Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003372.1 Hibiscus syriacus cultivar Beakdansim tig00007086_pilon, 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: 112068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:6309 original size:19 final size:19
Alignment explanation
Indices: 6284--6336 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
6274 ATTTAAGGGG
6284 GTGCATCGATGCACTACTT
1 GTGCATCGATGCACTACTT
*
6303 TTGCATCGATGCACTACTT
1 GTGCATCGATGCACTACTT
*
6322 GTGCATCGATACACT
1 GTGCATCGATGCACT
6337 GATGGCATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (19 bp):
GTGCATCGATGCACTACTT
Found at i:8227 original size:18 final size:18
Alignment explanation
Indices: 8190--8235 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
8180 TAATCAAACC
* * *
8190 TTAATTAAATATTATGTT
1 TTAATTAAAAATAATATT
8208 TTAATTAAAAATAATATT
1 TTAATTAAAAATAATATT
*
8226 TTTATTAAAA
1 TTAATTAAAA
8236 TGACAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTAATTAAAAATAATATT
Found at i:8252 original size:84 final size:84
Alignment explanation
Indices: 8120--8287 Score: 318
Period size: 84 Copynumber: 2.0 Consensus size: 84
8110 GTAAATTTGT
*
8120 TGTTTTAATTAAAAATAATATTTTTATTAAAATGACAAATATAAATACTTTTTAGGTGTCTAATC
1 TGTTTTAATTAAAAATAATATTTTTATTAAAATGACAAATATAAATACTTTTTAGGTATCTAATC
8185 AAACCTTAATTAAATATTA
66 AAACCTTAATTAAATATTA
8204 TGTTTTAATTAAAAATAATATTTTTATTAAAATGACAAATATAAATACTTTTTAGGTATCTAATC
1 TGTTTTAATTAAAAATAATATTTTTATTAAAATGACAAATATAAATACTTTTTAGGTATCTAATC
*
8269 ACACCTTAATTAAATATTA
66 AAACCTTAATTAAATATTA
8288 GTGGCGACTC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (84 bp):
TGTTTTAATTAAAAATAATATTTTTATTAAAATGACAAATATAAATACTTTTTAGGTATCTAATC
AAACCTTAATTAAATATTA
Found at i:21111 original size:22 final size:22
Alignment explanation
Indices: 21079--21591 Score: 231
Period size: 22 Copynumber: 23.3 Consensus size: 22
21069 ATTAAAATCA
**
21079 TTTAAATATATTTTAAAATTTAT
1 TTTAAA-ATATTAAAAAATTTAT
* *
21102 TTTAAGATA-TAAAAAAATTAT
1 TTTAAAATATTAAAAAATTTAT
**
21123 TTTAAAATATGGAAAAATTTAT
1 TTTAAAATATTAAAAAATTTAT
* ** ***
21145 TTTTAAATATGGATTGATTTAT
1 TTTAAAATATTAAAAAATTTAT
** ***
21167 TTTAAAATATGGATTGATTTAT
1 TTTAAAATATTAAAAAATTTAT
*
21189 TTTAAAATATGAAAAAATTTAT
1 TTTAAAATATTAAAAAATTTAT
* ***
21211 TTTAAAATATGAATTGATTTAT
1 TTTAAAATATTAAAAAATTTAT
** * *
21233 TTTAAAATATGGATAATTTTAT
1 TTTAAAATATTAAAAAATTTAT
* ***
21255 TTTAAAATATGAATTGATTTAT
1 TTTAAAATATTAAAAAATTTAT
**
21277 TTTAAAATATGGAAAAATTTAT
1 TTTAAAATATTAAAAAATTTAT
** ***
21299 TTTAAAATATGGATTGATTTAT
1 TTTAAAATATTAAAAAATTTAT
** ***
21321 TTTAAAATATGGATTTATTTAT
1 TTTAAAATATTAAAAAATTTAT
*
21343 TTTAAAATATGAAAAAATTTAT
1 TTTAAAATATTAAAAAATTTAT
* ***
21365 TTTAAAATATGAATTTATTTAT
1 TTTAAAATATTAAAAAATTTAT
** ***
21387 TTTAAAATATGGATTGATTTAT
1 TTTAAAATATTAAAAAATTTAT
** ***
21409 TTTAAAATATGGATTGATTTAT
1 TTTAAAATATTAAAAAATTTAT
** ***
21431 TTTAAAATATGGATTGATTTAT
1 TTTAAAATATTAAAAAATTTAT
* *
21453 TTTAAAATATGAAAAAACTTAT
1 TTTAAAATATTAAAAAATTTAT
** ***
21475 TTTAAAATATGGATTGATTTAT
1 TTTAAAATATTAAAAAATTTAT
** **
21497 TTTAAAATATGGAAAAGGTTAT
1 TTTAAAATATTAAAAAATTTAT
***
21519 TTTAAAATA-TAGATTGATTTAT
1 TTTAAAATATTA-AAAAATTTAT
***
21541 TTTAAAATA-TAGATTGATTTAT
1 TTTAAAATATTA-AAAAATTTAT
* ***
21563 TTTAAAATATGAATTGATTTAT
1 TTTAAAATATTAAAAAATTTAT
21585 TTTAAAA
1 TTTAAAA
21592 AATTTATTAT
Statistics
Matches: 419, Mismatches: 68, Indels: 7
0.85 0.14 0.01
Matches are distributed among these distances:
21 17 0.04
22 396 0.95
23 6 0.01
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (22 bp):
TTTAAAATATTAAAAAATTTAT
Found at i:21150 original size:44 final size:44
Alignment explanation
Indices: 21096--21591 Score: 579
Period size: 44 Copynumber: 11.3 Consensus size: 44
21086 ATATTTTAAA
* * * **
21096 ATTTATTTTAAGATAT-AAAAAAATTATTTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGAATG
* *** *
21139 ATTTATTTTTAAATATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGAATG
*
21183 ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATAT-GAATTG
1 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGAA-TG
* *
21227 ATTTATTTTAAAATATGGATAATTTTATTTTAAAATAT-GAATTG
1 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGAA-TG
*
21271 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGAATG
*** * **
21315 ATTTATTTTAAAATATGGATTTATTTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGAATG
** *
21359 ATTTATTTTAAAATAT-GAATTTATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGAA-AAATTTATTTTAAAATATGGAATG
*** *
21403 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGAATG
* * *
21447 ATTTATTTTAAAATATGAAAAAACTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGAATG
** * *
21491 ATTTATTTTAAAATATGGAAAAGGTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGAATG
* ***
21535 ATTTATTTTAAAATATAGATTGATTTATTTTAAAATAT-GAATTG
1 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGAA-TG
21579 ATTTATTTTAAAA
1 ATTTATTTTAAAA
21592 AATTTATTAT
Statistics
Matches: 395, Mismatches: 52, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
43 20 0.05
44 371 0.94
45 4 0.01
