Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 64 of 325
Found at i:23031865 original size:25 final size:24
Alignment explanation
Indices: 23031835--23031884 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
23031825 TAATATTAGA
*
23031835 TTTAATTTCTAAATTTTTATTATTT
1 TTTAATTTCT-AATTTTAATTATTT
* *
23031860 TTTAATTTGTGATTTTAATTATTT
1 TTTAATTTCTAATTTTAATTATTT
23031884 T
1 T
23031885 ATTTAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (24 bp):
TTTAATTTCTAATTTTAATTATTT
Found at i:23032129 original size:9 final size:8
Alignment explanation
Indices: 23032102--23032132 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
23032092 CCGCCGCACG
23032102 CTGCTCAC
1 CTGCTCAC
23032110 CTGCTCAC
1 CTGCTCAC
23032118 CTGCTCCAC
1 CTGCT-CAC
23032127 CTGCTC
1 CTGCTC
23032133 TGCCACTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.52, G:0.13, T:0.26
Consensus pattern (8 bp):
CTGCTCAC
Found at i:23140084 original size:21 final size:21
Alignment explanation
Indices: 23140042--23140084 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
23140032 TTCACTATAC
*
23140042 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
23140063 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
23140084 A
1 A
23140085 ATCTATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:23141182 original size:39 final size:37
Alignment explanation
Indices: 23141115--23141207 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
23141105 ACCAGAATGG
* *
23141115 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
23141154 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
23141191 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
23141208 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:23141569 original size:3 final size:3
Alignment explanation
Indices: 23141561--23141599 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
23141551 ATTCCCACTC
* * *
23141561 ATA ATA ATA ATA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23141600 CTTACCTCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:23142968 original size:28 final size:29
Alignment explanation
Indices: 23142897--23142960 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
23142887 TTTCTTTTAT
*
23142897 ATATAATAATATAATATTTATAATGTAATTA
1 ATATAATAATAT-A-CTTTATAATGTAATTA
* *
23142928 ATTTAATAATATACTTTATAAT-TAATTT
1 ATATAATAATATACTTTATAATGTAATTA
23142956 ATATA
1 ATATA
23142961 TTTATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 9 0.31
29 8 0.28
30 1 0.03
31 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATAATAATATACTTTATAATGTAATTA
Found at i:23144066 original size:26 final size:26
Alignment explanation
Indices: 23144031--23144084 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
23144021 CCGCTATATA
23144031 ATAAAAATTTGAGTAATTTCTACATT
1 ATAAAAATTTGAGTAATTTCTACATT
*
23144057 ATAAAAATTTGAGTAATTTCTATATT
1 ATAAAAATTTGAGTAATTTCTACATT
23144083 AT
1 AT
23144085 TGTCTGTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (26 bp):
ATAAAAATTTGAGTAATTTCTACATT
Found at i:23146603 original size:23 final size:23
Alignment explanation
Indices: 23146555--23146603 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
23146545 AAATTTGAAT
* * *
23146555 TTCGAGTTAATCGAATTGAGTTA
1 TTCGAGTCAATCGAATTAAGTAA
23146578 TTCGAGTCAACTCGAA-TAAGTAA
1 TTCGAGTCAA-TCGAATTAAGTAA
23146601 TTC
1 TTC
23146604 AAGTTTCGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (23 bp):
TTCGAGTCAATCGAATTAAGTAA
Found at i:23146772 original size:19 final size:19
Alignment explanation
Indices: 23146726--23146813 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 19
23146716 AAAATTATAA
23146726 AAAAATATTAAAATAATTTT
1 AAAAAT-TTAAAATAATTTT
* *
23146746 TAATATTTAAAAT-ATTTAT
1 AAAAATTTAAAATAATTT-T
23146765 AAAAATTTCAAAACTTATTTATTTT
1 AAAAATTT-AAAA--TA---ATTTT
* *
23146790 AAAAAATTATAATAATTTT
1 AAAAATTTAAAATAATTTT
23146809 AAAAA
1 AAAAA
23146814 ATCCTAAAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
18 4 0.07
19 24 0.44
20 8 0.15
22 3 0.06
24 3 0.06
25 8 0.15
26 4 0.07
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAAATTTAAAATAATTTT
Found at i:23155849 original size:22 final size:24
Alignment explanation
Indices: 23155808--23155853 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
23155798 TCAATTTTAC
23155808 TATTTTATTATTAATATATTTTTT
1 TATTTTATTATTAATATATTTTTT
23155832 TATTTTATT-TT-ATATATTTTTT
1 TATTTTATTATTAATATATTTTTT
23155854 AAAAGGAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.50
23 2 0.09
24 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (24 bp):
TATTTTATTATTAATATATTTTTT
Found at i:23155851 original size:20 final size:23
Alignment explanation
Indices: 23155808--23155854 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
23155798 TCAATTTTAC
23155808 TATTTTATTATTAATATATTTTTT
1 TATTTTATTATTAATATA-TTTTT
23155832 TATTTTATT-TT-ATATATTTTT
1 TATTTTATTATTAATATATTTTT
23155853 TA
1 TA
23155855 AAAGGAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.30
22 5 0.22
23 2 0.09
24 9 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TATTTTATTATTAATATATTTTT
Found at i:23156990 original size:6 final size:6
Alignment explanation
Indices: 23156979--23157035 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
23156969 AATTATATGT
* * * *
23156979 TTTTTA TTTTTA -TTTTA GTTTTA GTTTTA GTTTTA GATTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA
23157027 TTTTTA TTT
1 TTTTTA TTT
23157036 ATTAAAGTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
5 5 0.11
6 37 0.79
7 5 0.11
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:23164525 original size:21 final size:21
Alignment explanation
Indices: 23164501--23164542 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23164491 TTTTTCTGTT
*
23164501 TTATTTATAAAATAACTAAAA
1 TTATTTATAAAAAAACTAAAA
*
23164522 TTATTTCTAAAAAAACTAAAA
1 TTATTTATAAAAAAACTAAAA
23164543 AAGATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TTATTTATAAAAAAACTAAAA
Found at i:23165655 original size:33 final size:35
Alignment explanation
Indices: 23165617--23165692 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 35
23165607 AATTTTTTAA
23165617 AAAATATAA-TATGTCAAAAATATTAAAAATAT-T
1 AAAATATAATTATGTCAAAAATATTAAAAATATAT
* * * *
23165650 AAAATA-AATTTTTTCTAACATATTAAAAATATAT
