Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 59 of 125
Found at i:11703597 original size:14 final size:14
Alignment explanation
Indices: 11703575--11703605 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11703565 GGGTGTCTAG
11703575 TTTTCTTTTTGTTT
1 TTTTCTTTTTGTTT
*
11703589 TTTTGTTTTTGTTT
1 TTTTCTTTTTGTTT
11703603 TTT
1 TTT
11703606 AATATATAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (14 bp):
TTTTCTTTTTGTTT
Found at i:11705438 original size:22 final size:21
Alignment explanation
Indices: 11705387--11705432 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
11705377 CCCGAAATTA
11705387 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
*
11705408 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
11705429 ATAA
1 ATAA
11705433 TTATATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:11705460 original size:18 final size:18
Alignment explanation
Indices: 11705427--11705461 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11705417 TATTTTTTAA
* *
11705427 ATATAATTATATAATTAT
1 ATATAATTAAAAAATTAT
11705445 ATATAATTAAAAAATTA
1 ATATAATTAAAAAATTA
11705462 AAAAATAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTAAAAAATTAT
Found at i:11712428 original size:11 final size:10
Alignment explanation
Indices: 11712406--11712440 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
11712396 CATATTTACA
11712406 TTATTTATTT
1 TTATTTATTT
11712416 TTATTTAATTT
1 TTATTT-ATTT
*
11712427 TTAGTTATTT
1 TTATTTATTT
11712437 TTAT
1 TTAT
11712441 ATTTTTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (10 bp):
TTATTTATTT
Found at i:11712831 original size:236 final size:233
Alignment explanation
Indices: 11712581--11713658 Score: 670
Period size: 237 Copynumber: 4.6 Consensus size: 233
11712571 TTTGTGATAT
* ** * *
11712581 TTTTTACTCATTTTATGCCAAATCATAAAAAATTTACATTGCTTTTCACCTATTTAAGTTACCT-
1 TTTTTACCCATTTTATGCCAAATCATATGAAATTTACATTGCTTTTCACCTGTTTAAATTACCTA
*
11712645 TTTTTTA-TTAATTTTTAGCTATTTTCTTTTATATACTTATGAAAACTATAATTAATTAAAATTT
66 TTTTTTATTTAATTTTTAGCTATTTTCTTTTATATA-TTATAAAAACTATAATTAATTAAAATTT
* *
11712709 TAAACTTCCAACTTAATAATTTATGTTATAATAACATCTTT-TTACTTTAATTATT-ACAT-TCT
130 TACA-TTCCAACTTAATTATTTATGTTA-AATAACAT-TTTCTTA---TAATTATTCACATATCT
* * * *
11712771 ATTACACTTATAATTGTTATAACTCTTTCTTAGGAT-TTTAAG-ACA
189 ATTACACTTAGAATTATTATAACTCTTTCCTA--ATGTTTAAGAAAA
* ** ** *
11712816 TTTTCTACCCATTTTATGCCAAATTATATGAGTTTTACATTGCTTCTT-AATTGTTT-ACTTACC
1 TTTT-TACCCATTTTATGCCAAATCATATGAAATTTACATTGCTT-TTCACCTGTTTAAATTACC
* * * * *
11712879 TATTTTTTATTTAATTTTTAGTTATTTTCCTTCATATATTTTCAAAAACTATAATTAATTATAAT
64 TATTTTTTATTTAATTTTTAGCTATTTTCTTTTATATATTAT-AAAAACTATAATTAATTAAAAT
* ** * * *
11712944 TTTACATTTTCAACTTAATTATTTACATTACAATAACATTTTCTTATGATTGTTCTCATCATCTA
128 TTTACA-TTCCAACTTAATTATTTATGTTA-AATAACATTTTCTTATAATTATTCACAT-ATCTA
** * *
11713009 TTACGTTTAGAATTATTATAACTTTTTCCTAATGTTTTAGAAAA
190 TTACACTTAGAATTATTATAACTCTTTCCTAATGTTTAAGAAAA
* * ** * *
11713053 CTATTTACCCATTTCACACCTAATCATATGAAATTTACATTGCATTTCACCTGTTTAAATTACCT
1 -TTTTTACCCATTTTATGCCAAATCATATGAAATTTACATTGCTTTTCACCTGTTTAAATTACCT
** *
11713118 ATTTTTTATTTAAAATTTAGCTATTTT-TATTTATATATT-TACAAAACTATAATTGATTAAAAT
65 ATTTTTTATTTAATTTTTAGCTATTTTCT-TTTATATATTATA-AAAACTATAATTAATTAAAAT
* * * * ** * *
11713181 TTTACATTGCTAATTTAATTATTTATGTTAAAT-A-ATTTT-TT-TCGATTGTTCTTATCTTCCA
128 TTTACATT-CCAACTTAATTATTTATGTTAAATAACATTTTCTTAT-AATTATTCACAT-ATCTA
* * ** ** *** *
11713242 TTACATTTATAATT-TTCATAACTCTTTATTAACATTTTTCAACA
190 TTACACTTAGAATTATT-ATAACTCTTTCCTAATGTTTAAGAAAA
* * * ** * ** * * * * ** *
11713286 TTTCTTACTCATTTTATGCTAAATCTTACCAATTTTATGTTACTTCTCACATATTTACTTTACTT
1 TTT-TTACCCATTTTATGCCAAATCATATGAAATTTACATTGCTTTTCACCTGTTTAAATTACCT
* * ** *
11713351 ATTTTTTGTTTAATTTTTAGCTTTTTTAATTTATATATTTATAAAAACTGTAATTAA-TATAAAT
65 ATTTTTTATTTAATTTTTAGCTATTTTCTTTTATATA-TTATAAAAACTATAATTAATTA-AAAT
* * * * * * * *
11713415 TTTGA-GTTACCAACTTAATTAGTTATGTTAAATAATATGTTCTTATAGTTGTTCACACATTTAA
128 TTT-ACATT-CCAACTTAATTATTTATGTTAAATAACATTTTCTTATAATTATTCACATATCT-A
* * * * * *
11713479 TTACATTTAGAATTATCATGAATCTTTTTTCGT-AT-TTTATGACAA
190 TTACACTTAGAATTATTAT-AA-C-TCTTTCCTAATGTTTAAGAAAA
* * * * ** * * * * * * **
11713524 TTCTCACCAATTTTTTATCAAATAATAT-AAATTTTACGTTACTTTTCATCTATTCATGTTACCT
1 TTTTTACCCATTTTATGCCAAATCATATGAAA-TTTACATTGCTTTTCACCTGTTTAAATTACCT
* * * * * * *
11713588 ATTTTTTATTTAATTTTTAACT-TTTTCATTCATGTATTGACAAAATCTATAATTAATTAAATTT
65 ATTTTTTATTTAATTTTTAGCTATTTTCTTTTATATATT-ATAAAAACTATAATTAATTAAAATT
11713652 TTACATT
129 TTACATT
11713659 GTTGATTTAA
Statistics
Matches: 652, Mismatches: 153, Indels: 75
0.74 0.17 0.09
Matches are distributed among these distances:
232 5 0.01
233 122 0.19
234 55 0.08
235 24 0.04
236 105 0.16
237 279 0.43
238 55 0.08
239 2 0.00
240 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (233 bp):
TTTTTACCCATTTTATGCCAAATCATATGAAATTTACATTGCTTTTCACCTGTTTAAATTACCTA
TTTTTTATTTAATTTTTAGCTATTTTCTTTTATATATTATAAAAACTATAATTAATTAAAATTTT
ACATTCCAACTTAATTATTTATGTTAAATAACATTTTCTTATAATTATTCACATATCTATTACAC
TTAGAATTATTATAACTCTTTCCTAATGTTTAAGAAAA
Found at i:11712960 original size:237 final size:234
Alignment explanation
Indices: 11712413--11713184 Score: 618
Period size: 237 Copynumber: 3.3 Consensus size: 234
11712403 ACATTATTTA
* *
11712413 TTTTTATTTAATTTTTAGTTA-TTT-TTATATTTTTTCAAAAATTATAATTAATTAAAATTTTAA
1 TTTTTATTTAATTTTTAGTTATTTTCTTATATATTTTCAAAAACTATAATTAATTAAAATTTTAA
* * * * * * *
11712476 GTTGTCGATTTAATTATTTACATTATAATAATATTTTCTTACGATTGTTCTTACCTTTCATTACA
66 -TTTTCAACTTAATTATTTACATTATAATAACATTTTCTTACGATTATTATTACATTTCATTACA
* * * ** * * *
11712541 TTTAAAATTGTCATATCTCTATCTTAATATTTTGTGATATTTTTTACTCATTTTATGCCAAATCA
130 CTTAAAATTGTCATAACTCTATCTTAAGATTTTAAGACATTTTCTACCCATTTTATGCCAAATCA
* *
11712606 TAAAAAATTTACATTGCTTTTCACCTATTTAAGTTACCTT
195 TAAAAAATTTACATTGCTTTTCAACTATTTAACTTACCTT
* * *
11712646 TTTTTA-TTAATTTTTAGCTATTTTCTTTTATATACTTAT-GAAAACTATAATTAATTAAAATTT
1 TTTTTATTTAATTTTTAGTTATTTTC--TTATATA-TTTTCAAAAACTATAATTAATTAAAATTT
* * * ** *
11712709 TAAACTTCCAACTTAATAATTTATGTTATAATAACATCTTT-TTAC-TTTAATTATTACA-TTCT
63 T-AATTTTCAACTTAATTATTTACATTATAATAACAT-TTTCTTACGATT-ATTATTACATTTC-
* * * *
11712771 ATTACACTTATAATTGTTATAACTCTTTCTTAGGATTTTAAGACATTTTCTACCCATTTTATGCC
124 ATTACACTTAAAATTGTCATAACTCTATCTTAAGATTTTAAGACATTTTCTACCCATTTTATGCC
* ** ** * *
11712836 AAATTATATGAGTTTTACATTGCTTCTT-AATTGTTT-ACTTACCTAT
189 AAATCATAAAAAATTTACATTGCTT-TTCAACTATTTAACTTACCT-T
*
11712882 TTTTTATTTAATTTTTAGTTATTTTCCTTCATATATTTTCAAAAACTATAATTAATTATAATTTT
1 TTTTTATTTAATTTTTAGTTATTTT-CTT-ATATATTTTCAAAAACTATAATTAATTAAAATTTT
* * * * * *
11712947 ACATTTTCAACTTAATTATTTACATTACAATAACATTTTCTTATGATTGTTCTCATCATCT-ATT
64 A-ATTTTCAACTTAATTATTTACATTATAATAACATTTTCTTACGATTATTATTA-CATTTCATT
** * * * * * * * * * **
11713011 ACGTTTAGAATTATTATAACTTTTTCCTAATG-TTTT-AGAAAACTATT-TACCCATTTCACACC
127 ACACTTAAAATTGTCATAACTCTATCTTAA-GATTTTAAG-ACA-TTTTCTACCCATTTTATGCC
* ** * * * *
11713073 TAATCATATGAAATTTACATTGCATTTCACCTGTTTAAATTACCTAT
189 AAATCATAAAAAATTTACATTGCTTTTCAACTATTTAACTTACCT-T
** * * * *
11713120 TTTTTATTTAAAATTTAGCTATTTTTATTTATATATTTAC-AAAACTATAATTGATTAAAATTTT
1 TTTTTATTTAATTTTTAGTTA-TTTT-CTTATATATTTTCAAAAACTATAATTAATTAAAATTTT
11713184 A
64 A
11713185 CATTGCTAAT
Statistics
Matches: 430, Mismatches: 83, Indels: 48
0.77 0.15 0.09
Matches are distributed among these distances:
232 13 0.03
233 9 0.02
235 12 0.03
236 161 0.37
237 183 0.43
238 45 0.10
239 7 0.02
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (234 bp):
TTTTTATTTAATTTTTAGTTATTTTCTTATATATTTTCAAAAACTATAATTAATTAAAATTTTAA
TTTTCAACTTAATTATTTACATTATAATAACATTTTCTTACGATTATTATTACATTTCATTACAC
TTAAAATTGTCATAACTCTATCTTAAGATTTTAAGACATTTTCTACCCATTTTATGCCAAATCAT
AAAAAATTTACATTGCTTTTCAACTATTTAACTTACCTT
Found at i:11714997 original size:16 final size:16
Alignment explanation
Indices: 11714968--11715007 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
11714958 TAGAAATTTT
11714968 ATATTTTCTCTTAGTAA
1 ATATTTT-TCTTAGTAA
11714985 ATATTTTTCTTAGTAA
1 ATATTTTTCTTAGTAA
11715001 AT-TTTTT
1 ATATTTTT
11715008 TTTATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (16 bp):
ATATTTTTCTTAGTAA
Found at i:11715351 original size:2 final size:2
Alignment explanation
Indices: 11715344--11715377 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11715334 TAACTTGAGA
*
11715344 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11715378 CAAAGTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:11722888 original size:2 final size:2
Alignment explanation
Indices: 11722881--11722917 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
11722871 CGTGCCATAC
* *
11722881 AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11722918 CCAAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11731491 original size:17 final size:17
Alignment explanation
Indices: 11731458--11731493 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11731448 ATCACAAATG
* *
11731458 ATAAGATTACCTTAATA
1 ATAAGATTACATCAATA
11731475 ATAAGATTACATCAATA
1 ATAAGATTACATCAATA
11731492 AT
1 AT
11731494 TAAATTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (17 bp):
ATAAGATTACATCAATA
Found at i:11731855 original size:2 final size:2
Alignment explanation
Indices: 11731848--11731881 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11731838 AGTTTAACAT