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (44 bp):
ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGAATG
Found at i:21195 original size:66 final size:66
Alignment explanation
Indices: 21119--21591 Score: 619
Period size: 66 Copynumber: 7.2 Consensus size: 66
21109 TATAAAAAAA
* *
21119 TTATTTTAAAATATGGAAAAATTTATTTTTAAATATGGATTGATTTATTTTAAAATATGGATTGA
1 TTATTTTAAAATATGGAATAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGA
21184 T
66 T
* * * *
21185 TTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTGATTTATTTTAAAATATGGA-TAA
1 TTATTTTAAAATATGGAATAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGA
21249 TT
66 -T
* ***
21251 TTATTTTAAAATAT-GAATTGATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGATTG
1 TTATTTTAAAATATGGAA-TAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
21315 AT
65 AT
* * * *** * *
21317 TTATTTTAAAATATGGATTTATTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTTA
1 TTATTTTAAAATATGGAATAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGA
21382 T
66 T
* *
21383 TTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGA
1 TTATTTTAAAATATGGAATAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGA
21448 T
66 T
* * * **
21449 TTATTTTAAAATATGAAAAAACTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGA-AAA
1 TTATTTTAAAATATGGAATAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGA
*
21513 GG
66 -T
* * * * *
21515 TTATTTTAAAATATAGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGAATTGA
1 TTATTTTAAAATATGGAATAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGA
21580 T
66 T
21581 TTATTTTAAAA
1 TTATTTTAAAA
21592 AATTTATTAT
Statistics
Matches: 358, Mismatches: 43, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
65 5 0.01
66 348 0.97
67 5 0.01
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (66 bp):
TTATTTTAAAATATGGAATAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGA
T
Found at i:24395 original size:37 final size:37
Alignment explanation
Indices: 24315--24414 Score: 116
Period size: 37 Copynumber: 2.7 Consensus size: 37
24305 ATTCTAGTAA
* * *
24315 AATAAAAATTTAT-AATAATATATTTATATTTCAAATG
1 AATATAAATTCATAAATAATATATTTATATTT-AAATC
*
24352 AATATAAATTCATAAATAATATATTTATGTTT-AATC
1 AATATAAATTCATAAATAATATATTTATATTTAAATC
24388 AATTATAAATTTC-TAAATAATATATTT
1 AA-TATAAA-TTCATAAATAATATATTT
24415 GTAACGGCTC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
36 5 0.09
37 31 0.55
38 20 0.36
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (37 bp):
AATATAAATTCATAAATAATATATTTATATTTAAATC
Found at i:25388 original size:24 final size:24
Alignment explanation
Indices: 25361--25463 Score: 89
Period size: 24 Copynumber: 4.3 Consensus size: 24
25351 AAACGGAGAT
*
25361 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
25385 ATCAGATATCAGAACAGAATCCGG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
25409 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
25433 ATCAGATATCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
25457 ATCAGAA
1 ATCAGAA
25464 GTCAGATAAA
Statistics
Matches: 58, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:26630 original size:18 final size:18
Alignment explanation
Indices: 26603--26638 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26593 CGATCTTATT
26603 ATTTAATTCAGTCATTTC
1 ATTTAATTCAGTCATTTC
* *
26621 ATTTACTTCAGTCCTTTC
1 ATTTAATTCAGTCATTTC
26639 GAACAATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTTAATTCAGTCATTTC
Found at i:27962 original size:8 final size:8
Alignment explanation
Indices: 27942--27981 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
27932 GGTCAACTTC
27942 GGTCAAC-
1 GGTCAACG
27949 GGTCAACG
1 GGTCAACG
27957 GGTCAACG
1 GGTCAACG
27965 GGT---CG
1 GGTCAACG
27970 GGTCAACG
1 GGTCAACG
27978 GGTC
1 GGTC
27982 GGGTCGGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.17
7 7 0.24
8 17 0.59
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:27973 original size:13 final size:13
Alignment explanation
Indices: 27955--28022 Score: 67
Period size: 13 Copynumber: 5.5 Consensus size: 13
27945 CAACGGTCAA
27955 CGGGTCAACGGGT
1 CGGGTCAACGGGT
27968 CGGGTCAACGGGT
1 CGGGTCAACGGGT
27981 CGGGT---CGGGT
1 CGGGTCAACGGGT
27991 AAACGGGT---CGGGT
1 ---CGGGTCAACGGGT
28004 CGGGTCAACGGGT
1 CGGGTCAACGGGT
28017 CGGGTC
1 CGGGTC
28023 GGGTTGTGAC
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
10 10 0.20
13 39 0.80
ACGTcount: A:0.13, C:0.22, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:27986 original size:18 final size:18
Alignment explanation
Indices: 27949--28026 Score: 120
Period size: 18 Copynumber: 4.2 Consensus size: 18
27939 TTCGGTCAAC
27949 GGTCAACGGGTCAACGGGTCG
1 GGTCAACGGGT---CGGGTCG
27970 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
27988 GGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
28006 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
28024 GGT
1 GGT
28027 TGTGACCGGT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
18 44 0.80
21 11 0.20
ACGTcount: A:0.14, C:0.21, G:0.49, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:40978 original size:2 final size:2
Alignment explanation
