Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 66 of 210
Found at i:23331074 original size:33 final size:33
Alignment explanation
Indices: 23331030--23331220 Score: 170
Period size: 33 Copynumber: 5.8 Consensus size: 33
23331020 CAGCCTACTA
*
23331030 CCACCTCAGTACTCCACTCCTCCCGACTCGTAT
1 CCACCTCAGTACTCCACTCCTCCCGGCTCGTAT
* *
23331063 CCACCTTAGTACTCCACTCCTCCCGGCTTGTAT
1 CCACCTCAGTACTCCACTCCTCCCGGCTCGTAT
** * * * *
23331096 CCACAACAATACTCCACTCTTCCTGGCTTGTAT
1 CCACCTCAGTACTCCACTCCTCCCGGCTCGTAT
* * * ** *
23331129 CCACCTAAGCACTCCACTCATCTTGGC-CTATAT
1 CCACCTCAGTACTCCACTCCTCCCGGCTC-GTAT
* * * *
23331162 CCACAGT-GGTACTCCACTCCTTCCGGCCCGTAT
1 CCAC-CTCAGTACTCCACTCCTCCCGGCTCGTAT
*
23331195 CCACCACAGTACTCCACTCCTCCCGG
1 CCACCTCAGTACTCCACTCCTCCCGG
23331221 TTCAAGTTCA
Statistics
Matches: 124, Mismatches: 30, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
33 122 0.98
34 2 0.02
ACGTcount: A:0.19, C:0.43, G:0.12, T:0.26
Consensus pattern (33 bp):
CCACCTCAGTACTCCACTCCTCCCGGCTCGTAT
Found at i:23331503 original size:73 final size:73
Alignment explanation
Indices: 23331379--23331540 Score: 245
Period size: 73 Copynumber: 2.2 Consensus size: 73
23331369 TCAAACCATC
* * *
23331379 AATTTTAGGGGGTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTTGTC-AT
1 AATTTTA-GGGTTTTTGCAATTTAAATAGTCAACTTTGCATTTATGCAATGACTTTTTT-TCTAT
*
23331443 TTCAGTTATT
64 TTAAGTTATT
*
23331453 AATTTTAGGGTTTTTGCAATTTAAATAGTCAAGTTTGCATTTATGCAATGACTTTTTTTCTATTT
1 AATTTTAGGGTTTTTGCAATTTAAATAGTCAACTTTGCATTTATGCAATGACTTTTTTTCTATTT
*
23331518 AAGTTGTT
66 AAGTTATT
23331526 AATTTTAGGGTTTTT
1 AATTTTAGGGTTTTT
23331541 TTGTATTATT
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
72 2 0.02
73 72 0.89
74 7 0.09
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.51
Consensus pattern (73 bp):
AATTTTAGGGTTTTTGCAATTTAAATAGTCAACTTTGCATTTATGCAATGACTTTTTTTCTATTT
AAGTTATT
Found at i:23334640 original size:18 final size:19
Alignment explanation
Indices: 23334617--23334652 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
23334607 TATCCTTCTT
23334617 TTTGTTCTCCTT-TCTTTC
1 TTTGTTCTCCTTATCTTTC
23334635 TTTGTTCTCCTTATCTTT
1 TTTGTTCTCCTTATCTTT
23334653 TTCCTTCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.03, C:0.25, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTGTTCTCCTTATCTTTC
Found at i:23334908 original size:19 final size:20
Alignment explanation
Indices: 23334884--23334926 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
23334874 AGGCATCGCT
23334884 AATAAAATAA-TATTA-AAAA
1 AATAAAA-AATTATTATAAAA
23334903 AATAAAAAATTATTATAAAA
1 AATAAAAAATTATTATAAAA
23334923 AATA
1 AATA
23334927 GGTGGTGCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.09
19 12 0.55
20 8 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAAAAAATTATTATAAAA
Found at i:23335329 original size:28 final size:27
Alignment explanation
Indices: 23335266--23335329 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
23335256 AACCAACAAT
* * *
23335266 TTATTCTTGTAATTAATTTTTTTTCTA
1 TTATTTTTGTAATTAATTATTTTTATA
* *
23335293 TTACATTTTGTAATTAATTAATTTTTATC
1 TTA-TTTTTGTAATTAATT-ATTTTTATA
23335322 TTATTTTT
1 TTATTTTT
23335330 ATAAAAAAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
27 3 0.10
28 17 0.59
29 9 0.31
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (27 bp):
TTATTTTTGTAATTAATTATTTTTATA
Found at i:23339117 original size:44 final size:44
Alignment explanation
Indices: 23339062--23339920 Score: 367
Period size: 44 Copynumber: 19.3 Consensus size: 44
23339052 GTTGCAAACT
* * * * *
23339062 CAGGGAGGCAAGGTTGGTGTCTTTGATTTGCTTCGCTGTTAGCA
1 CAGGAAGGCAAGATTGGTGTCTTTGATCTGCTTCGCTGTCAGTA
* * * * ***
23339106 CAGGAAGGCAAGATTTGCTATC-TTCAGTCTGCTCCGCTGTCAACC
1 CAGGAAGGCAAGA-TTGGTGTCTTTGA-TCTGCTTCGCTGTCAGTA
* * ** * * *
23339151 CAGGGAGGCATGGCTGGTGTCTTCGATCTGCTTTGCTGGCAGTA
1 CAGGAAGGCAAGATTGGTGTCTTTGATCTGCTTCGCTGTCAGTA
* * * * * * ***
23339195 CAGGAAGGCAAGATCTGCTATC-TTCAGTCTGCTCCACTGTTAACC
1 CAGGAAGGCAAGAT-TGGTGTCTTTGA-TCTGCTTCGCTGTCAGTA
* ** *
23339240 CAGGGAGGCAAGGCTGGTGT-TTTCGATCTGCTTCGCTGTTAGTA
1 CAGGAAGGCAAGATTGGTGTCTTT-GATCTGCTTCGCTGTCAGTA
* * * * *
23339284 CAGGAAGGCAAGATCTGCTATC-TTCAGTCTTCTCCGCTGTCAGTA
1 CAGGAAGGCAAGAT-TGGTGTCTTTGA-TCTGCTTCGCTGTCAGTA
* * * *
23339329 CAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCACTGTCAGTA
1 CAGGAAGGCAAGATTGGTGTCTTTGATCTGCTTCGCTGTCAGTA
* * * * * * ***
23339373 CAGGAAGGCAAGATCTGCTATC-TTCAGTCTGCTCCACTATCAACC
1 CAGGAAGGCAAGAT-TGGTGTCTTTGA-TCTGCTTCGCTGTCAGTA
* ** *
23339418 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
1 CAGGAAGGCAAGATTGGTGTCTTTGATCTGCTTCGCTGTCAGTA
* * * * * * * ***
23339462 TAGGAAGGCAAGATCTGCT-ACCTTCAGTCTACTCCGCTGTCAACC
1 CAGGAAGGCAAGAT-TGGTGTCTTTGA-TCTGCTTCGCTGTCAGTA
* ** *
23339507 CAGGGAA-GCGAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
1 CA-GGAAGGCAAGATTGGTGTCTTTGATCTGCTTCGCTGTCAGTA
* * * * * * ***
23339551 TAGGAAGGCAATATCTGCTATC-TTCAGTCTGCTTCGCTGTTAACC
1 CAGGAAGGCAAGAT-TGGTGTCTTTGA-TCTGCTTCGCTGTCAGTA
* ** *
23339596 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
1 CAGGAAGGCAAGATTGGTGTCTTTGATCTGCTTCGCTGTCAGTA
* * * * * *
23339640 AAGGAAGGCAAGATCTGCTATC-TTCAGTCTTCTTTGCTGTCAGTA
1 CAGGAAGGCAAGAT-TGGTGTCTTTGA-TCTGCTTCGCTGTCAGTA
** *
23339685 CAAGG-AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
1 C-AGGAAGGCAAGATTGGTGTCTTTGATCTGCTTCGCTGTCAGTA
* * * * * *
23339729 CAGGAAGGAAAGATTTGCTATC-TTCAGTCTGCTCCGCTGTCA-AA
1 CAGGAAGGCAAGA-TTGGTGTCTTTGA-TCTGCTTCGCTGTCAGTA
* ** * *
23339773 CTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCAGTA
1 C-AGGAAGGCAAGATTGGTGTCTTTGATCTGCTTCGCTGTCAGTA
* * * * * * * * ***
23339818 TAGGAAGGCAATATTTGCTATC-TTCAGTATGCTCCGTTGTCAACC
1 CAGGAAGGCAAGA-TTGGTGTCTTTGA-TCTGCTTCGCTGTCAGTA
* ** * * *
23339863 CAGGGAGGCAAGGCTGGTGTCTTTGACCTGCTTCACTGTTAGTA
1 CAGGAAGGCAAGATTGGTGTCTTTGATCTGCTTCGCTGTCAGTA
23339907 CAGGAAGGCAAGAT
1 CAGGAAGGCAAGAT
23339921 CCGCTATCTT
Statistics
Matches: 558, Mismatches: 222, Indels: 70
0.66 0.26 0.08
Matches are distributed among these distances:
43 7 0.01
44 277 0.50
45 267 0.48
46 7 0.01
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (44 bp):
CAGGAAGGCAAGATTGGTGTCTTTGATCTGCTTCGCTGTCAGTA
Found at i:23339135 original size:89 final size:89
Alignment explanation
Indices: 23338986--23339932 Score: 1311
Period size: 89 Copynumber: 10.6 Consensus size: 89
23338976 GGAGACAGAA
* * * * * * * *
23338986 CTGGTATCTTCGATCTGCTTTGCTGTCAATACAGGAAGGCAAGATTTGTTATTTTTAGTCTGTTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* *
23339051 CGTTG-CAAACTCAGGGAGGCAAGG
66 CGCTGTC-AACCCAGGGAGGCAAGG
* * * * * *
23339075 TTGGTGTCTTTGATTTGCTTCGCTGTTAGCACAGGAAGGCAAGATTTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
23339140 CGCTGTCAACCCAGGGAGGCATGG
66 CGCTGTCAACCCAGGGAGGCAAGG
* *
23339164 CTGGTGTCTTCGATCTGCTTTGCTGGCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* *
23339229 CACTGTTAACCCAGGGAGGCAAGG
66 CGCTGTCAACCCAGGGAGGCAAGG
* * *
23339253 CTGGTGTTTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTTCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*** *
23339318 CGCTGTCAGTACAGGGAGGCAAGA
66 CGCTGTCAACCCAGGGAGGCAAGG
*
23339342 CTGGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* *
23339407 CACTATCAACCCAGGGAGGCAAGG
66 CGCTGTCAACCCAGGGAGGCAAGG
* * *
23339431 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTGCTACCTTCAGTCTACTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* *
23339496 CGCTGTCAACCCAGGGAAGCGAGG
66 CGCTGTCAACCCAGGGAGGCAAGG
* * *
23339520 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTATAGGAAGGCAATATCTGCTATCTTCAGTCTGCTT
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
23339585 CGCTGTTAACCCAGGGAGGCAAGG
66 CGCTGTCAACCCAGGGAGGCAAGG
* * *
23339609 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTAAAGGAAGGCAAGATCTGCTATCTTCAGTCTTCTT
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* *** *
23339674 TGCTGTCAGTACAAGGAGGCAAGG
66 CGCTGTCAACCCAGGGAGGCAAGG
* *
23339698 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGAAAGATTTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* *
23339763 CGCTGTCAAACTAGGGAGGCAAGG
66 CGCTGTCAACCCAGGGAGGCAAGG
* * * * *
23339787 CTGGTGTCTTCGATCTGCTTCGCTATCAGTATAGGAAGGCAATATTTGCTATCTTCAGTATGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
23339852 CGTTGTCAACCCAGGGAGGCAAGG
66 CGCTGTCAACCCAGGGAGGCAAGG
* * * * *
23339876 CTGGTGTCTTTGACCTGCTTCACTGTTAGTACAGGAAGGCAAGATCCGCTATCTTCA
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
23339933 CTGATCTGTT
Statistics
Matches: 758, Mismatches: 99, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
89 757 1.00
90 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (89 bp):
CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
CGCTGTCAACCCAGGGAGGCAAGG
Found at i:23341782 original size:13 final size:12
Alignment explanation
Indices: 23341743--23341802 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 12
23341733 CCTGTAGAGG
23341743 TTTTTG-TTTGT
1 TTTTTGTTTTGT
* *
23341754 TTTTTGTTCCTAT
1 TTTTTGTT-TTGT
23341767 TTTTTGCTTTTGT
1 TTTTTG-TTTTGT
23341780 TTTTTGTTTT-T
1 TTTTTGTTTTGT
*
23341791 TTGTTTTTTTTG
1 TT-TTTGTTTTG
23341803 ATCGAATCTG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
11 9 0.23
12 12 0.31
13 16 0.41
14 2 0.05
ACGTcount: A:0.02, C:0.05, G:0.13, T:0.80
Consensus pattern (12 bp):
TTTTTGTTTTGT
Found at i:23347532 original size:357 final size:356
Alignment explanation
Indices: 23346861--23347549 Score: 1306
Period size: 357 Copynumber: 1.9 Consensus size: 356
23346851 AGCACAAAAG
23346861 TATATATACATAAAAATTTAAAAAATATATCATAAAAATAAAATTATTAAAAATATATAGATAAT
1 TATATATACATAAAAATTTAAAAAATATATCATAAAAATAAAATTATTAAAAATATATAGATAAT
23346926 ATTAGATTAACATACTAATATATTAGATAAGAAAAAGAATTAAAATAACAGTATATAATAAAGTA
66 ATTAGATTAACATACTAATATATTAGATAAGAAAAAGAATTAAAATAACAGTATATAATAAAGTA
*
23346991 ATTTACATATATAAAAAGAGTAAATATGTGAACTAATGTAATAGTAATACCAATATAACAAAAGT
131 ATCTACATATATAAAAAGAGTAAATATGTGAACTAATGTAATAGTAATACCAATATAACAAAAGT
*
23347056 AATAATAATGAACTAAATAATTTTATAGCAATAATAACAAAACAGAGGACTAAATTGGGATTACA
196 AATAATAATGAACTAAATAATTTTATAGAAATAATAACAAAACAGAGGACTAAATTGGGATTACA
23347121 ACAGTAATTCAGGGGAGGAATCTAAAATAAATAAAAGGAAAAGTTCAAATTACAAAACGCGAATA
261 ACAGTAATTCAGGGGAGGAATCTAAAATAAATAAAAGGAAAAGTTCAAATTACAAAACGCGAATA
23347186 ACATGGGATTTTTAAAGCACAAAAGTATATA
326 ACATGGGATTTTTAAAGCACAAAAGTATATA
* * *
23347217 TATATATATATATAAATTTTAAAAAATGTATCATAAAAATAAAATTATTAAAAATATATAGATAA
1 TATATATACATA-AAAATTTAAAAAATATATCATAAAAATAAAATTATTAAAAATATATAGATAA
*
23347282 TATTAGATTAACATACTAATATATTAGATAAGAAAAATAATTAAAATAACAGTATATAATAAAGT
65 TATTAGATTAACATACTAATATATTAGATAAGAAAAAGAATTAAAATAACAGTATATAATAAAGT
*
23347347 AATCTACGTATATAAAAAGAGTAAATATGTGAACTAATGTAATAGTAATACCAATATAACAAAAG
130 AATCTACATATATAAAAAGAGTAAATATGTGAACTAATGTAATAGTAATACCAATATAACAAAAG
23347412 TAATAATAATGAACTAAATAATTTTATAGAAATAATAACAAAACAGAGGACTAAATTGGGATTAC
195 TAATAATAATGAACTAAATAATTTTATAGAAATAATAACAAAACAGAGGACTAAATTGGGATTAC
23347477 AACAGTAATTCAGGGGAGGAATCTAAAATAAATAAAAGGAAAAGTTCAAATTACAAAACGCGAAT
260 AACAGTAATTCAGGGGAGGAATCTAAAATAAATAAAAGGAAAAGTTCAAATTACAAAACGCGAAT
23347542 AACATGGG
325 AACATGGG
23347550 GGCTGAAAGG
Statistics
Matches: 325, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
356 11 0.03
357 314 0.97
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (356 bp):
TATATATACATAAAAATTTAAAAAATATATCATAAAAATAAAATTATTAAAAATATATAGATAAT
ATTAGATTAACATACTAATATATTAGATAAGAAAAAGAATTAAAATAACAGTATATAATAAAGTA