1 AAAATATAATTATGTCAAAAATATTAAAAATATAT
23165684 ATAAATATA
1 A-AAATATA
23165693 TTTGTATACT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 2 0.06
33 25 0.71
34 2 0.06
35 5 0.14
36 1 0.03
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (35 bp):
AAAATATAATTATGTCAAAAATATTAAAAATATAT
Found at i:23170885 original size:16 final size:16
Alignment explanation
Indices: 23170852--23170885 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23170842 TTACTCTGTT
* *
23170852 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
23170868 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
23170884 AA
1 AA
23170886 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:23173710 original size:21 final size:21
Alignment explanation
Indices: 23173684--23173724 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23173674 AGACGAGCAA
* *
23173684 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
23173705 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
23173725 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:23175662 original size:16 final size:16
Alignment explanation
Indices: 23175629--23175662 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23175619 GGAGATTGTT
* *
23175629 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
23175645 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
23175661 AA
1 AA
23175663 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:23180032 original size:26 final size:27
Alignment explanation
Indices: 23180002--23180065 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
23179992 TTATACTGAA
23180002 ATTAAGACAACA-ATAATATACAAAAT
1 ATTAAGACAACATATAATATACAAAAT
* *
23180028 ATTAAAAC-TCATTTATAATATACAAAAT
1 ATTAAGACAACA--TATAATATACAAAAT
23180056 ATTAAGACAA
1 ATTAAGACAA
23180066 ATCTCATGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 2 0.07
26 7 0.23
28 21 0.70
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (27 bp):
ATTAAGACAACATATAATATACAAAAT
Found at i:23193096 original size:28 final size:28
Alignment explanation
Indices: 23193062--23193126 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
23193052 TCAGTGTACG
* *
23193062 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
23193090 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
23193118 AAATATTGA
1 AAATATTGA
23193127 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:23193243 original size:39 final size:39
Alignment explanation
Indices: 23193197--23193458 Score: 391
Period size: 39 Copynumber: 6.7 Consensus size: 39
23193187 GACTTTATAA
*
23193197 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
23193236 TGTTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
23193275 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
23193314 TGGTGTTATATCCGAGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
23193353 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * * *
23193392 TGGTGTTATATCCAGGCTAAAGTCCCGCAGG-GTTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
23193431 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
23193459 CAGGGTTTGT
Statistics
Matches: 204, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 184 0.90
40 20 0.10
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:23203138 original size:19 final size:19
Alignment explanation
Indices: 23203114--23203150 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23203104 GATATAAAGT
*
23203114 TAGGGGATTAGTTTTTTTA
1 TAGGGGATTAATTTTTTTA
*
23203133 TAGGGGCTTAATTTTTTT
1 TAGGGGATTAATTTTTTT
23203151 CCTATTTCTT
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:0.19, C:0.03, G:0.24, T:0.54
Consensus pattern (19 bp):
TAGGGGATTAATTTTTTTA
Found at i:23212239 original size:128 final size:126
Alignment explanation
Indices: 23211978--23212251 Score: 288
Period size: 128 Copynumber: 2.2 Consensus size: 126
23211968 TTATATATAC
* * * * *
23211978 AATATATAAACATAAAACAATGCTATATCAATAATTGTATTAATAAAAATTGAATGAAATTAAAA
1 AATATATAAACATAAAATAATACTATATCAATAATTGTATTAATAAAAATTAAATCAAATCAAAA
* * * * **
23212043 TTCTATATATAAAATTACACAATCAAAATTCAAGTATAATAAATAAAATCATTTTTTATATA
66 TTCTATATATAAAATTAAAAAATCAAAATTCAAATATAATAAACAAAATCATTTCGTAT-TA
* * *
23212105 TAATATATAAACATAAAATAATAAC-ATATCAATAATTGTATT-TTTAAAATTAAATCAAATCCA
1 -AATATATAAACATAAAATAAT-ACTATATCAATAATTGTATTAATAAAAATTAAATCAAATCAA
* *
23212168 AATTGCGTATATA-AAATTATAAAAAATCAAAATTTAAATATAATAAACATAAAT-A-TTCGTAT
64 AATT-C-TATATATAAAAT-TAAAAAATCAAAATTCAAATATAATAAACA-AAATCATTTCGTAT
**
23212230 GC
125 TA
23212232 AATATATAAACATAAAATAA
1 AATATATAAACATAAAATAA
23212252 ATATTTTTTT
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
126 20 0.16
127 19 0.15
128 47 0.38
129 33 0.27
130 4 0.03
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.34
Consensus pattern (126 bp):
AATATATAAACATAAAATAATACTATATCAATAATTGTATTAATAAAAATTAAATCAAATCAAAA
TTCTATATATAAAATTAAAAAATCAAAATTCAAATATAATAAACAAAATCATTTCGTATTA
Found at i:23212980 original size:30 final size:30
Alignment explanation
Indices: 23212944--23213002 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
23212934 ATCATGAGTA
23212944 GTTTCTGGGTTTTAAAGATAGATTTATACC
1 GTTTCTGGGTTTTAAAGATAGATTTATACC
23212974 GTTTCTGGGTTTTAAAGATAGATTTATAC
1 GTTTCTGGGTTTTAAAGATAGATTTATAC
23213003 TGATCTCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (30 bp):
GTTTCTGGGTTTTAAAGATAGATTTATACC
Found at i:23214627 original size:41 final size:41
Alignment explanation
Indices: 23214581--23214668 Score: 176
Period size: 41 Copynumber: 2.1 Consensus size: 41
23214571 AAACTGGTAC
23214581 GAGAAAAACATACAAGTTCCCATTTCTTCAAAACTAATCTA
1 GAGAAAAACATACAAGTTCCCATTTCTTCAAAACTAATCTA
23214622 GAGAAAAACATACAAGTTCCCATTTCTTCAAAACTAATCTA
1 GAGAAAAACATACAAGTTCCCATTTCTTCAAAACTAATCTA
23214663 GAGAAA
1 GAGAAA
23214669 CAGCATACCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.25
Consensus pattern (41 bp):
GAGAAAAACATACAAGTTCCCATTTCTTCAAAACTAATCTA
Found at i:23216410 original size:112 final size:112
Alignment explanation
Indices: 23216213--23216441 Score: 449
Period size: 112 Copynumber: 2.0 Consensus size: 112
23216203 AAATGAGTTG
*
23216213 TTCTTGCCTACTATACCACCCGCTACCCAATCCCCAACGAAGTATTAAAAAGAAGACAGTAATTT
1 TTCTTGCCTACTATACCACCCGCTACCCAATCCCCAACGAAGTATTAAAAAGAAAACAGTAATTT
