634 original size:18 final size:18
Alignment explanation
Indices: 6646613--6646648 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6646603 GTTTTTGGGT
*
6646613 GGTTTAGGGTTTCATGAG
1 GGTTTAAGGTTTCATGAG
6646631 GGTTTAAGGTTTCATGAG
1 GGTTTAAGGTTTCATGAG
6646649 AAATGCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.36, T:0.39
Consensus pattern (18 bp):
GGTTTAAGGTTTCATGAG
Found at i:6647509 original size:14 final size:13
Alignment explanation
Indices: 6647491--6647515 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6647481 AAATTTCTAA
6647491 AAAAAATGAAAAC
1 AAAAAATGAAAAC
6647504 AAAAAATGAAAA
1 AAAAAATGAAAA
6647516 GCTAAATGGT
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:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAATGAAAAC
Found at i:6649033 original size:7 final size:7
Alignment explanation
Indices: 6649021--6649053 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
6649011 TGAAGGTGTT
*
6649021 TTTTTTA
1 TTTTTTG
6649028 TTTTTTG
1 TTTTTTG
6649035 TTTTTT-
1 TTTTTTG
6649041 TTTTTTG
1 TTTTTTG
6649048 TTTTTT
1 TTTTTT
6649054 TTAAAGAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.91
Consensus pattern (7 bp):
TTTTTTG
Found at i:6649044 original size:13 final size:13
Alignment explanation
Indices: 6649021--6649055 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
6649011 TGAAGGTGTT
6649021 TTTTTTATTTTTTG
1 TTTTTT-TTTTTTG
6649035 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
6649048 TTTTTTTT
1 TTTTTTTT
6649056 AAAGAGTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:6649284 original size:51 final size:50
Alignment explanation
Indices: 6649063--6649324 Score: 223
Period size: 49 Copynumber: 5.3 Consensus size: 50
6649053 TTTAAAGAGT
* * *
6649063 TCCTATAGATATAGGTGAGTGACTTTAAAACTC-TCTTTTGGAAAAGTGC
1 TCCTATAGACATAGGTGAGTGACTTTAAAAATCTTCTTTTTGAAAAGTGC
* * * * * *
6649112 TCTTATAAACATAGGTAAGTGACTTTAAAAATC-TCCTTTTGAAAGGTAC
1 TCCTATAGACATAGGTGAGTGACTTTAAAAATCTTCTTTTTGAAAAGTGC
* * ** * * *
6649161 TCCTATAGATATAAGCAAGTGATTTTATAAATC-TCTTTTTAAAAAAG-GC
1 TCCTATAGACATAGGTGAGTGACTTTAAAAATCTTCTTTTT-GAAAAGTGC
* *
6649210 TCCTA-AGGACATAGGTGATTGACTTTAAAAAATCTTTTTTTTGAAAAGTGC
1 TCCTATA-GACATAGGTGAGTGACTTT-AAAAATCTTCTTTTTGAAAAGTGC
* * * * *
6649261 TCTTATAGACATAAGTGAGTGACTTTTAAAAATC-TC-TTTAGAGAAGGGC
1 TCCTATAGACATAGGTGAGTGAC-TTTAAAAATCTTCTTTTTGAAAAGTGC
*
6649310 TTCTATAGACATAGG
1 TCCTATAGACATAGG
6649325 GGTAAAGAAT
Statistics
Matches: 167, Mismatches: 39, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
48 1 0.01
49 113 0.68
50 16 0.10
51 33 0.20
52 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (50 bp):
TCCTATAGACATAGGTGAGTGACTTTAAAAATCTTCTTTTTGAAAAGTGC
Found at i:6649321 original size:100 final size:99
Alignment explanation
Indices: 6649063--6649324 Score: 266
Period size: 98 Copynumber: 2.7 Consensus size: 99
6649053 TTTAAAGAGT
* * * * *
6649063 TCCTATAGATATAGGTGAGTGAC-TTTAAAACTCTCTTTTGGAAAAGTGC-TCTTATAAACATAG
1 TCCTATAGATATAAGTGAGTGACTTTTAAAAATCTCTTTTAGAAAAGGGCTTC-TATAGACATAG
*
6649126 GTAAGTGACTTTAAAAATCTCCTTTTGAAAGGTAC
65 GTAAGTGACTTTAAAAATCTCCTTTTGAAAAGTAC
** * * *
6649161 TCCTATAGATATAAGCAAGTGA-TTTTATAAATCTCTTTTTA-AAAAAGGCTCCTA-AGGACATA
1 TCCTATAGATATAAGTGAGTGACTTTTAAAAATCTC-TTTTAGAAAAGGGCTTCTATA-GACATA
* * ** *
6649223 GGTGATTGACTTTAAAAAATCTTTTTTTTGAAAAGTGC
64 GGTAAGTGACTTT-AAAAATC-TCCTTTTGAAAAGTAC
* * *
6649261 TCTTATAGACATAAGTGAGTGACTTTTAAAAATCTC-TTTAGAGAAGGGCTTCTATAGACATAGG
1 TCCTATAGATATAAGTGAGTGACTTTTAAAAATCTCTTTTAGAAAAGGGCTTCTATAGACATAGG
6649325 GGTAAAGAAT
Statistics
Matches: 131, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
97 1 0.01
98 53 0.40
99 16 0.12
100 48 0.37
101 13 0.10
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (99 bp):
TCCTATAGATATAAGTGAGTGACTTTTAAAAATCTCTTTTAGAAAAGGGCTTCTATAGACATAGG
TAAGTGACTTTAAAAATCTCCTTTTGAAAAGTAC
Found at i:6649405 original size:50 final size:49
Alignment explanation
Indices: 6649351--6649459 Score: 146
Period size: 50 Copynumber: 2.2 Consensus size: 49
6649341 AATCTCTTTG
* *
6649351 GAAAATGGCTTCTATAAACATAGGCAAGAAACTTTAAAAAATCTAAATTT
1 GAAAAAGGCTTCTATAAACATAGGCAACAAACTTT-AAAAATCTAAATTT
* * * * *
6649401 GAAAAAAGTTTCTATAAAGATAGGCAACAAGCTTTAAAAATCTTAATTT
1 GAAAAAGGCTTCTATAAACATAGGCAACAAACTTTAAAAATCTAAATTT
6649450 GAAAAAGGCT
1 GAAAAAGGCT
6649460 CAAACGAAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 21 0.42