ATCTACATATATAAAAAGAGTAAATATGTGAACTAATGTAATAGTAATACCAATATAACAAAAGT
AATAATAATGAACTAAATAATTTTATAGAAATAATAACAAAACAGAGGACTAAATTGGGATTACA
ACAGTAATTCAGGGGAGGAATCTAAAATAAATAAAAGGAAAAGTTCAAATTACAAAACGCGAATA
ACATGGGATTTTTAAAGCACAAAAGTATATA
Found at i:23348743 original size:12 final size:12
Alignment explanation
Indices: 23348706--23348744 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
23348696 TAAAAAAGTA
23348706 TTTTAAAA-ATAT
1 TTTTAAAATAT-T
23348718 TTTTAAAATA-T
1 TTTTAAAATATT
23348729 TTTTAAAATATT
1 TTTTAAAATATT
23348741 TTTT
1 TTTT
23348745 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.44
12 13 0.52
13 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTAAAATATT
Found at i:23348755 original size:11 final size:11
Alignment explanation
Indices: 23348675--23348743 Score: 79
Period size: 11 Copynumber: 6.4 Consensus size: 11
23348665 CCCATTTTTA
23348675 TTTTAAAA-A-
1 TTTTAAAATAT
*
23348684 TTTTAAAAAAT
1 TTTTAAAATAT
**
23348695 TTAAAAAAGTAT
1 TTTTAAAA-TAT
*
23348707 TTTAAAAATAT
1 TTTTAAAATAT
23348718 TTTTAAAATAT
1 TTTTAAAATAT
23348729 TTTTAAAATAT
1 TTTTAAAATAT
23348740 TTTT
1 TTTT
23348744 TTTTAAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
9 8 0.15
10 1 0.02
11 34 0.65
12 9 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:23353778 original size:15 final size:16
Alignment explanation
Indices: 23353758--23353788 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23353748 TCCTTGTAAC
23353758 TTGTTTG-AATTTTTT
1 TTGTTTGAAATTTTTT
23353773 TTGTTTGAAATTTTTT
1 TTGTTTGAAATTTTTT
23353789 ATCTATAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (16 bp):
TTGTTTGAAATTTTTT
Found at i:23356199 original size:9 final size:10
Alignment explanation
Indices: 23356172--23356197 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
23356162 GTAGGTTCGT
23356172 AAAAAAATTG
1 AAAAAAATTG
23356182 AAAAAAATTG
1 AAAAAAATTG
23356192 AAAAAA
1 AAAAAA
23356198 TTTCGAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:23357076 original size:18 final size:19
Alignment explanation
Indices: 23357048--23357102 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
23357038 ATGAAAAGGA
23357048 AAAAGAGATTGAAAAAGATG
1 AAAAGA-ATTGAAAAAGATG
* *
23357068 ATAA-AATTGAAAGAGA-G
1 AAAAGAATTGAAAAAGATG
*
23357085 AAAAGAATCGAAAAAGAT
1 AAAAGAATTGAAAAAGAT
23357103 TGTGAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 4 0.14
18 20 0.71
19 1 0.04
20 3 0.11
ACGTcount: A:0.62, C:0.02, G:0.22, T:0.15
Consensus pattern (19 bp):
AAAAGAATTGAAAAAGATG
Found at i:23361243 original size:51 final size:50
Alignment explanation
Indices: 23361167--23361357 Score: 183
Period size: 51 Copynumber: 3.8 Consensus size: 50
23361157 CCGGTTCATA
* *
23361167 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATAAATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTAAA-G
* ** *** *
23361218 TAGTAGCCTACACATAGTACTACACACGTGAGGGA-GGTTATCCGGT-ACG
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCACTATCCGGTAAAG
* * *
23361267 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACAAG
1 --TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTA-AAG
*
23361319 TAGTAGCCTGTACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
23361358 TTCACTTTCA
Statistics
Matches: 111, Mismatches: 21, Indels: 17
0.74 0.14 0.11
Matches are distributed among these distances:
49 5 0.05
50 37 0.33
51 66 0.59
52 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTAAAG
Found at i:23361373 original size:101 final size:102
Alignment explanation
Indices: 23361157--23361349 Score: 239
Period size: 102 Copynumber: 1.9 Consensus size: 102
23361147 ATTAATGATA
* *
23361157 CCGGTTCATATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATAAATGTAGT
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATAAATGTAGT
** **
23361222 AGCCTACACATAGTACTACACACGTGAGGGAGGTTAT
66 AGCCTACACATAGTACTACACACGTGAGCCAACTTAT
* * * *
23361259 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACAA-GTA
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATA-AATGTA
**
23361321 GTAGCCTGTACATAGTACTACACACGTGA
64 GTAGCCTACACATAGTACTACACACGTGA
23361350 CCATCACTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
101 35 0.43
102 42 0.52
103 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATAAATGTAGT
AGCCTACACATAGTACTACACACGTGAGCCAACTTAT
Found at i:23365183 original size:40 final size:41
Alignment explanation
Indices: 23365139--23365295 Score: 149
Period size: 41 Copynumber: 3.8 Consensus size: 41
23365129 TGTGATTCGA
* ** *
23365139 AATAGCTTCGGCTATTTATGGCACTTAGTGTGCA-TTTGGG
1 AATAGCTTCGGCTATATATGGCACTTAGTGTGCAGACTGAG
* *
23365179 AATAGCTTTGGCTATATATGGCACTTAGTGTGTGAGACTGAG
1 AATAGCTTCGGCTATATATGGCACTTAGTGTG-CAGACTGAG
* * * *
23365221 -ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGA-TTAT
1 AATAGCTTCGGCTATATATGGCACTTAGTGTGC-AGACTGAG
* * *
23365261 AATAGCTTCGGCTATACGATGGTATTTAGTGTGCA
1 AATAGCTTCGGCTATA-TATGGCACTTAGTGTGCA
23365296 AAACATTGAG
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
40 32 0.34
41 47 0.49
42 16 0.17
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.34
Consensus pattern (41 bp):
AATAGCTTCGGCTATATATGGCACTTAGTGTGCAGACTGAG
Found at i:23377483 original size:27 final size:27
Alignment explanation
Indices: 23377453--23377583 Score: 163
Period size: 27 Copynumber: 4.9 Consensus size: 27
23377443 TAAATTATCG
* **
23377453 AAATACCCCCATAGATTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACCA
* * **
23377480 AAATACCCCTATAGGGTAAGATAACTG
1 AAATACCCCTATAGGGTAAAATGACCA
* *
23377507 AAATACGCCTATAGGGTAAAATGACTA
1 AAATACCCCTATAGGGTAAAATGACCA
*
23377534 AAATACCCATATAGGGTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACCA
*
23377561 AAATACCCCCATAGGGTAAAATG
1 AAATACCCCTATAGGGTAAAATG
23377584 GGTGTTATAC
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACCA
Found at i:23378020 original size:27 final size:27
Alignment explanation
Indices: 23377935--23378025 Score: 114
Period size: 28 Copynumber: 3.4 Consensus size: 27
23377925 ATGGCACTGT
*
23377935 ACTGTTACTGTATTGGCTAAGGCCCAC
1 ACTGTTACTGTATGGGCTAAGGCCCAC
* * *
23377962 ACTATTACTGCATTGGGCTAAGGCTCAC
1 ACTGTTACTGTA-TGGGCTAAGGCCCAC
23377990 ACTGTTACTGTATCGGGCT-AGGCCCAC
1 ACTGTTACTGTAT-GGGCTAAGGCCCAC
23378017 ACTG-TACTG
1 ACTGTTACTG
23378026 ATACTGAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
26 5 0.09
27 22 0.40
28 28 0.51
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (27 bp):
ACTGTTACTGTATGGGCTAAGGCCCAC
Found at i:23378040 original size:32 final size:34
Alignment explanation
Indices: 23377990--23378059 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 34
23377980 TAAGGCTCAC
* * *
23377990 ACTGTTACTGTATCGGGCT-AGGCCCACACTG-T
1 ACTGATACTGAATAGGGCTCAGGCCCACACTGTT
* *
23378022 ACTGATACTGAATAGGGCTCGGGCCCAGACTGTT
1 ACTGATACTGAATAGGGCTCAGGCCCACACTGTT
23378056 ACTG
1 ACTG
23378060 CATGTTGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 16 0.52
33 10 0.32
34 5 0.16
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.26
Consensus pattern (34 bp):
ACTGATACTGAATAGGGCTCAGGCCCACACTGTT
Found at i:23378864 original size:17 final size:16
Alignment explanation
Indices: 23378837--23378869 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
23378827 TAGTTAGACT
23378837 AAACTGAGACTGTAGG
1 AAACTGAGACTGTAGG
23378853 AAACTGGAGACTGTAGG
1 AAACT-GAGACTGTAGG
23378870 GAGACTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.36, C:0.12, G:0.33, T:0.18
Consensus pattern (16 bp):
AAACTGAGACTGTAGG
Found at i:23385332 original size:23 final size:23
Alignment explanation
Indices: 23385299--23385396 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
23385289 ATAAGTGCCA
23385299 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
23385322 CACTGATATGTAGCCGTAA-CTAC
1 CACTGAAATGTAGCCG-AAGCTAC
*
23385345 CACTGAAATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
23385368 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
23385391 CACTGA
1 CACTGA
23385397 TCAATAACAC
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
22 1 0.01
23 66 0.96
24 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:23387330 original size:27 final size:27
Alignment explanation
Indices: 23387214--23387318 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
23387204 AATAAATGAT
* * * *
23387214 CGAAATGCCCCTATAGAGTAAAATTAC
1 CGAAATACCCCCATAGGGTAAAATAAC
* * * * *
23387241 TGAAATGCCCCTATAGGGTAAGATGAC
1 CGAAATACCCCCATAGGGTAAAATAAC
23387268 CGAAATACCCCCATAGGGTAAAATAAC
1 CGAAATACCCCCATAGGGTAAAATAAC
23387295 CGAAATACCCCCATAGGGTAAAAT
1 CGAAATACCCCCATAGGGTAAAAT
23387319 GAGTGTTATA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (27 bp):
CGAAATACCCCCATAGGGTAAAATAAC
Found at i:23387330 original size:54 final size:54
Alignment explanation
Indices: 23387207--23387320 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
23387197 AGCTGTCAAT
* * * * * * *
23387207 AAATGATCGAAATGCCCCTATAGAGTAAAATTACTGAAATGCCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGAGTAAAATAACCGAAATACCCCCATAGGGTA
* *
23387261 AGATGACCGAAATACCCCCATAGGGTAAAATAACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGAGTAAAATAACCGAAATACCCCCATAGGGTA
23387315 AAATGA
1 AAATGA
23387321 GTGTTATACC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (54 bp):
AAATGACCGAAATACCCCCATAGAGTAAAATAACCGAAATACCCCCATAGGGTA
Found at i:23387564 original size:26 final size:26
Alignment explanation
Indices: 23387511--23387565 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
23387501 TTTGCCACAT
* *
23387511 ATACTGTTACTGGCAGCTTCACTGCG
1 ATACTATTACTGGCAGCTTCACTACG
* **
23387537 ATACTATTATTGGCAGCTTTGCTACG
1 ATACTATTACTGGCAGCTTCACTACG
23387563 ATA
1 ATA
23387566 TTGGTGTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTCACTACG
Found at i:23387741 original size:28 final size:28
Alignment explanation
Indices: 23387668--23387759 Score: 107
Period size: 28 Copynumber: 3.4 Consensus size: 28
23387658 ATGGCACTGT
* *
23387668 ACTGTTACTATATTGGGATAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* * *
23387696 ACTATTACTGCATTGGGCTAAGGCTCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* *
23387724 ACTGTTACTGTATCGGGCT-AGGCCCAT
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
23387751 ACTG-TACTG
1 ACTGTTACTG
23387760 ATACTGAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.09
27 10 0.19
28 39 0.72
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:23409367 original size:41 final size:41
Alignment explanation
Indices: 23409310--23409394 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
23409300 TTTAAAATTG
*
23409310 TTTCAAAAGTTTCTAAGAGTTCAAAGTAGATATTCAAAGTT
1 TTTCAAAAGTTTCTAAGAGTTCAAAGTAGATAGTCAAAGTT
23409351 TTTCAAAAGTTTCTAAGAGTTCAAAGTAGATAGTCAAAGTT
1 TTTCAAAAGTTTCTAAGAGTTCAAAGTAGATAGTCAAAGTT
23409392 TTT
1 TTT
23409395 ATCTCTTAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (41 bp):
TTTCAAAAGTTTCTAAGAGTTCAAAGTAGATAGTCAAAGTT
Found at i:23414505 original size:25 final size:25
Alignment explanation
Indices: 23414477--23414529 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
23414467 ATCTTCCTGT
* *
23414477 TATTTAGCTCTTATGAGCATCCCGA
1 TATTTAGCTCTCACGAGCATCCCGA
* * *
23414502 TATTTGGTTCTCACGAGCATTCCGA
1 TATTTAGCTCTCACGAGCATCCCGA
23414527 TAT
1 TAT
23414530 CTGGATCTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (25 bp):
TATTTAGCTCTCACGAGCATCCCGA
Found at i:23414538 original size:25 final size:25
Alignment explanation
Indices: 23414491--23414553 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