23216278 ATTTTTCTATTTGGTCACCAAAAGTCAAAGCATGTAATTTATTATTT
66 ATTTTTCTATTTGGTCACCAAAAGTCAAAGCATGTAATTTATTATTT
23216325 TTCTTGCCTACTATACCACCCGCTACCCAATCCCCAACGAAGTATTAAAAAGAAAACAGTAATTT
1 TTCTTGCCTACTATACCACCCGCTACCCAATCCCCAACGAAGTATTAAAAAGAAAACAGTAATTT
23216390 ATTTTTCTATTTGGTCACCAAAAGTCAAAGCATGTAATTTATTATTT
66 ATTTTTCTATTTGGTCACCAAAAGTCAAAGCATGTAATTTATTATTT
23216437 TTCTT
1 TTCTT
23216442 TTTGAACCTC
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 116 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (112 bp):
TTCTTGCCTACTATACCACCCGCTACCCAATCCCCAACGAAGTATTAAAAAGAAAACAGTAATTT
ATTTTTCTATTTGGTCACCAAAAGTCAAAGCATGTAATTTATTATTT
Found at i:23226258 original size:35 final size:35
Alignment explanation
Indices: 23226192--23226267 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
23226182 AATAAAATTT
*
23226192 AAATATTTTTAAATTATATTCATAATAAAATA-TCA
1 AAATATTTTCAAATTATATTCATAATAAAATAGT-A
* *
23226227 AAATATTTTACAAATTATATTTA-AATCAAATAGTA
1 AAATATTTT-CAAATTATATTCATAATAAAATAGTA
23226262 AAATAT
1 AAATAT
23226268 AAATTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 24 0.67
36 12 0.33
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (35 bp):
AAATATTTTCAAATTATATTCATAATAAAATAGTA
Found at i:23241108 original size:3 final size:3
Alignment explanation
Indices: 23241102--23241151 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
23241092 ATCTAAGATT
* **
23241102 TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23241146 TTA TTA
1 TTA TTA
23241152 AGTTAAAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:23245867 original size:58 final size:56
Alignment explanation
Indices: 23245757--23245900 Score: 171
Period size: 58 Copynumber: 2.5 Consensus size: 56
23245747 TTATGATTTT
* * *
23245757 TTAATTTATATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAG
1 TTAATTTA-ATAATAATTATATTAA-AATATGATTAAATTATATATTATTTTATTAAA
* * * *
23245815 TTATATTTAATAATAATTATGTTAAAATATGGTTAAATTTTTTATTATTTTTATTAAA
1 TTA-ATTTAATAATAATTATATTAAAATATGATTAAATTATATATTA-TTTTATTAAA
*
23245873 TTAATTTTAATAATAATTTTATTAAAAT
1 TTAA-TTTAATAATAATTATATTAAAAT
23245901 TTAATAACAA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
57 18 0.24
58 51 0.69
59 5 0.07
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (56 bp):
TTAATTTAATAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAA
Found at i:23246179 original size:11 final size:10
Alignment explanation
Indices: 23246163--23246208 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 10
23246153 CCACATTACT
23246163 AATATTTCATA
1 AATATTT-ATA
23246174 AATATTTATAAA
1 AATATTTAT--A
23246186 AATATTTCATA
1 AATATTT-ATA
23246197 AATATTTATA
1 AATATTTATA
23246207 AA
1 AA
23246209 AATATTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.22
11 15 0.47
12 8 0.25
13 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (10 bp):
AATATTTATA
Found at i:23246189 original size:23 final size:23
Alignment explanation
Indices: 23246163--23246216 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
23246153 CCACATTACT
23246163 AATATTTCATAAATATTTATAAA
1 AATATTTCATAAATATTTATAAA
23246186 AATATTTCATAAATATTTATAAA
1 AATATTTCATAAATATTTATAAA
23246209 AATATTTC
1 AATATTTC
23246217 TAACTCGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
AATATTTCATAAATATTTATAAA
Found at i:23246190 original size:12 final size:12
Alignment explanation
Indices: 23246173--23246215 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
23246163 AATATTTCAT
23246173 AAATATTTATAA
1 AAATATTTATAA
23246185 AAATATTTCAT--
1 AAATATTT-ATAA
23246196 AAATATTTATAA
1 AAATATTTATAA
23246208 AAATATTT
1 AAATATTT
23246216 CTAACTCGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 2 0.07
11 8 0.29
12 16 0.57
13 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:23263619 original size:14 final size:14
Alignment explanation
Indices: 23263600--23263627 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23263590 TGGTGTTTGA
23263600 GGTGAAAATACTAT
1 GGTGAAAATACTAT
23263614 GGTGAAAATACTAT
1 GGTGAAAATACTAT
23263628 CATAGTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
GGTGAAAATACTAT
Found at i:23263666 original size:6 final size:6
Alignment explanation
Indices: 23263655--23263679 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23263645 TAAAATAGAA
23263655 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
23263680 TACTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:23267230 original size:18 final size:18
Alignment explanation
Indices: 23267207--23267249 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23267197 GTTCAAGGAG
23267207 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
23267225 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
23267243 TAATTAA
1 TAATTAA
23267250 GAACTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:23269379 original size:20 final size:20
Alignment explanation
Indices: 23269354--23269393 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23269344 GGAAGTGTGC
23269354 TACATTCAGAAACAAAATAT
1 TACATTCAGAAACAAAATAT
23269374 TACATTCAGAAACAAAATAT
1 TACATTCAGAAACAAAATAT
23269394 GTTAAACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (20 bp):
TACATTCAGAAACAAAATAT
Found at i:23271512 original size:16 final size:16
Alignment explanation
Indices: 23271491--23271526 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
23271481 TTAAAAGTAA
23271491 AATAAAATAATCAAGT
1 AATAAAATAATCAAGT
23271507 AATAAAATAATCAAGT
1 AATAAAATAATCAAGT
23271523 AATA
1 AATA
23271527 CAGTTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (16 bp):
AATAAAATAATCAAGT
Found at i:23278998 original size:13 final size:13
Alignment explanation
Indices: 23278980--23279005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23278970 AGACTTAGGG
23278980 CTTTTGAAAAGTT
1 CTTTTGAAAAGTT
23278993 CTTTTGAAAAGTT
1 CTTTTGAAAAGTT
23279006 TGGTTTAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
CTTTTGAAAAGTT
Found at i:23281730 original size:30 final size:28
Alignment explanation
Indices: 23281694--23281753 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
23281684 CAAAAATATT
*
23281694 ATTTATTAAATTTTGAAGATTTTATTTGTC
1 ATTTATTAAATTTT-AA-ATTTTATTTATC
* *
23281724 ATTTATTATATTTTAAATTTTTTTTATC
1 ATTTATTAAATTTTAAATTTTATTTATC
23281752 AT
1 AT