Indices: 40971--41000 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
40961 AATTGAAAGA
40971 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41001 TTAAATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41358 original size:3 final size:3
Alignment explanation
Indices: 41350--41375 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
41340 CATATGGCTA
41350 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
41376 ATAAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:42739 original size:3 final size:3
Alignment explanation
Indices: 42731--42790 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
42721 CATATTTATT
* * *
42731 TAA TAA TAAA TAA TAA TAA TAA TAT TAA TATA TTA TAT TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* *
42778 TTA TAA TTA TAA T
1 TAA TAA TAA TAA T
42791 TATGAAAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
3 40 0.89
4 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:42760 original size:22 final size:22
Alignment explanation
Indices: 42734--42776 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
42724 ATTTATTTAA
42734 TAATAAATAATAATAATAATAT
1 TAATAAATAATAATAATAATAT
* * *
42756 TAATATATTATATTAATAATA
1 TAATAAATAATAATAATAATA
42777 ATTATAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAATAAATAATAATAATAATAT
Found at i:42784 original size:25 final size:27
Alignment explanation
Indices: 42744--42793 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 27
42734 TAATAAATAA
42744 TAATAATAATATTAA-TAT-ATTATAT
1 TAATAATAATATTAATTATAATTATAT
42769 TAATAATAAT-TATAATTATAATTAT
1 TAATAATAATAT-TAATTATAATTAT
42794 GAAAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 1 0.05
25 13 0.59
26 3 0.14
27 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TAATAATAATATTAATTATAATTATAT
Found at i:43044 original size:76 final size:76
Alignment explanation
Indices: 42913--43327 Score: 740
Period size: 76 Copynumber: 5.5 Consensus size: 76
42903 GATGGAAATG
* * *
42913 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
42978 CCCGAAGGCTT
66 CCCGAAGGCTT
42989 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
43054 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
43065 TTTGGAAACATCATGCACTTTAGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
43130 CCCGAAGGCTT
66 CCCGAAGGCTT
*
43141 TTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
43206 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
43217 TTTGGAAACATCATGCACTGTAGAACTTACATATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
43282 CCCGGAGGCTT
66 CCCGAAGGCTT
*
43293 TTTGGAAACATCATGCACTGCAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATG
43328 TGGGAAATAG
Statistics
Matches: 324, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 324 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:43622 original size:164 final size:166
Alignment explanation
Indices: 43331--43652 Score: 533
Period size: 164 Copynumber: 2.0 Consensus size: 166
43321 ACAGATGTGG
*
43331 GAAATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTCT
1 GAAATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTCT
** * *
43396 AGAAAAGATTGAATGAGAAACTATGGAAATTGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
66 AGAAAAGATAAAATGAAAAACCATGGAAATTGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
*
43461 TAGGTAACATGACCCAATCTTAAGATAAGGCTGTTA
131 TAGGTAACATGACCCAATCTCAAGATAAGGCTGTTA
43497 GAAATAGTTTACTAAGT-AAAAAACTAAGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTT-T
1 GAAATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTCT
*
43560 AGAAAAGATAAAATGAAAAACCATGGAAATTGTTTTCTCATTAATTTTT-GAAATAACATGTTGA
66 AGAAAAGATAAAATGAAAAACCATGGAAATTGTTTTCTCATT-ATTTTTCAAAATAACATGTTGA
* *
43624 TTGGGTAACATGCCCCAATCTCAAGATAA
130 TTAGGTAACATGACCCAATCTCAAGATAA
43653 TGCTCATTTT
Statistics
Matches: 146, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
164 79 0.54
165 50 0.34
166 17 0.12
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (166 bp):
GAAATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTCT
AGAAAAGATAAAATGAAAAACCATGGAAATTGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
TAGGTAACATGACCCAATCTCAAGATAAGGCTGTTA
Found at i:44197 original size:22 final size:22
Alignment explanation
Indices: 44172--44248 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
44162 AATAAAGCTT
44172 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
44194 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
44216 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
44238 TCATCTTTGAA
1 TCATCTTTGAA
44249 GAGTGTAGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:49002 original size:16 final size:15
Alignment explanation
Indices: 48974--49023 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
48964 ATTTTTCCTT
*
48974 TTTTTTTTCTTTTTC
1 TTTTTTCTCTTTTTC
48989 TTTTTTCTCATTTTTC
1 TTTTTTCTC-TTTTTC
*
49005 CTTTTTCATCTTTTT-
1 TTTTTTC-TCTTTTTC
49020 TTTT
1 TTTT
49024 CCTTTTTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 11 0.37
16 17 0.57
17 2 0.07
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTCTCTTTTTC
Found at i:49823 original size:414 final size:414
Alignment explanation
Indices: 49053--49882 Score: 1633
Period size: 414 Copynumber: 2.0 Consensus size: 414
49043 TTTGTTGGAT
49053 GAGTATAAGACTTCAATTTCTTTGAGCGTCTCCTTTTCCTTTTGTCCTTTTTCTCTCAAGCATAA
1 GAGTATAAGACTTCAATTTCTTTGAGCGTCTCCTTTTCCTTTTGTCCTTTTTCTCTCAAGCATAA
*
49118 TATCTATTGACAGAATCCGAGTTTATTTGGTTTCTTAGAACTTTCCCATCTATTTTTGCCAAGAT
66 TATCTATTGACAGAATCCGAGTTTATTTGGTTTCTTAGAACTTTCCCATCCATTTTTGCCAAGAT
49183 CAACGCTTCTCGGGAAAAGGCCCCTTTTTTACAACATAGGTCCCTTCCCAATTAGGCATTCATTT
131 CAACGCTTCTCGGGAAAAGGCCCCTTTTTTACAACATAGGTCCCTTCCCAATTAGGCATTCATTT
49248 CCCACAGAAATTTTTATGTAAAGATAATACTAGATCACACTCTTAGAACTCTCTCGGATGTACTT
196 CCCACAGAAATTTTTATGTAAAGATAATACTAGATCACACTCTTAGAACTCTCTCGGATGTACTT
49313 TCTGTTCGTGACCTTTCATTATCCATTTCTTATACATTCGCTCATGGTAAATAGCTTTCAATTGA
261 TCTGTTCGTGACCTTTCATTATCCATTTCTTATACATTCGCTCATGGTAAATAGCTTTCAATTGA
49378 TTCTCATCAATAAGGTTTAATTGATCAAATCGAGCTTGGATACATTCAATCTTCTCCAATTTTTC
326 TTCTCATCAATAAGGTTTAATTGATCAAATCGAGCTTGGATACATTCAATCTTCTCCAATTTTTC
49443 CTCTTTTAGGATACAAAATAATGG
391 CTCTTTTAGGATACAAAATAATGG
49467 GAGTATAAGACTTCAATTTCTTTGAGCGTCTCCTTTTCCTTTTGTCCTTTTTCTCTCAAGCATAA
1 GAGTATAAGACTTCAATTTCTTTGAGCGTCTCCTTTTCCTTTTGTCCTTTTTCTCTCAAGCATAA
49532 TATCTATTGACAGAATCCGAGTTTATTTGGTTTCTTAGAACTTTCCCATCCATTTTTGCCAAGAT
66 TATCTATTGACAGAATCCGAGTTTATTTGGTTTCTTAGAACTTTCCCATCCATTTTTGCCAAGAT
*
49597 CAACGCTTCTCGGGAAAAGGCCCTTTTTTTACAACATAGGTCCCTTCCCAATTAGGCATTCATTT
131 CAACGCTTCTCGGGAAAAGGCCCCTTTTTTACAACATAGGTCCCTTCCCAATTAGGCATTCATTT
49662 CCCACAGAAATTTTTATGTAAAGATAATACTAGATCACACTCTTAGAACTCTCTCGGATGTACTT
196 CCCACAGAAATTTTTATGTAAAGATAATACTAGATCACACTCTTAGAACTCTCTCGGATGTACTT
49727 TCTGTTCGTGACCTTTCATTATCCATTTCTTATACATTCGCTCATGGTAAATAGCTTTCAATTGA
261 TCTGTTCGTGACCTTTCATTATCCATTTCTTATACATTCGCTCATGGTAAATAGCTTTCAATTGA
*
49792 TTCTCATCAATAAGGTTTAATTGATCAAATCGAGCTTGGATACATTCAGTCTTCTCCAATTTTTC
326 TTCTCATCAATAAGGTTTAATTGATCAAATCGAGCTTGGATACATTCAATCTTCTCCAATTTTTC
49857 CTCTTTTAGGATACAAAATAATGG
391 CTCTTTTAGGATACAAAATAATGG
49881 GA
1 GA
49883 TCTCAACTTC
Statistics
Matches: 413, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
414 413 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.39
Consensus pattern (414 bp):
GAGTATAAGACTTCAATTTCTTTGAGCGTCTCCTTTTCCTTTTGTCCTTTTTCTCTCAAGCATAA
TATCTATTGACAGAATCCGAGTTTATTTGGTTTCTTAGAACTTTCCCATCCATTTTTGCCAAGAT
CAACGCTTCTCGGGAAAAGGCCCCTTTTTTACAACATAGGTCCCTTCCCAATTAGGCATTCATTT
CCCACAGAAATTTTTATGTAAAGATAATACTAGATCACACTCTTAGAACTCTCTCGGATGTACTT
TCTGTTCGTGACCTTTCATTATCCATTTCTTATACATTCGCTCATGGTAAATAGCTTTCAATTGA
TTCTCATCAATAAGGTTTAATTGATCAAATCGAGCTTGGATACATTCAATCTTCTCCAATTTTTC
CTCTTTTAGGATACAAAATAATGG
Found at i:51749 original size:14 final size:14
Alignment explanation
Indices: 51730--51813 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
51720 AAATGTAATT
51730 ATGTAAAAATGAAA
1 ATGTAAAAATGAAA
51744 ATGT--AAAT-ACAA
1 ATGTAAAAATGA-AA
*
51756 ACGTAAAAAATGAAA
1 ATGT-AAAAATGAAA
*
51771 ATGT--AAATGCAA
1 ATGTAAAAATGAAA
* **
51783 ATGTAAATATGTGA
1 ATGTAAAAATGAAA
* *
51797 ATGTAACAATAAAA
1 ATGTAAAAATGAAA
51811 ATG
1 ATG
51814 CAAATTGTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
11 1 0.02
12 20 0.38
14 21 0.40
15 9 0.17
16 1 0.02
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (14 bp):
ATGTAAAAATGAAA
Found at i:51764 original size:27 final size:27
Alignment explanation
Indices: 51734--51789 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
51724 GTAATTATGT
51734 AAAAATGAAAATGTAAATACAAACGTA
1 AAAAATGAAAATGTAAATACAAACGTA
* *
51761 AAAAATGAAAATGTAAATGCAAATGTA
1 AAAAATGAAAATGTAAATACAAACGTA
51788 AA
1 AA
51790 TATGTGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.20
Consensus pattern (27 bp):
AAAAATGAAAATGTAAATACAAACGTA
Found at i:53914 original size:2 final size:2
Alignment explanation
Indices: 53907--53960 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
53897 AATTGAAAGA
53907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
53949 AT AT AT AT AT AT
1 AT AT AT AT AT AT
53961 TTAAATAACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54061 original size:10 final size:11
Alignment explanation
Indices: 54039--54067 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
54029 CTTTTGATAT
54039 TAAAAAATAAA
1 TAAAAAATAAA
54050 TAAAAAAT-AA
1 TAAAAAATAAA
54060 TAAAAAAT
1 TAAAAAAT
54068 TATTTGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:54258 original size:4 final size:4
Alignment explanation
Indices: 54249--54273 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
54239 AAACAAAACA
54249 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
54274 TTATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:55654 original size:18 final size:18
Alignment explanation
Indices: 55631--55673 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
55621 TGAGTCATTG
55631 TTGGGCCATCCGGGATTA
1 TTGGGCCATCCGGGATTA
55649 TTGGGCCATCCGGGATTA
1 TTGGGCCATCCGGGATTA
55667 TTGGGCC
1 TTGGGCC
55674 TCTGATGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.23, G:0.35, T:0.28
Consensus pattern (18 bp):
TTGGGCCATCCGGGATTA