23414481 TAGCTCTTAT
* * *
23414491 GAGCATCCCGATATTTGGTTCTCAC
1 GAGCATTCCGATATCTGGATCTCAC
**
23414516 GAGCATTCCGATATCTGGATCTCTT
1 GAGCATTCCGATATCTGGATCTCAC
*
23414541 GAGCTTTCCGATA
1 GAGCATTCCGATA
23414554 AATGGCTCGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
GAGCATTCCGATATCTGGATCTCAC
Found at i:23423348 original size:2 final size:2
Alignment explanation
Indices: 23423341--23423371 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23423331 AAGAAATTGA
23423341 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
23423372 TTCCTATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:23424812 original size:5 final size:5
Alignment explanation
Indices: 23424802--23424826 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23424792 GGTAAGTTCG
23424802 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
23424827 CAATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:23425025 original size:45 final size:45
Alignment explanation
Indices: 23424929--23425073 Score: 152
Period size: 45 Copynumber: 3.2 Consensus size: 45
23424919 ATCAAACGAG
*
23424929 TAAGACCATAGTTGAAAGACACTAACTATGGCACTATACCGGAAATAAA
1 TAAGACCATAGTTGAAAGACA-T---TATGGCACTATACCAGAAATAAA
* * *
23424978 TAAGACCATAGTTGAAGGACATTATGGCACTATACTAG-AATCGAA
1 TAAGACCATAGTTGAAAGACATTATGGCACTATACCAGAAAT-AAA
* **
23425023 TAAGACCATAGTTGAAAGACACTATGGCA-TCATGTCAG-AATAAA
1 TAAGACCATAGTTGAAAGACATTATGGCACT-ATACCAGAAATAAA
23425067 TAAGACC
1 TAAGACC
23425074 GGGGATGAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
44 13 0.15
45 50 0.60
48 1 0.01
49 20 0.24
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACATTATGGCACTATACCAGAAATAAA
Found at i:23428195 original size:15 final size:15
Alignment explanation
Indices: 23428175--23428204 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23428165 AATTGGATTA
*
23428175 AGAAAATTATTTAAT
1 AGAAAATTAATTAAT
23428190 AGAAAATTAATTAAT
1 AGAAAATTAATTAAT
23428205 TTAATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AGAAAATTAATTAAT
Found at i:23431675 original size:7 final size:7
Alignment explanation
Indices: 23431658--23431686 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
23431648 TTCAACAAGC
23431658 AAAAT-A
1 AAAATAA
23431664 AAAATAA
1 AAAATAA
23431671 AAAATAA
1 AAAATAA
23431678 AAAATAA
1 AAAATAA
23431685 AA
1 AA
23431687 GAAGAAGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:23431781 original size:1 final size:1
Alignment explanation
Indices: 23431775--23431845 Score: 142
Period size: 1 Copynumber: 71.0 Consensus size: 1
23431765 TTGGATAAAC
23431775 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23431840 TTTTTT
1 TTTTTT
23431846 GTTTCCCCTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:23440260 original size:33 final size:33
Alignment explanation
Indices: 23440218--23440285 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
23440208 GGAGGGGTAA
23440218 GTATGAGATTCCATCTATTCGGGTAATAGAGCT
1 GTATGAGATTCCATCTATTCGGGTAATAGAGCT
23440251 GTATGAGATTCCATCTATTCGGGTAATAGAGCT
1 GTATGAGATTCCATCTATTCGGGTAATAGAGCT
23440284 GT
1 GT
23440286 TCAGGAGTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (33 bp):
GTATGAGATTCCATCTATTCGGGTAATAGAGCT
Found at i:23442953 original size:93 final size:93
Alignment explanation
Indices: 23442835--23443047 Score: 329
Period size: 93 Copynumber: 2.3 Consensus size: 93
23442825 AGCCTTGTTA
*
23442835 TCTTTAGCTTTACTGATCTTCTTCTTGTTCTTCTTCTCGGTTTTCTCTTCGACAACTTCCGGAAT
1 TCTTTAGCTTTACTGATCTTCTTCTTGTTCTTCTTCTCGGTTTTCTCTTCGACAACTTCCGAAAT
** *
23442900 TTGTGAATCCC-TTGGAGGTTCAACAGAT
66 TAATGAA-CCCTTTGGACGTTCAACAGAT
* * * *
23442928 TCTTCAGCTTTACTGATCTTTTTCTTGTTCTTCTTCTCTGTTTTCTCTTGGACAACTTCCGAAAT
1 TCTTTAGCTTTACTGATCTTCTTCTTGTTCTTCTTCTCGGTTTTCTCTTCGACAACTTCCGAAAT
23442993 TAATGAACCCTTTGGACGTTCAACAGAT
66 TAATGAACCCTTTGGACGTTCAACAGAT
*
23443021 TCTTTAGCTTTGCTGATCTTCTTCTTG
1 TCTTTAGCTTTACTGATCTTCTTCTTG
23443048 GTTTTCTCTT
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 3 0.03
93 105 0.97
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.46
Consensus pattern (93 bp):
TCTTTAGCTTTACTGATCTTCTTCTTGTTCTTCTTCTCGGTTTTCTCTTCGACAACTTCCGAAAT
TAATGAACCCTTTGGACGTTCAACAGAT
Found at i:23452240 original size:69 final size:69
Alignment explanation
Indices: 23451665--23452329 Score: 548
Period size: 69 Copynumber: 9.6 Consensus size: 69
23451655 ACAACATTTA
* *
23451665 TGTCATATTAAGGCTC-TCGGGATAAAAATCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
1 TGTCATATTAAGGCTCGT-AGGATAAAAATCACAGCCTCCAACACAGTTAGTGAGAGCAAAGCTC
23451729 CCAAC
65 CCAAC
* * * ** * * *
23451734 TATCTTATTAAGGCTCGTAGG-TGAAGAGCCATAGCCTTCAACACAGTTAGTGAGAGTAAAGCTC
1 TGTCATATTAAGGCTCGTAGGAT-AAAAATCACAGCCTCCAACACAGTTAGTGAGAGCAAAGCTC
*
23451798 CCAGC
65 CCAAC
* * * * * * * *
23451803 TGTCATATTAAGGCTTGTAGG-TGAAGAGTTATAGTCTTCAACACAGTTAGTGAGAGTAAAGCTC
1 TGTCATATTAAGGCTCGTAGGAT-AAAAATCACAGCCTCCAACACAGTTAGTGAGAGCAAAGCTC
*
23451867 CCAGC
65 CCAAC
* * * * * * *
23451872 TGTCATATTAAGGCTTGTAGG-TGAAGAGTTATAGTCTTCAACACAGTTAGTGAGAGCAAAGCTC
1 TGTCATATTAAGGCTCGTAGGAT-AAAAATCACAGCCTCCAACACAGTTAGTGAGAGCAAAGCTC
*
23451936 CCAGC
65 CCAAC
* * * * * ** * *
23451941 TGTTATATTAAGGCTCGTAAGATAAAAATCACAGCCTCTAATATAGTTAGCAAGAGTAAAGTTCC
1 TGTCATATTAAGGCTCGTAGGATAAAAATCACAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCC
**
23452006 CAGTT
66 CA-AC
* * * * * * *
23452011 TGTCATATTAAAGCTCGTAGGATAAAAA-CTGCAGTCTCTAATATAGCTAGTGAGAGCAAAGCTC
1 TGTCATATTAAGGCTCGTAGGATAAAAATC-ACAGCCTCCAACACAGTTAGTGAGAGCAAAGCTC
23452075 CCAAC
65 CCAAC
** * * * * * * *
23452080 TGTCATATTAAAACTCGCAGGATAAAAACCACAACCTCCAACATAGTTAGCGAAAGCAAAGCTCT
1 TGTCATATTAAGGCTCGTAGGATAAAAATCACAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCC
*
23452145 CAGC
66 CAAC
* * * ** * * *
23452149 AGTCATACTAAGGCTCGCAGGATAAAAATCGTAGCCTCCAATATAGTTAGTGAGAGTAAAGCTCC
1 TGTCATATTAAGGCTCGTAGGATAAAAATCACAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCC
23452214 CAAC
66 CAAC
* * **** * * *
23452218 TGTCATATTAAGGCTCGTAGGATATAAACCGTTTCTTCCAACACAGTTAGCGAGAGCAAAACTCC
1 TGTCATATTAAGGCTCGTAGGATAAAAATCACAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCC
23452283 CAAC
66 CAAC
* * * *
23452287 TGCCATACTAAGGCTCGCAGGATAAAGATCACAGCCTCCAACA
1 TGTCATATTAAGGCTCGTAGGATAAAAATCACAGCCTCCAACA
23452330 TAATTTACGA
Statistics
Matches: 492, Mismatches: 98, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
68 1 0.00
69 433 0.88
70 58 0.12
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (69 bp):
TGTCATATTAAGGCTCGTAGGATAAAAATCACAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCC
CAAC
Found at i:23456332 original size:3 final size:3
Alignment explanation
Indices: 23456326--23456360 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
23456316 TTCCCCTTTC
* *
23456326 TCT TCT TCT TCT TCT TTT TTT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
23456361 CCAACAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:23456785 original size:23 final size:24
Alignment explanation
Indices: 23456741--23456786 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
23456731 GACGCCAATT
*
23456741 TTGTTTTATGAATCATATATATTA
1 TTGTTTTATGAATAATATATATTA
23456765 TTGTTTTATGAA-AATATATATT
1 TTGTTTTATGAATAATATATATT
23456787 GCAATTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (24 bp):
TTGTTTTATGAATAATATATATTA
Found at i:23457038 original size:9 final size:9
Alignment explanation
Indices: 23457024--23457054 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23457014 GTTAAACGAA
23457024 TCGAGTTAT
1 TCGAGTTAT
*
23457033 TCGAGTTAA
1 TCGAGTTAT
23457042 TCGAGTTAT
1 TCGAGTTAT
23457051 TCGA
1 TCGA
23457055 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:23457125 original size:9 final size:9
Alignment explanation
Indices: 23457108--23457144 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
23457098 TGAGTTTTCG
23457108 AATTCGAAT
1 AATTCGAAT
*
23457117 AACTCGAAT
1 AATTCGAAT
23457126 AATTCGAAT
1 AATTCGAAT
23457135 AATTCGAAT
1 AATTCGAAT
23457144 A
1 A
23457145 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23462946 original size:38 final size:39
Alignment explanation
Indices: 23462871--23462947 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 39
23462861 TGGTGAAAAG
23462871 ATAAAAAAAATTGAAAAAGTTACATCAACATAAAACTAAT
1 ATAAAAAAAATTGAAAAAGTTACATCAACAT-AAACTAAT
*
23462911 ATAAAAAAATTTGAAAAAGTTACATCAACAT-AACTAA
1 ATAAAAAAAATTGAAAAAGTTACATCAACATAAACTAA
23462948 CTTCCCAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 6 0.17
40 30 0.83
ACGTcount: A:0.61, C:0.10, G:0.05, T:0.23
Consensus pattern (39 bp):
ATAAAAAAAATTGAAAAAGTTACATCAACATAAACTAAT
Found at i:23464573 original size:14 final size:14
Alignment explanation
Indices: 23464554--23464586 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
23464544 TGTTTGACTA
*
23464554 AAAATGGTTTCTGG
1 AAAATGATTTCTGG
23464568 AAAATGATTTCTGG
1 AAAATGATTTCTGG
23464582 AAAAT
1 AAAAT
23464587 AAATTACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.33
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:23465025 original size:46 final size:46
Alignment explanation
Indices: 23464958--23465059 Score: 159
Period size: 46 Copynumber: 2.2 Consensus size: 46
23464948 TATTACAAAT
* * **
23464958 TAGTAGTATACCACATGATAACTACAATATTTTCTAAGTGCATAAC
1 TAGTATTACACCACATGATAACTACAATATCATCTAAGTGCATAAC
23465004 TAGTATTACACCACATGATAACTACAATATCATCTAAGTGCATAAC
1 TAGTATTACACCACATGATAACTACAATATCATCTAAGTGCATAAC
*
23465050 TAATATTACA
1 TAGTATTACA
23465060 AATTAATAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (46 bp):
TAGTATTACACCACATGATAACTACAATATCATCTAAGTGCATAAC
Found at i:23465185 original size:19 final size:19
Alignment explanation
Indices: 23465158--23465194 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23465148 GTCCAAGTGC
*
23465158 ATAACTAGTATTACACCAT
1 ATAACTAGTACTACACCAT
*
23465177 ATAATTAGTACTACACCA
1 ATAACTAGTACTACACCA
23465195 CATTAAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAACTAGTACTACACCAT
Found at i:23466184 original size:32 final size:32
Alignment explanation
Indices: 23466143--23466203 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
23466133 TGTCAATCAT
23466143 TTCAATATCCAACAAGC-TTAAAACATAATAAG
1 TTCAATATCCAACAA-CTTTAAAACATAATAAG
23466175 TTCAATATCCAACAACTTTAAAACATAAT
1 TTCAATATCCAACAACTTTAAAACATAAT
23466204 TTCAAAATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAACTTTAAAACATAATAAG
Found at i:23466213 original size:29 final size:29
Alignment explanation
Indices: 23466141--23466215 Score: 98
Period size: 32 Copynumber: 2.5 Consensus size: 29
23466131 ATTGTCAATC
23466141 ATTTCAATATCCAACAAGCTTAAAACATA
1 ATTTCAATATCCAACAAGCTTAAAACATA
23466170 ATAAGTTCAATATCCAACAA-CTTTAAAACATA
1 AT---TTCAATATCCAACAAGC-TTAAAACATA
*
23466202 ATTTCAAAATCCAA
1 ATTTCAATATCCAA
23466216 TAAACTAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
29 13 0.32
31 1 0.02
32 27 0.66
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.28
Consensus pattern (29 bp):
ATTTCAATATCCAACAAGCTTAAAACATA
Found at i:23466224 original size:21 final size:21
Alignment explanation
Indices: 23466195--23466237 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
23466185 AACAACTTTA
23466195 AAACATAATTTCAAAATCCAAT
1 AAACATAATTTCAAAAT-CAAT
*
23466217 AAAC-TAATTTCAATATCAAT
1 AAACATAATTTCAAAATCAAT
23466237 A
1 A
23466238 TCTAACCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 11 0.55
22 4 0.20
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.30