11731848 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11731882 GATGGGTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11732159 original size:4 final size:4
Alignment explanation
Indices: 11732150--11732175 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11732140 AAACTAAACT
11732150 CTGA CTGA CTGA CTGA CTGA CTGA CT
1 CTGA CTGA CTGA CTGA CTGA CTGA CT
11732176 ATATGTGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (4 bp):
CTGA
Found at i:11735217 original size:22 final size:24
Alignment explanation
Indices: 11735171--11735229 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
11735161 CTTTAATCAA
*
11735171 AATTTTAAAAATTTGTCATTTATT
1 AATTTTAAAAATTTGTCATTAATT
*
11735195 -ATTTTAAATATTT-TCATTAATT
1 AATTTTAAAAATTTGTCATTAATT
11735217 AAATTTTAAAAAT
1 -AATTTTAAAAAT
11735230 ATATATCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 8 0.27
23 12 0.40
24 10 0.33
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTTTAAAAATTTGTCATTAATT
Found at i:11738870 original size:32 final size:32
Alignment explanation
Indices: 11738823--11738887 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
11738813 CCCTTTTCTA
*
11738823 TTTTTTTCTTGGTCTTTTCAATTCTTCTTTAT
1 TTTTTTTCTTAGTCTTTTCAATTCTTCTTTAT
* *
11738855 TTTTTTTTTTAGTCTTTTCAATTTTTCTTTAT
1 TTTTTTTCTTAGTCTTTTCAATTCTTCTTTAT
11738887 T
1 T
11738888 CTCTTCTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.11, C:0.12, G:0.05, T:0.72
Consensus pattern (32 bp):
TTTTTTTCTTAGTCTTTTCAATTCTTCTTTAT
Found at i:11741109 original size:31 final size:31
Alignment explanation
Indices: 11741051--11741110 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
11741041 TATTCTTTTC
* * *
11741051 TTAGTCTCTTCAATTTTTCTATGTTCTCTCT
1 TTAGTCTCTTCAATTCTCCTATATTCTCTCT
* *
11741082 TTAGTCTTTTCAATTCTCCTTTATTCTCT
1 TTAGTCTCTTCAATTCTCCTATATTCTCT
11741111 TCTTAATCTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.13, C:0.23, G:0.05, T:0.58
Consensus pattern (31 bp):
TTAGTCTCTTCAATTCTCCTATATTCTCTCT
Found at i:11742968 original size:3 final size:3
Alignment explanation
Indices: 11742962--11743005 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
11742952 TATCTTCTTA
11742962 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11743006 GTAATCTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11743657 original size:54 final size:54
Alignment explanation
Indices: 11743572--11743678 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
11743562 GATACTGGCC
* *
11743572 TATATATTCAAATGAAATTTAAAATTTAATTTTTTATTATAATTAATAAAAATG
1 TATATATTCAAATAAAATTTAAAATTGAATTTTTTATTATAATTAATAAAAATG
** *
11743626 TATATATTTTAATAAAATTTGAAATTGAATTTTTTATTATAATTAATAAAAAT
1 TATATATTCAAATAAAATTTAAAATTGAATTTTTTATTATAATTAATAAAAAT
11743679 ATTGTTATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.48
Consensus pattern (54 bp):
TATATATTCAAATAAAATTTAAAATTGAATTTTTTATTATAATTAATAAAAATG
Found at i:11743673 original size:34 final size:38
Alignment explanation
Indices: 11743634--11743708 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 38
11743624 TGTATATATT
11743634 TTAAT-AAAAT-TTGAAATTGAATT-TTTT-ATTATAA
1 TTAATAAAAATATTGAAATTGAATTATTTTAATTATAA
** *
11743668 TTAATAAAAATATTGTTATTGTATTATTTTAATTATAA
1 TTAATAAAAATATTGAAATTGAATTATTTTAATTATAA
11743706 TTA
1 TTA
11743709 TTGTATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 5 0.15
35 5 0.15
36 10 0.29
37 4 0.12
38 10 0.29
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (38 bp):
TTAATAAAAATATTGAAATTGAATTATTTTAATTATAA
Found at i:11747050 original size:66 final size:67
Alignment explanation
Indices: 11746931--11747056 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 67
11746921 AATTGATTTG
*
11746931 TTTGCTTTCTTTACCTTTTAGTTTTCTTCAATTTAAAAAAAAAATATTTATCTATTAATTAATCT
1 TTTGCTTTCTTAACCTTTTAGTTTTCTTCAATTTAAAAAAAAAATATTTATCTATTAATTAATCT
11746996 TT
66 TT
* ** **
11746998 TTTGCTTTCATTAACTTTTTA-TTTTCTTTGATTT-AAAAAGTAATATTTATCTATTAATT
1 TTTGCTTTC-TTAACCTTTTAGTTTTCTTCAATTTAAAAAAAAAATATTTATCTATTAATT
11747057 GTGATAATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
66 23 0.44
67 20 0.38
68 9 0.17
ACGTcount: A:0.30, C:0.10, G:0.04, T:0.56
Consensus pattern (67 bp):
TTTGCTTTCTTAACCTTTTAGTTTTCTTCAATTTAAAAAAAAAATATTTATCTATTAATTAATCT
TT
Found at i:11755317 original size:13 final size:13
Alignment explanation
Indices: 11755301--11755334 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11755291 TATTTTGTAA
11755301 AAATAAAAAATTT
1 AAATAAAAAATTT
**
11755314 AAATTTAAAATTT
1 AAATAAAAAATTT
11755327 AAATAAAA
1 AAATAAAA
11755335 TATTACACAA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATAAAAAATTT
Found at i:11756024 original size:20 final size:19
Alignment explanation
Indices: 11755990--11756027 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
11755980 TTTGTTAAAA
11755990 AAATAAATTTTAATTAATT
1 AAATAAATTTTAATTAATT
*
11756009 AAATTAATTATTAATTAAT
1 AAATAAATT-TTAATTAAT
11756028 ATTCGTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAAATTTTAATTAATT
Found at i:11758155 original size:24 final size:25
Alignment explanation
Indices: 11758117--11758173 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
11758107 TTTGCAATTA
*
11758117 TATTTTTCTCATTCT-TTTCATTTTT
1 TATTTTTTTCATTCTCTTT-ATTTTT
*
11758142 TATTTTTTTC-TTCTCTTTTTTTTT
1 TATTTTTTTCATTCTCTTTATTTTT
*
11758166 TAATTTTT
1 TATTTTTT
11758174 GAAAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (25 bp):
TATTTTTTTCATTCTCTTTATTTTT
Found at i:11758968 original size:24 final size:24
Alignment explanation
Indices: 11758929--11758990 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
11758919 TAAATATTAA
*
11758929 ATTTTTTAGAAATTTTCTA-ATTTT
1 ATTTTTTAGAAATTTT-TATACTTT
11758953 ATTTTTT-GAAAGTTTTTATACTTT
1 ATTTTTTAGAAA-TTTTTATACTTT
*
11758977 ATTTTTCA-AAATTT
1 ATTTTTTAGAAATTT
11758991 AGCACTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (24 bp):
ATTTTTTAGAAATTTTTATACTTT
Found at i:11759313 original size:12 final size:12
Alignment explanation
Indices: 11759290--11759323 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
11759280 TTGTGTCTTC
11759290 TTTATAATTTATT
1 TTTAT-ATTTATT
11759303 TTTATATTTATT
1 TTTATATTTATT
11759315 TTTA-ATTTA
1 TTTATATTTA
11759324 AATGTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.24
12 11 0.52
13 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATATTTATT
Found at i:11759625 original size:40 final size:42
Alignment explanation
Indices: 11759581--11759667 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 42
11759571 TTAAAATATG
* *
11759581 ATTTTAAAAAATTTA-AAACTGTGGAAAAAATAAAT-TTAAT
1 ATTTTAAAAAATCTAGAAACTGTAGAAAAAATAAATATTAAT
* * *
11759621 ATTTTAAAAAATCTAGAAATTTTATAAAAAATAAATATTAAT
1 ATTTTAAAAAATCTAGAAACTGTAGAAAAAATAAATATTAAT
11759663 -TTTTA
1 ATTTTA
11759668 TACTAAAAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 14 0.35
41 21 0.52
42 5 0.12
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (42 bp):
ATTTTAAAAAATCTAGAAACTGTAGAAAAAATAAATATTAAT
Found at i:11759717 original size:31 final size:31
Alignment explanation
Indices: 11759679--11759739 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
11759669 ACTAAAAGGA
* * *
11759679 TTAAATTTTAAATTTTATGCAAATATAAAAG
1 TTAAATTTCAAATTTCATACAAATATAAAAG
*
11759710 TTAAATTTCAAATTTCATACAAGTATAAAA
1 TTAAATTTCAAATTTCATACAAATATAAAA
11759740 ATCATTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (31 bp):
TTAAATTTCAAATTTCATACAAATATAAAAG
Found at i:11760163 original size:12 final size:12
Alignment explanation
Indices: 11760146--11760170 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11760136 TATAATCTAA
11760146 TATAATCTTATC
1 TATAATCTTATC
11760158 TATAATCTTATC
1 TATAATCTTATC
11760170 T
1 T
11760171 TATTCTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TATAATCTTATC
Found at i:11766744 original size:17 final size:18
Alignment explanation
Indices: 11766708--11766745 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
11766698 ATTTAATTTG
*
11766708 TATAAAATTGATTTTTATT
1 TATAAAATT-ATTATTATT
11766727 TATAAAATT-TTATTATT
1 TATAAAATTATTATTATT
11766744 TA
1 TA
11766746 ATTAAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TATAAAATTATTATTATT
Found at i:11767683 original size:29 final size:29
Alignment explanation
Indices: 11767637--11767697 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
11767627 TAAACTATAG
* * *
11767637 AAAAATATTTAATATAATATCTGAACTTT
1 AAAAATATCTAATATAATACCTGAACTAT
* *
11767666 AAAAATCTCTAATGTAATACCTGAACTAT
1 AAAAATATCTAATATAATACCTGAACTAT
11767695 AAA
1 AAA
11767698 TTTGTTAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAAATATCTAATATAATACCTGAACTAT
Found at i:11768268 original size:16 final size:16
Alignment explanation
Indices: 11768247--11768280 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11768237 CAAATTATTT
*
11768247 TTTTTCTCTTTCCTCA
1 TTTTTCTCTTTCCACA
*
11768263 TTTTTCTTTTTCCACA
1 TTTTTCTCTTTCCACA
11768279 TT
1 TT
11768281 ACCCAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTCTCTTTCCACA
Found at i:11768492 original size:13 final size:14
Alignment explanation
Indices: 11768476--11768505 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11768466 AGAGGTAAAA
11768476 AAAG-AAAATAGAT
1 AAAGAAAAATAGAT
11768489 AAAGAAAAATAGAT
