Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 131 of 131
Found at i:24103172 original size:26 final size:28
Alignment explanation
Indices: 24103143--24103196 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
24103133 AAAAATATTT
24103143 ATAAAAAAAAAATC-CTTTC-AATAAAA
1 ATAAAAAAAAAATCTCTTTCAAATAAAA
* * *
24103169 ATAATAATAAAATCTTTTTCAAATAAAA
1 ATAAAAAAAAAATCTCTTTCAAATAAAA
24103197 TCCCTACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.52
27 4 0.17
28 7 0.30
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (28 bp):
ATAAAAAAAAAATCTCTTTCAAATAAAA
Found at i:24112590 original size:50 final size:49
Alignment explanation
Indices: 24112474--24112606 Score: 127
Period size: 50 Copynumber: 2.8 Consensus size: 49
24112464 GAAGTACTTT
* * **
24112474 GCTT-GACCTAAAAAAAAAAAAGGTTCAAGTTGAAAACTTGAAAAGGTA
1 GCTTGGACCAAAAAAAAAAAAAGATTCAAGTTGAAAACCCGAAAAGGTA
*
24112522 GCTTGAACCAAAAAAAAAAAAAGAATTCAAGTTGAAAACCCG-AAAGG-A
1 GCTTGGACCAAAAAAAAAAAAAG-ATTCAAGTTGAAAACCCGAAAAGGTA
* *
24112570 CGGCTTGGACC---CAAAGAAAAAG-TTCAAGTTGAAAACC
1 --GCTTGGACCAAAAAAAAAAAAAGATTCAAGTTGAAAACC
24112607 TAGAAGGGCA
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
45 15 0.21
47 9 0.12
48 5 0.07
49 21 0.29
50 23 0.32
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.17
Consensus pattern (49 bp):
GCTTGGACCAAAAAAAAAAAAAGATTCAAGTTGAAAACCCGAAAAGGTA
Found at i:24113570 original size:119 final size:120
Alignment explanation
Indices: 24113262--24113569 Score: 404
Period size: 119 Copynumber: 2.6 Consensus size: 120
24113252 CTTTATTCAC
* * * **
24113262 TCACCTGATCTTGGCTTAGTCCAGGTCATTTCTTATGATTTGTGGTTTCATCTTGGTCATTTATT
1 TCACCTGATCTTGGCTTAGTCTAGATCATTTCTTATGATTCGTGGTTTCATCTCAGTCATTTA-T
* ** * * *
24113327 TTTTTTCCTTGACTCTGTCCTGGTCATTTCATTTTTGACCCATGGTTTCATCCCCG
65 TTTTTACCTCAACTCGGTCCTAGTCACTTCATTTTTGACCCATGGTTTCATCCCCG
* *
24113383 TCACCTAATCTTGGCTTAGT-TCGTATCATTTCTTATGATTCGTGGTTT-ATCTCAGTCATTTAT
1 TCACCTGATCTTGGCTTAGTCTAG-ATCATTTCTTATGATTCGTGGTTTCATCTCAGTCATTTAT
* ** *
24113446 TTTTTACCTCAATTCGGTCCTAGTCACTTCATTTTTGACCTGTGGTTTCATCCCGG
65 TTTTTACCTCAACTCGGTCCTAGTCACTTCATTTTTGACCCATGGTTTCATCCCCG
* * *
24113502 TCACCTGATCTTAGCTTAGTCTAGATCATTTCTTATGATTCATGGTTTCATCCCAGTCATTTATT
1 TCACCTGATCTTGGCTTAGTCTAGATCATTTCTTATGATTCGTGGTTTCATCTCAGTCATTTATT
24113567 TTT
66 TTT
24113570 ATCTCGACTC
Statistics
Matches: 162, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
119 88 0.54
120 33 0.20
121 41 0.25
ACGTcount: A:0.16, C:0.22, G:0.15, T:0.46
Consensus pattern (120 bp):
TCACCTGATCTTGGCTTAGTCTAGATCATTTCTTATGATTCGTGGTTTCATCTCAGTCATTTATT
TTTTACCTCAACTCGGTCCTAGTCACTTCATTTTTGACCCATGGTTTCATCCCCG
Found at i:24113595 original size:119 final size:119
Alignment explanation
Indices: 24113262--24113674 Score: 402
Period size: 119 Copynumber: 3.4 Consensus size: 119
24113252 CTTTATTCAC
* * ** ***
24113262 TCACCTGATCTTGGCTTAGTCCAGGTCATTTCTTATGATTTGTGGTTTCATCTTGGTCATTTATT
1 TCACCTGATCTTGGCTTAGTCTAGATCATTTCTTATGATTCATGGTTTCATCCCAGTCATTTATT
* * * ** *
24113327 TTTTTTCCTTGACTCTGTCCTGGTCATTTCATTTTTGACCCATGGTTTCATCCCCG
66 TTTTAT-CTCGACTC-GTCCTGGTCACTTCATTTTTGACCTGTGGTTTCATCCCGG
* * * *
24113383 TCACCTAATCTTGGCTTAGT-TCGTATCATTTCTTATGATTCGTGGTTT-ATCTCAGTCATTTAT
1 TCACCTGATCTTGGCTTAGTCTAG-ATCATTTCTTATGATTCATGGTTTCATCCCAGTCATTTAT
* * * *