Consensus pattern (21 bp):
AAACATAATTTCAAAATCAAT
Found at i:23467632 original size:4 final size:4
Alignment explanation
Indices: 23467623--23467649 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
23467613 GGATCAAAGG
23467623 ACAA ACAA ACAA ACAA ACAA ACAA ACA
1 ACAA ACAA ACAA ACAA ACAA ACAA ACA
23467650 GAAGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (4 bp):
ACAA
Found at i:23475312 original size:23 final size:23
Alignment explanation
Indices: 23475290--23475362 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 23
23475280 TTTTTATTAT
23475290 TGTGA-TATATGCTTAAATGTTA
1 TGTGACTATATGCTTAAATGTTA
23475312 TGTGACTATATG-----A-G-TA
1 TGTGACTATATGCTTAAATGTTA
23475328 TTGTGA-TATATGCTTAAATGTTA
1 -TGTGACTATATGCTTAAATGTTA
*
23475351 TGTGATTATATG
1 TGTGACTATATG
23475363 AGTGTTGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 19
0.68 0.00 0.32
Matches are distributed among these distances:
16 8 0.20
17 6 0.15
18 1 0.02
21 1 0.02
22 11 0.27
23 14 0.34
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (23 bp):
TGTGACTATATGCTTAAATGTTA
Found at i:23475315 original size:22 final size:22
Alignment explanation
Indices: 23475290--23475395 Score: 76
Period size: 22 Copynumber: 5.3 Consensus size: 22
23475280 TTTTTATTAT
23475290 TGTGATATATGCTTAAATGTTA
1 TGTGATATATGCTTAAATGTTA
23475312 TGTGACTATATG-----A-G-TA
1 TGTGA-TATATGCTTAAATGTTA
23475328 TTGTGATATATGCTTAAATGTTA
1 -TGTGATATATGCTTAAATGTTA
*
23475351 TGTGATTATATG----AGTG-T-
1 TGTGA-TATATGCTTAAATGTTA
*
23475368 TGTGATATATTCTTAAATGTTA
1 TGTGATATATGCTTAAATGTTA
23475390 TGTGAT
1 TGTGAT
23475396 TACATGTGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 32
0.65 0.03 0.32
Matches are distributed among these distances:
16 13 0.20
17 11 0.17
18 2 0.03
19 3 0.05
20 3 0.05
21 2 0.03
22 17 0.26
23 14 0.22
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (22 bp):
TGTGATATATGCTTAAATGTTA
Found at i:23475341 original size:39 final size:39
Alignment explanation
Indices: 23475287--23475423 Score: 211
Period size: 39 Copynumber: 3.5 Consensus size: 39
23475277 GTTTTTTTAT
*
23475287 TATTGTGATATATGCTTAAATGTTATGTGACTATATGAG
1 TATTGTGATATATGCTTAAATGTTATGTGATTATATGAG
23475326 TATTGTGATATATGCTTAAATGTTATGTGATTATATGAG
1 TATTGTGATATATGCTTAAATGTTATGTGATTATATGAG
* * * *
23475365 TGTTGTGATATATTCTTAAATGTTATGTGATTACATGTG
1 TATTGTGATATATGCTTAAATGTTATGTGATTATATGAG
* *
23475404 TAATGTGATATATGGTTAAA
1 TATTGTGATATATGCTTAAA
23475424 AGTGAATATG
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (39 bp):
TATTGTGATATATGCTTAAATGTTATGTGATTATATGAG
Found at i:23487080 original size:42 final size:42
Alignment explanation
Indices: 23487023--23487120 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
23487013 GCAGATTCTT
* * * * *
23487023 CACAACTCGTCTGAGCAGCGTCGTGTAGCTAATATTCTAACC
1 CACAGCTCGTGTGAGCAACATCGTGTAGCTAACATTCTAACC
23487065 CACAGCTCGTGTGAGCAACATCGTGTAGCTAACATTCTAACC
1 CACAGCTCGTGTGAGCAACATCGTGTAGCTAACATTCTAACC
*
23487107 CACAGCTTGTGTGA
1 CACAGCTCGTGTGA
23487121 ATAGGCCCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (42 bp):
CACAGCTCGTGTGAGCAACATCGTGTAGCTAACATTCTAACC
Found at i:23489009 original size:23 final size:23
Alignment explanation
Indices: 23488980--23489096 Score: 173
Period size: 23 Copynumber: 5.1 Consensus size: 23
23488970 GTGTCACACA
23488980 GAAATGTAGCCGAAGCTACCACT
1 GAAATGTAGCCGAAGCTACCACT
*
23489003 GATATGTAGCCGTAA-CTACCACT
1 GAAATGTAGCCG-AAGCTACCACT
*
23489026 GAAATGTAGCCGTAGCTACCACT
1 GAAATGTAGCCGAAGCTACCACT
*
23489049 GAAATGTAGCCGAAGCTACCGCT
1 GAAATGTAGCCGAAGCTACCACT
* *
23489072 AAAATGAAGCCGAAGCTACCACT
1 GAAATGTAGCCGAAGCTACCACT
23489095 GA
1 GA
23489097 TCAATAACAC
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
22 1 0.01
23 80 0.96
24 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (23 bp):
GAAATGTAGCCGAAGCTACCACT
Found at i:23512251 original size:23 final size:23
Alignment explanation
Indices: 23512190--23512259 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
23512180 TCATTAACAT
* *
23512190 TGTTCAGAAACATGTTCAATTATA
1 TGTTCATAAACATGTTCGATTA-A
* *
23512214 TGTTCATAAAGATGTTCGTTTAA
1 TGTTCATAAACATGTTCGATTAA
* *
23512237 TGTTCGTGAACATGTTCGATTAA
1 TGTTCATAAACATGTTCGATTAA
23512260 GTTAAATGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (23 bp):
TGTTCATAAACATGTTCGATTAA
Found at i:23535633 original size:60 final size:60
Alignment explanation
Indices: 23535560--23535679 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
23535550 GTATGAGATG
23535560 AATATTGTTCGTTTACATGACGTACTAGCTAGGTAAACGTCATGCATATAGACACATATT
1 AATATTGTTCGTTTACATGACGTACTAGCTAGGTAAACGTCATGCATATAGACACATATT
23535620 AATATTGTTCGTTTACATGACGTACTAGCTAGGTAAACGTCATGCATATAGACACATATT
1 AATATTGTTCGTTTACATGACGTACTAGCTAGGTAAACGTCATGCATATAGACACATATT
23535680 CTCCTCTAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (60 bp):
AATATTGTTCGTTTACATGACGTACTAGCTAGGTAAACGTCATGCATATAGACACATATT
Found at i:23538932 original size:46 final size:46
Alignment explanation
Indices: 23538870--23539054 Score: 264
Period size: 46 Copynumber: 4.0 Consensus size: 46
23538860 ACATTGCTAT
*
23538870 AACTCAGTATGGTTTTCTTCAC-GAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTG-AAACACCATACCTACTTTTCAC
* * * *
23538916 AACTAAGTATGTTTTTCTTCACTGAAGCACCATACCTACATTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
23538962 AACTCAGTATGGTTTTCTTCACTGAAACACCATACTTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * * *
23539008 AACCCAGTATGGTTTTCTTCATTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
23539054 A
1 A
23539055 CTTTCCCATG
Statistics
Matches: 123, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 122 0.99
47 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:23540307 original size:16 final size:17
Alignment explanation
Indices: 23540261--23540308 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
23540251 AAATTCTTTT
*
23540261 TAAATCAGAAAATTCAA
1 TAAATCACAAAATTCAA
*
23540278 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
23540295 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
23540309 TTCTAAATCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:23547376 original size:43 final size:42
Alignment explanation
Indices: 23547316--23547484 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 42
23547306 TCTCGTATAA
* *
23547316 CACATA-CAATGCCATATCCCAGATATGGTCTTACATGTTAT
1 CACATATCAATGCCATATCCCAGATATGGTCTTACACGTAAT
* * *
23547357 CACATATCAATGCCAATATCCCAGCTATGGTCTTACAGGAAAT
1 CACATATCAATGCC-ATATCCCAGATATGGTCTTACACGTAAT
* * * * *
23547400 CGCATAACAATGCCAATGTCCTAGACATGGTGGTCTTACACGTAAT
1 CACATATCAATGCC-ATATCCCAG--AT-ATGGTCTTACACGTAAT
*
23547446 CACATATATCGATGCCATATCCCAGATATGGTCTTACAC
1 CAC--ATATCAATGCCATATCCCAGATATGGTCTTACAC
23547485 AAAGTCTTAT
Statistics
Matches: 103, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
41 6 0.06
42 7 0.07
43 44 0.43
44 11 0.11
45 3 0.03
46 16 0.16
47 7 0.07
48 9 0.09
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
CACATATCAATGCCATATCCCAGATATGGTCTTACACGTAAT
Found at i:23547483 original size:44 final size:44
Alignment explanation
Indices: 23547322--23547535 Score: 177
Period size: 44 Copynumber: 4.8 Consensus size: 44
23547312 ATAACACATA
* **
23547322 CAATGCCATATCCCAGATATGGTCTTACATGTTATCAC--ATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCACATATAT
* * *
23547364 CAATGCCAATATCCCAGCTATGGTCTTACAGGAAATCGCATA-A-
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAATCACATATAT
* * * *
23547407 CAATGCCAATGTCCTAGACATGGTGGTCTTACACGTAATCACATATAT
1 CAATGCC-ATATCCCAG--AT-ATGGTCTTACACGAAATCACATATAT
* **
23547455 CGATGCCATATCCCAGATATGGTCTTACAC-AAAGTCTTATATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAA-TCACATATAT
* * * * *
23547499 CGATGCCATAGCCTAGCTATGGTCTTATACGAAATCA
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCA
23547536 TGTAATGCCA
Statistics
Matches: 138, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
42 7 0.05
43 43 0.31
44 48 0.35
45 7 0.05
46 19 0.14
47 8 0.06
48 6 0.04
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (44 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCACATATAT
Found at i:23554312 original size:18 final size:18
Alignment explanation
Indices: 23554277--23554313 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23554267 TTGAAACACA
* *
23554277 ATTTCAAACAACTTCAAT
1 ATTTCAAACAAATACAAT
23554295 ATTTCAAACAAATACAAT
1 ATTTCAAACAAATACAAT
23554313 A
1 A
23554314 ATATGTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (18 bp):
ATTTCAAACAAATACAAT
Found at i:23555611 original size:51 final size:50
Alignment explanation
Indices: 23555468--23555658 Score: 235
Period size: 51 Copynumber: 3.8 Consensus size: 50
23555458 ACTATTATCA
* *
23555468 TTCGATACACGTAGTAGTCTTCACATAGTACTACACACGTGATC-AAGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
*
23555517 TTAC-AGTCCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGA-TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * * *
23555569 TTCGGTACACATAATAGCCTTCACTTAGTACTACACATGTGACCATTA-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
23555619 TATCGATACACGTAGTAGCCTTCACATAGTACTACACACG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACG
23555659 AGATCATTGA
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 3 0.03
50 40 0.33
51 72 0.60
52 5 0.04
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:23563191 original size:50 final size:49
Alignment explanation
Indices: 23563130--23563314 Score: 246
Period size: 50 Copynumber: 3.7 Consensus size: 49
23563120 CATTCGATAT
*
23563130 ACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTCC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGA-CAAGTTTTATGGTAC
*
23563180 ACGTAGTAGCCTTCACATAGTACTACACACGTGACAAAGCTTTT-CGGTAC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGAC-AAG-TTTTATGGTAC
* * * * * *
23563230 ACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATTGATAC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGACAAGT-TTTA-TGGTAC
23563281 ACGTAGTAGCCTTCACATAGTACTACACACGTGA
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGA
23563315 TCATCGATAC
Statistics
Matches: 118, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 5 0.04
50 73 0.62
51 39 0.33
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (49 bp):
ACGTAGTAGCCTTCACATAGTACTACACACGTGACAAGTTTTATGGTAC
Found at i:23563259 original size:26 final size:26
Alignment explanation
Indices: 23563227--23563309 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
23563217 AGCTTTTCGG
23563227 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* *
23563253 TACACAT-GT-GACCATT-ATTTATTGA-
1 TACACATAGTAG-CC-TTCACTTAGT-AC
* *
23563278 TACACGTAGTAGCCTTCACATAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
23563304 TACACA
1 TACACA
23563310 CGTGATCATC
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:23563297 original size:101 final size:100
Alignment explanation
Indices: 23563133--23563314 Score: 285
Period size: 101 Copynumber: 1.8 Consensus size: 100
23563123 TCGATATACG
* *
23563133 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTCCACGTAGTAGCCTTCACAT
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGATACACGTAGTAGCCTTCACAT
23563198 AGTACTACACACGTGACAAAGCTTTTCGGTACACA
66 AGTACTACACACGTGACAAAGCTTTTCGGTACACA
* * * *
23563233 TAGTAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTATTGATACACGTAGTAGCCTTCAC
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-TGATACACGTAGTAGCCTTCAC
23563297 ATAGTACTACACACGTGA