1 AAAGAAAAATAGAT
11768503 AAA
1 AAA
11768506 ATTAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAGAAAAATAGAT
Found at i:11785413 original size:740 final size:741
Alignment explanation
Indices: 11783927--11786103 Score: 4331
Period size: 740 Copynumber: 2.9 Consensus size: 741
11783917 TATTCCGATG
11783927 TAGCAGGTTTCTATCTTC-ATTTGCTACAATGACTGTTACAAGACTTTTTATCAAGAATAGTAAC
1 TAGCAGGTTTCTATCTTCTATTTGCTACAATGACTGTTACAAGACTTTTTATCAAGAATAGTAAC
11783991 TGCTACAGTACAACTGATCTTTCATTTCAAACATCTTTGTCTTTTTGTGTCGACAGTTAAGATCA
66 TGCTACAGTACAACTGATCTTTCATTTCAAACATCTTTGTCTTTTTGTGTCGACAGTTAAGATCA
11784056 GCTCAATTTTGGCTTATTCTTGGTTGAAATATCTACATAATGGTTTATCCTTCTATTGCATTATC
131 GCTCAATTTTGGCTTATTCTTGGTTGAAATATCTACATAATGGTTTATCCTTCTATTGCATTATC
11784121 TAGATTTTAGAGTTTTACACCTTCTTCATCCAAAGTTTGGTGAAAGTGTGAAGAATTGGATCTAG
196 TAGATTTTAGAGTTTTACACCTTCTTCATCCAAAGTTTGGTGAAAGTGTGAAGAATTGGATCTAG
11784186 ATTGATTCCACATTTTTCATCATTCTTGATACTGATATAACATCTCTGTAGGATGATCAATGTGT
261 ATTGATTCCACATTTTTCATCATTCTTGATACTGATATAACATCTCTGTAGGATGATCAATGTGT
11784251 TCCATTTTGGAAAGTTTTTCTAAAAGTTGAATTACCTCAGTTAAGTTTAGTAGGGTGCTTGAAAA
326 TCCATTTTGGAAAGTTTTTCTAAAAGTTGAATTACCTCAGTTAAGTTTAGTAGGGTGCTTGAAAA
11784316 ATAGCATAATAAATTATTGCAAAAATCTTTCATTCATCAGTTTGTATGATAACTTTTGAGAAACT
391 ATAGCATAATAAATTATTGCAAAAATCTTTCATTCATCAGTTTGTATGATAACTTTTGAGAAACT
11784381 ATCTCTGGTGGCCAACTGAAAGAGATATGAGGCTTTTTTCATCATCTTGATTCTTGATTAGAATT
456 ATCTCTGGTGGCCAACTGAAAGAGATATGAGGCTTTTTTCATCATCTTGATTCTTGATTAGAATT
11784446 GATATTGTGATGGGTTTGAATATTTTGAAACAATTTTGTTTAGTGTTTTAAGAATTTCTAGGGCT
521 GATATTGTGATGGGTTTGAATATTTTGAAACAATTTTGTTTAGTGTTTTAAGAATTTCTAGGGCT
11784511 TTTATTGTTGGGTTTAACATAGGGCCAAAAAGGAATTTTTTCATTTTCCAAATTTGATAGGGTTG
586 TTTATTGTTGGGTTTAACATAGGGCCAAAAAGGAATTTTTTCATTTTCCAAATTTGATAGGGTTG
11784576 AAAAAATCTCTCTCGCTAGTAACAACTAAGACAACTGATAATGGTAAGAATTTCATTGTATCACT
651 AAAAAATCTCTCTCGCTAGTAACAACTAAGACAACTGATAATGGTAAGAATTTCATTGTATCACT
11784641 ACAGTGACTTGCTATAATAATTTCGA
716 ACAGTGACTTGCTATAATAATTTCGA
11784667 TAGCAGGTTTCTATCTTCTATTTGCTACAATGACTGTTACAAGACTTTTTATCAAGAATAGTAAC
1 TAGCAGGTTTCTATCTTCTATTTGCTACAATGACTGTTACAAGACTTTTTATCAAGAATAGTAAC
11784732 TGCTACAGTACAACTGATCTTTCATTTCAAACATCTTTGTCTTTTTGTGTCGACAGTTAAGATCA
66 TGCTACAGTACAACTGATCTTTCATTTCAAACATCTTTGTCTTTTTGTGTCGACAGTTAAGATCA
11784797 GCTCAATTTTGGCTTATTCTTGGTTGAAATATCTACATAATGGTTTATCCTTCTATTGCATTATC
131 GCTCAATTTTGGCTTATTCTTGGTTGAAATATCTACATAATGGTTTATCCTTCTATTGCATTATC
11784862 TAGATTTTAGAGTTTTACACCTTCTTCATCCAAAGTTTGGTGAAAGTGTGAAGAATTGGATCTAG
196 TAGATTTTAGAGTTTTACACCTTCTTCATCCAAAGTTTGGTGAAAGTGTGAAGAATTGGATCTAG
11784927 ATTGATTCCACATTTTTCATCATTCTTGATACTGATATAACATCTCTGTAGGATGATCAATGTGT
261 ATTGATTCCACATTTTTCATCATTCTTGATACTGATATAACATCTCTGTAGGATGATCAATGTGT
11784992 TCCATTTTGGAAAGTTTTTCTAAAAGTTGAATTACCTCAGTTAAGTTTAGTAGGGTGCTTGAAAA
326 TCCATTTTGGAAAGTTTTTCTAAAAGTTGAATTACCTCAGTTAAGTTTAGTAGGGTGCTTGAAAA
11785057 ATAGCATAATAAATTATTGCAAAAATCTTTCATTCATCAGTTTGTATGATAACTTTTGAGAAACT
391 ATAGCATAATAAATTATTGCAAAAATCTTTCATTCATCAGTTTGTATGATAACTTTTGAGAAACT
11785122 ATCTCTGGTGGCCAACTGAAAGAGATATGAGGC-TTTTTCATCATCTTGATTCTTGATTAGAATT
456 ATCTCTGGTGGCCAACTGAAAGAGATATGAGGCTTTTTTCATCATCTTGATTCTTGATTAGAATT
11785186 GATATTGTGATGGGTTTGAATATTTTGAAACAATTTTGTTTAGTGTTTTAAGAATTTCTAGGGCT
521 GATATTGTGATGGGTTTGAATATTTTGAAACAATTTTGTTTAGTGTTTTAAGAATTTCTAGGGCT
11785251 TTTATTGTTGGGTTTAACATAGGGCCAAAAAGGAATTTTTTCATTTTCCAAATTTGATAGGGTTG
586 TTTATTGTTGGGTTTAACATAGGGCCAAAAAGGAATTTTTTCATTTTCCAAATTTGATAGGGTTG
11785316 AAAAAATCTCTCTCGCTAGTAACAACTAAGACAACTGATAATGGTAAGAATTTCATTGTATCACT
651 AAAAAATCTCTCTCGCTAGTAACAACTAAGACAACTGATAATGGTAAGAATTTCATTGTATCACT
11785381 ACAGTGACTTGCTATAATAATTTCGA
716 ACAGTGACTTGCTATAATAATTTCGA
11785407 TAGCAGGTTTCTATCTTCTATTTGCTACAATGACTGTTACAAGACTTTTTATCAAGAATAGTAAC
1 TAGCAGGTTTCTATCTTCTATTTGCTACAATGACTGTTACAAGACTTTTTATCAAGAATAGTAAC
11785472 TGCTACAGTACAACTGATCTTTCATTTCAAACATCTTTGTCTTTTTGTGTCGACAGTTAAGATCA
66 TGCTACAGTACAACTGATCTTTCATTTCAAACATCTTTGTCTTTTTGTGTCGACAGTTAAGATCA
11785537 GCTCAATTTTGGCTTATTCTTGGTTGAAATATCTACATAATGGTTTATCCTTCTATTGCATTATC
131 GCTCAATTTTGGCTTATTCTTGGTTGAAATATCTACATAATGGTTTATCCTTCTATTGCATTATC
11785602 TAGATTTTAGAGTTTTACACCTTCTTCATCCAAAGTTTGGTGAAAGTGTGAAGAATTGGATCTAG
196 TAGATTTTAGAGTTTTACACCTTCTTCATCCAAAGTTTGGTGAAAGTGTGAAGAATTGGATCTAG
11785667 ATTGATTCCACATTTTTCATCATTCTTGATACTGATATAACATCTCTGTAGGATGATCAATGTGT
261 ATTGATTCCACATTTTTCATCATTCTTGATACTGATATAACATCTCTGTAGGATGATCAATGTGT
11785732 TCCATTTTGGAAAGTTTTTCTAAAAGTTGAATTACCTCAGTTAAGTTTAGTAGGGTGCTTGAAAA
326 TCCATTTTGGAAAGTTTTTCTAAAAGTTGAATTACCTCAGTTAAGTTTAGTAGGGTGCTTGAAAA
11785797 ATAGCATAATAAATTATTGCAAAAATCTTTCATTCATCAGTTTGTATGATAACTTTTGAGAAACT
391 ATAGCATAATAAATTATTGCAAAAATCTTTCATTCATCAGTTTGTATGATAACTTTTGAGAAACT
11785862 ATCTCTGGTGGCCAACTGAAAGAGATATGAGGCTTTTTTCATCATCTTGATTCTTGATTAGAATT
456 ATCTCTGGTGGCCAACTGAAAGAGATATGAGGCTTTTTTCATCATCTTGATTCTTGATTAGAATT
11785927 GATATTGTGATGGGTTTGAATATTTTGAAACAATTTTGTTTAGTGTTTTAAGAATTTCTAGGGCT
521 GATATTGTGATGGGTTTGAATATTTTGAAACAATTTTGTTTAGTGTTTTAAGAATTTCTAGGGCT
*
11785992 TTTGTTGTTGGGTTTAACATAGGGCCAAAAAGGAATTTTTTCATTTTCCAAATTTGATAGGGTTG
586 TTTATTGTTGGGTTTAACATAGGGCCAAAAAGGAATTTTTTCATTTTCCAAATTTGATAGGGTTG
11786057 AAAAAATCTCTCTCGCTAGTAACAACTAAGACAACTGATAATGGTAA
651 AAAAAATCTCTCTCGCTAGTAACAACTAAGACAACTGATAATGGTAA
11786104 AATGTATATA
Statistics
Matches: 1434, Mismatches: 1, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
740 758 0.53
741 676 0.47
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (741 bp):
TAGCAGGTTTCTATCTTCTATTTGCTACAATGACTGTTACAAGACTTTTTATCAAGAATAGTAAC
TGCTACAGTACAACTGATCTTTCATTTCAAACATCTTTGTCTTTTTGTGTCGACAGTTAAGATCA
GCTCAATTTTGGCTTATTCTTGGTTGAAATATCTACATAATGGTTTATCCTTCTATTGCATTATC
TAGATTTTAGAGTTTTACACCTTCTTCATCCAAAGTTTGGTGAAAGTGTGAAGAATTGGATCTAG
ATTGATTCCACATTTTTCATCATTCTTGATACTGATATAACATCTCTGTAGGATGATCAATGTGT
TCCATTTTGGAAAGTTTTTCTAAAAGTTGAATTACCTCAGTTAAGTTTAGTAGGGTGCTTGAAAA
ATAGCATAATAAATTATTGCAAAAATCTTTCATTCATCAGTTTGTATGATAACTTTTGAGAAACT
ATCTCTGGTGGCCAACTGAAAGAGATATGAGGCTTTTTTCATCATCTTGATTCTTGATTAGAATT
GATATTGTGATGGGTTTGAATATTTTGAAACAATTTTGTTTAGTGTTTTAAGAATTTCTAGGGCT
TTTATTGTTGGGTTTAACATAGGGCCAAAAAGGAATTTTTTCATTTTCCAAATTTGATAGGGTTG
AAAAAATCTCTCTCGCTAGTAACAACTAAGACAACTGATAATGGTAAGAATTTCATTGTATCACT
ACAGTGACTTGCTATAATAATTTCGA
Found at i:11805934 original size:41 final size:41
Alignment explanation
Indices: 11805871--11805949 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
11805861 GGCTTATATG
11805871 TTTGCAATAGATTTCATCTTGAGAGAGCTAAAAAAACACTA
1 TTTGCAATAGATTTCATCTTGAGAGAGCTAAAAAAACACTA
* * * *
11805912 TTTGGAATAGATTTCATTTTGAGAGAGTTGAAAAAACA
1 TTTGCAATAGATTTCATCTTGAGAGAGCTAAAAAAACA
11805950 ATATCTCGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.32
Consensus pattern (41 bp):
TTTGCAATAGATTTCATCTTGAGAGAGCTAAAAAAACACTA
Found at i:11807424 original size:15 final size:15
Alignment explanation
Indices: 11807406--11807437 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11807396 TTATGAACTT
*
11807406 ATAATTTATAATCTG
1 ATAATCTATAATCTG
11807421 ATAATCTATAATCTG
1 ATAATCTATAATCTG
11807436 AT
1 AT
11807438 GATCGAGTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (15 bp):
ATAATCTATAATCTG
Found at i:11810996 original size:22 final size:22
Alignment explanation
Indices: 11810965--11811016 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
11810955 TTTTTTTAGT
* *
11810965 AAAAAAAATTGATTGATAAACG
1 AAAAATAATTGACTGATAAACG
* * *
11810987 AAAAATAATTTACTGATTAATG
1 AAAAATAATTGACTGATAAACG
11811009 AAAAATAA
1 AAAAATAA
11811017 GATAATGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.60, C:0.04, G:0.10, T:0.27
Consensus pattern (22 bp):
AAAAATAATTGACTGATAAACG
Found at i:11811250 original size:21 final size:20
Alignment explanation
Indices: 11811221--11811273 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
11811211 AATATATATT
*
11811221 TTTATTAATTTTTTTATAAAA
1 TTTA-TAATTTTTTGATAAAA
* **
11811242 TTCTCTAATAATTTGATAAAA
1 TT-TATAATTTTTTGATAAAA
11811263 TTTATAATTTT
1 TTTATAATTTT
11811274 AAAATAATTT
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTATAATTTTTTGATAAAA
Found at i:11822780 original size:34 final size:32
Alignment explanation
Indices: 11822742--11822816 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 32
11822732 TATAAAAAAA
11822742 TTATTTTTAAA-TATATTTTTAATATTAAATTT-AT
1 TTATTTTTAAATTA-ATTTTT-ATA--AAATTTCAT
*
11822776 TTATTTTAAAATTAATTTTTATAAAATTTCAT
1 TTATTTTTAAATTAATTTTTATAAAATTTCAT
11822808 TATATTTTT
1 T-TATTTTT
11822817 CATTGACAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
31 6 0.17
32 3 0.08
33 9 0.25
34 16 0.44
35 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (32 bp):
TTATTTTTAAATTAATTTTTATAAAATTTCAT
Found at i:11822787 original size:16 final size:16
Alignment explanation
Indices: 11822768--11822815 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
11822758 TTTTAATATT
11822768 AAATTTATTTATTTTA
1 AAATTTATTTATTTTA
* *
11822784 AAATTAATTT-TTATA
1 AAATTTATTTATTTTA
11822799 AAATTTCATTATATTTT
1 AAATTT-ATT-TATTTT
11822816 TCATTGACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 9 0.36
16 12 0.48
17 1 0.04
18 3 0.12
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATTTATTTATTTTA
Found at i:11828737 original size:23 final size:23
Alignment explanation