50 29 0.58
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.28
Consensus pattern (49 bp):
GAAAAAGGCTTCTATAAACATAGGCAACAAACTTTAAAAATCTAAATTT
Found at i:6649442 original size:49 final size:50
Alignment explanation
Indices: 6649360--6649455 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
6649350 GGAAAATGGC
*
6649360 TTCTATAAACATAGGCAAGAAACTTTAAAAAATCTAAATTTGAAAAAAGT
1 TTCTATAAACATAGGCAACAAACTTTAAAAAATCTAAATTTGAAAAAAGT
* * *
6649410 TTCTATAAAGATAGGCAACAAGCTTT-AAAAATCTTAATTTGAAAAA
1 TTCTATAAACATAGGCAACAAACTTTAAAAAATCTAAATTTGAAAAA
6649456 GGCTCAAACG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 19 0.45
50 23 0.55
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (50 bp):
TTCTATAAACATAGGCAACAAACTTTAAAAAATCTAAATTTGAAAAAAGT
Found at i:6650089 original size:19 final size:19
Alignment explanation
Indices: 6650065--6650108 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6650055 ATTCACATCC
*
6650065 TTCATTTCCCGTTTCTTT-A
1 TTCATTTCCC-ATTCTTTCA
6650084 TTCATTTTCCCATTCTTTCA
1 TTCA-TTTCCCATTCTTTCA
6650104 TTCAT
1 TTCAT
6650109 CATTTCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.14, C:0.27, G:0.02, T:0.57
Consensus pattern (19 bp):
TTCATTTCCCATTCTTTCA
Found at i:6650415 original size:31 final size:31
Alignment explanation
Indices: 6650380--6650464 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
6650370 TTCTCCTTCT
* * **
6650380 TGCTAGCTACACTGGGCTTAAATATTTTTAG
1 TGCTAGCTAAACTAGGCTTAAATATCCTTAG
* *
6650411 TGCTAGCTAAACTTGGCTTAATTATCCTTAG
1 TGCTAGCTAAACTAGGCTTAAATATCCTTAG
*
6650442 TGCCAGCTAAACTAGGCTTAAAT
1 TGCTAGCTAAACTAGGCTTAAAT
6650465 CTCATTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (31 bp):
TGCTAGCTAAACTAGGCTTAAATATCCTTAG
Found at i:6650433 original size:62 final size:62
Alignment explanation
Indices: 6650259--6650466 Score: 168
Period size: 62 Copynumber: 3.3 Consensus size: 62
6650249 TCCTAGTGCT
* * * * * ** *
6650259 AGCTAAACTAGGCTTAAAGCTTTATAGGTGCTAGCTAGACTAGGCTTAAATCTTATTGATGCC
1 AGCTAAACTAGGCTTAAATCTTTTTA-GTGCTAGCTAAACTTGGCTTAATTCTCCTTAATGCC
* * * * * ** ** *
6650322 AGCTAGA-TTGAGCTTAAGTCTTTTTGGTGCTAACTAAAC-TGGAAATAATTCTCCTTCTTGCT
1 AGCTAAACTAG-GCTTAAATCTTTTTAGTGCTAGCTAAACTTGG-CTTAATTCTCCTTAATGCC
* * * * *
6650384 AGCTACACTGGGCTTAAATATTTTTAGTGCTAGCTAAACTTGGCTTAATTATCCTTAGTGCC
1 AGCTAAACTAGGCTTAAATCTTTTTAGTGCTAGCTAAACTTGGCTTAATTCTCCTTAATGCC
6650446 AGCTAAACTAGGCTTAAATCT
1 AGCTAAACTAGGCTTAAATCT
6650467 CATTTTTTTT
Statistics
Matches: 109, Mismatches: 32, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
61 2 0.02
62 85 0.78
63 22 0.20
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (62 bp):
AGCTAAACTAGGCTTAAATCTTTTTAGTGCTAGCTAAACTTGGCTTAATTCTCCTTAATGCC
Found at i:6650916 original size:19 final size:19
Alignment explanation
Indices: 6650892--6650939 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 19
6650882 CTTTTTCACG
6650892 ATGCAAATGCCT-TTCATGA
1 ATGCAAATGCCTATT-ATGA
6650911 ATGCAAATGCCTATTATGA
1 ATGCAAATGCCTATTATGA
6650930 ATGCAAATGC
1 ATGCAAATGC
6650940 TAATGTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 26 0.93
20 2 0.07
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (19 bp):
ATGCAAATGCCTATTATGA
Found at i:6657607 original size:17 final size:17
Alignment explanation
Indices: 6657563--6657618 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
6657553 AAAGAAGACC
6657563 TTTTC-TTTTTC-TATTT
1 TTTTCTTTTTTCTTA-TT
*
6657579 TTTTCTTCTTTCTTATT
1 TTTTCTTTTTTCTTATT
*
6657596 TTTTCTTTTTTCCTTTTT
1 TTTTCTTTTTT-CTTATT
6657614 TTTTC
1 TTTTC
6657619 AAAGCACTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.15
17 17 0.50
18 12 0.35
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTTTCTTATT
Found at i:6660391 original size:37 final size:38
Alignment explanation
Indices: 6660327--6660436 Score: 118
Period size: 37 Copynumber: 2.9 Consensus size: 38
6660317 TTGGATAGAT
*** *
6660327 TACATATATTATCGACTATGATATGCATGAGATGGA-C
1 TACATATATTATCTTTTATGATGTGCATGAGATGGAGC
* * *
6660364 TATATGTATTATCTATTTA-GATGTGCATGAAAT-GAGC
1 TACATATATTATCT-TTTATGATGTGCATGAGATGGAGC
*
6660401 TACATATGTTATCTTTTATGATGTGCATGAGATGGA
1 TACATATATTATCTTTTATGATGTGCATGAGATGGA
6660437 ATGTGTATGC
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
36 6 0.10
37 48 0.83
38 4 0.07
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (38 bp):
TACATATATTATCTTTTATGATGTGCATGAGATGGAGC