Found at i:55736 original size:13 final size:12
Alignment explanation
Indices: 55715--55759 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 12
55705 TAATAATAAA
55715 TAATAATTATAT
1 TAATAATTATAT
55727 TAATATATTATAT
1 TAATA-ATTATAT
55740 TAATAA-TA-AT
1 TAATAATTATAT
55750 T-ATAATTATA
1 TAATAATTATA
55760 ATTATGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 4 0.13
10 5 0.17
11 3 0.10
12 6 0.20
13 12 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TAATAATTATAT
Found at i:55743 original size:35 final size:34
Alignment explanation
Indices: 55694--55759 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
55684 TTTGTAATAT
55694 ATATATTTATTTAATAATAAATAATAATTATATTA
1 ATATATTTATTTAATAAT-AATAATAATTATATTA
*
55729 ATATA-TTATATTAATAATAATTATAATTATA
1 ATATATTTAT-TTAATAATAATAATAATTATA
55760 ATTATGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (34 bp):
ATATATTTATTTAATAATAATAATAATTATATTA
Found at i:55760 original size:12 final size:12
Alignment explanation
Indices: 55705--55764 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
55695 TATATTTATT
55705 TAATAA-TA-AA
1 TAATAATTATAA
*
55715 TAATAATTATAT
1 TAATAATTATAA
55727 TAATATATTATATTAA
1 TAATA-A-T-TA-TAA
55743 TAATAATTATAA
1 TAATAATTATAA
*
55755 TTATAATTAT
1 TAATAATTAT
55765 GAAAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
10 6 0.15
11 2 0.05
12 18 0.44
13 3 0.07
14 2 0.05
15 3 0.07
16 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATAATTATAA
Found at i:59815 original size:15 final size:16
Alignment explanation
Indices: 59789--59820 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
59779 AACCAGAGGT
59789 TCTCTATTTTATTTTC
1 TCTCTATTTTATTTTC
59805 TCTCT-TTTTATTTTC
1 TCTCTATTTTATTTTC
59820 T
1 T
59821 TGTCTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (16 bp):
TCTCTATTTTATTTTC
Found at i:61888 original size:114 final size:114
Alignment explanation
Indices: 61688--61950 Score: 438
Period size: 114 Copynumber: 2.3 Consensus size: 114
61678 AACTTTTAAC
* * * *
61688 AAAGTATTGATACATTTTTATAAAAATGATCGATATTTTCAACATATCAGGTAACTCCTTACCGG
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAAGTAACTCCTTACCGG
61753 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTAT
66 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTAT
* *
61802 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAAGTAGCTCTTTACCGG
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAAGTAACTCCTTACCGG
* *
61867 TTTTGTCATAATGAAACTGGTTTTTTCATATTTTTACCTGTTATATTGT
66 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTAT
*
61916 AAAGTATCGATACA-ATTTATAAAAAGGATCGATAC
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATAC
61951 ATTTTTATAA
Statistics
Matches: 140, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
113 20 0.14
114 120 0.86
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (114 bp):
AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAAGTAACTCCTTACCGG
TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTAT
Found at i:61946 original size:22 final size:23
Alignment explanation
Indices: 61916--61973 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
61906 GTTATATTGT
*
61916 AAAGTATCGATACA-ATTTATAA
1 AAAGGATCGATACATATTTATAA
*
61938 AAAGGATCGATACATTTTTATAA
1 AAAGGATCGATACATATTTATAA
*
61961 AAAAGATCGATAC
1 AAAGGATCGATAC
61974 TTTCAACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.29
Consensus pattern (23 bp):
AAAGGATCGATACATATTTATAA
Found at i:61969 original size:136 final size:137
Alignment explanation
Indices: 61802--62087 Score: 502
Period size: 136 Copynumber: 2.1 Consensus size: 137
61792 GTTATATTAT
* *
61802 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAAGTAGCTCTTTACCGG
1 AAAGGATCGATACATTTTTATAAAAAAGATCGATACTTTCAACATATCAAGTAGCTCTTTACCGG
*
61867 TTTTGTCATAATGAAACTGGTTTTTTCATATTTTTACCTGTTATATTGTAAAGTATCGATACA-A
66 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATA
61931 TTTATAA
131 TTTATAA
* *
61938 AAAGGATCGATACATTTTTATAAAAAAGATCGATACTTTCAACATATCAGGTAGTTCTTTACCGG
1 AAAGGATCGATACATTTTTATAAAAAAGATCGATACTTTCAACATATCAAGTAGCTCTTTACCGG
*
62003 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATT
66 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATA
62068 TTTATAA
131 TTTATAA
*
62075 AAATGATCGATAC
1 AAAGGATCGATAC
62088 TTTCAACATA
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 123 0.87
137 19 0.13
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (137 bp):
AAAGGATCGATACATTTTTATAAAAAAGATCGATACTTTCAACATATCAAGTAGCTCTTTACCGG
TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATA
TTTATAA
Found at i:62137 original size:250 final size:248
Alignment explanation
Indices: 61696--62427 Score: 1051
Period size: 250 Copynumber: 3.0 Consensus size: 248
61686 ACAAAGTATT
* *
61696 GATACATTTTTATAAAAATGATCGATATTTTCAACATATCAGGTAACTCCTTACCGGTTTTGTCA
1 GATACATTTTTATAAAAAAGATCGATA-TTTCAACATATCAGGT-ACTCTTTACCGGTTTTGTCA
*
61761 TAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTATAAAGTATCGATACATTTTTATAAA
64 TAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAA
* *
61826 AAGGATCGATACTTTCAACATATCAAGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTT
129 AATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTT
* *
61891 TTCATATTTTTACCTGTTATATTGTAAAGTATCGATACAATTTATAAAAAGGATC
194 GTCATATTTTTACCTGTTATATTGTAAAGTATCGATACAATTTATAAAAAGAATC
*
61946 GATACATTTTTATAAAAAAGATCGATACTTTCAACATATCAGGTAGTTCTTTACCGGTTTTGTCA
1 GATACATTTTTATAAAAAAGATCGATA-TTTCAACATATCAGGTA-CTCTTTACCGGTTTTGTCA
62011 TAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAA
64 TAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAA
62076 AATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTT
129 AATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTT
*
62141 GTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAAAGAATC
194 GTCATATTTTTACCTGTTATATTGTAAAGTATCGATACA-ATTTATAAAAAGAATC
* *
62197 G----------AT-------A-C----TTTCAACATATTAGGTAGCTCTTTACCGGTTTTATCAT
1 GATACATTTTTATAAAAAAGATCGATATTTCAACATATCAGGTA-CTCTTTACCGGTTTTGTCAT
* **
62240 AATGAAACTGGTTTTGTCATATTTTTACCTATTATAACGTAAAGTATCGATACATTTTTATAAAA
65 AATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAA
* * * *
62305 ATGATTGATACTTTTAACATATCAGGTAGCTTTTTACCGGTTTTGTCATAATGAAAATGGTTTTG
130 ATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTG
* * * *
62370 TCATATTTTTACCTGTTATATTGTAAAATATCGATAC-ATTTTTATAAAGTATC
195 TCATATTTTTACCTGTTATATTGTAAAGTATCGATACAATTTATAAAAAGAATC
62423 GATAC
1 GATAC
62428 TTTATAGGCG
Statistics
Matches: 451, Mismatches: 25, Indels: 32
0.89 0.05 0.06
Matches are distributed among these distances:
226 13 0.03
228 194 0.43
233 1 0.00
234 1 0.00
241 2 0.00
249 1 0.00
250 224 0.50
251 15 0.03
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (248 bp):
GATACATTTTTATAAAAAAGATCGATATTTCAACATATCAGGTACTCTTTACCGGTTTTGTCATA
ATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAAA
TGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGT
CATATTTTTACCTGTTATATTGTAAAGTATCGATACAATTTATAAAAAGAATC
Found at i:62453 original size:114 final size:114
Alignment explanation
Indices: 61938--62430 Score: 830
Period size: 114 Copynumber: 4.3 Consensus size: 114
61928 CAATTTATAA
* * *
61938 AAAGGATCGATACATTTTTATAAAAAAGATCGATACTTTCAACATATCAGGTAGTTCTTTACCGG
1 AAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
62003 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
62052 AAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
1 AAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
62117 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
*
62166 AAAGTATCGATACATTTTTATAAAAA-GAATCGATACTTTCAACATATTAGGTAGCTCTTTACCG
1 AAAGTATCGATACATTTTTATAAAAATG-ATCGATACTTTCAACATATCAGGTAGCTCTTTACCG
* * **
62230 GTTTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTATTATAACGT
65 GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * *
62280 AAAGTATCGATACATTTTTATAAAAATGATTGATACTTTTAACATATCAGGTAGCTTTTTACCGG
1 AAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
*
62345 TTTTGTCATAATGAAAATGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* *
62394 AAAATATCGATACATTTTTAT-AAAGT-ATCGATACTTT
1 AAAGTATCGATACATTTTTATAAAAATGATCGATACTTT
62431 ATAGGCGCTC
Statistics
Matches: 357, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
112 10 0.03
113 5 0.01
114 341 0.96
115 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (114 bp):
AAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCAACATATCAGGTAGCTCTTTACCGG
TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
Found at i:62749 original size:72 final size:72
Alignment explanation
Indices: 62509--62753 Score: 357
Period size: 72 Copynumber: 3.4 Consensus size: 72
62499 TTCAACATAT
* * *
62509 TCGGTAAGTAGTTTAATGTAATAGGTATCGCCTAATTTTTTTACCGTTTACATTATTAGCAACCT
1 TCGGTAAGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCT
62574 TAAAAAA
66 TAAAAAA
* * * *
62581 ACGGTACGTATTTTAATGTAATAGGTAGC-ACTATTTTTTTTACTGTTTACATTATTAGCAACCT
1 TCGGTAAGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCT
62645 TCAAAACAA
66 T-AAAA-AA
* * * * *
62654 CCGGTAGGTCTTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAACAACAT
1 TCGGTAAGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCT
62719 TAAAAAA
66 TAAAAAA
62726 TCGGTAAGTATTTTAATGTAATAGGTAG
1 TCGGTAAGTATTTTAATGTAATAGGTAG
62754 TTTAAATTTT
Statistics
Matches: 153, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
71 33 0.22
72 56 0.37
73 32 0.21
74 32 0.21
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (72 bp):
TCGGTAAGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCT
TAAAAAA
Found at i:62984 original size:23 final size:23
Alignment explanation
Indices: 62958--63003 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
62948 TAAGTAATTA
**
62958 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
62981 ACCTATTACGTTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
63004 GCATAATATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:63016 original size:23 final size:23
Alignment explanation
Indices: 62968--63017 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
62958 ACCTATTTTA
* *
62968 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACATAATACG
* *
62991 TTATATAAGCGCTGCATAATATG
1 TTATATAAGCGCTACATAATACG
63014 TTAT