Indices: 11828703--11828755 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
11828693 CATGTTAAAC
11828703 AAATAAATAAATA-ATATAAATGTT
1 AAAT-AATAAATACAT-TAAATGTT
11828727 AAATAATAAATACATTAAATGTT
1 AAATAATAAATACATTAAATGTT
11828750 AAATAA
1 AAATAA
11828756 ATAATTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (23 bp):
AAATAATAAATACATTAAATGTT
Found at i:11828771 original size:20 final size:20
Alignment explanation
Indices: 11828748--11828825 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 20
11828738 ACATTAAATG
11828748 TTAAATAAATAATTTCATAT-
1 TTAAATAAATAATTT-ATATA
* *
11828768 TTAATAAAAAATAAATATTTTATATG
1 TT-A-AATAAAT--A-ATT-TATATA
11828794 TTAAATAAATAATTTATATA
1 TTAAATAAATAATTTATATA
11828814 TTAAATAAATAA
1 TTAAATAAATAA
11828826 AAACACAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
20 19 0.40
21 4 0.08
22 7 0.15
24 7 0.15
25 8 0.17
26 3 0.06
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (20 bp):
TTAAATAAATAATTTATATA
Found at i:11828783 original size:46 final size:47
Alignment explanation
Indices: 11828726--11828822 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 47
11828716 ATATAAATGT
*
11828726 TAAATAATAAATACATTAAATGTTAAATAAATAATTTCATAT-TT-AA
1 TAAAAAATAAATACATTAAATGTTAAATAAATAATTT-ATATATTAAA
** *
11828772 TAAAAAATAAATATTTTATATGTTAAATAAATAATTTATATATTAAA
1 TAAAAAATAAATACATTAAATGTTAAATAAATAATTTATATATTAAA
11828819 TAAA
1 TAAA
11828823 TAAAAACACA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
45 4 0.09
46 35 0.78
47 6 0.13
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (47 bp):
TAAAAAATAAATACATTAAATGTTAAATAAATAATTTATATATTAAA
Found at i:11828797 original size:26 final size:27
Alignment explanation
Indices: 11828750--11828802 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
11828740 ATTAAATGTT
11828750 AAATAAATAATTTCATATTT-AATAAA
1 AAATAAATAATTTCATATTTAAATAAA
*
11828776 AAATAAAT-ATTTTATATGTTAAATAAA
1 AAATAAATAATTTCATAT-TTAAATAAA
11828803 TAATTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 8 0.33
26 10 0.42
27 6 0.25
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTTCATATTTAAATAAA
Found at i:11828885 original size:38 final size:39
Alignment explanation
Indices: 11828832--11828918 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 39
11828822 ATAAAAACAC
* * *
11828832 AAAATGTAGTTTAATACA-CAGAAGATTGATAT-TTCATA
1 AAAATGTAGTCTAATACATAAAAAGATTGAT-TCTTCATA
* *
11828870 AAAATGTAGTCTAATATATAAAAATATTGATTCTTCATA
1 AAAATGTAGTCTAATACATAAAAAGATTGATTCTTCATA
11828909 AAAATGTAGT
1 AAAATGTAGT
11828919 TTAGTATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 17 0.40
39 25 0.60
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (39 bp):
AAAATGTAGTCTAATACATAAAAAGATTGATTCTTCATA
Found at i:11828910 original size:39 final size:39
Alignment explanation
Indices: 11828856--11828932 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
11828846 TACACAGAAG
*
11828856 ATTGATATTTCATAAAAATGTAGTCTAATATATAAAAAT
1 ATTGATATTTCATAAAAATGTAGTCTAATATAAAAAAAT
* *
11828895 ATTGAT-TCTTCATAAAAATGTAGTTTAGTATAAAAAAA
1 ATTGATAT-TTCATAAAAATGTAGTCTAATATAAAAAAA
11828933 AAACTATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 33 0.97
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (39 bp):
ATTGATATTTCATAAAAATGTAGTCTAATATAAAAAAAT
Found at i:11831282 original size:26 final size:25
Alignment explanation
Indices: 11831256--11831328 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 25
11831246 CTATGTAAAC
*
11831256 CCTAAACTCCAAACCACCATGCGAA
1 CCTAAACTCCAAACCACCATGCAAA
11831281 CCT---CT--AAACCACCATGCAAA
1 CCTAAACTCCAAACCACCATGCAAA
* *
11831301 TCATAAACTCCAAACCACCATGTAAA
1 -CCTAAACTCCAAACCACCATGCAAA
11831327 CC
1 CC
11831329 ACTAAACCAC
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
20 14 0.37
21 2 0.05
22 2 0.05
24 2 0.05
25 4 0.11
26 14 0.37
ACGTcount: A:0.41, C:0.38, G:0.05, T:0.15
Consensus pattern (25 bp):
CCTAAACTCCAAACCACCATGCAAA
Found at i:11831291 original size:20 final size:19
Alignment explanation
Indices: 11831266--11831431 Score: 104
Period size: 19 Copynumber: 8.2 Consensus size: 19
11831256 CCTAAACTCC
*
11831266 AAACCACCATGCGAACCTCT
1 AAACCACCATGCAAACC-CT
*
11831286 AAACCACCATGCAAATCATAAACTCC
1 AAACCACCATGCAAA-C-----C-CT
*
11831312 AAACCACCATGTAAACCACT
1 AAACCACCATGCAAACC-CT
*
11831332 AAACCACCATACAAATCCC-
1 AAACCACCATGCAAA-CCCT
11831351 AAACCACCATGCAAACCAC-
1 AAACCACCATGCAAACC-CT
***
11831370 AAACCACCATATGAACCCTT
1 AAACCACCATGCAAACCC-T
*
11831390 AAACCACCATACAAATCCC-
1 AAACCACCATGCAAA-CCCT
* *
11831409 AAACCTCCATGCAAACCCC
1 AAACCACCATGCAAACCCT
11831428 AAAC
1 AAAC
11831432 TTCAAACCAC
Statistics
Matches: 119, Mismatches: 15, Indels: 25
0.75 0.09 0.16
Matches are distributed among these distances:
18 6 0.05
19 46 0.39
20 43 0.36
21 6 0.05
25 1 0.01
26 17 0.14
ACGTcount: A:0.44, C:0.39, G:0.04, T:0.13
Consensus pattern (19 bp):
AAACCACCATGCAAACCCT
Found at i:11831308 original size:46 final size:45
Alignment explanation
Indices: 11831221--11831348 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 45
11831211 ACGAACTCTT
* * * * *
11831221 AAACCACCATGTAAACCCTAAATCACTATGTAAACCCTAAACTCC
1 AAACCACCATGTAAACCCTAAACCACCATGCAAATCATAAACTCC
**
11831266 AAACCACCATGCGAACCTCTAAACCACCATGCAAATCATAAACTCC
1 AAACCACCATGTAAACC-CTAAACCACCATGCAAATCATAAACTCC
*
11831312 AAACCACCATGTAAACCACTAAACCACCATACAAATC
1 AAACCACCATGTAAACC-CTAAACCACCATGCAAATC
11831349 CCAAACCACC
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 15 0.21
46 56 0.79
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (45 bp):
AAACCACCATGTAAACCCTAAACCACCATGCAAATCATAAACTCC
Found at i:11831374 original size:58 final size:58
Alignment explanation
Indices: 11831311--11831431 Score: 190
Period size: 58 Copynumber: 2.1 Consensus size: 58
11831301 TCATAAACTC
*
11831311 CAAACCACCATGTAAACCAC-TAAACCACCATACAAATCCCAAACCACCATGCAAACCA
1 CAAACCACCATATAAACC-CTTAAACCACCATACAAATCCCAAACCACCATGCAAACCA
* * *
11831369 CAAACCACCATATGAACCCTTAAACCACCATACAAATCCCAAACCTCCATGCAAACCC
1 CAAACCACCATATAAACCCTTAAACCACCATACAAATCCCAAACCACCATGCAAACCA
11831427 CAAAC
1 CAAAC
11831432 TTCAAACCAC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
57 1 0.02
58 57 0.98
ACGTcount: A:0.45, C:0.40, G:0.03, T:0.12
Consensus pattern (58 bp):
CAAACCACCATATAAACCCTTAAACCACCATACAAATCCCAAACCACCATGCAAACCA
Found at i:11831394 original size:39 final size:38
Alignment explanation
Indices: 11831310--11831431 Score: 131
Period size: 39 Copynumber: 3.2 Consensus size: 38
11831300 ATCATAAACT
*
11831310 CCAAACCACCATGTAAACCACTAAACCACCATACAAATC
1 CCAAACCACCATGCAAACCAC-AAACCACCATACAAATC
**
11831349 CCAAACCACCATGCAAACCACAAACCACCATATGAA-C
1 CCAAACCACCATGCAAACCACAAACCACCATACAAATC
* * * *
11831386 CCTTAAACCACCATACAAATCC-CAAACCTCCATGCAAACC
1 CC--AAACCACCATGCAAA-CCACAAACCACCATACAAATC
11831426 CCAAAC
1 CCAAAC
11831432 TTCAAACCAC
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
37 3 0.04
38 17 0.24
39 46 0.65
40 5 0.07
ACGTcount: A:0.44, C:0.41, G:0.03, T:0.11
Consensus pattern (38 bp):
CCAAACCACCATGCAAACCACAAACCACCATACAAATC
Found at i:11831437 original size:26 final size:27
Alignment explanation
Indices: 11831408--11831458 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
11831398 ATACAAATCC
* *
11831408 CAAACCTCCATGCAAACCCC-AAACTT
1 CAAACCACCATACAAACCCCTAAACTT
*
11831434 CAAACCACCATACAGACCCCTAAAC
1 CAAACCACCATACAAACCCCTAAAC
11831459 CATCGTACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.41, C:0.43, G:0.04, T:0.12
Consensus pattern (27 bp):
CAAACCACCATACAAACCCCTAAACTT
Found at i:11831493 original size:13 final size:12
Alignment explanation
Indices: 11831472--11831541 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 12
11831462 CGTACAAACC
11831472 TAAACCCTAAATT
1 TAAA-CCTAAATT
11831485 TAAATCCTAAACTT
1 TAAA-CCTAAA-TT
* *
11831499 TAAACTTAAAACT
1 TAAACCT-AAATT
11831512 TAAACCTTAAATT
1 TAAACC-TAAATT
*
11831525 CTAATCCTAAATCT
1 -TAAACCTAAAT-T
11831539 TAA
1 TAA
11831542 CCATAATCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
13 30 0.65
14 16 0.35
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (12 bp):
TAAACCTAAATT
Found at i:11831495 original size:20 final size:20
Alignment explanation
Indices: 11831470--11831541 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
11831460 ATCGTACAAA
*
11831470 CCTAAACCCTAAATTTAAAT
1 CCTAAACCTTAAATTTAAAT
* * *
11831490 CCTAAACTTTAAACTTAAAA
1 CCTAAACCTTAAATTTAAAT
*
11831510 CTTAAACCTTAAATTCT-AAT
1 CCTAAACCTTAAATT-TAAAT
*
11831530 CCTAAATCTTAA
1 CCTAAACCTTAA
11831542 CCATAATCTT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 40 0.98
21 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (20 bp):
CCTAAACCTTAAATTTAAAT
Found at i:11831569 original size:13 final size:13
Alignment explanation
Indices: 11831551--11831595 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
11831541 ACCATAATCT
11831551 TAAACTCTAACCC
1 TAAACTCTAACCC
*
11831564 TAAACTCTAAATCC
1 TAAACTCT-AACCC
*
11831578 T-AACTCTAACCT
1 TAAACTCTAACCC
11831590 TAAACT
1 TAAACT
11831596 TAATTCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 4 0.15
13 18 0.67
14 5 0.19
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAACTCTAACCC
Found at i:11831697 original size:19 final size:18
Alignment explanation