Found at i:6662529 original size:21 final size:21
Alignment explanation
Indices: 6662476--6662596 Score: 77
Period size: 21 Copynumber: 5.6 Consensus size: 21
6662466 TAGGATTGGT
*
6662476 TTTAGGGTTTAGGATTTGATTGAG
1 TTTAGGGTTTAGGATTT-A--GGG
* *
6662500 TTTAAGGTTAAGGATTTAGGG
1 TTTAGGGTTTAGGATTTAGGG
**
6662521 TTTAGGGTTTTAGG-TCTTATAG
1 TTTAGGG-TTTAGGAT-TTAGGG
* * *
6662543 TTTAGGATTTA-AAGTTTATGG
1 TTTAGGGTTTAGGA-TTTAGGG
* *
6662564 TTTAGGATTTAGGATTTAAGG
1 TTTAGGGTTTAGGATTTAGGG
6662585 TTTA-GGTTTAGG
1 TTTAGGGTTTAGG
6662597 GTATTATGGG
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
20 7 0.09
21 39 0.49
22 17 0.22
23 1 0.01
24 15 0.19
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (21 bp):
TTTAGGGTTTAGGATTTAGGG
Found at i:6662534 original size:8 final size:7
Alignment explanation
Indices: 6662476--6662598 Score: 61
Period size: 7 Copynumber: 17.1 Consensus size: 7
6662466 TAGGATTGGT
6662476 TTTAGGG
1 TTTAGGG
*
6662483 TTTAGGA
1 TTTAGGG
*
6662490 TTTGATTGAG
1 TTT-A--GGG
*
6662500 TTTAAGG
1 TTTAGGG
* *
6662507 TTAAGGA
1 TTTAGGG
6662514 TTTAGGG
1 TTTAGGG
6662521 TTTAGGG
1 TTTAGGG
6662528 TTTTA-GG
1 -TTTAGGG
**
6662535 TCTTATAG
1 T-TTAGGG
*
6662543 TTTAGGA
1 TTTAGGG
**
6662550 TTTAAAG
1 TTTAGGG
*
6662557 TTTATGG
1 TTTAGGG
*
6662564 TTTAGGA
1 TTTAGGG
*
6662571 TTTAGGA
1 TTTAGGG
*
6662578 TTTAAGG
1 TTTAGGG
6662585 TTTA-GG
1 TTTAGGG
6662591 TTTAGGG
1 TTTAGGG
6662598 T
1 T
6662599 ATTATGGGTG
Statistics
Matches: 86, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
6 7 0.08
7 67 0.78
8 7 0.08
9 1 0.01
10 4 0.05
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:6662650 original size:18 final size:18
Alignment explanation
Indices: 6662589--6662657 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 18
6662579 TTAAGGTTTA
6662589 GGTTTAGGGTATTATGGGT
1 GGTTTAGGGT-TTATGGGT
* *
6662608 GGTTTAAGGTTTTGTGGGT
1 GGTTT-AGGGTTTATGGGT
6662627 GGTTTAGGGTTTCATGGG-
1 GGTTTAGGGTTT-ATGGGT
6662645 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
6662658 ATAAGAAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.02
18 18 0.41
19 21 0.48
20 4 0.09
ACGTcount: A:0.13, C:0.01, G:0.42, T:0.43
Consensus pattern (18 bp):
GGTTTAGGGTTTATGGGT
Found at i:6670093 original size:19 final size:19
Alignment explanation
Indices: 6670057--6670093 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6670047 ATGTTTTTCT
**
6670057 ATTTTGACTTGATTTTCCC
1 ATTTTGACTTGAAATTCCC
6670076 ATTTTGACTTGAAATTCC
1 ATTTTGACTTGAAATTCC
6670094 TACCTTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.49
Consensus pattern (19 bp):
ATTTTGACTTGAAATTCCC
Found at i:6670802 original size:71 final size:71
Alignment explanation
Indices: 6670655--6670804 Score: 169
Period size: 71 Copynumber: 2.1 Consensus size: 71
6670645 TAAAATTTGT
* * * *
6670655 AAAATTTTGAATTTTCCAGCAACCTCTTGAATTTTTCAGCGACTGAAATCTGGGTTCATCATTGG
1 AAAATTTTGAATTTTCCAACAACCGCTTGAATTTTTCAGCGACTGAAATCTGGCTTCATCATTAG
6670720 AATATG
66 AATATG
* * * * *
6670726 AAAATTTTGAAATTTT-CAACGACCGCTTGAATTTTTCGGTGACTGAAATGTAGGCTT-ATCGTT
1 AAAATTTTG-AATTTTCCAACAACCGCTTGAATTTTTCAGCGACTGAAATCT-GGCTTCATCATT
*
6670789 AGAATCTG
64 AGAATATG
*
6670797 GAAATTTT
1 AAAATTTT
6670805 TTTAATTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
71 56 0.85
72 10 0.15
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (71 bp):
AAAATTTTGAATTTTCCAACAACCGCTTGAATTTTTCAGCGACTGAAATCTGGCTTCATCATTAG
AATATG
Found at i:6671139 original size:18 final size:19
Alignment explanation
Indices: 6671118--6671153 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6671108 ATTTTGATTT
6671118 TGATTTTGAT-TTATTTTA
1 TGATTTTGATGTTATTTTA
*
6671136 TGATTTTTATGTTATTTT
1 TGATTTTGATGTTATTTT
6671154 TTATGATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.69
Consensus pattern (19 bp):
TGATTTTGATGTTATTTTA
Found at i:6671169 original size:21 final size:21
Alignment explanation
Indices: 6671131--6671172 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6671121 TTTTGATTTA
*
6671131 TTTTATGATTTTTATGTTATT
1 TTTTATGATTTATATGTTATT
6671152 TTTTATGATATTAT-TGTTATT
1 TTTTATGAT-TTATATGTTATT
6671173 ATTATTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (21 bp):
TTTTATGATTTATATGTTATT
Found at i:6681938 original size:33 final size:33
Alignment explanation
Indices: 6681901--6681963 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
6681891 CATAATAGGG
*