64 ATAGTACTACACACGTGA
23563315 TCATCGATAC
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
99 3 0.04
100 33 0.45
101 38 0.51
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (100 bp):
TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGATACACGTAGTAGCCTTCACAT
AGTACTACACACGTGACAAAGCTTTTCGGTACACA
Found at i:23567158 original size:42 final size:42
Alignment explanation
Indices: 23567112--23567210 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
23567102 TGTCATCACT
*
23567112 CGTGTAACTCACTGAGTTGTCC-CACACACCCATGTGTCAGGC
1 CGTGTAACTCACTGAGTTG-CCACACACACCCATGTGCCAGGC
* * * *
23567154 CGTGTAACTCTCTAAGTTGCCACACACGCCCGTGTGCCAGGC
1 CGTGTAACTCACTGAGTTGCCACACACACCCATGTGCCAGGC
*
23567196 CGTGTAATTCACTGA
1 CGTGTAACTCACTGA
23567211 CTTGAAACAC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.04
42 46 0.96
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.24
Consensus pattern (42 bp):
CGTGTAACTCACTGAGTTGCCACACACACCCATGTGCCAGGC
Found at i:23567883 original size:38 final size:37
Alignment explanation
Indices: 23567786--23567883 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 37
23567776 CGTAGGCATC
* * **
23567786 AAGCCTGCTAGGAACTAAGTCTGAATAACACCGGCAGT
1 AAGCCTGCTAGGCACTAAG-CTTAATAACACCGGCACA
*
23567824 AAGCCTGCTAGGCACTCAGCTTAATAAACACCGGCACA
1 AAGCCTGCTAGGCACTAAGCTTAAT-AACACCGGCACA
*
23567862 AAGCCTGCTAGGCACAAAGCTT
1 AAGCCTGCTAGGCACTAAGCTT
23567884 GCTAGGCATT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
37 5 0.10
38 47 0.90
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (37 bp):
AAGCCTGCTAGGCACTAAGCTTAATAACACCGGCACA
Found at i:23567897 original size:16 final size:16
Alignment explanation
Indices: 23567856--23567891 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
23567846 AATAAACACC
23567856 GGCACAAAGCCTGCTA
1 GGCACAAAGCCTGCTA
*
23567872 GGCACAAAGCTTGCTA
1 GGCACAAAGCCTGCTA
23567888 GGCA
1 GGCA
23567892 TTAAGCCCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.28, T:0.14
Consensus pattern (16 bp):
GGCACAAAGCCTGCTA
Found at i:23574786 original size:22 final size:22
Alignment explanation
Indices: 23574761--23574802 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23574751 AGCATATAAA
23574761 TTATAACTCATAATTATTTTTT
1 TTATAACTCATAATTATTTTTT
* **
23574783 TTATAATTTTTAATTATTTT
1 TTATAACTCATAATTATTTT
23574803 CCAAAGTTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATAACTCATAATTATTTTTT
Found at i:23577715 original size:33 final size:35
Alignment explanation
Indices: 23577669--23577734 Score: 91
Period size: 33 Copynumber: 1.9 Consensus size: 35
23577659 AAAAAAGGAA
*
23577669 AAACCTAATCTAAAA-AT-AAAAGAAAAGAAAAAG
1 AAACCTAACCTAAAACATGAAAAGAAAAGAAAAAG
*
23577702 AAACCTAACCTAAAACTATGAAAAGTAAAGAAA
1 AAACCTAACCTAAAAC-ATGAAAAGAAAAGAAA
23577735 GATGATCAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
35 2 0.07
36 12 0.43
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.14
Consensus pattern (35 bp):
AAACCTAACCTAAAACATGAAAAGAAAAGAAAAAG
Found at i:23580999 original size:12 final size:12
Alignment explanation
Indices: 23580960--23580999 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
23580950 AAATAAACAT
23580960 AAACTTAAAAGA
1 AAACTTAAAAGA
* *
23580972 AAAATAAAAAGA
1 AAACTTAAAAGA
23580984 AAACTTAAAAGA
1 AAACTTAAAAGA
23580996 AAAC
1 AAAC
23581000 AAATAAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.12
Consensus pattern (12 bp):
AAACTTAAAAGA
Found at i:23581079 original size:22 final size:23
Alignment explanation
Indices: 23581051--23581112 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 23
23581041 GTGAGTCGCC
23581051 GGTGCTGA-AGAGGATATATGGA
1 GGTGCTGACAGAGGATATATGGA
23581073 GGTGCTGACAGATCAGAGGATATATGGA
1 GGTGCT----GA-CAGAGGATATATGGA
23581101 GGTGCTGACAGA
1 GGTGCTGACAGA
23581113 TCTACTACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
22 6 0.18
23 4 0.12
24 2 0.06
26 2 0.06
28 20 0.59
ACGTcount: A:0.31, C:0.10, G:0.39, T:0.21
Consensus pattern (23 bp):
GGTGCTGACAGAGGATATATGGA
Found at i:23581099 original size:28 final size:28
Alignment explanation
Indices: 23581059--23581114 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
23581049 CCGGTGCTGA
23581059 AGAGGATATATGGAGGTGCTGACAGATC
1 AGAGGATATATGGAGGTGCTGACAGATC
23581087 AGAGGATATATGGAGGTGCTGACAGATC
1 AGAGGATATATGGAGGTGCTGACAGATC
23581115 TACTACAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.36, T:0.21
Consensus pattern (28 bp):
AGAGGATATATGGAGGTGCTGACAGATC
Found at i:23582707 original size:10 final size:10
Alignment explanation
Indices: 23582692--23582763 Score: 67
Period size: 10 Copynumber: 6.9 Consensus size: 10
23582682 CAGAGGAAGA
23582692 AAATAAAAAT
1 AAATAAAAAT
23582702 AAATAAAATAAT
1 AAAT-AAA-AAT
*
23582714 AAATAAGAAT
1 AAATAAAAAT
23582724 AAA-AATTAAAT
1 AAATAA--AAAT
23582735 AAATAAAAAT
1 AAATAAAAAT
23582745 GAAAT-AAAAT
1 -AAATAAAAAT
*
23582755 AAAGAAAAA
1 AAATAAAAA
23582764 GCTAAAGGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
9 5 0.10
10 23 0.44
11 15 0.29
12 9 0.17
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:23582711 original size:15 final size:15
Alignment explanation
Indices: 23582691--23582757 Score: 79
Period size: 15 Copynumber: 4.5 Consensus size: 15
23582681 ACAGAGGAAG
23582691 AAAATAAAAATAAAT
1 AAAATAAAAATAAAT
23582706 AAAAT---AATAAAT
1 AAAATAAAAATAAAT
23582718 AAGAATAAAAATTAAAT
1 AA-AATAAAAA-TAAAT
23582735 -AAATAAAAATGAAAT
1 AAAATAAAAAT-AAAT
23582750 AAAATAAA
1 AAAATAAA
23582758 GAAAAAGCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
12 9 0.20
13 3 0.07
14 1 0.02
15 17 0.38
16 10 0.22
17 5 0.11
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAATAAAAATAAAT
Found at i:23587907 original size:38 final size:38
Alignment explanation
Indices: 23587836--23587925 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
23587826 CTCTCCGACC
* * ** *
23587836 ACCATGCACACCACATATGAGCTACTTAAGCCCATCCA
1 ACCATGCACACCACATAGGACCTACAAAAGCCCACCCA
23587874 ACCATGCACACCACATAGGACCT-CAAAAGGCCCACCCA
1 ACCATGCACACCACATAGGACCTACAAAA-GCCCACCCA
* *
23587912 ACCCTACACACCAC
1 ACCATGCACACCAC
23587926 TTATGTGGAC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 3 0.07
38 41 0.93
ACGTcount: A:0.36, C:0.42, G:0.10, T:0.12
Consensus pattern (38 bp):
ACCATGCACACCACATAGGACCTACAAAAGCCCACCCA
Found at i:23595474 original size:12 final size:13
Alignment explanation
Indices: 23595459--23595494 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
23595449 ATTTAACTAC
23595459 GAATGTAA-CAAA
1 GAATGTAATCAAA
23595471 GAATG-AATCAAA
1 GAATGTAATCAAA
23595483 GAA-GTAATCAAA
1 GAATGTAATCAAA
23595495 TATTAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.14
12 19 0.86
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (13 bp):
GAATGTAATCAAA
Found at i:23598977 original size:18 final size:17
Alignment explanation
Indices: 23598943--23598990 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
23598933 TTTATTCCAC
*
23598943 TCATTTTGCATTTAACAA
1 TCATATTGC-TTTAACAA
*
23598961 TCATATTGCTTTAAACAC
1 TCATATTGCTTT-AACAA
*
23598979 TTATATTGCTTT
1 TCATATTGCTTT
23598991 TATTCACTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (17 bp):
TCATATTGCTTTAACAA
Found at i:23605193 original size:9 final size:9
Alignment explanation
Indices: 23605176--23605212 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23605166 TGAGTTTTCG
23605176 AATTCGAAT
1 AATTCGAAT
*
23605185 AACTCGAAT
1 AATTCGAAT
*
23605194 AATTCGGAT
1 AATTCGAAT
23605203 AATTCGAAT
1 AATTCGAAT
23605212 A
1 A
23605213 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23605463 original size:30 final size:31
Alignment explanation
Indices: 23605427--23605486 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
23605417 ATACCTTTTA
*
23605427 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
23605457 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
23605487 TCTCANNNNN
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:23607630 original size:17 final size:17
Alignment explanation
Indices: 23607608--23607641 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
23607598 ACACAATATT
23607608 TTGAAAATATT-ATTTAA
1 TTGAAAA-ATTAATTTAA
23607625 TTGAAAAATTAATTTAA
1 TTGAAAAATTAATTTAA
23607642 CAAATATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTGAAAAATTAATTTAA
Found at i:23611632 original size:8 final size:8
Alignment explanation
Indices: 23611619--23611650 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
23611609 ATAATGCAGG
23611619 AAAACTGT
1 AAAACTGT
23611627 AAAACTGT
1 AAAACTGT
23611635 AAAACTGT
1 AAAACTGT
23611643 AAAACTGT
1 AAAACTGT
23611651 CGCATCCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (8 bp):
AAAACTGT
Found at i:23612787 original size:21 final size:20
Alignment explanation
Indices: 23612761--23612804 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
23612751 GTCCCTATAC
*
23612761 TTTTTTATCAATTTGATCCCT
1 TTTTTTATCAA-TTGATCACT
* *
23612782 TTTTTTTTGAATTGATCACT
1 TTTTTTATCAATTGATCACT
23612802 TTT
1 TTT
23612805 AGTCCTGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTTTTATCAATTGATCACT
Found at i:23614123 original size:90 final size:91
Alignment explanation
Indices: 23613970--23614174 Score: 249
Period size: 90 Copynumber: 2.3 Consensus size: 91
23613960 TTAAAGGTGT
* * * *
23613970 AAAAAGCCCTCAAACTTTTTC--CAAAAAAGCAATTAAGCCCCTTCTTATTTTTTACACTTAATT
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAAAGCAATTAAACCCCTGCTTATTTTTTACACTCAATT
*
23614033 GAGCACTTGAACTTTCAAAATGCAT-CA
66 GAGCACTTAAACTTTCAAAAT--ATACA
* *
23614060 AAAAAGCCCTCAAACTTCTTCAAAAAAAAAGCAATTAAATCCCTGC-TATTTTTT-CACTCAATT
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAAAGCAATTAAACCCCTGCTTATTTTTTACACTCAATT
* * *
23614123 GGGTACTTAAACTTTCAAAATATACC
66 GAGCACTTAAACTTTCAAAATATACA
*
23614149 AAAAAGACCCTCAAAATTTTTCAAAA
1 AAAAAG-CCCTCAAACTTTTTCAAAA
23614175 TAGCAATTAA
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
88 2 0.02
89 7 0.07
90 63 0.64
91 8 0.08
92 19 0.19
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (91 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAAAAGCAATTAAACCCCTGCTTATTTTTTACACTCAATT
GAGCACTTAAACTTTCAAAATATACA
Found at i:23614244 original size:18 final size:18
Alignment explanation
Indices: 23614220--23614269 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
23614210 AAAAAATAAC
23614220 AATAAAATAATAAATTTT
1 AATAAAATAATAAATTTT
*
23614238 AGA-AAAATTATTAAATTTT
1 A-ATAAAA-TAATAAATTTT
23614257 AATAAAAT-ATAAA
1 AATAAAATAATAAA
23614270 AATGTAACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 4 0.15
18 7 0.26
19 16 0.59
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AATAAAATAATAAATTTT
Found at i:23616411 original size:20 final size:17
Alignment explanation
Indices: 23616368--23616403 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23616358 TTTTGGAAGG
23616368 TGATTCTTTTTTCTCTC
1 TGATTCTTTTTTCTCTC
* *
23616385 TGATTCTTTATTCTTTC
1 TGATTCTTTTTTCTCTC
23616402 TG
1 TG
23616404 CTGATTCTCT
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:0.08, C:0.19, G:0.08, T:0.64
Consensus pattern (17 bp):
TGATTCTTTTTTCTCTC
Found at i:23616418 original size:20 final size:21
Alignment explanation
Indices: 23616384--23616423 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
23616374 TTTTTTCTCT
*
23616384 CTGATTCTTTATTCT-TTCTG
1 CTGATTCTCTATTCTATTCTG
*
23616404 CTGATTCTCTCTTCTATTCT
1 CTGATTCTCTATTCTATTCT
23616424 TTTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.10, C:0.25, G:0.07, T:0.57