24113446 TTTTTACCTCAATTCGGTCCTAGTCACTTCATTTTTGACCTGTGGTTTCATCCCGG
65 TTTTTATCTCGACTC-GTCCTGGTCACTTCATTTTTGACCTGTGGTTTCATCCCGG
*
24113502 TCACCTGATCTTAGCTTAGTCTAGATCATTTCTTATGATTCATGGTTTCATCCCAGTCATTTA-T
1 TCACCTGATCTTGGCTTAGTCTAGATCATTTCTTATGATTCATGGTTTCATCCCAGTCATTTATT
* ** * * ** * *
24113566 TTTTATCTCGACTCGATCTTGGTTGCTTCATTTTTTA-CTCGTGATTTTGTCCTGA
66 TTTTATCTCGACTCG-TCCTGGTCACTTCATTTTTGACCT-GTGGTTTCATCCCGG
* * * * * *
24113621 TCACCTGAATCTTGGCTCAATTTAGATAATTTCTTATGATTTATGATTTCATCC
1 TCACCTG-ATCTTGGCTTAGTCTAGATCATTTCTTATGATTCATGGTTTCATCC
24113675 TGGTCATCTG
Statistics
Matches: 243, Mismatches: 43, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
118 3 0.01
119 126 0.52
120 73 0.30
121 41 0.17
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (119 bp):
TCACCTGATCTTGGCTTAGTCTAGATCATTTCTTATGATTCATGGTTTCATCCCAGTCATTTATT
TTTTATCTCGACTCGTCCTGGTCACTTCATTTTTGACCTGTGGTTTCATCCCGG
Found at i:24114053 original size:3 final size:3
Alignment explanation
Indices: 24114045--24114153 Score: 110
Period size: 3 Copynumber: 36.0 Consensus size: 3
24114035 GCTATTGTAA
* *
24114045 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTA ATGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* * * * * * *
24114091 ATG ATT ATT ATT ATC ATT ATC ATT ATC ATT ATC ATT ATC ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
24114139 ATT TTT ATT TTT ATT
1 ATT ATT ATT ATT ATT
24114154 GCTATTGTTG
Statistics
Matches: 83, Mismatches: 22, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
3 81 0.98
4 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:24126711 original size:33 final size:33
Alignment explanation
Indices: 24126669--24126766 Score: 110
Period size: 33 Copynumber: 3.0 Consensus size: 33
24126659 AGAGTAATTC
*
24126669 AAACTTCATGGCCTCTGTTTG-GAGGAATCATTT
1 AAACTTCATGGCCTCT-ATTGAGAGGAATCATTT
*
24126702 AAACTTCATGGCCTCTATTGAGAGGAATCATTC
1 AAACTTCATGGCCTCTATTGAGAGGAATCATTT
* * * *
24126735 AAA-TACCATAGCCTCTATTTAGAGAAATCATT
1 AAACT-TCATGGCCTCTATTGAGAGGAATCATT
24126767 CAAGTTTCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.07
33 53 0.93
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (33 bp):
AAACTTCATGGCCTCTATTGAGAGGAATCATTT
Found at i:24126764 original size:66 final size:66
Alignment explanation
Indices: 24126679--24126809 Score: 149
Period size: 66 Copynumber: 2.0 Consensus size: 66
24126669 AAACTTCATG
* * * * * *
24126679 GCCTCTGTTTGGAGGAATCATTTAAACTTCATGGCCTCTA-TTGAGAGGAATCA-TTCAAATACC
1 GCCTCTATTTAGAGAAATCATTCAAACTTCATGCCCTCTACTT-AAAGGAAT-ATTTCAAATACC
24126742 ATA
64 ATA
** *
24126745 GCCTCTATTTAGAGAAATCATTCAAGTTTCATGCCCTTTACTTAAAGGAATATTTCAAATACCAT
1 GCCTCTATTTAGAGAAATCATTCAAACTTCATGCCCTCTACTTAAAGGAATATTTCAAATACCAT
24126810 TACCTCTTAG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
65 1 0.02
66 51 0.94
67 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (66 bp):
GCCTCTATTTAGAGAAATCATTCAAACTTCATGCCCTCTACTTAAAGGAATATTTCAAATACCAT
A
Found at i:24127170 original size:34 final size:36
Alignment explanation
Indices: 24127091--24127176 Score: 106
Period size: 34 Copynumber: 2.5 Consensus size: 36
24127081 GTTAGAGGAG
24127091 TTATTTAAAGTCTT-TAGCCTCTAATTAAAGGAACC
1 TTATTTAAAGTCTTATAGCCTCTAATTAAAGGAACC
** * * *
24127126 TTATTTAAAGTCTTATAGTTTCTAGTTAAATG-AGC