6681901 CCACCACCTCCACTTGCACCAAATCCTTTTCAT
1 CCACCACCTCCACTTCCACCAAATCCTTTTCAT
*
6681934 CCACCACTTCCACTTCCACCAAATCCTTTT
1 CCACCACCTCCACTTCCACCAAATCCTTTT
6681964 TCTCCGTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.24, C:0.46, G:0.02, T:0.29
Consensus pattern (33 bp):
CCACCACCTCCACTTCCACCAAATCCTTTTCAT
Found at i:6683634 original size:17 final size:17
Alignment explanation
Indices: 6683609--6683645 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6683599 GGATCAAGAA
*
6683609 TTTAATGAAACATATTT
1 TTTAATGAAACACATTT
*
6683626 TTTAGTGAAACACATTT
1 TTTAATGAAACACATTT
6683643 TTT
1 TTT
6683646 TTAATTCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (17 bp):
TTTAATGAAACACATTT
Found at i:6685785 original size:57 final size:57
Alignment explanation
Indices: 6685701--6686075 Score: 331
Period size: 57 Copynumber: 6.6 Consensus size: 57
6685691 AACATGGATT
* * * * * *
6685701 CCACCACCAGCATTGAGGTGATGTGAACTAGTAGTAGCTGCACCAAAATTGCCCAAA
1 CCACCACCAGCTTTGAGGCGATGTGAACTAGTAGTAGCTACACCGAGACTGCCCAAA
* * * ** * *
6685758 CCACCACCAGCTTTAAGGCGATTTGAACCAGTAGTAGCTACATTGAGACTGTCTAAA
1 CCACCACCAGCTTTGAGGCGATGTGAACTAGTAGTAGCTACACCGAGACTGCCCAAA
* * * ** * **
6685815 CCACTATCAGCTTTGAGGTGATGTGAA-TCAGTAACAGCAACACCGAGACCACCCAAA
1 CCACCACCAGCTTTGAGGCGATGTGAACT-AGTAGTAGCTACACCGAGACTGCCCAAA
* * * * *
6685872 CCACCATCAGTTTTAAGGCGATGTGAACTAGTAGTAGCTACACTGAGACTGCCTAAA
1 CCACCACCAGCTTTGAGGCGATGTGAACTAGTAGTAGCTACACCGAGACTGCCCAAA
* * * * * * * *
6685929 CCACCATCAGCTTTGAGGTGATGTGAACCAGCAGCAGTTACACCAAGTGC-GCCCAAA
1 CCACCACCAGCTTTGAGGCGATGTGAACTAGTAGTAGCTACACCGAG-ACTGCCCAAA
* * * * **
6685986 CCACCACCAGCTTTGAGGCGATGTAAACTAGCAATAGCAACATTGAGACTGCCCAAA
1 CCACCACCAGCTTTGAGGCGATGTGAACTAGTAGTAGCTACACCGAGACTGCCCAAA
* * *
6686043 CCACCACCAACATTGAGGCGATGTAAACTAGTA
1 CCACCACCAGCTTTGAGGCGATGTGAACTAGTA
6686076 ACAGCATTAA
Statistics
Matches: 249, Mismatches: 65, Indels: 8
0.77 0.20 0.02
Matches are distributed among these distances:
56 1 0.00
57 246 0.99
58 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (57 bp):
CCACCACCAGCTTTGAGGCGATGTGAACTAGTAGTAGCTACACCGAGACTGCCCAAA
Found at i:6685905 original size:114 final size:114
Alignment explanation
Indices: 6685752--6686081 Score: 401
Period size: 114 Copynumber: 2.9 Consensus size: 114
6685742 ACCAAAATTG
* * *
6685752 CCCAAACCACCACCAGCTTTAAGGCGATTTGAACCAGTAGTAGCTACATTGAGACTGTCTAAACC
1 CCCAAACCACCACCAGCTTTAAGGCGATGTGAACTAGTAGTAGCTACATTGAGACTGCCTAAACC
* * *
6685817 ACTATCAGCTTTGAGGTGATGTGAATCAGTAACAGCAACACCGAGACCA
66 ACCATCAGCTTTGAGGTGATGTGAAACAGTAACAGCAACACCAAGACCA
* * *
6685866 CCCAAACCACCATCAGTTTTAAGGCGATGTGAACTAGTAGTAGCTACACTGAGACTGCCTAAACC
1 CCCAAACCACCACCAGCTTTAAGGCGATGTGAACTAGTAGTAGCTACATTGAGACTGCCTAAACC
* * * ** ** *
6685931 ACCATCAGCTTTGAGGTGATGTGAACCAGCAGCAGTTACACCAAGTGCG
66 ACCATCAGCTTTGAGGTGATGTGAAACAGTAACAGCAACACCAAGACCA
* * * * * *
6685980 CCCAAACCACCACCAGCTTTGAGGCGATGTAAACTAGCAATAGCAACATTGAGACTGCCCAAACC
1 CCCAAACCACCACCAGCTTTAAGGCGATGTGAACTAGTAGTAGCTACATTGAGACTGCCTAAACC
* * * *
6686045 ACCACCAACATTGAGGCGATGT-AAACTAGTAACAGCA
66 ACCATCAGCTTTGAGGTGATGTGAAAC-AGTAACAGCA
6686082 TTAAGATCGC
Statistics
Matches: 181, Mismatches: 34, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
113 3 0.02
114 178 0.98
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (114 bp):
CCCAAACCACCACCAGCTTTAAGGCGATGTGAACTAGTAGTAGCTACATTGAGACTGCCTAAACC
ACCATCAGCTTTGAGGTGATGTGAAACAGTAACAGCAACACCAAGACCA
Found at i:6699961 original size:22 final size:22
Alignment explanation
Indices: 6699933--6699975 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
6699923 ACCTAATCCA
6699933 CCTTGCCCACCACCAACATCAC
1 CCTTGCCCACCACCAACATCAC
6699955 CCTTGCCCACCACCAACATCA
1 CCTTGCCCACCACCAACATCA
6699976 AGACCAGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.53, G:0.05, T:0.14
Consensus pattern (22 bp):
CCTTGCCCACCACCAACATCAC
Found at i:6700084 original size:57 final size:56
Alignment explanation
Indices: 6699984--6700178 Score: 223
Period size: 57 Copynumber: 3.4 Consensus size: 56
6699974 CAAGACCAGT
* *
6699984 ACCAGCATTGAGGCGATGTGAACTAGCAGCAGCTACA-CTGAGACTGCCTAAACCACC
1 ACCAGCATTAAGGCGATGTGAACTAGCAGCAGTTACATC-GAGACT-CCTAAACCACC
* * * *
6700041 ACCAGCTTTAAGGTGATGTGAACTAGCAGTAGTTGCATCGAGACTACCTAAACCACC
1 ACCAGCATTAAGGCGATGTGAACTAGCAGCAGTTACATCGAGACT-CCTAAACCACC
* ** * *
6700098 ACCAGCTTTAAGATGATGTTAACTAGCAGCAGTAACATCGAGA-TCACTTAAACCACC