Consensus pattern (21 bp):
CTGATTCTCTATTCTATTCTG
Found at i:23617107 original size:17 final size:17
Alignment explanation
Indices: 23617085--23617125 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
23617075 TTCTTACATT
*
23617085 TTTTATTTGTTTATACA
1 TTTTATTTATTTATACA
**
23617102 TTTTATTTATTTATTTA
1 TTTTATTTATTTATACA
23617119 TTTTATT
1 TTTTATT
23617126 ATTACATTTT
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:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTATTTATTTATACA
Found at i:23632963 original size:618 final size:618
Alignment explanation
Indices: 23631850--23634332 Score: 3187
Period size: 618 Copynumber: 4.0 Consensus size: 618
23631840 ACAGGGTTAG
*
23631850 AATGATTTCAGA-ATACCCTGTCCTAACTTCC-GAAAATTA-TTA-AAAATTGTATAAAAATAAT
1 AATGATTTCAGACATACCCTGTCCTAACATCCAG-AAATTAGTTACAAAATTGTATAAAAATAAT
23631911 TATGGGTTATATTTTATACGTTTAAAATCCTAAATGAGTCTATTCTTAAGATATACAAATAGGAA
65 TATGGGTTATATTTTATACGTTTAAAATCCTAAATGAGTCTATTCTTAAGATATACAAATAGGAA
23631976 CATTGTCCAAAATCTGTACGAGAAGATAATTAATTTTTAGTATAGAAAGGTTGAAACTGCTAAAC
130 CATTGTCCAAAATCTGTACGAGAAGATAATTAATTTTTAGTATAGAAAGGTTGAAACTGCTAAAC
23632041 AGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAAATTCTAAAAAT
195 AGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAAATTCTAAAAAT
23632106 TTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAATACAAGATTTT
260 TTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAATACAAGATTTT
23632171 GTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACACATATGAATAGT
325 GTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACACATATGAATAGT
23632236 TATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCCATGTGGCCCAC
390 TATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCCATGTGGCCCAC
23632301 ACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGTTGCATGGGTCG
455 ACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGTTGCATGGGTCG
* *
23632366 CCCAAGTCGACTGTGAACCTACTGTAGGG-TCTTATAGAAAAAC-AGA-GTAA-G-CAAAAGAAT
520 CCCAAGTCGACTGTGAACCTACTGTAGGGATCGTA-AGAAAAACTAGACCTAATGAC-AAA-AAT
** * * * * *
23632426 TTCATATTATGA-GATAATGGAATTTTAGTAAGACAGGGTTAG
582 GAC-TA-TATGACGAT-AT-G-A-TTAAGCAAGACAAGGTCAC
*
23632468 AATGATTTCAGA-ATACCCTGTCCTAACTTCC-GAAAATTA-TTA-AAAATTGTATAAAAATAAT
1 AATGATTTCAGACATACCCTGTCCTAACATCCAG-AAATTAGTTACAAAATTGTATAAAAATAAT
23632529 TATGGGTTATATTTTATACGTTTAAAATCCTAAATGAGTCTATTCTTAAGATATACAAATAGGAA
65 TATGGGTTATATTTTATACGTTTAAAATCCTAAATGAGTCTATTCTTAAGATATACAAATAGGAA
23632594 CATTGTCCAAAATCTGTACGAGAAGATAATTAATTTTTAGTATAGAAAGGTTGAAACTGCTAAAC
130 CATTGTCCAAAATCTGTACGAGAAGATAATTAATTTTTAGTATAGAAAGGTTGAAACTGCTAAAC
23632659 AGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAAATTCTAAAAAT
195 AGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAAATTCTAAAAAT
23632724 TTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAATACAAGATTTT
260 TTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAATACAAGATTTT
23632789 GTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACACATATGAATAGT
325 GTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACACATATGAATAGT
23632854 TATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCCATGTGGCCCAC
390 TATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCCATGTGGCCCAC
23632919 ACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGTTGCATGGGTCG
455 ACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGTTGCATGGGTCG
* *** * *
23632984 CCCAAGTCGACTGTGAACCTACTGTAGGGATGGTAAGTTTACCTAGAACCCTAATTGACTAAAAT
520 CCCAAGTCGACTGTGAACCTACTGTAGGGATCGTAAGAAAAACTAG-A-CCTAA-TGACAAAAAT
** * * *
23633049 GACTATATGACTGATATGATTAAGCCTGATAATGTCCC
582 GACTATATGAC-GATATGATTAAGCAAGACAAGGTCAC
* * * *** * ** * * * ** ****
23633087 AATGATTTGATACTGTATGGTTTGTTTACATGCATGATATTATGTTACAGCA-TGTCATATCTGT
1 AATGATTTCAGAC-ATACCCTGTCCTAACATCCA-GAAATTA-GTTACAAAATTGT-ATAAAAAT
** * ** *
23633151 -A-TATTGCATTACATTAGGATGCGTTTAAAATCCTAAATGAGTCTATTCTTAAGATATACAAAT
62 AATTA-TGGGTTATATT-TTATACGTTTAAAATCCTAAATGAGTCTATTCTTAAGATATACAAAT
23633214 AGGAACATTGTCCAAAATCTGTACGAGAAGATAATTAATTTTTAGTATAGAAAGGTTGAAACTGC
125 AGGAACATTGTCCAAAATCTGTACGAGAAGATAATTAATTTTTAGTATAGAAAGGTTGAAACTGC
23633279 TAAACAGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAAATTCTA
190 TAAACAGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAAATTCTA
23633344 AAAATTTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAATACAAG
255 AAAATTTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAATACAAG
23633409 ATTTTGTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACACATATGA
320 ATTTTGTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACACATATGA
23633474 ATAGTTATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCCATGTGG
385 ATAGTTATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCCATGTGG
23633539 CCCACACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGTTGCATG
450 CCCACACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGTTGCATG
* *** *
23633604 GGTCGCCCAAGTCGACTGTGAGTGAACCTAC-GTAGGGATGGTAAGTTTACCTAGACCCCTAATT
515 GGTCGCCCAAGTCGAC--T--GTGAACCTACTGTAGGGATCGTAAGAAAAACTAGA--CCTAA-T
* ** * * *
23633668 GACTAAAATGACTATATGACTGATATGATTAAGCCTGATAATGTCCC
573 GACAAAAATGACTATATGAC-GATATGATTAAGCAAGACAAGGTCAC
* * * *** * ** * * *
23633715 AATGATTTGATACTGTATGGTTTGTTTACATGCATGATATTATGTTACAGCATGTCATATCTGTA
1 AATGATTTCAGAC-ATACCCTGTCCTAACATCCA-GAAATTA-GTTACA--A----A-AT-TGTA
** * * * * * * * ** *
23633780 TATTGCATTACATTAGGATGGG-GA-ATTATA-ATGTTCGGAGGAATTATACTGAAAGGCCTCGA
55 TA--AAAATA-ATT---ATGGGTTATATTTTATACGTT--TA--AA--ATCCT-AAATGAGTCTA
* * * * * * * * ** * *
23633842 -GCCTAAGCTAT-----T-GGCAGC-TCTGTTGCGAACTACTGTTTA-GTGCCGCATTCGA-TAC
107 TTCTTAAGATATACAAATAGG-AACAT-TG-TCCAAAAT-CTG--TACGAGAAG-A-T-AATTAA
23633897 TTTTT-G----G--A-G-T--AACTGCTAAACAGCAGAGTAGGGGAAACTTTAAAGAATAAATTG
163 TTTTTAGTATAGAAAGGTTGAAACTGCTAAACAGCAGAGTAGGGGAAACTTTAAAGAATAAATTG
23633951 TACTCACTGGCTAAACTAAAAATTCTAAAAATTTTATGCTAAGAAGATATGTGAGTCTAGTTTCA
228 TACTCACTGGCTAAACTAAAAATTCTAAAAATTTTATGCTAAGAAGATATGTGAGTCTAGTTTCA
23634016 GGAAAAATATGTGGATATTAATACAAGATTTTGTAGCTTAAGATACAAATAATTTAGTAACAGTG
293 GGAAAAATATGTGGATATTAATACAAGATTTTGTAGCTTAAGATACAAATAATTTAGTAACAGTG
23634081 ACTTAAGTATAGTGGAAACACATATGAATAGTTATCTAGCATGGGTTACACTAAAACAGATCACG
358 ACTTAAGTATAGTGGAAACACATATGAATAGTTATCTAGCATGGGTTACACTAAAACAGATCACG
23634146 AAGGCAAGGCCAATTTTGGCCATGTGGCCCACACGGGCGAAATTCATGGGCTCGTAGGCCCATTT
423 AAGGCAAGGCCAATTTTGGCCATGTGGCCCACACGGGCGAAATTCATGGGCTCGTAGGCCCATTT
*
23634211 TCACTGTTTGACTTATAAGGTTGCATGGGTCGCCCAAGTCGACTGTGAACCTACTGTAGGGATGG
488 TCACTGTTTGACTTATAAGGTTGCATGGGTCGCCCAAGTCGACTGTGAACCTACTGTAGGGATCG
*** * *
23634276 TAAGTTTACCTAGAACCCTAATTGACTAAAATGACTATATGACTGATATGATTAAGC
553 TAAGAAAAACTAG-A-CCTAA-TGACAAAAATGACTATATGAC-GATATGATTAAGC
23634333 CTGATAATGT
Statistics
Matches: 1730, Mismatches: 75, Indels: 107
0.90 0.04 0.06
Matches are distributed among these distances:
618 549 0.32
619 24 0.01
620 2 0.00
621 15 0.01
622 12 0.01
623 10 0.01
624 18 0.01
625 457 0.26
627 2 0.00
628 127 0.07
629 10 0.01
630 10 0.01
631 65 0.04
632 2 0.00
634 347 0.20
635 1 0.00
636 4 0.00
637 4 0.00
638 3 0.00
639 6 0.00
640 8 0.00
641 10 0.01
642 4 0.00
643 7 0.00
644 5 0.00
645 20 0.01
646 8 0.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (618 bp):
AATGATTTCAGACATACCCTGTCCTAACATCCAGAAATTAGTTACAAAATTGTATAAAAATAATT
ATGGGTTATATTTTATACGTTTAAAATCCTAAATGAGTCTATTCTTAAGATATACAAATAGGAAC
ATTGTCCAAAATCTGTACGAGAAGATAATTAATTTTTAGTATAGAAAGGTTGAAACTGCTAAACA
GCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAAATTCTAAAAATT
TTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAATACAAGATTTTG
TAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACACATATGAATAGTT
ATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCCATGTGGCCCACA
CGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGTTGCATGGGTCGC
CCAAGTCGACTGTGAACCTACTGTAGGGATCGTAAGAAAAACTAGACCTAATGACAAAAATGACT
ATATGACGATATGATTAAGCAAGACAAGGTCAC
Found at i:23634249 original size:634 final size:631
Alignment explanation
Indices: 23632648--23634537 Score: 3238
Period size: 625 Copynumber: 3.0 Consensus size: 631
23632638 GAAAGGTTGA
23632648 AACTGCTAAACAGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAA
1 AACTGCTAAACAGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAA
23632713 ATTCTAAAAATTTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAA
66 ATTCTAAAAATTTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAA
23632778 TACAAGATTTTGTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACAC
131 TACAAGATTTTGTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACAC
23632843 ATATGAATAGTTATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCC
196 ATATGAATAGTTATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCC
23632908 ATGTGGCCCACACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGT
261 ATGTGGCCCACACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGT
23632973 TGCATGGGTCGCCCAAGTCGACTGTGAACCTACTGTAGGGATGGTAAGTTTACCTAGAACCCTAA
326 TGCATGGGTCGCCCAAGTCGACTGTGAACCTACTGTAGGGATGGTAAGTTTACCTAGAACCCTAA
23633038 TTGACTAAAATGACTATATGACTGATATGATTAAGCCTGATAATGTCCCAATGATTTGATACTGT
391 TTGACTAAAATGACTATATGACTGATATGATTAAGCCTGATAATGTCCCAATGATTTGATACTGT
23633103 ATGGTTTGTTTACATGCATGATATTATGTTACAGCATGTCATATCTGTATATTGCATTACATTAG
456 ATGGTTTGTTTACATGCATGATATTATGTTACAGCATGTCATATCTGTATATTGCATTACATTAG
* * * ** ** * * * * *** ** * *
23633168 GAT-GCG-TTTAAAATCCT-AAATGAGTCTATTCT-TAAGATATAC-A-AATAGGAAC-ATTGTC
521 GATGGGGAATTATAATGTTCGGAGGAAT-TATACTGAAAGGCCT-CGAGCCTA--AGCTATTG-G
** * * * * *** * * ***
23633226 CAAAATCTGTACGAGAAGATAAT-TAATT--TTTAGTA-TAGA-A-AGGTT-GA--
581 C-AGCTCTGT-TGCGAA-CTACTGT--TTAGTGCCGCATTCGATACTTTTTGGAGT
23633273 AACTGCTAAACAGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAA
1 AACTGCTAAACAGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAA
23633338 ATTCTAAAAATTTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAA
66 ATTCTAAAAATTTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAA
23633403 TACAAGATTTTGTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACAC
131 TACAAGATTTTGTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACAC
23633468 ATATGAATAGTTATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCC
196 ATATGAATAGTTATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCC
23633533 ATGTGGCCCACACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGT
261 ATGTGGCCCACACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGT
*
23633598 TGCATGGGTCGCCCAAGTCGACTGTGAGTGAACCTAC-GTAGGGATGGTAAGTTTACCTAGACCC
326 TGCATGGGTCGCCCAAGTCGAC--T--GTGAACCTACTGTAGGGATGGTAAGTTTACCTAGAACC
23633662 CTAATTGACTAAAATGACTATATGACTGATATGATTAAGCCTGATAATGTCCCAATGATTTGATA
387 CTAATTGACTAAAATGACTATATGACTGATATGATTAAGCCTGATAATGTCCCAATGATTTGATA
23633727 CTGTATGGTTTGTTTACATGCATGATATTATGTTACAGCATGTCATATCTGTATATTGCATTACA
452 CTGTATGGTTTGTTTACATGCATGATATTATGTTACAGCATGTCATATCTGTATATTGCATTACA
23633792 TTAGGATGGGGAATTATAATGTTCGGAGGAATTATACTGAAAGGCCTCGAGCCTAAGCTATTGGC
517 TTAGGATGGGGAATTATAATGTTCGGAGGAATTATACTGAAAGGCCTCGAGCCTAAGCTATTGGC
23633857 AGCTCTGTTGCGAACTACTGTTTAGTGCCGCATTCGATACTTTTTGGAGT
582 AGCTCTGTTGCGAACTACTGTTTAGTGCCGCATTCGATACTTTTTGGAGT
23633907 AACTGCTAAACAGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAA
1 AACTGCTAAACAGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAA
23633972 ATTCTAAAAATTTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAA
66 ATTCTAAAAATTTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAA
23634037 TACAAGATTTTGTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACAC
131 TACAAGATTTTGTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACAC
23634102 ATATGAATAGTTATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCC
196 ATATGAATAGTTATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCC
23634167 ATGTGGCCCACACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGT
261 ATGTGGCCCACACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGT
23634232 TGCATGGGTCGCCCAAGTCGACTGTGAACCTACTGTAGGGATGGTAAGTTTACCTAGAACCCTAA
326 TGCATGGGTCGCCCAAGTCGACTGTGAACCTACTGTAGGGATGGTAAGTTTACCTAGAACCCTAA
23634297 TTGACTAAAATGACTATATGACTGATATGATTAAGCCTGATAATGTCCCAATGATTTGATACTGT
391 TTGACTAAAATGACTATATGACTGATATGATTAAGCCTGATAATGTCCCAATGATTTGATACTGT
23634362 ATGGTTTGTTTACATGCATGATATTATGTTACAGCATGTCATATCTGTATATTGCATTACATTAG
456 ATGGTTTGTTTACATGCATGATATTATGTTACAGCATGTCATATCTGTATATTGCATTACATTAG
23634427 GATGGGGAATTATAATGTTCGGAGGAATTATACTGAAAGGCCTCGAGCCTAAGCTATTGGCAGCT
521 GATGGGGAATTATAATGTTCGGAGGAATTATACTGAAAGGCCTCGAGCCTAAGCTATTGGCAGCT
23634492 CTGTTGCGAACTACTGTTTAGTGCCGCATTCGATACTTTTTGGAGT
586 CTGTTGCGAACTACTGTTTAGTGCCGCATTCGATACTTTTTGGAGT
23634538 GTAGGGATGG
Statistics
Matches: 1210, Mismatches: 34, Indels: 36
0.95 0.03 0.03
Matches are distributed among these distances:
625 347 0.29
626 2 0.00
627 4 0.00
628 171 0.14
629 21 0.02
630 27 0.02
631 286 0.24
632 5 0.00
634 347 0.29
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (631 bp):
AACTGCTAAACAGCAGAGTAGGGGAAACTTTAAAGAATAAATTGTACTCACTGGCTAAACTAAAA
ATTCTAAAAATTTTATGCTAAGAAGATATGTGAGTCTAGTTTCAGGAAAAATATGTGGATATTAA
TACAAGATTTTGTAGCTTAAGATACAAATAATTTAGTAACAGTGACTTAAGTATAGTGGAAACAC
ATATGAATAGTTATCTAGCATGGGTTACACTAAAACAGATCACGAAGGCAAGGCCAATTTTGGCC
ATGTGGCCCACACGGGCGAAATTCATGGGCTCGTAGGCCCATTTTCACTGTTTGACTTATAAGGT
TGCATGGGTCGCCCAAGTCGACTGTGAACCTACTGTAGGGATGGTAAGTTTACCTAGAACCCTAA
TTGACTAAAATGACTATATGACTGATATGATTAAGCCTGATAATGTCCCAATGATTTGATACTGT
ATGGTTTGTTTACATGCATGATATTATGTTACAGCATGTCATATCTGTATATTGCATTACATTAG
GATGGGGAATTATAATGTTCGGAGGAATTATACTGAAAGGCCTCGAGCCTAAGCTATTGGCAGCT
CTGTTGCGAACTACTGTTTAGTGCCGCATTCGATACTTTTTGGAGT
Found at i:23635159 original size:18 final size:18
Alignment explanation
Indices: 23635124--23635168 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23635114 GCCATAAGTG
*
23635124 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
23635142 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
23635160 AC-TTTTGAA
1 ACGTTTTGAA
23635169 TACGAATCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 17 0.68
19 1 0.04
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.36
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:23635374 original size:14 final size:14
Alignment explanation
Indices: 23635352--23635382 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23635342 ATTAAAATAT
23635352 ATTAAAAATTAGAA
1 ATTAAAAATTAGAA
*
23635366 ATTAGAAATTAGAA
1 ATTAAAAATTAGAA
23635380 ATT
1 ATT
23635383 TTTTTATAAA
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:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (14 bp):
ATTAAAAATTAGAA
Found at i:23636240 original size:21 final size:20
Alignment explanation
Indices: 23636212--23636252 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
23636202 GTTTTTATTG
*
23636212 ATTTTAATTTTTTATAAAAA
1 ATTTTAATTTTTAATAAAAA
23636232 ATTTCTAATTTTTAATAAAAA
1 ATTT-TAATTTTTAATAAAAA
23636253 CAAGGGCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTAATTTTTAATAAAAA
Found at i:23639364 original size:15 final size:16
Alignment explanation
Indices: 23639346--23639375 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23639336 TTTAATTAAG
23639346 TTAAATTTA-AATTTT
1 TTAAATTTATAATTTT
23639361 TTAAATTTATAATTT
1 TTAAATTTATAATTT
23639376 ATTTTATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTAAATTTATAATTTT
Found at i:23651712 original size:17 final size:17
Alignment explanation
Indices: 23651666--23651713 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
23651656 TAAAATAGAT
* *
23651666 TAAAGAAATAAAAATAAA
1 TAAAGAAA-GAAAAGAAA
* *
23651684 TAAATAATGAAAAGAAA
1 TAAAGAAAGAAAAGAAA
23651701 TAAAGAAAGAAAA
1 TAAAGAAAGAAAA
23651714 ATAAACAAAC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (17 bp):
TAAAGAAAGAAAAGAAA
Found at i:23651715 original size:27 final size:27
Alignment explanation
Indices: 23651667--23651731 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
23651657 AAAATAGATT
**
23651667 AAAGAAATAAAAATAAATAAATAATGA
1 AAAGAAATAAAAATAAATAAATAAACA
23651694 AAAGAAATAAAGAA-AGAA-AAATAAACA
1 AAAGAAATAAA-AATA-AATAAATAAACA
*
23651721 AACGAAATAAA
1 AAAGAAATAAA
23651732 TCGATAAGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.75, C:0.03, G:0.09, T:0.12
Consensus pattern (27 bp):
AAAGAAATAAAAATAAATAAATAAACA
Found at i:23657406 original size:14 final size:14
Alignment explanation
Indices: 23657387--23657413 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23657377 GTTTGCTTTA
23657387 GTTTGATTCATAAT
1 GTTTGATTCATAAT
23657401 GTTTGATTCATAA
1 GTTTGATTCATAA
23657414 GTTATGGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (14 bp):
GTTTGATTCATAAT
Found at i:23668591 original size:254 final size:255
Alignment explanation
Indices: 23668141--23668893 Score: 1395
Period size: 254 Copynumber: 3.0 Consensus size: 255
23668131 TTTTGAAATC
23668141 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
1 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
23668206 TCAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
66 TCAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
23668271 ACAATCCTCGTGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTGCGATTGTTTA
131 ACAATCCTCGTGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTGCGATTGTTTA
* *
23668336 CACTTACACATTTCTATTGTTTCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
196 CACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
23668396 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
1 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
*
23668461 TCAAAAC-AAATTTTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
66 TCAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
* *
23668525 ACAATCCTCATGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTACGATTGTTTA
131 ACAATCCTCGTGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTGCGATTGTTTA
*
23668590 CACTTACACATTTATGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
196 CACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
*
23668650 GTGCTTTGGAATTTTTACTTTTTATTTCTATTA--TAGTTAATTTTTAATTTTTAAATCACTTCT
1 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
23668713 TCAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
66 TCAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
* * *
23668778 ACAATCCTCGTGAGTACGATAACTCGACATTTACTTGTCACTTTATTACTTTTTGCGATTGTTTA
131 ACAATCCTCGTGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTGCGATTGTTTA
23668843 CACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATA
196 CACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATA
23668894 TGTCAGACCA
Statistics
Matches: 483, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
252 36 0.07
253 166 0.34
254 209 0.43
255 72 0.15
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.43
Consensus pattern (255 bp):
GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
TCAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
ACAATCCTCGTGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTGCGATTGTTTA
CACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
Found at i:23670040 original size:27 final size:28
Alignment explanation
Indices: 23670009--23670353 Score: 207
Period size: 27 Copynumber: 12.8 Consensus size: 28
23669999 CTTTAGTGTG
*
23670009 CGCCATAAAGGCATTCC-CTTCATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* *
23670036 CGCCACAAAGGTA-TCCTTTTCATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
23670063 CGCCATAAAGGC-TTCCTTTTCATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
*
23670090 CGCCATAAAGGC-TTCTTTTTTC-TAGAT
1 CGCCATAAAGGCATTC-CTTTTCATAGAT
* ** *
23670117 CGCCACAAAAAC-TTCATTTTTC-TAGAT
1 CGCCATAAAGGCATTC-CTTTTCATAGAT
* * * *
23670144 CACCACAAAGGC-TTCCTTTTTATAAAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* * * * * *
23670171 CACCACAAGGGC-TTTCTTTTTAAAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* *
23670198 CGCCACAAAGGC-TTCCTTTTTATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
** *
23670225 CGCCGCAAAGGC-TTCCTGTTT-ATAAAT
1 CGCCATAAAGGCATTCCT-TTTCATAGAT
* * * * *
23670252 CACCACAAGGGCTTTCCTTTT-AAAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* * *
23670279 CACCACAAAGGC-TTCCTTTTTATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
** * *
23670306 CGCCGCAAAGG-ATTCCTTTTTATAAAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* * * *
23670333 AGCCACAAAGGCTTTCTTTTT
1 CGCCATAAAGGCATTCCTTTT
23670354 TGGTGTGTTC
Statistics
Matches: 269, Mismatches: 40, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
26 15 0.06
27 234 0.87
28 20 0.07
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (28 bp):
CGCCATAAAGGCATTCCTTTTCATAGAT
Found at i:23670067 original size:54 final size:54
Alignment explanation
Indices: 23670009--23670352 Score: 347
Period size: 54 Copynumber: 6.4 Consensus size: 54
23669999 CTTTAGTGTG
* * *
23670009 CGCCATAAAGGCATTCC-CTTCATAGATCGCCACAAAGG-TATCCTTTTCATAGAT
1 CGCCACAAAGGC-TTCCTTTTCATAGATCGCCACAAAGGCT-TCCTTTTTATAGAT
* * * *
23670063 CGCCATAAAGGCTTCCTTTTCATAGATCGCCATAAAGGCTTCTTTTTTCTAGAT
1 CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTTATAGAT
** * * *
23670117 CGCCACAAAAACTTCATTTTTC-TAGATCACCACAAAGGCTTCCTTTTTATAAAT
1 CGCCACAAAGGCTTC-CTTTTCATAGATCGCCACAAAGGCTTCCTTTTTATAGAT
* * * * *
23670171 CACCACAAGGGCTTTCTTTTTAAAGATCGCCACAAAGGCTTCCTTTTTATAGAT
1 CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTTATAGAT
* * * * *
23670225 CGCCGCAAAGGCTTCCTGTTT-ATAAATCACCACAAGGGCTTTCC-TTTTAAAGAT
1 CGCCACAAAGGCTTCCT-TTTCATAGATCGCCACAAAGGC-TTCCTTTTTATAGAT
* * * * *
23670279 CACCACAAAGGCTTCCTTTTTATAGATCGCCGCAAAGGATTCCTTTTTATAAAT
1 CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTTATAGAT
* *
23670333 AGCCACAAAGGCTTTCTTTT
1 CGCCACAAAGGCTTCCTTTT
23670353 TTGGTGTGTT
Statistics
Matches: 237, Mismatches: 45, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
53 15 0.06
54 209 0.88
55 13 0.05
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (54 bp):
CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTTATAGAT
Found at i:23670144 original size:81 final size:81
Alignment explanation
Indices: 23670032--23670353 Score: 407
Period size: 81 Copynumber: 4.0 Consensus size: 81
23670022 TTCCCTTCAT
* * * * * *
23670032 AGATCGCCACAAAGG-TATCCTTTTCATAGATCGCCATAAAGGCTTCCTTTTCATAGATCGCCAT
1 AGATCGCCACAAAGGCT-TCCTTTTTATAGATCGCCACAAAGGCTTCCTTTTTATAAATCACCAC
**
23670096 AAAGGC-TTCTTTTTTCT
65 AAAGGCTTTC-TTTTTAA
** * * *
23670113 AGATCGCCACAAAAACTTCATTTTTCTAGATCACCACAAAGGCTTCCTTTTTATAAATCACCACA
1 AGATCGCCACAAAGGCTTCCTTTTTATAGATCGCCACAAAGGCTTCCTTTTTATAAATCACCACA
*
23670178 AGGGCTTTCTTTTTAA
66 AAGGCTTTCTTTTTAA
* *
23670194 AGATCGCCACAAAGGCTTCCTTTTTATAGATCGCCGCAAAGGCTTCCTGTTTATAAATCACCACA
1 AGATCGCCACAAAGGCTTCCTTTTTATAGATCGCCACAAAGGCTTCCTTTTTATAAATCACCACA
* *
23670259 AGGGCTTTCCTTTTAA
66 AAGGCTTTCTTTTTAA
* * *
23670275 AGATCACCACAAAGGCTTCCTTTTTATAGATCGCCGCAAAGGATTCCTTTTTATAAAT-AGCCAC
1 AGATCGCCACAAAGGCTTCCTTTTTATAGATCGCCACAAAGGCTTCCTTTTTATAAATCA-CCAC