1 TTAT
63018 TATGTTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACATAATACG
Found at i:63114 original size:158 final size:158
Alignment explanation
Indices: 62822--63351 Score: 783
Period size: 158 Copynumber: 3.4 Consensus size: 158
62812 AGTAAGTAAT
** * * *
62822 TACCTATTTTATTACATAAGCGCTACCTAATATGTTATTATGCTTAATAATGTTTTCAGTAATTA
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTAATAATGTTTCCAGTAATTA
* * * *
62887 ACCGGTTATGTTATCCTTGATAACATTTTAAGCGTTTATCTAATATGTTGTAATAACAAATTAAG
66 ATCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
62952 TAATTAACCTATTTTATTATATAAGCGC
131 TAATTAACCTATTTTATTATATAAGCGC
* * * ** *
62980 TACCTATTACGTTATATAAGCGCTGCATAATATGTTATTATGTTTGATAATGTTTCCAGTAATTA
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTAATAATGTTTCCAGTAATTA
* * *
63045 ATCGGTTATGTTATCCTTGGTAATATTTTAGGTGTTTACCTAATATGTTGTAATAACAAATTAAA
66 ATCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
*
63110 TAATTAACCTATTTTATTATATAAGCAC
131 TAATTAACCTATTTTATTATATAAGCGC
** * *
63138 TATTTATTACATTATATAAGCGCTACCTAATATGTAATT-TACTTGATAATGTTTCCAGTAATTA
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTAATAATGTTTCCAGTAATTA
* *
63202 ATCGGTTATGTTATCCTTAGTAACATTTTAGGCATTTACCTAATATGTTGTAATAACAAATTAAG
66 ATCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
63267 TAATTAACCTATTTTATTATATAAGCGC
131 TAATTAACCTATTTTATTATATAAGCGC
* * * * *
63295 TTCCTATTACATTATATAAGTGCTACCTAATATGTTATTGTATTTAATAATATTTCC
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTAATAATGTTTCC
63352 GGTTAAATGA
Statistics
Matches: 332, Mismatches: 39, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
157 144 0.43
158 188 0.57
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (158 bp):
TACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTAATAATGTTTCCAGTAATTA
ATCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
TAATTAACCTATTTTATTATATAAGCGC
Found at i:63300 original size:23 final size:23
Alignment explanation
Indices: 63273--63323 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
63263 TAAGTAATTA
**
63273 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
63296 TCCTATTACATTATATAAGTGCT
1 ACCTATTACATTATATAAGCGCT
63319 ACCTA
1 ACCTA
63324 ATATGTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:65381 original size:33 final size:33
Alignment explanation
Indices: 65339--65416 Score: 147
Period size: 33 Copynumber: 2.4 Consensus size: 33
65329 TATCCGACAT
65339 TAAAAACTAAACACGTTTGAATTTAAAATGAAA
1 TAAAAACTAAACACGTTTGAATTTAAAATGAAA
*
65372 TAAAAACTAAACGCGTTTGAATTTAAAATGAAA
1 TAAAAACTAAACACGTTTGAATTTAAAATGAAA
65405 TAAAAACTAAAC
1 TAAAAACTAAAC
65417 TTTATGTATG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.55, C:0.10, G:0.09, T:0.26
Consensus pattern (33 bp):
TAAAAACTAAACACGTTTGAATTTAAAATGAAA
Found at i:67937 original size:19 final size:19
Alignment explanation
Indices: 67896--67938 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
67886 CATGCTCTGT
* * *
67896 TGGTGTTGGCAAGAGTAGT
1 TGGTGGTGGCAAGAGCAGC
*
67915 TGGTGGTGGCAGGAGCAGC
1 TGGTGGTGGCAAGAGCAGC
67934 TGGTG
1 TGGTG
67939 CTTCACGTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.16, C:0.09, G:0.49, T:0.26
Consensus pattern (19 bp):
TGGTGGTGGCAAGAGCAGC
Found at i:70918 original size:32 final size:32
Alignment explanation
Indices: 70848--70924 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
70838 GTCGTGGTCG
*
70848 TTAAA-TTTATCT-AACAGTTACTAAATGGTCA
1 TTAAATTTTAT-TGAACAGTTACTAAATAGTCA
*
70879 TTAAAATTTTATTGAACAGTTA-TAAAATAGTTA
1 TT-AAATTTTATTGAACAGTTACT-AAATAGTCA
70912 TTAAATTTTATTG
1 TTAAATTTTATTG
70925 TTATAAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 2 0.05
32 16 0.40
33 22 0.55
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.44
Consensus pattern (32 bp):
TTAAATTTTATTGAACAGTTACTAAATAGTCA
Found at i:70941 original size:27 final size:28
Alignment explanation
Indices: 70870--70944 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 28
70860 AACAGTTACT
70870 AAATGGTCATTAAAATTTTATTGAACAGTTATA
1 AAATGGTCATT-AAATTTTATT----AGTTATA
* *
70903 AAATAGTTATTAAATTTTATT-GTTATA
1 AAATGGTCATTAAATTTTATTAGTTATA
70930 AAATGGTCATTAAAT
1 AAATGGTCATTAAAT
70945 ATATCAGAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
27 19 0.50
32 10 0.26
33 9 0.24
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (28 bp):
AAATGGTCATTAAATTTTATTAGTTATA
Found at i:71247 original size:22 final size:22
Alignment explanation
Indices: 71221--71274 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
71211 TGATTTTAGG
71221 TTAGGGATAAACTTATAAAATT
1 TTAGGGATAAACTTATAAAATT
*
71243 TTA-GGACACGAACTTATAAAATT
1 TTAGGGATA--AACTTATAAAATT
71266 TT-GGG-TAAA
1 TTAGGGATAAA
71275 TCATATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 2 0.07
21 4 0.15
22 4 0.15
23 17 0.63
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (22 bp):
TTAGGGATAAACTTATAAAATT
Found at i:73894 original size:15 final size:15
Alignment explanation
Indices: 73876--73919 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
73866 GCAGAGTGAC
73876 GGGGAAGAGAGTCAA
1 GGGGAAGAGAGTCAA
*
73891 GGGGAAGAGGAGAGTTAA