1 ACCAGCATTAAGGCGATGTGAACTAGCAGCAGTTACATCGAGACTC-C-TAAACCACC
*
6700155 ACCAGCATTAAGGCGATGTAAACT
1 ACCAGCATTAAGGCGATGTGAACT
6700179 GATAGCAGCA
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
55 1 0.01
56 2 0.02
57 115 0.97
58 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (56 bp):
ACCAGCATTAAGGCGATGTGAACTAGCAGCAGTTACATCGAGACTCCTAAACCACC
Found at i:6702438 original size:24 final size:24
Alignment explanation
Indices: 6702381--6702429 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
6702371 CACCAAATAG
* *
6702381 AAAACCAC-TATTTTTTTAACCCA
1 AAAAACACATATTTTTTAAACCCA
6702404 AAAAACACATATTTCTTTAAACCCA
1 AAAAACACATATTT-TTTAAACCCA
6702429 A
1 A
6702430 GAAGCCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 5 0.23
25 10 0.45
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAAACACATATTTTTTAAACCCA
Found at i:6711163 original size:55 final size:55
Alignment explanation
Indices: 6711098--6711206 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
6711088 AGATATTGTA
* * * *
6711098 TATAGCTATATATGACAGTTTTGAATATAAATATATTAGTTGAAGTTTGTTTTTT
1 TATAGCTATATATGACAGTTATAAATATAAATATATGAGTTGAAGTTTCTTTTTT
* *
6711153 TATAGCTATATATGATAGTTATAAATATAAATATATGAGTTGAGGTTTCTTTTT
1 TATAGCTATATATGACAGTTATAAATATAAATATATGAGTTGAAGTTTCTTTTT
6711207 AAGCTATTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.48
Consensus pattern (55 bp):
TATAGCTATATATGACAGTTATAAATATAAATATATGAGTTGAAGTTTCTTTTTT
Found at i:6725874 original size:22 final size:22
Alignment explanation
Indices: 6725849--6725913 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
6725839 GAGAATCACA
6725849 ATTTTTTTAAACCAAGAAACCC
1 ATTTTTTTAAACCAAGAAACCC
* * *
6725871 ATTTTTCTAACCCAA-AGAACCT
1 ATTTTTTTAAACCAAGA-AACCC
6725893 ATTTTTCTTTAAACCCAAGAA
1 A-TTTT-TTTAAA-CCAAGAA
6725914 GCCATAATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 1 0.03
22 18 0.55
23 4 0.12
24 4 0.12
25 5 0.15
26 1 0.03
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (22 bp):
ATTTTTTTAAACCAAGAAACCC
Found at i:6732122 original size:6 final size:6
Alignment explanation
Indices: 6732080--6732158 Score: 70
Period size: 6 Copynumber: 12.5 Consensus size: 6
6732070 AAGGTTTAAA
* * * *
6732080 TTTATGG TTTAGG GTTAAG TTTAGG ATTTAGG GTTAGG TTTAGG TTTTGGG
1 TTTA-GG TTTAGG TTTAGG TTTAGG -TTTAGG TTTAGG TTTAGG -TTTAGG
6732131 TTTAGGG TTTAGG ATTT-GG TTTAGG TTT
1 TTTA-GG TTTAGG -TTTAGG TTTAGG TTT
6732159 TGGAATGCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
5 3 0.05
6 32 0.54
7 24 0.41
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.49
Consensus pattern (6 bp):
TTTAGG
Found at i:6732135 original size:19 final size:18
Alignment explanation
Indices: 6732080--6732158 Score: 79
Period size: 19 Copynumber: 4.2 Consensus size: 18
6732070 AAGGTTTAAA
*
6732080 TTTATGGTTTAGGGTTAAG
1 TTTA-GGTTTAGGGTTAGG
6732099 TTTAGGATTTAGGGTTAGG
1 TTTAGG-TTTAGGGTTAGG
*
6732118 TTTAGGTTTTGGGTTTAGGG
1 TTTAGGTTTAGGG-TTA-GG
*
6732138 TTTAGGATTT-GGTTTAGG
1 TTTAGG-TTTAGGGTTAGG
6732156 TTT
1 TTT
6732159 TGGAATGCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
18 13 0.25
19 27 0.51
20 10 0.19
21 3 0.06
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.49
Consensus pattern (18 bp):
TTTAGGTTTAGGGTTAGG
Found at i:6732142 original size:32 final size:32
Alignment explanation
Indices: 6732098--6732161 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
6732088 TTAGGGTTAA
*
6732098 GTTTAGGATTTAGGGTTAGGTTTAGGTTTTGG
1 GTTTAGGATTTAGGATTAGGTTTAGGTTTTGG
* *
6732130 GTTTAGGGTTTAGGATTTGGTTTAGGTTTTGG
1 GTTTAGGATTTAGGATTAGGTTTAGGTTTTGG
6732162 AATGCAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (32 bp):
GTTTAGGATTTAGGATTAGGTTTAGGTTTTGG
Found at i:6732236 original size:42 final size:42
Alignment explanation
Indices: 6732174--6732255 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
6732164 TGCAATAACA
*
6732174 AAATTACCAAAATGAAATTGATAAAAATGCAAACTATGATAC
1 AAATGACCAAAATGAAATTGATAAAAATGCAAACTATGATAC
** *
6732216 AAATGACCAAAATGCCATTGATAAAAATGCAAACTTTGAT
1 AAATGACCAAAATGAAATTGATAAAAATGCAAACTATGAT
6732256 GCATGGGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.24
Consensus pattern (42 bp):
AAATGACCAAAATGAAATTGATAAAAATGCAAACTATGATAC
Found at i:6733273 original size:14 final size:14
Alignment explanation
Indices: 6733254--6733294 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
6733244 AACAATAATA
*
6733254 AAATAATATTAAAT