23670339 AAAGGCTTTCTTTTT
65 AAAGGCTTTCTTTTT
23670354 TGGTGTGTTC
Statistics
Matches: 211, Mismatches: 27, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
80 1 0.00
81 206 0.98
82 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (81 bp):
AGATCGCCACAAAGGCTTCCTTTTTATAGATCGCCACAAAGGCTTCCTTTTTATAAATCACCACA
AAGGCTTTCTTTTTAA
Found at i:23673524 original size:16 final size:16
Alignment explanation
Indices: 23673503--23673533 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23673493 TTTGGACTAA
23673503 ATTGAATAGAATGAAT
1 ATTGAATAGAATGAAT
*
23673519 ATTGAATGGAATGAA
1 ATTGAATAGAATGAA
23673534 CTTTCTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (16 bp):
ATTGAATAGAATGAAT
Found at i:23675011 original size:13 final size:15
Alignment explanation
Indices: 23674983--23675014 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
23674973 CTCAGCTGTG
23674983 TGTGACACATGGCCA
1 TGTGACACATGGCCA
23674998 TGTGACA-A-GGCCA
1 TGTGACACATGGCCA
23675011 TGTG
1 TGTG
23675015 TCCCTTGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 1 0.06
15 7 0.41
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (15 bp):
TGTGACACATGGCCA
Found at i:23676716 original size:37 final size:37
Alignment explanation
Indices: 23676673--23676938 Score: 282
Period size: 37 Copynumber: 7.2 Consensus size: 37
23676663 CAATCTGCTA
*
23676673 GACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTG
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
* * * *
23676710 GGCTTGTTCTTATGATTAAAGCTAAGACAGTCAGTTG
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
* * ***
23676747 GACATGTCCTTATGATTCAAGCTAAGATAGTCCACTG
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
* * * * * *
23676784 GACTTGTTCTTATGATTAAAGCTAAGATAATCCGTTA
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
**
23676821 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTG
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
* * * * * *
23676858 GACTTGTTCTTATGATTAAAGTTAAGATAGT-TCGCTA
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCT-GTTG
* *
23676895 GACTTGTCCTTATAATTCAAGCTAAGACCGTCTGTTG
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
23676932 GACTTGT
1 GACTTGT
23676939 TTCCAAGTTT
Statistics
Matches: 185, Mismatches: 42, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
36 1 0.01
37 183 0.99
38 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (37 bp):
GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
Found at i:23676798 original size:74 final size:73
Alignment explanation
Indices: 23676671--23676939 Score: 367
Period size: 74 Copynumber: 3.6 Consensus size: 73
23676661 AACAATCTGC
* ** *
23676671 TAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGGCTTGTTCTTATGATTAAAGCTAAG
1 TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTTCTTATGATTAAAGCTAAG
*
23676736 ACAGTCAGT
66 ATAGTC-GT
* * * *
23676745 TGGACATGTCCTTATGATTCAAGCTAAGATAGTCCACTGGACTTGTTCTTATGATTAAAGCTAAG
1 TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTTCTTATGATTAAAGCTAAG
*
23676810 ATAATCCGT
66 ATAGT-CGT
*
23676819 TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTTCTTATGATTAAAGTTAAG
1 TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTTCTTATGATTAAAGCTAAG
*
23676884 ATAGTTCGC
66 ATAG-TCGT
* * **
23676893 TAGACTTGTCCTTATAATTCAAGCTAAGACCGTCTGTTGGACTTGTT
1 TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTT
23676940 TCCAAGTTTC
Statistics
Matches: 172, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
74 170 0.99
75 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (73 bp):
TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTTCTTATGATTAAAGCTAAG
ATAGTCGT
Found at i:23676936 original size:111 final size:111
Alignment explanation
Indices: 23676669--23676938 Score: 353
Period size: 111 Copynumber: 2.4 Consensus size: 111
23676659 AAAACAATCT
* *
23676669 GCTAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGGCTTGTTCTTATGATTAAAGCTA
1 GCTAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGACTTGTCCTTATGATTAAAGCTA
* *
23676734 AGACAGTCAGTTGGACATGTCCTTATGATTCAAGCTAAGATAGTCC
66 AGACAGTCAGCTGGACATGTCCTTATGATTAAAGCTAAGATAGTCC
* * * * * * * *
23676780 ACTGGACTTGTTCTTATGATTAAAGCTAAGATAATCCGTTAGACTTGTCCTTATGATTCAAGCTA
1 GCTAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGACTTGTCCTTATGATTAAAGCTA
* * * *
23676845 AGACAGTCTA-CTGGACTTGTTCTTATGATTAAAGTTAAGATAGTTC
66 AGACAGTC-AGCTGGACATGTCCTTATGATTAAAGCTAAGATAGTCC
* **
23676891 GCTAGACTTGTCCTTATAATTCAAGCTAAGACCGTCTGTTGGACTTGT
1 GCTAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGACTTGT
23676939 TTCCAAGTTT
Statistics
Matches: 132, Mismatches: 26, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
111 131 0.99
112 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (111 bp):
GCTAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGACTTGTCCTTATGATTAAAGCTA
AGACAGTCAGCTGGACATGTCCTTATGATTAAAGCTAAGATAGTCC
Found at i:23677053 original size:14 final size:14
Alignment explanation
Indices: 23677036--23677140 Score: 102
Period size: 14 Copynumber: 7.5 Consensus size: 14
23677026 GTCTGCAGGC
23677036 ATGAATCTGCATAT
1 ATGAATCTGCATAT
* * *
23677050 ATGAATCCGTACAT
1 ATGAATCTGCATAT
*
23677064 ATGAATCCGCATAT
1 ATGAATCTGCATAT
* * * *
23677078 AAGATTCTGTATCT
1 ATGAATCTGCATAT
*
23677092 ATGAATCTGCCTAT
1 ATGAATCTGCATAT
* *
23677106 GTGAATCTGCATCT
1 ATGAATCTGCATAT
*
23677120 ATAAATCTGCATAT
1 ATGAATCTGCATAT
23677134 ATGAATC
1 ATGAATC
23677141 CACATATAAT
Statistics
Matches: 69, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 69 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (14 bp):
ATGAATCTGCATAT
Found at i:23677067 original size:28 final size:28
Alignment explanation
Indices: 23677036--23677141 Score: 115
Period size: 28 Copynumber: 3.8 Consensus size: 28
23677026 GTCTGCAGGC
23677036 ATGAATCTGCATATATGAATCCGTA-CAT
1 ATGAATCTGCATATATGAATCCGTATC-T
* * * *
23677064 ATGAATCCGCATATAAGATTCTGTATCT
1 ATGAATCTGCATATATGAATCCGTATCT
* * * *
23677092 ATGAATCTGCCTATGTGAATCTGCATCT
1 ATGAATCTGCATATATGAATCCGTATCT
*
23677120 ATAAATCTGCATATATGAATCC
1 ATGAATCTGCATATATGAATCC
23677142 ACATATAATA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
28 62 0.98
29 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (28 bp):
ATGAATCTGCATATATGAATCCGTATCT
Found at i:23677117 original size:70 final size:70
Alignment explanation
Indices: 23677037--23677200 Score: 177
Period size: 70 Copynumber: 2.3 Consensus size: 70
23677027 TCTGCAGGCA
* * * * **
23677037 TGAATCTGCATATATGAATCCGTACATATGAATCCGCATATAA-GATTCTGTATCTATGAATCTG
1 TGAATCTGCATATATGAATCCGCACATATGAATCCACATATAATAATT-TGTATCTATAAATCCA
*
23677101 CCTATG
65 CCCATG
* * * * *
23677107 TGAATCTGCATCTATAAATCTGCATATATGAATCCACATATAATAATTTGTATTTATAAATCCAC
1 TGAATCTGCATATATGAATCCGCACATATGAATCCACATATAATAATTTGTATCTATAAATCCAC
23677172 CCATG
66 CCATG
* * *
23677177 TGATTATGCATTTATGAATCCGCA
1 TGAATCTGCATATATGAATCCGCA
23677201 GGGACTATTC
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
70 73 0.96
71 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (70 bp):
TGAATCTGCATATATGAATCCGCACATATGAATCCACATATAATAATTTGTATCTATAAATCCAC
CCATG
Found at i:23678064 original size:18 final size:18
Alignment explanation
Indices: 23678026--23678083 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 18
23678016 TCAAACCTTG
23678026 TAAAAA-CCCTAAACC-A
1 TAAAAATCCCTAAACCTA
*
23678042 TAAAAATCTCTAAACCTA
1 TAAAAATCCCTAAACCTA
23678060 TAAAAA-CCCTAAATCCTA
1 TAAAAATCCCTAAA-CCTA
23678078 -AAAAAT
1 TAAAAAT
23678084 ATAAGCCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 6 0.17
17 19 0.53
18 11 0.31
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (18 bp):
TAAAAATCCCTAAACCTA
Found at i:23679349 original size:19 final size:19
Alignment explanation
Indices: 23679322--23679362 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
23679312 TTTATATATT
*
23679322 TTTTAGAATTTTTATAAAAA
1 TTTTAGAA-TTTTAAAAAAA
23679342 TTTT-GAATTTTAAAAAAA
1 TTTTAGAATTTTAAAAAAA
23679360 TTT
1 TTT
23679363 ACTTATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 3 0.15
20 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTAGAATTTTAAAAAAA
Found at i:23679973 original size:19 final size:19
Alignment explanation
Indices: 23679949--23679987 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23679939 TCAATAAATA
23679949 ACATTATTAGTATATATAC
1 ACATTATTAGTATATATAC
23679968 ACATTATTAGTATATATAC
1 ACATTATTAGTATATATAC
23679987 A
1 A
23679988 TATGCACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (19 bp):
ACATTATTAGTATATATAC
Found at i:23692444 original size:25 final size:25
Alignment explanation
Indices: 23692402--23692454 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
23692392 TGTTCTCAAA
*
23692402 AATTCAATTAATATAAAATATTA-AT
1 AATTCAATAAATATAAAA-ATTAGAT
23692427 AATTCAATAAAT-TGAAAAATTAGAT
1 AATTCAATAAATAT-AAAAATTAGAT
23692452 AAT
1 AAT
23692455 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTCAATAAATATAAAAATTAGAT
Found at i:23699919 original size:18 final size:19
Alignment explanation
Indices: 23699893--23699929 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23699883 AATTTTGGAA
23699893 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
23699911 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
23699930 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:23702808 original size:15 final size:16
Alignment explanation
Indices: 23702788--23702817 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23702778 TTTAACTAAG
23702788 TAAAAT-AAATAAAAA
1 TAAAATAAAATAAAAA
23702803 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
23702818 TTTCTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:23704365 original size:11 final size:11
Alignment explanation
Indices: 23704337--23704383 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
23704327 CTGTTGAAAA
*
23704337 TAATCAAAA-T
1 TAATAAAAATT
23704347 TAATAAAAATT
1 TAATAAAAATT
*
23704358 TGATAAAAAATT
1 TAAT-AAAAATT
*
23704370 TAATTAAAATT
1 TAATAAAAATT
23704381 TAA
1 TAA
23704384 CATGTTCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
10 8 0.26
11 13 0.42
12 10 0.32
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (11 bp):
TAATAAAAATT
Found at i:23707498 original size:11 final size:11
Alignment explanation
Indices: 23707482--23707508 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23707472 TCTTGTCGAA
23707482 AATTATAAAAT
1 AATTATAAAAT
23707493 AATTATAAAAT
1 AATTATAAAAT
23707504 AATTA
1 AATTA
23707509 AATTGTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:23711937 original size:18 final size:19
Alignment explanation
Indices: 23711909--23711945 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23711899 GCATTCACAT
23711909 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
23711928 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
23711946 TTCCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:23715360 original size:58 final size:58
Alignment explanation
Indices: 23715270--23715385 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
23715260 CAATAGAGGA
23715270 GCCACCTAAATTAGAACTGAAGGTACTTCCTTCACATTTGAAATATGTTTATTTAGGT
1 GCCACCTAAATTAGAACTGAAGGTACTTCCTTCACATTTGAAATATGTTTATTTAGGT
23715328 GCCACCTAAATTAGAACTGAAGGTACTTCCTTCACATTTGAAATATGTTTATTTAGGT
1 GCCACCTAAATTAGAACTGAAGGTACTTCCTTCACATTTGAAATATGTTTATTTAGGT
23715386 AACTCTTCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (58 bp):
GCCACCTAAATTAGAACTGAAGGTACTTCCTTCACATTTGAAATATGTTTATTTAGGT
Done.