1 TTATTTAAAGTCTTATAGCCTCTAATTAAAGGAACC
24127161 -TATTTAAAGTCTTATA
1 TTATTTAAAGTCTTATA
24127177 ACCTTTGGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 16 0.36
35 16 0.36
36 13 0.29
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (36 bp):
TTATTTAAAGTCTTATAGCCTCTAATTAAAGGAACC
Found at i:24128249 original size:3 final size:3
Alignment explanation
Indices: 24128235--24128275 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
24128225 TTTTTTATGA
* *
24128235 TAT TAT TGT TAT TAT TA- TAT TAT TAT T-T TAT TAT AAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24128276 CATTCTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:24128273 original size:17 final size:15
Alignment explanation
Indices: 24128222--24128275 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 15
24128212 TTATTTTGTG
*
24128222 TTATTTTTTATGATA
1 TTATTTTTTATTATA
24128237 TTATTGTTATTATTATA
1 TTATT-TT-TTATTATA
24128254 TTATTATTTTATTATAA
1 TTATT-TTTTATTAT-A
24128271 TTATT
1 TTATT
24128276 CATTCTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 5 0.15
16 9 0.26
17 20 0.59
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
TTATTTTTTATTATA
Found at i:24128842 original size:17 final size:17
Alignment explanation
Indices: 24128829--24128874 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
24128819 AAAAATAATG
24128829 AATAATAAATAATACTA
1 AATAATAAATAATACTA
*
24128846 AATAATAAATAATGCTA
1 AATAATAAATAATACTA
24128863 AATAATAAATAA
1 AATAATAAATAA
24128875 AAAATATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (17 bp):
AATAATAAATAATACTA
Found at i:24129266 original size:3 final size:3
Alignment explanation
Indices: 24129246--24129287 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
24129236 ATAATACGAA
* * *
24129246 AAT AAT AGT AGT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24129288 TTCACAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24129329 original size:14 final size:14
Alignment explanation
Indices: 24129307--24129340 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24129297 AAAAATATTT
*
24129307 TTTTCATAAATAAA
1 TTTTAATAAATAAA
*
24129321 TTTTAATAAATTAA
1 TTTTAATAAATAAA
24129335 TTTTAA
1 TTTTAA
24129341 ATATAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTAATAAATAAA
Found at i:24135544 original size:16 final size:16
Alignment explanation
Indices: 24135514--24135551 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24135504 GCGCTCTTAA
24135514 ATTTTG-CTATATTAT
1 ATTTTGACTATATTAT
*
24135529 ATTTTGACTCTATTAT
1 ATTTTGACTATATTAT
*
24135545 TTTTTGA
1 ATTTTGA
24135552 ATAACACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.61
Consensus pattern (16 bp):
ATTTTGACTATATTAT
Found at i:24136303 original size:5 final size:5
Alignment explanation
Indices: 24136293--24136343 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
24136283 ATATGATACA
* * *
24136293 ATAAT ATAAT ATAAAT ATAAT ATAAT ATAAAT ATGAT ATAAA AAAAT ATAA
1 ATAAT ATAAT AT-AAT ATAAT ATAAT AT-AAT ATAAT ATAAT ATAAT ATAA
24136344 AAATAATACA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
5 28 0.74
6 10 0.26
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (5 bp):
ATAAT
Found at i:24136311 original size:11 final size:11
Alignment explanation
Indices: 24136293--24136351 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