1 AAATAATAATAAAT
6733268 AAATAATAATAAAT
1 AAATAATAATAAAT
6733282 -AATAAATAATAAA
1 AAAT-AATAATAAA
6733295 ATGAGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 3 0.12
14 22 0.88
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATAATAATAAAT
Found at i:6733275 original size:7 final size:7
Alignment explanation
Indices: 6733247--6733294 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
6733237 TTTAGTAAAC
6733247 AATAAT-
1 AATAATA
6733253 AA-AAT-
1 AATAATA
*
6733258 AATATTA
1 AATAATA
6733265 AATAA-A
1 AATAATA
6733271 TAATAATA
1 -AATAATA
6733279 AATAATA
1 AATAATA
6733286 AATAATA
1 AATAATA
6733293 AA
1 AA
6733295 ATGAGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
5 5 0.14
6 5 0.14
7 25 0.69
8 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:6733293 original size:10 final size:10
Alignment explanation
Indices: 6733242--6733293 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
6733232 TGTAATTTAG
*
6733242 TAAACAATAA
1 TAAATAATAA
*
6733252 TAAAATAATAT
1 T-AAATAATAA
6733263 TAAATAAATAA
1 TAAAT-AATAA
6733274 T-AATAAATAA
1 TAAAT-AATAA
6733284 TAAATAATAA
1 TAAATAATAA
6733294 AATGAGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 20 0.56
11 16 0.44
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAATAATAA
Found at i:6747392 original size:31 final size:31
Alignment explanation
Indices: 6747356--6747420 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
6747346 TAAGAGATAA
* * *
6747356 TTTAAAAATCTTCCAATATTTAGGCAAGACT
1 TTTAAAAATATCCCAATATTTAGCCAAGACT
* *
6747387 TTTAAAGATATCCCAATATTTTGCCAAGACT
1 TTTAAAAATATCCCAATATTTAGCCAAGACT
6747418 TTT
1 TTT
6747421 GAAGGTTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.38
Consensus pattern (31 bp):
TTTAAAAATATCCCAATATTTAGCCAAGACT
Found at i:6747516 original size:23 final size:22
Alignment explanation
Indices: 6747490--6747557 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 22
6747480 TAATGTTCAA
6747490 ACAAATGATGCATGATATACAAG
1 ACAAAT-ATGCATGATATACAAG
6747513 AC--A-A---ATGATATACAAG
1 ACAAATATGCATGATATACAAG
6747529 ACAAATAATGCATGATATACAAG
1 ACAAAT-ATGCATGATATACAAG
*
6747552 TCAAAT
1 ACAAAT
6747558 TCTCTTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
16 14 0.38
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
23 19 0.51
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.22
Consensus pattern (22 bp):
ACAAATATGCATGATATACAAG
Found at i:6747522 original size:16 final size:16
Alignment explanation
Indices: 6747501--6747534 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6747491 CAAATGATGC
6747501 ATGATATACAAGACAA
1 ATGATATACAAGACAA
6747517 ATGATATACAAGACAA
1 ATGATATACAAGACAA
6747533 AT
1 AT
6747535 AATGCATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.21
Consensus pattern (16 bp):
ATGATATACAAGACAA
Found at i:6751273 original size:21 final size:21
Alignment explanation
Indices: 6751234--6751273 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6751224 TTTATTCCAA
*
6751234 AAATCAATTTTTTTTAAAAGC
1 AAATCAATTTTTTTGAAAAGC
6751255 AAATC-ATTTTTTTGGAAAA
1 AAATCAATTTTTTT-GAAAA
6751274 AAAAGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.42
Consensus pattern (21 bp):
AAATCAATTTTTTTGAAAAGC
Found at i:6751799 original size:39 final size:39
Alignment explanation
Indices: 6751725--6751799 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
6751715 AGGGTTTGAA
* *
6751725 GTTAGGATCTTGGTATAGGGTCTACGGCTAGGGTTTGGG
1 GTTAAGATCTTGGTATAGGGTCTACGGCTAAGGTTTGGG
* * * *
6751764 GTTAAGATTTTGGTTTAGGGTCTAGGGTTAAGGTTT
1 GTTAAGATCTTGGTATAGGGTCTACGGCTAAGGTTT
6751800 TAGGTAGAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.17, C:0.07, G:0.37, T:0.39
Consensus pattern (39 bp):
GTTAAGATCTTGGTATAGGGTCTACGGCTAAGGTTTGGG
Found at i:6751815 original size:26 final size:25
Alignment explanation
Indices: 6751753--6751818 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
6751743 GGTCTACGGC
*
6751753 TAGGGTTTGGGGTTAAGATTTTGGTT
1 TAGGGTTTAGGGTTAAGATTTTGG-T
* *
6751779 TAGGGTCTAGGGTTAAGGTTTTAGG-
1 TAGGGTTTAGGGTTAAGATTTT-GGT
6751804 TAGAGGTTTAGGGTT
1 TAG-GGTTTAGGGTT
6751819 TGAGGTTTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 3 0.09
26 29 0.85
27 2 0.06
ACGTcount: A:0.18, C:0.02, G:0.39, T:0.41
Consensus pattern (25 bp):
TAGGGTTTAGGGTTAAGATTTTGGT
Found at i:6753616 original size:142 final size:143
Alignment explanation