23281754 AATATATATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 2 0.07
30 13 0.48
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (28 bp):
ATTTATTAAATTTTAAATTTTATTTATC
Found at i:23283291 original size:13 final size:13
Alignment explanation
Indices: 23283275--23283299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23283265 TTTTAAAATA
23283275 AAATTTTTTATAT
1 AAATTTTTTATAT
23283288 AAATTTTTTATA
1 AAATTTTTTATA
23283300 ATTTATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AAATTTTTTATAT
Found at i:23289730 original size:57 final size:57
Alignment explanation
Indices: 23289669--23289783 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
23289659 TGTTATAAAA
*
23289669 AGTATTATAATATGCTCATTTATTAAAAATTGTAGCAAAAAGATATGAACATAACTT
1 AGTATTATAATATACTCATTTATTAAAAATTGTAGCAAAAAGATATGAACATAACTT
23289726 AGTATTATAATATACTCATTTATTAAAAATTGTAGCAAAAAGATATGAACATAACTT
1 AGTATTATAATATACTCATTTATTAAAAATTGTAGCAAAAAGATATGAACATAACTT
23289783 A
1 A
23289784 TTTACGTGTC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.35
Consensus pattern (57 bp):
AGTATTATAATATACTCATTTATTAAAAATTGTAGCAAAAAGATATGAACATAACTT
Found at i:23289996 original size:17 final size:16
Alignment explanation
Indices: 23289940--23289996 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
23289930 TATTGAACAC
23289940 TTATATATTATAAAAT
1 TTATATATTATAAAAT
* *
23289956 TTATATTATTTTAAACCT
1 TTATA-TATTATAAA-AT
*
23289974 AATATATATTATAAAAT
1 -TTATATATTATAAAAT
23289991 GTTATA
1 -TTATA
23289997 ACTTAGCATA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
16 5 0.16
17 13 0.42
18 9 0.29
19 4 0.13
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (16 bp):
TTATATATTATAAAAT
Found at i:23311914 original size:20 final size:20
Alignment explanation
Indices: 23311886--23311923 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23311876 TTGAATAATC
23311886 ACCCATATTTCTTTCAAATG
1 ACCCATATTTCTTTCAAATG
*
23311906 ACCCCTATTTCTTTCAAA
1 ACCCATATTTCTTTCAAA
23311924 GGACTCGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (20 bp):
ACCCATATTTCTTTCAAATG
Found at i:23318536 original size:46 final size:46
Alignment explanation
Indices: 23318484--23318709 Score: 319
Period size: 46 Copynumber: 4.9 Consensus size: 46
23318474 TTCTGAAATG
23318484 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
23318530 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GA
** *
23318576 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TAGA
** * *
23318623 AAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGACAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* * * * *
23318669 AAATGAGTAAGACCATAGTTGCAAGATACTATGGCATCATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
23318710 TTGAAGATAA
Statistics
Matches: 163, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
46 123 0.75
47 40 0.25
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
Found at i:23318679 original size:93 final size:92
Alignment explanation
Indices: 23318481--23318709 Score: 325
Period size: 93 Copynumber: 2.5 Consensus size: 92
23318471 GCTTTCTGAA
* **
23318481 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGAAAATGAATAAGACCAT
* *
23318546 GGTTGAAAGATACCATGGCAACATGAT
66 GGTTGAAAGATACCATGACAACATGAC
* *
23318573 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGGAAATGAATAAGACCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-GAGAAAATGAATAAGACCA
23318638 TGGTTGAAAGATACCATGACAACATGAC
65 TGGTTGAAAGATACCATGACAACATGAC
* * * * *
23318666 A-GAAAATGAGTAAGACCATAGTTGCAAGATACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
23318710 TTGAAGATAA
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
92 46 0.37
93 77 0.63
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (92 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGAAAATGAATAAGACCAT
GGTTGAAAGATACCATGACAACATGAC
Found at i:23331337 original size:23 final size:21
Alignment explanation
Indices: 23331291--23331345 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
23331281 TTAAAAAAAT
23331291 TAATTACAA-TAATAATAATA
1 TAATTACAATTAATAATAATA
*
23331311 -AATTACAATTAATATATCCATA
1 TAATTACAATTAATA-AT-AATA
*
23331333 TAATTAAAATTAA
1 TAATTACAATTAA
23331346 AATTAATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 8 0.28
20 5 0.17
21 2 0.07
22 3 0.10
23 11 0.38
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TAATTACAATTAATAATAATA
Found at i:23337995 original size:20 final size:20
Alignment explanation
Indices: 23337962--23338013 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
23337952 GTACTCAGAA
23337962 AATTTTTCAGAAAAACATTAC
1 AATTTTTCA-AAAAACATTAC
*
23337983 AATTTTTCAAAAAATATTAC
1 AATTTTTCAAAAAACATTAC
23338003 AATTTTTCAAA
1 AATTTTTCAAA
23338014 GGTGCAGGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (20 bp):
AATTTTTCAAAAAACATTAC
Found at i:23339476 original size:24 final size:24
Alignment explanation
Indices: 23339420--23339586 Score: 60
Period size: 25 Copynumber: 6.8 Consensus size: 24
23339410 TCGAGCTGAG
23339420 TATCGGGAAGCTCATACA-AGCCATAA
1 TATCGGGAAGCTCA-A-AGAGCCA-AA
*
23339446 -A-CTGGAAGCTCAAGAGAGCCAAA
1 TATCGGGAAGCTCAA-AGAGCCAAA
* ** *
23339469 T-TCGGGAAACTCATGCGTGCC-AA
1 TATCGGGAAGCTCA-AAGAGCCAAA
* * *
23339492 TATGGGGAAGCTCTATAGAGCTATTAA
1 TATCGGGAAGCTC-AAAGAGCCA--AA
* *
23339519 T-T-AGGAAGCTCATAAGAGCCAAT
1 TATCGGGAAGCTCA-AAGAGCCAAA
* *
23339542 TATCGGGAAGCTCATAAGAGCCTAT
1 TATCGGGAAGCTCA-AAGAGCCAAA
* *
23339567 TATCGAGACGCTCATAAGAG
1 TATCGGGAAGCTCA-AAGAG
23339587 TTGTGGTGTG
Statistics
Matches: 108, Mismatches: 21, Indels: 25
0.70 0.14 0.16
Matches are distributed among these distances:
23 9 0.08
24 42 0.39
25 53 0.49
26 1 0.01
27 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (24 bp):
TATCGGGAAGCTCAAAGAGCCAAA
Found at i:23339536 original size:25 final size:26
Alignment explanation
Indices: 23339497--23339586 Score: 91
Period size: 25 Copynumber: 3.6 Consensus size: 26
23339487 GCCAATATGG
*
23339497 GGAAGCTC-TATAGAG-CTATTAATTA
1 GGAAGCTCATA-AGAGCCTATTAATCA
* *
23339522 GGAAGCTCATAAGAGCCAATT-ATCG
1 GGAAGCTCATAAGAGCCTATTAATCA
23339547 GGAAGCTCATAAGAGCCTATT-ATC-
1 GGAAGCTCATAAGAGCCTATTAATCA
*
23339571 GAGACGCTCATAAGAG
1 G-GAAGCTCATAAGAG
23339587 TTGTGGTGTG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
24 1 0.02
25 50 0.88
26 6 0.11