24136283 ATATGATACA
24136293 ATAATAT-AAT
1 ATAATATAAAT
24136303 ATAA-ATATAAT
1 ATAATATA-AAT
24136314 ATAATATAAAT
1 ATAATATAAAT
*
24136325 ATGATATAAA-
1 ATAATATAAAT
* *
24136335 AAAATATAAAA
1 ATAATATAAAT
24136346 ATAATA
1 ATAATA
24136352 CAATTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 2 0.05
10 12 0.29
11 24 0.59
12 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:24136314 original size:16 final size:16
Alignment explanation
Indices: 24136293--24136343 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
24136283 ATATGATACA
24136293 ATAATATAATATAAAT
1 ATAATATAATATAAAT
24136309 ATAATATAATATAAAT
1 ATAATATAATATAAAT
* *
24136325 ATGATATAA-AAAAAT
1 ATAATATAATATAAAT
24136340 ATAA
1 ATAA
24136344 AAATAATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 8 0.25
16 24 0.75
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAATATAATATAAAT
Found at i:24136473 original size:20 final size:20
Alignment explanation
Indices: 24136448--24136519 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
24136438 TAATTTTATA
24136448 AATTATATTAAATATAATAT
1 AATTATATTAAATATAATAT
* *
24136468 AATTATATTAATTTTAATAT
1 AATTATATTAAATATAATAT
** *
24136488 TTTATACTATATAAATATATAAAT
1 AAT-TA-TAT-TAAATATA-ATAT
24136512 AATTATAT
1 AATTATAT
24136520 ATATGCCTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
20 19 0.49
21 2 0.05
22 6 0.15
23 8 0.21
24 4 0.10
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTATATTAAATATAATAT
Found at i:24136588 original size:8 final size:8
Alignment explanation
Indices: 24136552--24136591 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
24136542 TTATCTCATA
*
24136552 ATATATAT
1 ATATGTAT
*
24136560 ATATATAT
1 ATATGTAT
24136568 ATATGTAT
1 ATATGTAT
*
24136576 GTATGTAT
1 ATATGTAT
24136584 ATATGTAT
1 ATATGTAT
24136592 GTAATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:24137152 original size:2 final size:2
Alignment explanation
Indices: 24137145--24137520 Score: 205
Period size: 2 Copynumber: 192.5 Consensus size: 2
24137135 TAACATGGAC
* * * * * * *
24137145 AT AT AT AT AC AT AT GT AA AT AT TT TT AT AT AC AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
24137187 AT AT AT AC AT GT AT AT AT AT TT AC AT AT AT AC AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
24137229 AC A- AT AT AT AT GT AT AT AT A- AT AT AT GT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
24137268 GT AT AT AT GT AT AT AT AC A- AT AT AT -T AT AT TT AT GT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
24137308 GT AT AT GT AT GT AT AT A- AT AT AT AC AT AT -T GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * * * * *
24137348 AC AG AT -T GT AT AT AC AT AC AT AG AT AT AT AT GT GT AT CT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
24137389 AT AT AT CT AT TT AT AT AT AT AT AT GT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
** * * * * *
24137431 AT AT AT AT AT GC CT AC GT -T AT AT TT AT AT AT GA- AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
* * *
24137472 AT GT AT AT AT AT AT AT GT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24137514 AT AT AT A
1 AT AT AT A
24137521 CATCTCAACC
Statistics
Matches: 272, Mismatches: 91, Indels: 22
0.71 0.24 0.06
Matches are distributed among these distances:
1 10 0.04
2 261 0.96