Indices: 6753290--6753621 Score: 339
Period size: 142 Copynumber: 2.3 Consensus size: 143
6753280 AATTTCTTCA
* * * * * *
6753290 AAGGTGCAACCAAAGTTTTTAATACA-TAAAAATCATCAAATAATATGAAAGCATGATCTAGAAC
1 AAGGTGCAATCAAGGTTTTTAATGCACTAAAAATCATGAAATAATATAAAACCATGATCTAGAAC
* * * * * *
6753354 GTTTCACAAAAAATCAACATCGAGAATGTTAAATTACAAAAATACCCTTTAAGGGCATTTTAGTG
66 ATTTCACAAAAAATCAACA-CAAAAAGGTTAAATTACAAAAATACCCTTTAAGGGCATGTTAGTA
* *
6753419 ATTTCACACCTTTC
130 ATCTCAAACCTTTC
*** * * * *
6753433 AAGGTATGATCAGGGTTTTTAATGCACTAACAATCAAGAAATAATATAAAACCATGATCTAGAGC
1 AAGGTGCAATCAAGGTTTTTAATGCACTAAAAATCATGAAATAATATAAAACCATGATCTAGAAC
** * ** * *
6753498 ATTTCATGAAAAATCAAC-CAAAAAAGGTTAATTTATGAAAATACCC-TTAAGGGTATGTTGGTA
66 ATTTCACAAAAAATCAACAC-AAAAAGGTTAAATTACAAAAATACCCTTTAAGGGCATGTTAGTA
6753561 ATCTCAAACC-TTC
130 ATCTCAAACCTTTC
* *
6753574 TGAGGTGCAATCAAGGTTTTTAATGCACCAAAAATCATGAAATAATAT
1 -AAGGTGCAATCAAGGTTTTTAATGCACTAAAAATCATGAAATAATAT
6753622 TTAAATGTGA
Statistics
Matches: 150, Mismatches: 36, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
141 3 0.02
142 61 0.41
143 39 0.26
144 47 0.31
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (143 bp):
AAGGTGCAATCAAGGTTTTTAATGCACTAAAAATCATGAAATAATATAAAACCATGATCTAGAAC
ATTTCACAAAAAATCAACACAAAAAGGTTAAATTACAAAAATACCCTTTAAGGGCATGTTAGTAA
TCTCAAACCTTTC
Found at i:6754881 original size:19 final size:19
Alignment explanation
Indices: 6754859--6754916 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
6754849 TTTCAAGAAA
* *
6754859 GTTTTACCATTTTGACTTG
1 GTTTTCCCACTTTGACTTG
6754878 GTTTTCCCACTTTGA-TTAG
1 GTTTTCCCACTTTGACTT-G
6754897 GTTTTCCCACTTTGACTTG
1 GTTTTCCCACTTTGACTTG
6754916 G
1 G
6754917 ACTTTCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.06
19 31 0.89
20 2 0.06
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.48
Consensus pattern (19 bp):
GTTTTCCCACTTTGACTTG
Found at i:6756103 original size:18 final size:18
Alignment explanation
Indices: 6756065--6756104 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6756055 GAATTTTTTC
*
6756065 TTTTTGAAAACAAATCAA
1 TTTTTGAAAACAAAACAA
6756083 TTTTTGAAAAACAAAAC-A
1 TTTTTG-AAAACAAAACAA
6756101 TTTT
1 TTTT
6756105 ATTTTTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (18 bp):
TTTTTGAAAACAAAACAA
Found at i:6756562 original size:19 final size:19
Alignment explanation
Indices: 6756538--6756610 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 19
6756528 TTAGGGTTTA
*
6756538 TGATTTAGGGTTTTATGGG
1 TGATTTAGGGTTTCATGGG
***
6756557 TGATTTATAATTTCATGGG
1 TGATTTAGGGTTTCATGGG
6756576 TGATTTAGGGTTTCATGAGG
1 TGATTTAGGGTTTCATG-GG
*
6756596 -G-TTTAAGGTTTCATG
1 TGATTTAGGGTTTCATG
6756611 AGAAATGCAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
18 13 0.29
19 30 0.67
20 2 0.04
ACGTcount: A:0.21, C:0.04, G:0.30, T:0.45
Consensus pattern (19 bp):
TGATTTAGGGTTTCATGGG
Found at i:6759067 original size:49 final size:48
Alignment explanation
Indices: 6759014--6759384 Score: 306
Period size: 50 Copynumber: 7.5 Consensus size: 48
6759004 ATAGGAGAGA
* *
6759014 GACTTTAAAAATCTCTCTTTGAAAAGTGCTCCTATAAACATAGGTAAGT
1 GACTTTAAAAATCTCT-TTTGAAAAGTGCTCCTATAGACATAGGCAAGT
* * *
6759063 GACTTTAAAAATCTCCTTTTTGAAAGGTGC-CATTATAGATATAGGCAAGT
1 GACTTTAAAAATCT-C-TTTTGAAAAGTGCTC-CTATAGACATAGGCAAGT
* * ** *
6759113 GATTTTAAAAATCTCCTTTTGAAAAATGCTTTTATAGACATAGACAAGT
1 GACTTTAAAAATCT-CTTTTGAAAAGTGCTCCTATAGACATAGGCAAGT
* * * * *
6759162 GACTTTAAAAAATCTCAATTTGAAAAGTTCTCCTATAGCCATTGGCGAGT
1 GACTTT-AAAAATCTC-TTTTGAAAAGTGCTCCTATAGACATAGGCAAGT
* * **
6759212 GACTTTAAAAAATCTTTTTTTGAAAAGTGCTCCTATAGACATAAGTTAGT
1 GACTTT-AAAAATC-TCTTTTGAAAAGTGCTCCTATAGACATAGGCAAGT
* *
6759262 GACTTTAAAAATCTCTTTGGAAAAAG-CCTCCTTATAGACATAGGCAAAG-
1 GACTTTAAAAATCTCTTTTG-AAAAGTGCTCC-TATAGACATAGGC-AAGT
* *
6759311 AATTTTAAAAATCT-TTTTAGAAAA-TAGCTCCTATA-AGCATAGGCAAG-
1 GACTTTAAAAATCTCTTTT-GAAAAGT-GCTCCTATAGA-CATAGGCAAGT
* *
6759358 GAATTTTAAAAAATCTCAATTTGAAAA
1 G-ACTTT-AAAAATCTC-TTTTGAAAA
6759385 AGGTTTCTAT
Statistics
Matches: 263, Mismatches: 41, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
47 4 0.02
48 32 0.12
49 96 0.37
50 126 0.48
51 5 0.02
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (48 bp):
GACTTTAAAAATCTCTTTTGAAAAGTGCTCCTATAGACATAGGCAAGT
Found at i:6759154 original size:99 final size:99
Alignment explanation
Indices: 6759017--6759384 Score: 312
Period size: 99 Copynumber: 3.7 Consensus size: 99