Indices: 11831658--11831719 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
11831648 ATCTTAAGTT
* * *
11831658 AAACCTTAAACTAAGCCC
1 AAACCCTAAACCAAACCC
11831676 AAACCCTAAACCAAATCCC
1 AAACCCTAAACCAAA-CCC
* *
11831695 AAACCTTAAATCAAACCTC
1 AAACCCTAAACCAAACC-C
11831714 AAACCC
1 AAACCC
11831720 ACTTTAAACC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.15
Consensus pattern (18 bp):
AAACCCTAAACCAAACCC
Found at i:11831824 original size:18 final size:18
Alignment explanation
Indices: 11831782--11831831 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
11831772 AAAACTATAA
* *
11831782 CTTAGACCCTAAACAAAC
1 CTTAAACCCTAAACCAAC
**
11831800 CCCAAACCCTAAACCAAC
1 CTTAAACCCTAAACCAAC
11831818 CTTAAACCC-AAACC
1 CTTAAACCCTAAACC
11831832 CAAATCAACC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.44, C:0.42, G:0.02, T:0.12
Consensus pattern (18 bp):
CTTAAACCCTAAACCAAC
Found at i:11831844 original size:23 final size:24
Alignment explanation
Indices: 11831800--11831847 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
11831790 CTAAACAAAC
11831800 CCCAAACCCTAAACCAACCTTAAA
1 CCCAAACCCTAAACCAACCTTAAA
*
11831824 CCCAAACCC-AAATCAACCTTAAA
1 CCCAAACCCTAAACCAACCTTAAA
11831847 C
1 C
11831848 ACTAAGAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (24 bp):
CCCAAACCCTAAACCAACCTTAAA
Found at i:11832756 original size:18 final size:19
Alignment explanation
Indices: 11832727--11832788 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 19
11832717 TTGTTTTCTT
*
11832727 AAAAAGTGAAAAAATTGGA
1 AAAAAATGAAAAAATTGGA
11832746 AAAAAAT-AAAAAATT-GA
1 AAAAAATGAAAAAATTGGA
*
11832763 AAAAAATGGAAAAA-TGGA
1 AAAAAATGAAAAAATTGGA
11832781 AAAAAATG
1 AAAAAATG
11832789 TTTTGATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.26
18 23 0.59
19 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (19 bp):
AAAAAATGAAAAAATTGGA
Found at i:11832783 original size:27 final size:27
Alignment explanation
Indices: 11832727--11832785 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
11832717 TTGTTTTCTT
* *
11832727 AAAAAGTGAAAAAATTGGAAAAAAATA
1 AAAAAGTGAAAAAAATGGAAAAAAAGA
* **
11832754 AAAAATTGAAAAAAATGGAAAAATGGA
1 AAAAAGTGAAAAAAATGGAAAAAAAGA
11832781 AAAAA
1 AAAAA
11832786 ATGTTTTGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.14
Consensus pattern (27 bp):
AAAAAGTGAAAAAAATGGAAAAAAAGA
Found at i:11832786 original size:10 final size:10
Alignment explanation
Indices: 11832734--11832788 Score: 57
Period size: 10 Copynumber: 6.0 Consensus size: 10
11832724 CTTAAAAAGT
*
11832734 GAAAAAATTG
1 GAAAAAAATG
11832744 GAAAAAAAT-
1 GAAAAAAATG
*
11832753 --AAAAAATT
1 GAAAAAAATG
11832761 GAAAAAAATG
1 GAAAAAAATG
11832771 G--AAAAATG
1 GAAAAAAATG
11832779 GAAAAAAATG
1 GAAAAAAATG
11832789 TTTTGATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
7 7 0.18
8 8 0.21
10 23 0.61
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (10 bp):
GAAAAAAATG
Found at i:11833867 original size:37 final size:37
Alignment explanation
Indices: 11833826--11833941 Score: 103
Period size: 37 Copynumber: 3.1 Consensus size: 37
11833816 TAATTTTAGT
* * *
11833826 CACATCTAAATAACATA-TATATGCATTCCATTTCATG
1 CACATCTAAAT-ACATAGTAAATACAGTCCATTTCATG
* *
11833863 CACATCTTAATACATAGTAAATACAGTCCGTTTCATG
1 CACATCTAAATACATAGTAAATACAGTCCATTTCATG
* * * *
11833900 CACATCTTAAGAGATAGTACATGA-AGTCCATCTT-ATG
1 CACATCTAAATACATAGTAAAT-ACAGTCCAT-TTCATG
11833937 CACAT
1 CACAT
11833942 TTTAATGGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
36 5 0.07
37 59 0.88
38 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (37 bp):
CACATCTAAATACATAGTAAATACAGTCCATTTCATG
Found at i:11838396 original size:17 final size:17
Alignment explanation
Indices: 11838357--11838389 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11838347 CACATGCATT
11838357 ATTC-CATGAAA-CCCA
1 ATTCTCATGAAACCCCA
11838372 ATTCTCATGAAACCCCA
1 ATTCTCATGAAACCCCA
11838389 A
1 A
11838390 ATTTCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.39, C:0.33, G:0.06, T:0.21
Consensus pattern (17 bp):
ATTCTCATGAAACCCCA
Found at i:11838535 original size:19 final size:18
Alignment explanation
Indices: 11838502--11838572 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 18
11838492 AACCCAAACT
11838502 AACCCTAAATCCTAAACCA
1 AACCCTAAAT-CTAAACCA
11838521 AACCCTAAACTCT-AACCTA
1 AACCCTAAA-TCTAAACC-A
* *
11838540 GACCCCAAATC-AAACCA
1 AACCCTAAATCTAAACCA
*
11838557 AACCTTAAA-CTAAACC
1 AACCCTAAATCTAAACC
11838573 CTCAAACCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
16 1 0.02
17 12 0.28
18 10 0.23
19 19 0.44
20 1 0.02
ACGTcount: A:0.46, C:0.37, G:0.01, T:0.15
Consensus pattern (18 bp):
AACCCTAAATCTAAACCA
Found at i:11838537 original size:49 final size:47
Alignment explanation
Indices: 11838471--11838607 Score: 143
Period size: 49 Copynumber: 2.8 Consensus size: 47
11838461 TCTAAAATAT
* *
11838471 AAACCTTAAACCTTAACCTAGAACCCAAACTAACCCTAAATCC-TAAACC
1 AAACCCTAAACC-TAACCTAGACCCCAAACTAA-CCTAAA-CCTTAAACC
* *
11838520 AAACCCTAAACTCTAACCTAGACCCCAAATCAAACC-AAACCTTAAACT
1 AAACCCTAAAC-CTAACCTAGACCCCAAA-CTAACCTAAACCTTAAACC
* *
11838568 AAACCCTCAAACCCCAACCTAGACCCCAAACCAACCTAAA
1 AAACCCT-AAA-CCTAACCTAGACCCCAAACTAACCTAAA
11838608 GCCCAGAGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
47 2 0.03
48 20 0.26
49 49 0.64
50 5 0.07
ACGTcount: A:0.45, C:0.38, G:0.02, T:0.15
Consensus pattern (47 bp):
AAACCCTAAACCTAACCTAGACCCCAAACTAACCTAAACCTTAAACC
Found at i:11841451 original size:41 final size:41
Alignment explanation
Indices: 11841394--11841479 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
11841384 TGTGAAAGAG
11841394 CATAACTCCCCATCTTGTATTCAAATCCTTTTATTATTATT
1 CATAACTCCCCATCTTGTATTCAAATCCTTTTATTATTATT
* * *
11841435 CATAACTCCCCATCTTGTATTTAGATCCTTTTATTATTCTT
1 CATAACTCCCCATCTTGTATTCAAATCCTTTTATTATTATT
11841476 CATA
1 CATA
11841480 TATTTTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.47
Consensus pattern (41 bp):
CATAACTCCCCATCTTGTATTCAAATCCTTTTATTATTATT
Found at i:11844082 original size:142 final size:142
Alignment explanation
Indices: 11843936--11844239 Score: 366
Period size: 142 Copynumber: 2.1 Consensus size: 142
11843926 ACACCCTGAG
* *
11843936 AGGTGTGAAATTACTAAAATACATTTAAG-GGTATTTTCGTTATTTGACCTTC-TCAAGGTTAAT
1 AGGTGTGAAATTACTAAAATAC-TTTAAGAGGTATTTTCGTAATTTGACCTTCAT-AAGGTCAA-
* * * * **
11843999 TTTTTGCGAAACACTTTAGATCATAGTTTTATATTATTTCATTATTTTT-GTGCCTTAAAAACCT
63 TTTTTGCGAAACACTTCAGATCATAGTTTCATATTATGTCATGATTTTTGGTGAATTAAAAACCT
11844063 TGATCGCACCTC-AGA
128 TGATCGCACCTCGA-A
* * * **
11844078 AGGTGTGAAATCATTAAAATACTTTTAGAGGTATTTTCGTAATTTGATTTTCATAAGGTCAATTT
1 AGGTGTGAAATTACTAAAATACTTTAAGAGGTATTTTCGTAATTTGACCTTCATAAGGTCAATTT
* * * * *
11844143 TTGCGAAACTCTTCAGATCATTGTTTCATATTATGTGATGATTTTTGGTGAATTAAAAACTTTTA
66 TTGCGAAACACTTCAGATCATAGTTTCATATTATGTCATGATTTTTGGTGAATTAAAAACCTTGA
11844208 TCGCACCTCGAA
131 TCGCACCTCGAA
11844220 AGG-GTTGAAATTACTAAAAT
1 AGGTG-TGAAATTACTAAAAT
11844240 GCCCATAAAA
Statistics
Matches: 137, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
141 48 0.35
142 87 0.64
143 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (142 bp):
AGGTGTGAAATTACTAAAATACTTTAAGAGGTATTTTCGTAATTTGACCTTCATAAGGTCAATTT
TTGCGAAACACTTCAGATCATAGTTTCATATTATGTCATGATTTTTGGTGAATTAAAAACCTTGA
TCGCACCTCGAA
Found at i:11844750 original size:11 final size:11
Alignment explanation
Indices: 11844734--11844766 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
11844724 TCTCATTGCA
11844734 TTTCATATTGT
1 TTTCATATTGT
11844745 TTTCATATTGT
1 TTTCATATTGT
11844756 TTTCATATTGT
1 TTTCATATTGT
11844767 CTATCTTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (11 bp):
TTTCATATTGT
Found at i:11845781 original size:31 final size:30
Alignment explanation
Indices: 11845735--11845800 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
11845725 CTAAATCCTA
*
11845735 CCTAAGCTAGACCCTAAACTGAACCCTAAAC
1 CCTAACCTAGACCCTAAACT-AACCCTAAAC
* * *
11845766 CCTAACCTAGCCCCTAAACTAACCTTAAAT
1 CCTAACCTAGACCCTAAACTAACCCTAAAC
11845796 CCTAA
1 CCTAA
11845801 ACCAAACCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.38, C:0.36, G:0.06, T:0.20
Consensus pattern (30 bp):
CCTAACCTAGACCCTAAACTAACCCTAAAC
Found at i:11845801 original size:18 final size:17
Alignment explanation
Indices: 11845778--11845821 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
11845768 TAACCTAGCC
*
11845778 CCTAAACTAACCTTAAAT
1 CCTAAACTAACC-CAAAT
*
11845796 CCTAAACCAAACCCAAAT
1 CCTAAA-CTAACCCAAAT
11845814 CCTAAACT
1 CCTAAACT
11845822 TAATCACTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 16 0.73
19 5 0.23
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.20
Consensus pattern (17 bp):
CCTAAACTAACCCAAAT
Found at i:11851514 original size:15 final size:15
Alignment explanation
Indices: 11851490--11851527 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
11851480 ATTTAGTTCG
*
11851490 GGGCCTAAATCAATT
1 GGGCCCAAATCAATT
11851505 GGGCCCAAATCAATT
1 GGGCCCAAATCAATT
*
11851520 GGACCCAA
1 GGGCCCAA
11851528 GCTAATTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.18
Consensus pattern (15 bp):
GGGCCCAAATCAATT
Found at i:11851593 original size:17 final size:17
Alignment explanation
Indices: 11851571--11851633 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 17
11851561 ACGAATTTCC
11851571 TTTATTTTTGTTTTATT