3 1 0.00
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (2 bp):
AT
Found at i:24137834 original size:10 final size:10
Alignment explanation
Indices: 24137800--24137834 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
24137790 TGTTTTTTAA
*
24137800 TTTTTAAAAA
1 TTTTTAAAAT
24137810 TTTTTAAAAT
1 TTTTTAAAAT
24137820 TTTTTAAAAT
1 TTTTTAAAAT
24137830 TTTTT
1 TTTTT
24137835 TTTTGAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:24137845 original size:22 final size:22
Alignment explanation
Indices: 24137820--24137876 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
24137810 TTTTTAAAAT
*
24137820 TTTTTAAAATTTTTTTTTTGAA
1 TTTTTAAAATTTTTGTTTTGAA
**
24137842 TTTTTAAAA-AATTGTTTTGAA
1 TTTTTAAAATTTTTGTTTTGAA
* *
24137863 TATTTAGAATTTTT
1 TTTTTAAAATTTTT
24137877 AAAAAATTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTTTAAAATTTTTGTTTTGAA
Found at i:24137895 original size:13 final size:13
Alignment explanation
Indices: 24137877--24137903 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24137867 TAGAATTTTT
24137877 AAAAAATTTTAAA
1 AAAAAATTTTAAA
24137890 AAAAAATTTTAAA
1 AAAAAATTTTAAA
24137903 A
1 A
24137904 TTTTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAAAATTTTAAA
Found at i:24138111 original size:2 final size:2
Alignment explanation
Indices: 24138104--24138134 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
24138094 TAAATCAGCT
*
24138104 TC TC TC TC TC TC TC TC TC TC AC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
24138135 TCTNNNNNNN
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:24147594 original size:118 final size:118
Alignment explanation
Indices: 24147385--24147612 Score: 287
Period size: 118 Copynumber: 1.9 Consensus size: 118
24147375 GTGGTCGAAA
* * * ** * *
24147385 CATGTGCCAAGACCAAGGTTCAACATGTCTCAATGGTGGTTGAACCATGTGTATGTGTCATAATC
1 CATGTGCCAAAACCAAGGTTCAACATGTCCCAATAGTGGTCCAACCATGTGTATATGTCACAATC
* *
24147450 TATAAGCTGATCTAAGCCTAAAGGTTCTC-TCTGAGTCAAGGAGCAGGTTAAAG
66 CATAAGCTGATCTAAGCCCAAAGGTTCTCTTC-GAGTCAAGGAGCAGGTTAAAG
* **
24147503 CATGTGCCAAAACCAAGGTTCAACATGTCCCGATAGTGGTCCAGGCATGTGTATATGTCACAATC
1 CATGTGCCAAAACCAAGGTTCAACATGTCCCAATAGTGGTCCAACCATGTGTATATGTCACAATC
* * ** *
24147568 CATAAGCTGGTCTAGGCCCAGGGGTTCTCTTCGAGTGAAGGAGCA
66 CATAAGCTGATCTAAGCCCAAAGGTTCTCTTCGAGTCAAGGAGCA
24147613 ATTCTAGCTT
Statistics
Matches: 92, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
118 90 0.98
119 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (118 bp):
CATGTGCCAAAACCAAGGTTCAACATGTCCCAATAGTGGTCCAACCATGTGTATATGTCACAATC
CATAAGCTGATCTAAGCCCAAAGGTTCTCTTCGAGTCAAGGAGCAGGTTAAAG
Found at i:24155911 original size:45 final size:45
Alignment explanation
Indices: 24155828--24155936 Score: 114
Period size: 45 Copynumber: 2.4 Consensus size: 45
24155818 TGGGCAGTTA
* *
24155828 CCTTGAACACCATTAGCACATGCTGGTCCTCGATATGGGCAC-TAG
1 CCTTGAACACCATTGGCACATGCTGGTCCTCGAAATGGGCACAT-G
* * *
24155873 CCTTGAACACCATTGGCACATGTTGG-GCTATGAAATGGGCACATG
1 CCTTGAACACCATTGGCACATGCTGGTCCT-CGAAATGGGCACATG
* * *
24155918 CCTCGACCACCATCGGCAC
1 CCTTGAACACCATTGGCAC
24155937 TTGCAAACCC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 2 0.04
45 51 0.94
46 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (45 bp):
CCTTGAACACCATTGGCACATGCTGGTCCTCGAAATGGGCACATG
Done.