6759007 GGAGAGAGAC
* **
6759017 TTTAAAAATCTCTCTTTGAAAAGTGCTCCTATAAACATAGGTAAGTGACTTTAAAAATCTCCTTT
1 TTTAAAAATCTCT-TTTGAAAAGTGCTCCTATAGACATAGGTAAGTGACTTTAAAAATCTCCAAT
* * *
6759082 TTGAAAGGTGC-CATTATAGATATAGGCAAGTGA-T
65 TTGAAAAGTGCTC-CTATAGACATAGGCAAGTGACT
* ** **
6759116 TTTAAAAATCTCCTTTTGAAAAATGCTTTTATAGACATAGACAAGTGACTTTAAAAAATCT-CAA
1 TTTAAAAATCT-CTTTTGAAAAGTGCTCCTATAGACATAGGTAAGTGACTTT-AAAAATCTCCAA
* * * *
6759180 TTTGAAAAGTTCTCCTATAGCCATTGGCGAGTGACT
64 TTTGAAAAGTGCTCCTATAGACATAGGCAAGTGACT
* * * *
6759216 TTAAAAAATCTTTTTTTGAAAAGTGCTCCTATAGACATAAGTTAGTGACTTTAAAAATCT-C--T
1 TTTAAAAATC-TCTTTTGAAAAGTGCTCCTATAGACATAGGTAAGTGACTTTAAAAATCTCCAAT
* * *
6759278 TTGGAAAAAG-CCTCCTTATAGACATAGGCAA-AGAAT
65 TT-G-AAAAGTGCTCC-TATAGACATAGGCAAGTGACT
* *
6759314 TTTAAAAATCT-TTTTAGAAAA-TAGCTCCTATA-AGCATAGGCAAG-GAATTTTAAAAAATCT-
1 TTTAAAAATCTCTTTT-GAAAAGT-GCTCCTATAGA-CATAGGTAAGTG-ACTTT-AAAAATCTC
6759374 CAATTTGAAAA
61 CAATTTGAAAA
6759385 AGGTTTCTAT
Statistics
Matches: 219, Mismatches: 35, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
96 7 0.03
97 29 0.13
98 30 0.14
99 96 0.44
100 56 0.26
101 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (99 bp):
TTTAAAAATCTCTTTTGAAAAGTGCTCCTATAGACATAGGTAAGTGACTTTAAAAATCTCCAATT
TGAAAAGTGCTCCTATAGACATAGGCAAGTGACT
Found at i:6759297 original size:149 final size:148
Alignment explanation
Indices: 6759014--6759374 Score: 353
Period size: 149 Copynumber: 2.4 Consensus size: 148
6759004 ATAGGAGAGA
** *
6759014 GACTTTAAAAATCTCTCTTTGAAAAGTGCTCCTATAAACATAGGTAAGTGACTTTAAAAATCTCC
1 GACTTTAAAAATCTCAATTTGAAAAGTGCTCCTATAAACATAGGCAAGTGACTTTAAAAATCTCC
* * * * * * *
6759079 TTTTTGAAAGGTGCCATTATAGATATAGGCAAGTGATTTTAAAAATCTCCTTTTGAAAAATGCTT
66 TTTTTGAAAAGTGCCACTATAGACATAAGCAAGTGACTTTAAAAATCTCCTTTGGAAAAATGCTC
6759144 TTATAGACATAGACAAGT
131 TTATAGACATAGACAAGT
* ** * *
6759162 GACTTTAAAAAATCTCAATTTGAAAAGTTCTCCTATAGCCATTGGCGAGTGACTTTAAAAAATCT
1 GACTTT-AAAAATCTCAATTTGAAAAGTGCTCCTATAAACATAGGCAAGTGACTTT-AAAAATCT
* **
6759227 -TTTTTTGAAAAGTGCTC-CTATAGACATAAGTTAGTGACTTTAAAAATCT-CTTTGGAAAAA-G
64 CCTTTTTGAAAAGTGC-CACTATAGACATAAGCAAGTGACTTTAAAAATCTCCTTTGGAAAAATG
*
6759288 CCTCCTTATAGACATAGGCAAAG-
128 -CT-CTTATAGACATAGAC-AAGT
* * * * *
6759311 AATTTTAAAAATCT--TTTTAGAAAA-TAGCTCCTATAAGCATAGGCAAG-GAATTTTAAAAAAT
1 GACTTTAAAAATCTCAATTT-GAAAAGT-GCTCCTATAAACATAGGCAAGTG-ACTTT-AAAAAT
6759372 CTC
62 CTC
6759375 AATTTGAAAA
Statistics
Matches: 175, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
146 5 0.03
147 35 0.20
148 26 0.15
149 97 0.55
150 12 0.07
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (148 bp):
GACTTTAAAAATCTCAATTTGAAAAGTGCTCCTATAAACATAGGCAAGTGACTTTAAAAATCTCC
TTTTTGAAAAGTGCCACTATAGACATAAGCAAGTGACTTTAAAAATCTCCTTTGGAAAAATGCTC
TTATAGACATAGACAAGT
Found at i:6759369 original size:48 final size:49
Alignment explanation
Indices: 6759265--6759374 Score: 145
Period size: 49 Copynumber: 2.2 Consensus size: 49
6759255 AGTTAGTGAC
*
6759265 TTTAAAAATCTCTTTGGAAAAAGCCTCCTTATAGACATAGGCAAAGAAT
1 TTTAAAAATCTCTTTAGAAAAAGCCTCCTTATAGACATAGGCAAAGAAT
* *
6759314 TTTAAAAATCTTTTTAGAAAATAG-CTCC-TATA-AGCATAGGCAAGGAAT
1 TTTAAAAATCTCTTTAGAAAA-AGCCTCCTTATAGA-CATAGGCAAAGAAT
6759362 TTTAAAAAATCTC
1 TTT-AAAAATCTC
6759375 AATTTGAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
47 1 0.02
48 20 0.37
49 31 0.57
50 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (49 bp):
TTTAAAAATCTCTTTAGAAAAAGCCTCCTTATAGACATAGGCAAAGAAT
Found at i:6759405 original size:50 final size:50
Alignment explanation
Indices: 6759341--6759537 Score: 238
Period size: 50 Copynumber: 3.9 Consensus size: 50
6759331 AAAATAGCTC
* * *
6759341 CTAT-AAGCATAGGCAAGGAATTTTAAAAAATCTCAATTTGAAAAAGGTTT
1 CTATGAAG-ATAGGCAACGAACTTTAAAAAATCTCAATTTGAAAAAGGCTT
* * *
6759391 CTATGAAGATAGGCAACAAACTTT-AAAAATCTCAATTTGAAAAGGGCTC
1 CTATGAAGATAGGCAACGAACTTTAAAAAATCTCAATTTGAAAAAGGCTT
* * *
6759440 CAATGAAGATAAGCAA-TAGACTTTAAAAAATCTCAATTTGAAAAAGGCTT
1 CTATGAAGATAGGCAACGA-ACTTTAAAAAATCTCAATTTGAAAAAGGCTT
*
6759490 CTATGAAGTTAGGCAACGAACTTTAAAAAAAAATCTCAATTTGAAAAA
1 CTATGAAGATAGGCAACGAACTTT---AAAAAATCTCAATTTGAAAAA
6759538 TAGTTCCTAT
Statistics
Matches: 125, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
48 1 0.01
49 41 0.33
50 58 0.46
51 4 0.03
53 21 0.17
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (50 bp):
CTATGAAGATAGGCAACGAACTTTAAAAAATCTCAATTTGAAAAAGGCTT
Done.