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
GGAAGCTCATAAGAGCCTATTAATCA
Found at i:23343573 original size:14 final size:13
Alignment explanation
Indices: 23343550--23343579 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
23343540 TTTTTAAATG
23343550 TTTTAATTATTTA
1 TTTTAATTATTTA
23343563 TTTTAAATTATTTA
1 TTTT-AATTATTTA
23343577 TTT
1 TTT
23343580 ATGAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAATTATTTA
Found at i:23344790 original size:21 final size:20
Alignment explanation
Indices: 23344764--23344836 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
23344754 ACATATATGT
23344764 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
23344785 ATAATAATAGTGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
23344807 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
23344827 GTAACAATAT
1 ATAATAATAT
23344837 TAGTAATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.24
21 27 0.60
22 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:23344808 original size:16 final size:15
Alignment explanation
Indices: 23344779--23344821 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
23344769 AATGATGAAA
23344779 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
23344793 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
23344809 ATAATAATAAATA
1 ATAATAATAAATA
23344822 TAATAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:23347060 original size:86 final size:87
Alignment explanation
Indices: 23346934--23347098 Score: 219
Period size: 86 Copynumber: 1.9 Consensus size: 87
23346924 AACATCTATT
* * *
23346934 GAAAATACCTCGGCGTATGACCTGAGGCTCCATTCACCTCTAGCAATATGAATTGATTTTTG-AA
1 GAAAATACCTCAGCG-ATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-TTTTTGCAA
23346998 AACA-TAAATTGAAAAACAGAAATG
64 AACAGT-AATTGAAAAACAGAAATG
* * * *
23347022 GAAAATACCTCAGC-ATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTGCCAAA
1 GAAAATACCTCAGCGATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGTTTTTGCAAAA
23347086 CAGTAATTGAAAA
66 CAGTAATTGAAAA
23347099 TACCTCAGCG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
85 6 0.09
86 48 0.71
87 1 0.01
88 13 0.19
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (87 bp):
GAAAATACCTCAGCGATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGTTTTTGCAAAA
CAGTAATTGAAAAACAGAAATG
Found at i:23347350 original size:73 final size:73
Alignment explanation
Indices: 23347198--23347755 Score: 752
Period size: 73 Copynumber: 7.5 Consensus size: 73
23347188 AACATGTGAA
* * ** * *
23347198 CTGAGGCTCAACTCACTTTTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCT
*
23347263 CGGCGTG-C
65 CAGCGTGTC
*
23347271 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTGAAATTACCT
23347335 CAGCGTGTC
65 CAGCGTGTC
23347344 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAATTGAACAGAATT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAC----A--G---A-AATT
* *
23347408 GAAAATACCTCAACGTGT-
55 GAAATTACCTCAGCGTGTC
*
23347426 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
**
23347491 AATGTGTC
66 AGCGTGTC
* *
23347499 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCT
23347564 CAGCGTGTC
65 CAGCGTGTC
*
23347573 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--TTTTGAAAACA-AAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
23347635 AGCGTGTC
66 AGCGTGTC
** *
23347643 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCT
23347708 CAGCGTGTC
65 CAGCGTGTC
*
23347717 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
23347756 GAAAAACAAA
Statistics
Matches: 439, Mismatches: 27, Indels: 38
0.87 0.05 0.08
Matches are distributed among these distances:
70 56 0.13
71 16 0.04
72 45 0.10
73 128 0.29
74 123 0.28
76 1 0.00
77 1 0.00
78 1 0.00
79 1 0.00
82 41 0.09
83 26 0.06
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (73 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
AGCGTGTC
Found at i:23347451 original size:155 final size:145
Alignment explanation
Indices: 23347198--23347769 Score: 783
Period size: 144 Copynumber: 3.9 Consensus size: 145
23347188 AACATGTGAA
* * * *
23347198 CTGAGGCTCAACTCACTTTTCGCAATATGAGTTGATTTTTTTGA-AAGTAGAATTTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA-CAGAAATTGAAAATACC
* * *
23347262 TCGGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG
65 TCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTG-AAAACAGAAATTG
23347326 AAATTACCTCAGCGTGTC
128 AAATTACCTCAGCGTGTC
*** *
23347344 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGAATTG
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--TTGACA-ACA--G---A-AATTG
* *
23347409 AAAATACCTCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAC
57 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--TTTTGAAAAC
* **
23347473 AGAAATTGAAAATACCTCAATGTGTC
120 AGAAATTGAAATTACCTCAGCGTGTC
* *
23347499 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAAATACCT
23347564 CAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACA-AAATTGAAA
66 CAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAGAAATTGAAA
23347628 TTACCTCAGCGTGTC
131 TTACCTCAGCGTGTC
** *
23347643 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAAATACCT
*
23347708 CAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT
66 CAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAGAAATT
23347770 AAAAGGCTTA
Statistics
Matches: 384, Mismatches: 27, Indels: 30
0.87 0.06 0.07
Matches are distributed among these distances:
144 132 0.34
145 17 0.04
146 63 0.16
147 35 0.09
148 1 0.00
149 2 0.01
150 2 0.01
151 1 0.00
152 2 0.01
153 3 0.01
154 1 0.00
155 119 0.31
156 6 0.02
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (145 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAAATACCT
CAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAGAAATTGAAA
TTACCTCAGCGTGTC
Found at i:23347582 original size:74 final size:74
Alignment explanation
Indices: 23347399--23347755 Score: 557
Period size: 74 Copynumber: 4.9 Consensus size: 74
23347389 ACATAAATTG
* *
23347399 AACAG-AATTGAAAATACCTCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
23347461 TTTTTTGAA
66 TTTTTTGAA
* ** *
23347470 AACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
23347535 TTTTTTGAC
66 TTTTTTGAA
*
23347544 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