1 GGGG-A-A-GAGAGTCAA
73909 GGGGAAGAGAG
1 GGGGAAGAGAG
73920 GGACTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 9 0.36
16 2 0.08
17 2 0.08
18 12 0.48
ACGTcount: A:0.39, C:0.02, G:0.52, T:0.07
Consensus pattern (15 bp):
GGGGAAGAGAGTCAA
Found at i:73920 original size:20 final size:18
Alignment explanation
Indices: 73882--73917 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
73872 TGACGGGGAA
73882 GAGAGTCAAGGGGAAGAG
1 GAGAGTCAAGGGGAAGAG
*
73900 GAGAGTTAAGGGGAAGAG
1 GAGAGTCAAGGGGAAGAG
73918 AGGGACTTAA
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:0.39, C:0.03, G:0.50, T:0.08
Consensus pattern (18 bp):
GAGAGTCAAGGGGAAGAG
Found at i:74093 original size:29 final size:29
Alignment explanation
Indices: 74048--74134 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 29
74038 TTACGGAATG
*
74048 AAACGTT-AGACATCAAACTAGAACGAAAA
1 AAACGTTAAG-CACCAAACTAGAACGAAAA
74077 AAACGTTAAGCACCAAACTAGAACGAAAA
1 AAACGTTAAGCACCAAACTAGAACGAAAA
*
74106 AAA-GTTAAGCACCAAGCTAGAA--AAAA
1 AAACGTTAAGCACCAAACTAGAACGAAAA
74132 AAA
1 AAA
74135 GCATACGTTG
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
26 7 0.13
28 18 0.33
29 28 0.51
30 2 0.04
ACGTcount: A:0.57, C:0.17, G:0.14, T:0.11
Consensus pattern (29 bp):
AAACGTTAAGCACCAAACTAGAACGAAAA
Found at i:75564 original size:13 final size:15
Alignment explanation
Indices: 75546--75578 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
75536 AGAAAAAAAG
75546 AAAACATG-TTA-TA
1 AAAACATGTTTATTA
75559 AAAACATGTTTATTA
1 AAAACATGTTTATTA
75574 AAAAC
1 AAAAC
75579 TAAAAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 3 0.17
15 7 0.39
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (15 bp):
AAAACATGTTTATTA
Found at i:91893 original size:21 final size:20
Alignment explanation
Indices: 91869--91920 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
91859 TGACCTAGAC
*
91869 CGTTGACCTTTGACTATTGAT
1 CGTTGACCTTTGACT-TTAAT
* *
91890 CGTTAACCATTGACTTTAAT
1 CGTTGACCTTTGACTTTAAT
*
91910 TGTTGA-CTTTG
1 CGTTGACCTTTG
91921 GCCCGTTGAC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 4 0.16
20 8 0.32
21 13 0.52
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.44
Consensus pattern (20 bp):
CGTTGACCTTTGACTTTAAT
Found at i:99601 original size:2 final size:2
Alignment explanation
Indices: 99594--99625 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
99584 TGTAAACTAA
99594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99626 CTGACTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102010 original size:17 final size:17
Alignment explanation
Indices: 101988--102025 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
101978 TTTAATTTTT
101988 TTTAAACTTTTGAATTA
1 TTTAAACTTTTGAATTA
102005 TTTAAACTTTTGAATTA
1 TTTAAACTTTTGAATTA
102022 TTTA
1 TTTA
102026 TTTTTCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAACTTTTGAATTA
Found at i:102220 original size:16 final size:15
Alignment explanation
Indices: 102199--102231 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
102189 TGAATATCTG
102199 ATCCAAAATTTTGGAT
1 ATCCAAAATTTT-GAT
102215 ATCCAAAATTTTGAT
1 ATCCAAAATTTTGAT
102230 AT
1 AT
102232 ATGGTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (15 bp):
ATCCAAAATTTTGAT
Found at i:103092 original size:31 final size:31
Alignment explanation
Indices: 103055--103114 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
103045 ATTTTTTCTT
103055 ATAAATAATATTCACTATTGAAGACATGGTA
1 ATAAATAATATTCACTATTGAAGACATGGTA
103086 ATAAATAATATTCACTATTGAAGACATGG
1 ATAAATAATATTCACTATTGAAGACATGG
103115 ACATTGAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (31 bp):
ATAAATAATATTCACTATTGAAGACATGGTA
Found at i:104541 original size:25 final size:24
Alignment explanation
Indices: 104502--104553 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
104492 ATTGGAAATG
*
104502 ATTTTTCTAATTTATGATATGAAT
1 ATTTTTCTAATTTATAATATGAAT
* *
104526 ATTTTCTCTGATTTATAATATGATT
1 ATTTT-TCTAATTTATAATATGAAT
104551 ATT
1 ATT
104554 AGTAGATCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTTTCTAATTTATAATATGAAT
Found at i:107096 original size:3 final size:3
Alignment explanation
Indices: 107030--107084 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
107020 CTGGATCTTT
*
107030 TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
107076 TTA TTA TTA
1 TTA TTA TTA
107085 AATAATTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:108669 original size:2 final size:2
Alignment explanation
Indices: 108662--108690 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
108652 ACTCAAGGTA
108662 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108691 ATAAACTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:110352 original size:17 final size:17
Alignment explanation
Indices: 110327--110373 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
110317 TTAGTAAAAG
*
110327 CATGCTCGGGTAGATAT
1 CATGATCGGGTAGATAT
110344 CATGATCGGGTAGATAT
1 CATGATCGGGTAGATAT
*
110361 CATGATTGGGTAG
1 CATGATCGGGTAG
110374 GTGTTGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.30
Consensus pattern (17 bp):
CATGATCGGGTAGATAT
Done.