1 TTTATTTTTGTTTTATT
11851588 TTTATTTATTGTTTCTTCATT
1 TTTATTT-TTG-TT-TT-ATT
11851609 TTTA--TTTGTTTTATAT
1 TTTATTTTTGTTTTAT-T
11851625 TTTACTTTT
1 TTTA-TTTT
11851634 ATTGTATCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
15 2 0.05
16 7 0.18
17 9 0.24
18 6 0.16
19 5 0.13
20 2 0.05
21 7 0.18
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTATTTTTGTTTTATT
Found at i:11851595 original size:21 final size:20
Alignment explanation
Indices: 11851571--11851636 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
11851561 ACGAATTTCC
11851571 TTTATTTTTGTTTTATTTTTA
1 TTTATTTTT-TTTTATTTTTA
* *
11851592 TTTATTGTTTCTTCATTTTTA
1 TTTATT-TTTTTTTATTTTTA
* *
11851613 TTTGTTTTATATTTTACTTTTA
1 TTTATTTT-T-TTTTATTTTTA
11851635 TT
1 TT
11851637 GTATCTATCC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
20 2 0.06
21 21 0.58
22 13 0.36
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTATTTTTTTTTATTTTTA
Found at i:11851811 original size:17 final size:18
Alignment explanation
Indices: 11851778--11851822 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
11851768 TCAAATTTTT
11851778 TTTAAAG-AAAGGAGATA
1 TTTAAAGAAAAGGAGATA
11851795 TTTAAAGAAAAGG-GATA
1 TTTAAAGAAAAGGAGATA
* *
11851812 ATTGAAGAAAA
1 TTTAAAGAAAA
11851823 AAAAATTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (18 bp):
TTTAAAGAAAAGGAGATA
Found at i:11852773 original size:5 final size:5
Alignment explanation
Indices: 11852749--11852833 Score: 57
Period size: 5 Copynumber: 15.8 Consensus size: 5
11852739 CTCTTTTTTC
* *
11852749 TTTAT TTTAT GTTTATT TTTAT TTT-T TTTAAT TTTATT TTTAA TTGAT
1 TTTAT TTTAT -TTTA-T TTTAT TTTAT TTT-AT TTTA-T TTTAT TTTAT
*
11852797 TTTGAT TGGATAT TTTAT TTTAT TTT-T ATTTAT TTTA
1 TTT-AT T--TTAT TTTAT TTTAT TTTAT -TTTAT TTTA
11852834 GTTGTGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
4 5 0.08
5 33 0.52
6 21 0.33
7 4 0.06
8 1 0.02
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:11852777 original size:21 final size:21
Alignment explanation
Indices: 11852743--11852832 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 21
11852733 AATTTTCTCT
*
11852743 TTTTTCTTTATTTT-ATGTTTA
1 TTTTTATTTATTTTAAT-TTTA
*
11852764 TTTTTATTTTTTTTAATTTTA
1 TTTTTATTTATTTTAATTTTA
* * **
11852785 TTTTTAATTGATTTTGATTGGA
1 TTTTT-ATTTATTTTAATTTTA
*
11852807 TATTTTATTTTATTTTTA-TTTA
1 T-TTTTA-TTTATTTTAATTTTA
11852829 TTTT
1 TTTT
11852833 AGTTGTGTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
21 24 0.44
22 18 0.33
23 12 0.22
ACGTcount: A:0.19, C:0.01, G:0.06, T:0.74
Consensus pattern (21 bp):
TTTTTATTTATTTTAATTTTA
Found at i:11852820 original size:34 final size:36
Alignment explanation
Indices: 11852774--11852863 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 36
11852764 TTTTTATTTT
*
11852774 TTTTAATTTTATTTTTAATTGATTTT-GATTG-G-ATA
1 TTTT-ATTTTATTTTTAATTGATTTTAG-TTGTGTAAA
*
11852809 TTTTATTTTATTTTT-ATTTATTTTAGTTGTGTAAA
1 TTTTATTTTATTTTTAATTGATTTTAGTTGTGTAAA
11852844 TTTT-TTTTA-TTTTAATTGAT
1 TTTTATTTTATTTTTAATTGAT
11852864 ATTTCTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
33 15 0.31
34 23 0.48
35 10 0.21
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (36 bp):
TTTTATTTTATTTTTAATTGATTTTAGTTGTGTAAA
Found at i:11861830 original size:24 final size:23
Alignment explanation
Indices: 11861802--11861852 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
11861792 TGAGTAAAAA
*
11861802 ATTCATAGAATATGAGTCCAAGAT
1 ATTCATAGAATATCAGTCCAA-AT
11861826 ATTCATAGAATATCAGTCCAAAT
1 ATTCATAGAATATCAGTCCAAAT
11861849 ATTC
1 ATTC
11861853 CTTATTAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (23 bp):
ATTCATAGAATATCAGTCCAAAT
Found at i:11863926 original size:22 final size:22
Alignment explanation
Indices: 11863912--11863955 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11863902 AAAGAAATAT
*
11863912 AAAAAAATAAAAAAAAATTGAG
1 AAAAAAATAAAAAAAAAATGAG
*
11863934 AAAAAAATAATTAAAAAAATGA
1 AAAAAAATAA-AAAAAAAATGA
11863956 CTCAAATCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (22 bp):
AAAAAAATAAAAAAAAAATGAG
Found at i:11865143 original size:39 final size:38
Alignment explanation
Indices: 11865061--11865201 Score: 201
Period size: 38 Copynumber: 3.7 Consensus size: 38
11865051 CGAGTATTGT
11865061 CCTTATTTTTAAAGTTGTGTGCCTTTGTGTGAATGAGC
1 CCTTATTTTTAAAGTTGTGTGCCTTTGTGTGAATGAGC
**
11865099 CCTTATTTTTAAAGTTGTGTGTTTTTGTGGTGAATGAGC
1 CCTTATTTTTAAAGTTGTGTGCCTTTGT-GTGAATGAGC
* * * *
11865138 CCTTATTTTTAAAGTTATGTGCCTTCGTGTGGATAAGC
1 CCTTATTTTTAAAGTTGTGTGCCTTTGTGTGAATGAGC
* *
11865176 CTTTATTTTTTAAGTTGTGTGCCTTT
1 CCTTATTTTTAAAGTTGTGTGCCTTT
11865202 ATTTTCAAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
38 56 0.62
39 34 0.38
ACGTcount: A:0.18, C:0.12, G:0.22, T:0.48
Consensus pattern (38 bp):
CCTTATTTTTAAAGTTGTGTGCCTTTGTGTGAATGAGC
Found at i:11865557 original size:77 final size:77
Alignment explanation
Indices: 11865469--11865625 Score: 296
Period size: 77 Copynumber: 2.0 Consensus size: 77
11865459 TTATTTATTT
* *
11865469 TATATTTTACTTTTATTGTATCTATCCATGTATATGTTTATCTTGTTTTATATTTATTTATTTTT
1 TATATTTTACTTTTATTGTATCTATCCATGTATATATTTATCTTGTTTTATATTTATTAATTTTT
11865534 ATGTTCTTTATC
66 ATGTTCTTTATC
11865546 TATATTTTACTTTTATTGTATCTATCCATGTATATATTTATCTTGTTTTATATTTATTAATTTTT
1 TATATTTTACTTTTATTGTATCTATCCATGTATATATTTATCTTGTTTTATATTTATTAATTTTT
11865611 ATGTTCTTTATC
66 ATGTTCTTTATC
11865623 TAT
1 TAT
11865626 GTTAAATTGT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.22, C:0.09, G:0.06, T:0.63
Consensus pattern (77 bp):
TATATTTTACTTTTATTGTATCTATCCATGTATATATTTATCTTGTTTTATATTTATTAATTTTT
ATGTTCTTTATC
Found at i:11866661 original size:7 final size:7
Alignment explanation
Indices: 11866651--11866686 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
11866641 TAATTTTTTC
11866651 TTTTATT
1 TTTTATT
11866658 TTTTATT
1 TTTTATT
11866665 TTTTATT
1 TTTTATT
*
11866672 TTTTAAT
1 TTTTATT
*
11866679 TTTAATT
1 TTTTATT
11866686 T
1 T
11866687 ATTTTGGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:11866667 original size:20 final size:20
Alignment explanation
Indices: 11866630--11866691 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
11866620 CGAGCCATTC
*
11866630 CTTTT-TTTTCTTAATTTTTT
1 CTTTTATTTT-TTATTTTTTT
11866650 CTTTTATTTTTTATTTTTTAT
1 CTTTTATTTTTTATTTTTT-T
* * *
11866671 TTTTTAATTTTAATTTATTTT
1 CTTTTATTTTTTATTT-TTTT
11866692 GGTTGGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 13 0.37
21 19 0.54
22 3 0.09
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
CTTTTATTTTTTATTTTTTT
Found at i:11866720 original size:14 final size:13
Alignment explanation
Indices: 11866631--11866725 Score: 66
Period size: 14 Copynumber: 7.0 Consensus size: 13
11866621 GAGCCATTCC
*
11866631 TTTTTTT-TCTTA
1 TTTTTTTATTTTA
* *
11866643 ATTTTTTCTTTTA
1 TTTTTTTATTTTA
*
11866656 TTTTTTATTTTTTA
1 TTTTTT-TATTTTA
*
11866670 TTTTTTAATTTTAA
1 TTTTTTTATTTT-A
* **
11866684 TTTATTTTGGTTGGA
1 TTT-TTTT-ATTTTA
11866699 TTTTTTTATTTTA
1 TTTTTTTATTTTA
11866712 TTTTATTTATTTTA
1 TTTT-TTTATTTTA
11866726 GTTGTGTAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
12 6 0.09
13 20 0.31
14 29 0.45
15 7 0.11
16 2 0.03
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:11866738 original size:24 final size:23
Alignment explanation
Indices: 11866711--11866757 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
11866701 TTTTTATTTT
*
11866711 ATTTTATTTATTTTAGTTGTGTAA
1 ATTTTATTTATTTTAATTG-GTAA
11866735 ATTTTATTTATTTTAATTGGTAA
1 ATTTTATTTATTTTAATTGGTAA
11866758 TTCTTAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.62
Consensus pattern (23 bp):
ATTTTATTTATTTTAATTGGTAA
Found at i:11870336 original size:17 final size:17
Alignment explanation
Indices: 11870310--11870350 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11870300 TCAATTGTGT
*
11870310 TTATAATTAAAGGGAGC
1 TTATATTTAAAGGGAGC
* *
11870327 TTATATTTAAATGGAGG
1 TTATATTTAAAGGGAGC
11870344 TTATATT
1 TTATATT
11870351 GAAAAATTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (17 bp):
TTATATTTAAAGGGAGC
Found at i:11873145 original size:28 final size:27
Alignment explanation
Indices: 11873114--11873172 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
11873104 TATAATATGG
* *
11873114 ATATCATTAACT-TTGTAAAAATATATAA
1 ATATCATTAA-TATTATAAAAATA-AAAA
*
11873142 ATATTATTAATATTATAAAAATAAAAA
1 ATATCATTAATATTATAAAAATAAAAA
11873169 ATAT
1 ATAT
11873173 ATATTAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (27 bp):
ATATCATTAATATTATAAAAATAAAAA
Found at i:11887830 original size:15 final size:15
Alignment explanation
Indices: 11887793--11887836 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
11887783 TTTTTTTAAA
11887793 ATAATTA-TTTATGT
1 ATAATTATTTTATGT
11887807 AT-A-TATTTTATGT
1 ATAATTATTTTATGT
*
11887820 ATAATTATTTTCTGT
1 ATAATTATTTTATGT
11887835 AT
1 AT
11887837 CAGCACGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 2 0.08
13 10 0.38
14 3 0.12
15 11 0.42
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (15 bp):
ATAATTATTTTATGT
Found at i:11890158 original size:6 final size:6
Alignment explanation
Indices: 11890149--11890183 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
11890139 CATATACATA
*
11890149 TATATG TATATG TATATG TATATG TATATA TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