23347608 --TTTTGAA
66 TTTTTTGAA
**
23347615 AACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
23347679 TTTTTTGAC
66 TTTTTTGAA
*
23347688 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
23347753 TTT
66 TTT
23347756 GAAAAACAAA
Statistics
Matches: 263, Mismatches: 16, Indels: 11
0.91 0.06 0.04
Matches are distributed among these distances:
70 56 0.21
71 15 0.06
72 21 0.08
73 44 0.17
74 127 0.48
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (74 bp):
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGAA
Found at i:23360319 original size:21 final size:20
Alignment explanation
Indices: 23360293--23360343 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
23360283 ACATATATGT
23360293 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
23360314 ATAATAATAGTGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
23360336 AT-ATAATA
1 ATAATAATA
23360344 ATAAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.04
21 21 0.75
22 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:23360337 original size:16 final size:15
Alignment explanation
Indices: 23360308--23360350 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
23360298 AATGATGAAA
23360308 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
23360322 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
23360338 ATAATAATAAATA
1 ATAATAATAAATA
23360351 TAATAGTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:23364613 original size:2 final size:2
Alignment explanation
Indices: 23364608--23364638 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23364598 AAGTATACTT
23364608 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23364639 TTCGGATACT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23367645 original size:41 final size:41
Alignment explanation
Indices: 23367592--23367683 Score: 157
Period size: 41 Copynumber: 2.2 Consensus size: 41
23367582 TTAAAAATAT
23367592 TTATATTAAAAAATAATACCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAATAATACCATAAATATAATAAATGTTTTA
* *
23367633 TTATATTAAAAAATAATACCATAAATATAGTTAATGTTTTA
1 TTATATTAAAAAATAATACCATAAATATAATAAATGTTTTA
*
23367674 TTGTATTAAA
1 TTATATTAAA
23367684 TATATTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (41 bp):
TTATATTAAAAAATAATACCATAAATATAATAAATGTTTTA
Found at i:23367852 original size:26 final size:26
Alignment explanation
Indices: 23367793--23367858 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 26
23367783 ATTTAATATA
23367793 AATATAATATAAATAATTATTATTTT
1 AATATAATATAAATAATTATTATTTT
23367819 ACCTATATAAT-TAATATAATTATT-TTTAT
1 A---ATATAATATAA-ATAATTATTATTT-T
23367848 AATATAATATA
1 AATATAATATA
23367859 TTTGGGCCGG
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
26 8 0.24
27 2 0.06
28 6 0.18
29 18 0.53
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (26 bp):
AATATAATATAAATAATTATTATTTT
Found at i:23388944 original size:11 final size:11
Alignment explanation
Indices: 23388930--23388966 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
23388920 GTCTTCTCAC
23388930 AATTCTCTCTA
1 AATTCTCTCTA
23388941 AATTCTCTC-A
1 AATTCTCTCTA
*
23388951 AATT-TCTCTC
1 AATTCTCTCTA
23388961 AATTCT
1 AATTCT
23388967 TGTCAAAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 4 0.17
10 9 0.39
11 10 0.43
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTCTCTCTA
Found at i:23388958 original size:20 final size:22
Alignment explanation
Indices: 23388924--23388966 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
23388914 ACAATAGTCT
23388924 TCTCACAATTCTCTCTAAATTC
1 TCTCACAATTCTCTCTAAATTC
*
23388946 TCTCA-AATT-TCTCTCAATTC
1 TCTCACAATTCTCTCTAAATTC
23388966 T
1 T
23388967 TGTCAAAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 4 0.20
22 5 0.25
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (22 bp):
TCTCACAATTCTCTCTAAATTC
Found at i:23390144 original size:7 final size:7
Alignment explanation
Indices: 23390124--23390159 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
23390114 CATAATAAAA
23390124 TAGTCATT
1 TAGT-ATT
*
23390132 TCGTATT
1 TAGTATT
23390139 TAGTATT
1 TAGTATT
23390146 TAGTATT
1 TAGTATT
23390153 TAGTATT
1 TAGTATT
23390160 ACGTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 23 0.88
8 3 0.12
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.56
Consensus pattern (7 bp):
TAGTATT
Found at i:23390165 original size:14 final size:15
Alignment explanation
Indices: 23390124--23390165 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
23390114 CATAATAAAA
23390124 TAGTCATTT-CGTATT
1 TAGT-ATTTACGTATT
23390139 TAGTATTTA-GTATT
1 TAGTATTTACGTATT
23390153 TAGTA-TTACGTAT
1 TAGTATTTACGTAT
23390166 ATAACTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.12
14 18 0.72
15 4 0.16
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.52
Consensus pattern (15 bp):
TAGTATTTACGTATT
Found at i:23391623 original size:44 final size:45
Alignment explanation
Indices: 23391570--23391669 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 45
23391560 CTTTGACATT
* *
23391570 GACTTACATGAATT-ATTCCTGTCTCCAATGCCATA-TATAATATG
1 GACTTACATG-ATTCAATCCTGTCTCCAAAGCCATATTATAATATG
* *
23391614 GACTTACATGGTTCAATCCTGTCTCCAAAGCCATATTTCTAATATG
1 GACTTACATGATTCAATCCTGTCTCCAAAGCCATA-TTATAATATG
23391660 GACTTACATG
1 GACTTACATG
23391670 GCTCATTTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 2 0.04
44 29 0.59
46 18 0.37
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (45 bp):
GACTTACATGATTCAATCCTGTCTCCAAAGCCATATTATAATATG
Found at i:23394501 original size:39 final size:39
Alignment explanation
Indices: 23394442--23394620 Score: 277
Period size: 39 Copynumber: 4.6 Consensus size: 39
23394432 ATCGTGATCT
** * *
23394442 GAAGCCCGAAATCTAGCTGAAGTACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
23394481 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* **
23394520 GAAGCCCGGAGGCTAACTGAAGCATGTAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
23394559 GGAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
23394598 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
23394621 TCATCAGAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 127 1.00
ACGTcount: A:0.36, C:0.22, G:0.28, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:23394676 original size:20 final size:20
Alignment explanation
Indices: 23394651--23394702 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
23394641 CCCCAAAAGG
* *
23394651 GTTAACTGAAACTCATATGA
1 GTTAACGGAAACTCATAAGA
*
23394671 GTTAACGGAAGCTCATAAGA
1 GTTAACGGAAACTCATAAGA
23394691 GTTAAACGGAAA
1 GTT-AACGGAAA
23394703 GCAAACACGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.23
Consensus pattern (20 bp):
GTTAACGGAAACTCATAAGA
Found at i:23397187 original size:14 final size:14
Alignment explanation
Indices: 23397168--23397195 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23397158 ATTTAATAAA
23397168 TAAAAATAAAAAAC
1 TAAAAATAAAAAAC
23397182 TAAAAATAAAAAAC
1 TAAAAATAAAAAAC
23397196 ATATAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (14 bp):
TAAAAATAAAAAAC
Found at i:23400339 original size:21 final size:21
Alignment explanation
Indices: 23400313--23400354 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23400303 ATATTAGTAT
23400313 ATAAATAGAAATAAAAAGATA
1 ATAAATAGAAATAAAAAGATA
*
23400334 ATAAATAGAAATAAAATGATA
1 ATAAATAGAAATAAAAAGATA
23400355 GTAGAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (21 bp):
ATAAATAGAAATAAAAAGATA
Found at i:23400346 original size:10 final size:10
Alignment explanation
Indices: 23400313--23400348 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
23400303 ATATTAGTAT
23400313 ATAAATAGAA
1 ATAAATAGAA
*
23400323 ATAAAAAGATA
1 ATAAATAGA-A
23400334 ATAAATAGAA
1 ATAAATAGAA
23400344 ATAAA
1 ATAAA
23400349 ATGATAGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (10 bp):
ATAAATAGAA
Found at i:23400373 original size:19 final size:17
Alignment explanation
Indices: 23400339--23400373 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
23400329 AGATAATAAA
23400339 TAGAAATAAAATGATAG
1 TAGAAATAAAATGATAG
23400356 TAGAAATATAAATAGATA
1 TAGAAATA-AAAT-GATA
23400374 AATAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (17 bp):
TAGAAATAAAATGATAG
Found at i:23400386 original size:15 final size:14
Alignment explanation
Indices: 23400359--23400441 Score: 64
Period size: 14 Copynumber: 5.8 Consensus size: 14
23400349 ATGATAGTAG
*
23400359 AAATATAAATAGAT
1 AAATAAAAATAGAT
23400373 AAATAAAAATTAGAT
1 AAATAAAAA-TAGAT
*
23400388 AAATAATAATAGTATT
1 AAATAAAAATAG-A-T
*
23400404 AGAATAATAA-A-AT
1 A-AATAAAAATAGAT
*
23400417 AAATATAAATAGA-
1 AAATAAAAATAGAT
23400430 AACATAAAAATA
1 AA-ATAAAAATA
23400442 ATAGTAATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
12 6 0.11
13 5 0.09
14 21 0.37
15 14 0.25
16 3 0.05
17 8 0.14
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (14 bp):
AAATAAAAATAGAT
Found at i:23400391 original size:29 final size:27
Alignment explanation
Indices: 23400359--23400444 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 27
23400349 ATGATAGTAG
23400359 AAATATAAATAGATAAATAAAAATTAGAT
1 AAATATAAATAGATAAATAAAAA-TA-AT
*
23400388 AAATA-ATAATAGTATTAGAATAATAA-AAT
1 AAATATA-AATAG-A-TA-AATAAAAATAAT
23400417 AAATATAAATAGA-AACATAAAAATAAT
1 AAATATAAATAGATAA-ATAAAAATAAT
23400444 A
1 A
23400445 GTAATAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 4 0.08
28 2 0.04
29 22 0.46
30 3 0.06
31 2 0.04
32 7 0.15
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (27 bp):
AAATATAAATAGATAAATAAAAATAAT
Found at i:23400450 original size:23 final size:23
Alignment explanation
Indices: 23400386--23400450 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
23400376 TAAAAATTAG
*
23400386 ATAAATAATAATAGTATTAGAATA
1 ATAAA-AATAATAGTAATAGAATA
23400410 AT-AAAATAAATA-TAAATAGAA-A
1 ATAAAAAT-AATAGT-AATAGAATA
23400432 CATAAAAATAATAGTAATA
1 -ATAAAAATAATAGTAATA
23400451 ATATATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
22 5 0.14
23 22 0.63
24 8 0.23
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (23 bp):
ATAAAAATAATAGTAATAGAATA
Found at i:23401468 original size:44 final size:44
Alignment explanation
Indices: 23401399--23401776 Score: 248
Period size: 44 Copynumber: 8.6 Consensus size: 44
23401389 TGGAACTTAA
* * * *
23401399 AGGG-GATAAAATCTGGTAATCTTCAGTTTGCTCCACTATTGCTT
1 AGGGAGATAAGATCT-GTAATTTTCAGCTTGCTCCACTACTGCTT
* *
23401443 AGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTACTT
1 AGGGAGATAAGATCTGTAATTTTCAGCTTGCTCCACTACTGCTT
* * * * * *
23401487 AAGGAGATCAG-GCT-CACCGTTTTC-GATCTGCT-CAGCTACTGCTT
1 AGGGAGATAAGATCTGTA--ATTTTCAGCT-TGCTCCA-CTACTGCTT
23401531 AGGGAGATAAGATCTGTAATTTTCAGCTTGCTTCC-CTACTGCTT
1 AGGGAGATAAGATCTGTAATTTTCAGCTTGC-TCCACTACTGCTT
23401575 AGGGAGATAAGATCTGTAATTTTCAGCTTGCTTCC-CTACTGCTT
1 AGGGAGATAAGATCTGTAATTTTCAGCTTGC-TCCACTACTGCTT
* * * ** * *
23401619 AGGGGGATAAGACTCATCGT--CTTT--GATCACTCCACTATTTCTT
1 AGGGAGATAAGA-TC-T-GTAATTTTCAGCTTGCTCCACTACTGCTT
* *
23401662 AGGGAGATAAGATCTGTAATTTTCAGCCTGTG-ACC-CTACTACTT
1 AGGGAGATAAGATCTGTAATTTTCAG-CT-TGCTCCACTACTGCTT
* * * * * * *
23401706 AGGGGGTTAAG-GCT-CACTGTCTTC-GATCTGCTCCACTACTACTT
1 AGGGAGATAAGATCTGTAAT-T-TTCAGCT-TGCTCCACTACTGCTT
*
23401750 AGAGAGATAAGATCTGTAATTTTCAGC
1 AGGGAGATAAGATCTGTAATTTTCAGC
23401777 CTGTTATCCT
Statistics
Matches: 257, Mismatches: 50, Indels: 53
0.71 0.14 0.15
Matches are distributed among these distances:
40 2 0.01
41 1 0.00
42 14 0.05
43 32 0.12
44 175 0.68
45 26 0.10
46 5 0.02
47 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATTTTCAGCTTGCTCCACTACTGCTT
Found at i:23401614 original size:132 final size:131
Alignment explanation
Indices: 23401399--23401688 Score: 365
Period size: 132 Copynumber: 2.2 Consensus size: 131
23401389 TGGAACTTAA
* * * *
23401399 AGGG-GATAAAATCTGGTAATCTTCAGTTTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAAT
1 AGGGAGATAAGATCT-GTAATTTTCAGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
* * *
23401463 TTTCAGCCTGCTCCACTACTACTTAAGGAGATCAGGCTCACCGT-TTTCGATCTGCT-CAGCTAC
65 TTTCAGCCTGCTCCACTACTACTTAAGGAGATAAGACTCACCGTCTTT-GATC-ACTCCA-CTAC
23401526 TGCTT
127 TGCTT
23401531 AGGGAGATAAGATCTGTAATTTTCAGCTTGCTTCC-CTACTGCTTAGGGAGATAAGATCTGTAAT
1 AGGGAGATAAGATCTGTAATTTTCAGCTTGC-TCCACTACTGCTTAGGGAGATAAGATCTGTAAT
* * * * * * *
23401595 TTTCAGCTTGCTTCC-CTACTGCTTAGGGGGATAAGACTCATCGTCTTTGATCACTCCACTATTT
65 TTTCAGCCTGC-TCCACTACTACTTAAGGAGATAAGACTCACCGTCTTTGATCACTCCACTACTG
23401659 CTT
129 CTT
23401662 AGGGAGATAAGATCTGTAATTTTCAGC
1 AGGGAGATAAGATCTGTAATTTTCAGC
23401689 CTGTGACCCT
Statistics