11890184 CTCCAGAGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:11891386 original size:177 final size:177
Alignment explanation
Indices: 11891085--11891432 Score: 651
Period size: 177 Copynumber: 2.0 Consensus size: 177
11891075 TCTCGGCGGG
* *
11891085 TTGTTCAATTCTCAAATGGCCAGGTACTATTTGGTTTCACTCTAGTTTCAGACATGCATTTTTTT
1 TTGTGCAATTCTCAAATGGCAAGGTACTATTTGGTTTCACTCTAGTTTCAGACATGCATTTTTTT
*
11891150 CTGTCTTTAGACACCGGAGGGAAGAAGGTAATTTATTCCTATACCACATAAAATCCACAAAGGTA
66 CTGTCTTTAGACACCAGAGGGAAGAAGGTAATTTATTCCTATACCACATAAAATCCACAAAGGTA
11891215 ATTTATTCCTATTATGTATAGTCTTTTCACAAAAGGTTGTAGGTGGA
131 ATTTATTCCTATTATGTATAGTCTTTTCACAAAAGGTTGTAGGTGGA
11891262 TTGTGCAATTCTCAAATGGCAAGGTACTATTTGGTTTCACTCTAGTTTCAGACATGCATTTTTTT
1 TTGTGCAATTCTCAAATGGCAAGGTACTATTTGGTTTCACTCTAGTTTCAGACATGCATTTTTTT
*
11891327 CTGTCTTTAGACACCAGATGGAAGAAGGTAATTTATTCCTATACCACATAAAATCCACAAAGGTA
66 CTGTCTTTAGACACCAGAGGGAAGAAGGTAATTTATTCCTATACCACATAAAATCCACAAAGGTA
*
11891392 ATTTATTCCTATTATGTGTAGTCTTTTCACAAAAGGTTGTA
131 ATTTATTCCTATTATGTATAGTCTTTTCACAAAAGGTTGTA
11891433 AGAAATTCTG
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
177 166 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (177 bp):
TTGTGCAATTCTCAAATGGCAAGGTACTATTTGGTTTCACTCTAGTTTCAGACATGCATTTTTTT
CTGTCTTTAGACACCAGAGGGAAGAAGGTAATTTATTCCTATACCACATAAAATCCACAAAGGTA
ATTTATTCCTATTATGTATAGTCTTTTCACAAAAGGTTGTAGGTGGA
Found at i:11895504 original size:16 final size:16
Alignment explanation
Indices: 11895485--11895518 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11895475 GTCGGGTCAA
11895485 TTTGAGTTCAGATCAT
1 TTTGAGTTCAGATCAT
* *
11895501 TTTGGGTTCAGTTCAT
1 TTTGAGTTCAGATCAT
11895517 TT
1 TT
11895519 CAAGTTTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.50
Consensus pattern (16 bp):
TTTGAGTTCAGATCAT
Found at i:11896735 original size:22 final size:22
Alignment explanation
Indices: 11896690--11896736 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11896680 TGCCAACAGC
* *
11896690 TTTTTATTATCTTTTCTTACTA
1 TTTTTATTATCTTTTCTGAATA
11896712 TTTTTATTCAT-TTTTCTGAATA
1 TTTTTATT-ATCTTTTCTGAATA
11896734 TTT
1 TTT
11896737 AATAATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTTATTATCTTTTCTGAATA
Found at i:11898721 original size:16 final size:15
Alignment explanation
Indices: 11898652--11898718 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
11898642 TTAAATATTA
11898652 TTAAAAA-AAAATTT
1 TTAAAAATAAAATTT
** *
11898666 TTCGAAATTAAATTAT
1 TTAAAAATAAAATT-T
* *
11898682 TTTAAAATCAAATTT
1 TTAAAAATAAAATTT
*
11898697 TTAATAATAAAATTT
1 TTAAAAATAAAATTT
11898712 TTAAAAA
1 TTAAAAA
11898719 ATACATAAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
14 5 0.12
15 24 0.59
16 12 0.29
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
TTAAAAATAAAATTT
Found at i:11901137 original size:36 final size:35
Alignment explanation
Indices: 11901090--11901172 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 35
11901080 ATTTTGAGTG
* * *
11901090 ATTAGAGGTTGCTACCTTAGCCTAGAAATGTAGAGA
1 ATTAGAGGTTGCTACATTACCCTAGAAAGGTAG-GA
*
11901126 ATTAGAGGTTGCTATATTACCCTAGAAAGGTAGGA
1 ATTAGAGGTTGCTACATTACCCTAGAAAGGTAGGA
*
11901161 AGTGAGAGGTTG
1 A-TTAGAGGTTG
11901173 TATTTTAGCC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
35 3 0.07
36 38 0.93
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.28
Consensus pattern (35 bp):
ATTAGAGGTTGCTACATTACCCTAGAAAGGTAGGA
Found at i:11904220 original size:10 final size:9
Alignment explanation
Indices: 11904207--11904323 Score: 56
Period size: 11 Copynumber: 11.8 Consensus size: 9
11904197 AAAAAAAAAA
11904207 AAAAAACTTT
1 AAAAAA-TTT
11904217 AAAAAAATTTCT
1 -AAAAAA-TT-T
11904229 AAAAAATTTCT
1 AAAAAA-TT-T
*
11904240 AAAAATTTTT
1 AAAAA-ATTT
*
11904250 AAAAATTTT
1 AAAAAATTT
*
11904259 AAAATATTT
1 AAAAAATTT
* *
11904268 TAAAAGTTGT
1 AAAAAATT-T
11904278 GAAAAAATTCT
1 -AAAAAATT-T
11904289 AAAAAAATTTT
1 -AAAAAA-TTT
*
11904300 AAAAACTTT
1 AAAAAATTT
*
11904309 -AAAATTTT
1 AAAAAATTT
11904317 AAAAAAT
1 AAAAAAT
11904324 ATGTAAAATT
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
8 7 0.08
9 24 0.28
10 12 0.14
11 40 0.47
12 3 0.03
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (9 bp):
AAAAAATTT
Found at i:11904254 original size:11 final size:11
Alignment explanation
Indices: 11904207--11904304 Score: 64
Period size: 10 Copynumber: 9.5 Consensus size: 11
11904197 AAAAAAAAAA
* *
11904207 AAAAAACTTTA
1 AAAAAATTTTT
*
11904218 AAAAAATTTCT
1 AAAAAATTTTT
*
11904229 AAAAAATTTCT
1 AAAAAATTTTT
11904240 -AAAAATTTTT
1 AAAAAATTTTT
11904250 -AAAAA-TTTT
1 AAAAAATTTTT
*
11904259 AAAATA-TTTT
1 AAAAAATTTTT
* * *
11904269 -AAAAGTTGTG
1 AAAAAATTTTT
*
11904279 AAAAAA-TTCT
1 AAAAAATTTTT
*
11904289 AAAAAAATTTT
1 AAAAAATTTTT
11904300 AAAAA
1 AAAAA
11904305 CTTTAAAATT
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
9 7 0.10
10 31 0.45
11 31 0.45
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAAATTTTT
Found at i:11904413 original size:20 final size:20
Alignment explanation
Indices: 11904390--11904445 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
11904380 TGTAAAATGT
*
11904390 TTTTTGGAA-TTCTAAAAAA
1 TTTTTGAAATTTCTAAAAAA
*
11904409 ATTTTGAAATTTCTAAAAAA
1 TTTTTGAAATTTCTAAAAAA
* *
11904429 -TTTTAAAATTTATAAAA
1 TTTTTGAAATTTCTAAAA
11904446 GACTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 22 0.69
20 10 0.31
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (20 bp):
TTTTTGAAATTTCTAAAAAA
Found at i:11904439 original size:19 final size:19
Alignment explanation
Indices: 11904399--11904445 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
11904389 TTTTTTGGAA
*
11904399 TTCTAAAAAAATTTTGAAAT
1 TTCT-AAAAAATTTTAAAAT
11904419 TTCTAAAAAATTTTAAAAT
1 TTCTAAAAAATTTTAAAAT
*
11904438 TTATAAAA
1 TTCTAAAA
11904446 GACTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
TTCTAAAAAATTTTAAAAT
Found at i:11904694 original size:19 final size:20
Alignment explanation
Indices: 11904650--11904702 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
11904640 ATTTTGAAAT
*
11904650 TTTAAAAAATATAAAAATGTTA
1 TTTAAAAAATAT--TAATGTTA
11904672 -TTAAAAAATATTAAT-TTA
1 TTTAAAAAATATTAATGTTA
11904690 TTTAAAAAA-ATTA
1 TTTAAAAAATATTA
11904703 TAAAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 7 0.24
19 11 0.38
21 11 0.38
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTTAAAAAATATTAATGTTA
Found at i:11904885 original size:18 final size:18
Alignment explanation
Indices: 11904864--11904913 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
11904854 ATAAAAAATT
11904864 AAAATTGTTAAATTAAAA
1 AAAATTGTTAAATTAAAA
**
11904882 AAAA-TGGCAAACTTTAAAA
1 AAAATTGTTAAA--TTAAAA
11904901 AAAATT-TTAAATT
1 AAAATTGTTAAATT
11904914 TTTTTTACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 13 0.52
20 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (18 bp):
AAAATTGTTAAATTAAAA
Found at i:11904969 original size:21 final size:21
Alignment explanation
Indices: 11904899--11904956 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
11904889 CAAACTTTAA
*
11904899 AAAAAATTTTAAATTTTTTTT-
1 AAAAAA-TTTATATTTTTTTTC
* *
11904920 -ACAATTTTATATTTTTTTTC
1 AAAAAATTTATATTTTTTTTC
11904940 AAAAAATTTATATTTTT
1 AAAAAATTTATATTTTT
11904957 ATTTAAACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (21 bp):
AAAAAATTTATATTTTTTTTC
Found at i:11905168 original size:9 final size:9
Alignment explanation
Indices: 11905126--11905209 Score: 62
Period size: 9 Copynumber: 8.9 Consensus size: 9
11905116 AATTTTGCTT
*
11905126 AAATTTTTT
1 AAATTTTTA
*
11905135 GAATTTTTA
1 AAATTTTTA
* *
11905144 AAA-GTTGA
1 AAATTTTTA
11905152 AGAATTTTTA
1 A-AATTTTTA
11905162 AAATTTTTTA
1 AAA-TTTTTA
11905172 AAATGTTTTA
1 AAAT-TTTTA
11905182 AAACTATTTTA
1 AAA-T-TTTTA
* *
11905193 GAATTTTTG
1 AAATTTTTA
11905202 AAATTTTT
1 AAATTTTT
11905210 TTAATACTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
8 4 0.07
9 25 0.42
10 22 0.37
11 8 0.14
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.52
Consensus pattern (9 bp):
AAATTTTTA
Found at i:11905180 original size:11 final size:10
Alignment explanation
Indices: 11905156--11905226 Score: 70
Period size: 10 Copynumber: 6.9 Consensus size: 10
11905146 AGTTGAAGAA
11905156 TTTTTAAAAT
1 TTTTTAAAAT
11905166 TTTTTAAAAT
1 TTTTTAAAAT
*
11905176 GTTTTAAAACT
1 TTTTTAAAA-T
* *
11905187 ATTTTAGAAT
1 TTTTTAAAAT
* *
11905197 TTTTGAAATT
1 TTTTTAAAAT
*
11905207 TTTTTAATACT
1 TTTTTAA-AAT
11905218 TTTTTAAAA
1 TTTTTAAAA
11905227 ATTAAAATAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
10 32 0.65
11 17 0.35
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:11905198 original size:31 final size:31
Alignment explanation
Indices: 11905157--11905226 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
11905147 GTTGAAGAAT
*
11905157 TTTTAAAATTTTTTAAAATGTTTTAAAACTA
1 TTTTAAAATTTTTGAAAATGTTTTAAAACTA
* * * * *
11905188 TTTTAGAATTTTTGAAATTTTTTTAATACTT
1 TTTTAAAATTTTTGAAAATGTTTTAAAACTA
11905219 TTTTAAAA
1 TTTTAAAA
11905227 ATTAAAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (31 bp):
TTTTAAAATTTTTGAAAATGTTTTAAAACTA
Found at i:11905256 original size:18 final size:17
Alignment explanation
Indices: 11905226--11905259 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11905216 CTTTTTTAAA
*
11905226 AATTAAAATAAAATTAC
1 AATTAAAAAAAAATTAC
11905243 AATTGAAAAAAAAATTA
1 AATT-AAAAAAAAATTA
11905260 AAGTTTTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AATTAAAAAAAAATTAC
Found at i:11908326 original size:17 final size:18
Alignment explanation
Indices: 11908299--11908332 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11908289 TTGTTTCAAA
11908299 AAAAGTTTTTCATTAAGC
1 AAAAGTTTTTCATTAAGC
*
11908317 AAAA-TTTTTCCTTAAG
1 AAAAGTTTTTCATTAAG
11908333 TTTTATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (18 bp):
AAAAGTTTTTCATTAAGC
Found at i:11916343 original size:32 final size:35
Alignment explanation
Indices: 11916266--11916349 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 35
11916256 TGTATTTTTA
* *
11916266 GAAATAAATTTTCAAGA-ATACAGGATAATTCTTG
1 GAAATAAATTTTCAAGAGATACAGAAAAATTCTTG
** *
11916300 GAAATCCATTTTCAAGAGCT-CA-AAAAATTCTT-
1 GAAATAAATTTTCAAGAGATACAGAAAAATTCTTG
11916332 GAAATAAATTTTCAAGAG
1 GAAATAAATTTTCAAGAG
11916350 TTATTTTTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
32 16 0.38
33 8 0.19
34 17 0.40
35 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (35 bp):
GAAATAAATTTTCAAGAGATACAGAAAAATTCTTG
Found at i:11918995 original size:14 final size:14
Alignment explanation
Indices: 11918976--11919003 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11918966 AATAAAATAA
11918976 AGTATATTATATAT
1 AGTATATTATATAT
11918990 AGTATATTATATAT
1 AGTATATTATATAT
11919004 CATTAGTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AGTATATTATATAT
Found at i:11920737 original size:28 final size:28
Alignment explanation
Indices: 11920696--11920756 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
11920686 ATCAGGTTAG
*
11920696 TATG-TTGCATCTGTATTTGCTTTGATC
1 TATGTTTGCACCTGTATTTGCTTTGATC
11920723 TATGTTTGCACCTGTATTTGCTTTGATC
1 TATGTTTGCACCTGTATTTGCTTTGATC
11920751 TATGTT
1 TATGTT
11920757 ATGTTTATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.52
Consensus pattern (28 bp):
TATGTTTGCACCTGTATTTGCTTTGATC
Found at i:11931902 original size:22 final size:22
Alignment explanation
Indices: 11931877--11931920 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11931867 ATTTTCTGTC
11931877 CTTAATTCTAAAAATACAAATA
1 CTTAATTCTAAAAATACAAATA
**
11931899 CTTAATTCTAGGAATACAAATA
1 CTTAATTCTAAAAATACAAATA
11931921 TATACAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAAAAATACAAATA
Found at i:11936158 original size:22 final size:22
Alignment explanation
Indices: 11936133--11936174 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
11936123 TTTGGCGCAA
11936133 ACTAGACCTGACATTGGCTTAC
1 ACTAGACCTGACATTGGCTTAC
11936155 ACTAGACCTGACATTGGCTT
1 ACTAGACCTGACATTGGCTT
11936175 CTCCCTAACT
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:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (22 bp):
ACTAGACCTGACATTGGCTTAC
Found at i:11938545 original size:27 final size:27
Alignment explanation
Indices: 11938475--11938545 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 27
11938465 GGTTAGGTAG
11938475 GTTGAGAATCTAGTTTTGAAGGGATTC
1 GTTGAGAATCTAGTTTTGAAGGGATTC
*
11938502 GTTGAGAAT-TTGATTTTGAAGAGG-TT-
1 GTTGAGAATCTAG-TTTTGAAG-GGATTC
11938528 GATTGAGAATCTAGTTTT
1 G-TTGAGAATCTAGTTTT
11938546 AAAAGGGCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 3 0.08
27 31 0.82
28 4 0.11
ACGTcount: A:0.27, C:0.04, G:0.28, T:0.41
Consensus pattern (27 bp):
GTTGAGAATCTAGTTTTGAAGGGATTC
Found at i:11943589 original size:26 final size:26
Alignment explanation
Indices: 11943560--11943621 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
11943550 TTTCACTACA
*
11943560 ATTCATCTCTATGCTCCACAGTAATG
1 ATTCATCTCTATGCACCACAGTAATG
* * *
11943586 ATTCATCTTTATTCACCATAGTAATG
1 ATTCATCTCTATGCACCACAGTAATG
11943612 ATTCATCTCT
1 ATTCATCTCT
11943622 TGTAAAAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.40
Consensus pattern (26 bp):
ATTCATCTCTATGCACCACAGTAATG
Found at i:11953149 original size:82 final size:82
Alignment explanation
Indices: 11952994--11953153 Score: 203
Period size: 82 Copynumber: 2.0 Consensus size: 82
11952984 ATGGCGAATG
* * *** * *
11952994 GTATATTCTGGAAATGTGCCTCGTGAGGCTGAAGATAGAATAAGTGGTAGAAACACGCTATCTAG
1 GTATATCCTAGAAATGTGCCTCGTGAGGCTGAAGATAGAATAAGAAATAGAAACACGATATATAG
11953059 GGTCCAAAAAGAACTGT
66 GGTCCAAAAAGAACTGT
* * * *
11953076 GTATATCCTAGAAATGTGCCTCGTGTGGCTGAATATCGAATAAGAAATAGAAACACGATTTATAG
1 GTATATCCTAGAAATGTGCCTCGTGAGGCTGAAGATAGAATAAGAAATAGAAACACGATATATAG
* *
11953141 TGTTCAAAAAGAA
66 GGTCCAAAAAGAA
11953154 TAGATTCAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
82 65 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (82 bp):
GTATATCCTAGAAATGTGCCTCGTGAGGCTGAAGATAGAATAAGAAATAGAAACACGATATATAG
GGTCCAAAAAGAACTGT
Found at i:11955366 original size:20 final size:21
Alignment explanation
Indices: 11955325--11955374 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
11955315 ACCCGAATTA
11955325 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
11955346 ATAAAATATTATTTTTT-AAT
1 ATAAAATATTATTTTTTAAAT
11955366 AT-AAATATT
1 ATAAAATATT
11955375 TAAAAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.24
20 5 0.17
21 17 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:11955405 original size:28 final size:29
Alignment explanation
Indices: 11955348--11955405 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
11955338 TTTTAAATAT
* * *
11955348 AAAATATTATTTTTTAATATAAATATTTA
1 AAAATATTATTATATAATATAAATAATTA
*
11955377 AAAATATTATTATAT-ATATAATTAATTA
1 AAAATATTATTATATAATATAAATAATTA
11955405 A
1 A
11955406 TTTAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AAAATATTATTATATAATATAAATAATTA
Found at i:11955897 original size:11 final size:11
Alignment explanation
Indices: 11955875--11955992 Score: 93
Period size: 11 Copynumber: 10.7 Consensus size: 11
11955865 CAAAATAATT
11955875 TCATACAAAATA
1 TCATA-AAAATA
*
11955887 TAATAAAAATA
1 TCATAAAAATA
*
11955898 TTAT-AAAA-A
1 TCATAAAAATA
*
11955907 --ATAAAATTA
1 TCATAAAAATA
*
11955916 TCTTAAAAATAA
1 TCATAAAAAT-A
*
11955928 T-ATACAAATTA
1 TCATA-AAAATA
11955939 TCATAAAAATA
1 TCATAAAAATA
11955950 TCATACAAAAATA
1 TCAT--AAAAATA
*
11955963 TCATAAAAACA
1 TCATAAAAATA
*
11955974 TCATAAATATA
1 TCATAAAAATA
11955985 TCATAAAA
1 TCATAAAA
11955993 TTTATTCAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 19
0.73 0.10 0.16
Matches are distributed among these distances:
7 2 0.02
8 3 0.04
9 2 0.02
10 4 0.05
11 50 0.59
12 13 0.15
13 11 0.13
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (11 bp):
TCATAAAAATA
Found at i:11955947 original size:24 final size:24
Alignment explanation
Indices: 11955909--11955992 Score: 95
Period size: 23 Copynumber: 3.6 Consensus size: 24
11955899 TATAAAAAAT
*
11955909 AAAATTATCTTAAAAATAAT-ATAC
1 AAAATTATCATAAAAAT-ATCATAC
11955933 -AAATTATCATAAAAATATCATAC
1 AAAATTATCATAAAAATATCATAC
* *
11955956 AAAAATATCATAAAAACATCATA-
1 AAAATTATCATAAAAATATCATAC
*
11955979 AATA-TATCATAAAA
1 AAAATTATCATAAAA
11955993 TTTATTCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
22 12 0.22
23 22 0.41
24 20 0.37
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTATCATAAAAATATCATAC
Found at i:11956025 original size:31 final size:33
Alignment explanation
Indices: 11955989--11956068 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
11955979 AATATATCAT
* *
11955989 AAAATTTATTCAAAAATATTATGC-A-AATAAA
1 AAAATTTATGCAAAAATATCATGCAATAATAAA
*
11956020 AAAATTCATGCAAAAAATATCATGCAATAATAAA
1 AAAATTTATGC-AAAAATATCATGCAATAATAAA
11956054 AAAA-TTATGCAAAAA
1 AAAATTTATGCAAAAA
11956069 AAATATCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 9 0.21
32 17 0.40
33 6 0.14
34 10 0.24
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (33 bp):
AAAATTTATGCAAAAATATCATGCAATAATAAA
Found at i:11956045 original size:32 final size:33
Alignment explanation
Indices: 11956000--11956069 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 33
11955990 AAATTTATTC
*
11956000 AAAAATATTATGC-A-AATAAAAAAATTCATGCA
1 AAAAATATCATGCAATAATAAAAAAATT-ATGCA
11956032 AAAAATATCATGCAATAATAAAAAAATTATGCA
1 AAAAATATCATGCAATAATAAAAAAATTATGCA
11956065 AAAAA
1 AAAAA
11956070 AATATCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
32 12 0.34
33 11 0.31
34 12 0.34
ACGTcount: A:0.63, C:0.09, G:0.06, T:0.23
Consensus pattern (33 bp):
AAAAATATCATGCAATAATAAAAAAATTATGCA
Found at i:11956051 original size:13 final size:14
Alignment explanation
Indices: 11956018--11956046 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11956008 TATGCAAATA
11956018 AAAAAAT-TCATGC
1 AAAAAATATCATGC
11956031 AAAAAATATCATGC
1 AAAAAATATCATGC
11956045 AA
1 AA
11956047 TAATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAAAATATCATGC
Found at i:11956082 original size:33 final size:33
Alignment explanation
Indices: 11956014--11956083 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
11956004 ATATTATGCA
11956014 AATAAAAAAATTCATGCAAAAAATATCATGCAAT
1 AATAAAAAAATTCATGCAAAAAATATCAT-CAAT
*
11956048 AATAAAAAAATT-ATGCAAAAAAAAT-ATC-AT
1 AATAAAAAAATTCATGCAAAAAATATCATCAAT
11956078 AATAAA
1 AATAAA
11956084 TATCGTACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
30 8 0.23
31 1 0.03
32 2 0.06
33 12 0.34
34 12 0.34
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.23
Consensus pattern (33 bp):
AATAAAAAAATTCATGCAAAAAATATCATCAAT
Done.