Matches: 139, Mismatches: 14, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
131 36 0.26
132 85 0.61
133 18 0.13
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (131 bp):
AGGGAGATAAGATCTGTAATTTTCAGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
TTCAGCCTGCTCCACTACTACTTAAGGAGATAAGACTCACCGTCTTTGATCACTCCACTACTGCT
T
Found at i:23401769 original size:175 final size:175
Alignment explanation
Indices: 23401566--23402250 Score: 601
Period size: 175 Copynumber: 4.0 Consensus size: 175
23401556 GCTTGCTTCC
* * * * *
23401566 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGCTT-CCCTACTGCTTAGGGGGATAAG
1 CTACTACTTAGAGAGATAAGATCTGTAATTTTCAGCCTG-TTACCCTACTGCTTAGAGAGATAAG
* * *
23401630 ACTC-ATCGTCTTTGATC-ACTCCACTA-TTTCTTAGGGAGATAAGATCTGTAATTTT-CAGCCT
65 ACTCGCT-GTCTTCGATCTACTCCACTACTGT-TTA-GG-GATAAGATCTGTAATTTTCCAGCCT
23401691 GTGACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCA
126 GTGACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCA
* * *
23401741 CTACTACTTAGAGAGATAAGATCTGTAATTTTCAGCCTGTTATCCTACTGCTTAGAGAGTTAAGG
1 CTACTACTTAGAGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGAGAGATAAGA
* *
23401806 CTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTAATTTTCCAGCCTGTTAC
66 CTCGCTGTCTTCGATCTACTCCACTACTGTTTAGGGATAAGATCTGTAATTTTCCAGCCTGTGAC
**
23401871 CCTACTACTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCA
131 CCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCA
** * * * * * * * * *
23401916 CTACTGTTTAG-G-G--GAGAT-TTTTATTTTCCAGACTATTACTCTACTGCTTAGGGGGTTAAG
1 CTACTACTTAGAGAGATAAGATCTGTAATTTT-CAGCCTGTTACCCTACTGCTTAGAGAGATAAG
* * * * * *
23401976 GCTTGCTATCTTCGATCTGCTCCACTACTGTTTAGGGGAT---ATCTGT-ATTTTTCAGCCTGTT
65 ACTCGCTGTCTTCGATCTACTCCACTACTGTTTA-GGGATAAGATCTGTAATTTTCCAGCCTGTG
* * * ** *
23402037 ACCTTACTGCTTAAGGGGTTAAGGCTTGCTGTCTTCGATCTACTCCA
129 ACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCA
** * * * *
23402084 CTACTGTTTAG-G-G---AGATCTGT-ATTTTCCAGCCTATTACCCTACTGTTTAG-GGGGTCAA
1 CTACTACTTAGAGAGATAAGATCTGTAATTTT-CAGCCTGTTACCCTACTGCTTAGAGAGAT-AA
* * * * * *
23402142 -AGCTTGCTGTCTTCGATCTACTCCACTACTGTTTAGGG--GAGATTTGT-ATTTTTCAGCTTAT
64 GA-CTCGCTGTCTTCGATCTACTCCACTACTGTTTAGGGATAAGATCTGTAATTTTCCAGCCTGT
* * *** *
23402203 TACCCTACTGCTTAGGGGGTTAAGGCTTGTTGCCTTCGATCTGCTCCA
128 GACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCA
23402251 TTATTGTTTA
Statistics
Matches: 448, Mismatches: 49, Indels: 34
0.84 0.09 0.06
Matches are distributed among these distances:
166 7 0.02
167 123 0.27
168 72 0.16
169 6 0.01
170 7 0.02
171 62 0.14
172 5 0.01
173 1 0.00
174 21 0.05
175 130 0.29
176 12 0.03
177 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (175 bp):
CTACTACTTAGAGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGAGAGATAAGA
CTCGCTGTCTTCGATCTACTCCACTACTGTTTAGGGATAAGATCTGTAATTTTCCAGCCTGTGAC
CCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCA
Found at i:23401789 original size:44 final size:43
Alignment explanation
Indices: 23401438--23401884 Score: 217
Period size: 44 Copynumber: 10.2 Consensus size: 43
23401428 GCTCCACTAT
*
23401438 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTAC
1 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTCC-CTAC
* * * * * * * * *
23401482 TACTTAAGGAGATCAG-GCT-CACCGTTTTC-GATCTGCTCAGCTAC
1 TGCTTAGGGAGATAAGATCTGTA--ATTTTCAG-CCTGTTC-CCTAC
*
23401526 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGCTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTG-TTCCCTAC
*
23401570 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGCTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTG-TTCCCTAC
* * *
23401614 TGCTTAGGGGGATAAGACTCATCGT-CTTTGATCA--C---TCCACTAT
1 TGCTTAGGGAGATAAGA-TC-T-GTAATTT--TCAGCCTGTTCC-CTAC
* *
23401657 TTCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTGACCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGT-TCCCTAC
* * * * * * * *
23401701 TACTTAGGGGGTTAAG-GCT-CACTGTCTTC-GATCTGCTCCACTAC
1 TGCTTAGGGAGATAAGATCTGTAAT-T-TTCAG-CCTGTTCC-CTAC
* * *
23401745 TACTTAGAGAGATAAGATCTGTAATTTTCAGCCTGTTATCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTT-CCCTAC
* * * * * * *
23401789 TGCTTAGAGAGTTAAG-GCTCGCT-GTCTTC-GATCTGCTCCACTAC
1 TGCTTAGGGAGATAAGATCT-G-TAATTTTCAG-CCTGTTCC-CTAC
*
23401833 TGTTTA-GG-GATAAGATCTGTAATTTTCCAGCCTGTTACCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATTTT-CAGCCTGTT-CCCTAC
*
23401876 TACTTAGGG
1 TGCTTAGGG
23401885 GGTTAAGGCT
Statistics
Matches: 301, Mismatches: 63, Indels: 78
0.68 0.14 0.18
Matches are distributed among these distances:
39 3 0.01
40 2 0.01
41 6 0.02
42 17 0.06
43 47 0.16
44 199 0.66
45 15 0.05
46 7 0.02
47 2 0.01
48 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (43 bp):
TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTCCCTAC
Found at i:23402168 original size:167 final size:168
Alignment explanation
Indices: 23401673--23402277 Score: 793
Period size: 167 Copynumber: 3.6 Consensus size: 168
23401663 GGGAGATAAG
* * **
23401673 ATCTGTAATTTTCAGCCTGTGACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGCT
1 ATCTGTATTTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCT
** * * * *
23401738 CCACTACTACTTAGAGAGATAAGATCTGTAATTTT-CAGCCTGTTATCCTACTGCTTAGAGAGTT
66 CCACTACTGTTTAGAG-G---AGATCTGT-ATTTTCCAGCCTATTACCCTACTGCTTAGGGGGTT
*
23401802 AAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTA-GGGAT
126 AAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAT
*
23401844 AAGATCTGTAATTTTCCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTGTCTTCGATC
1 ---ATCTGT-ATTTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTGTCTTCGATC
* * * * *
23401909 TGCTCCACTACTGTTTAGGGGAGATTTTTATTTTCCAGACTATTACTCTACTGCTTAGGGGGTTA
62 TGCTCCACTACTGTTTAGAGGAGATCTGTATTTTCCAGCCTATTACCCTACTGCTTAGGGGGTTA
*
23401974 AGGCTTGCTATCTTCGATCTGCTCCACTACTGTTTAGGGGAT
127 AGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAT
* * * *
23402016 ATCTGTATTTTTCAGCCTGTTACCTTACTGCTTAAGGGGTTAAGGCTTGCTGTCTTCGATCTACT
1 ATCTGTATTTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCT
* * *
23402081 CCACTACTGTTTAG-GGAGATCTGTATTTTCCAGCCTATTACCCTACTGTTTAGGGGGTCAAAGC
66 CCACTACTGTTTAGAGGAGATCTGTATTTTCCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGC
* *
23402145 TTGCTGTCTTCGATCTACTCCACTACTGTTTAGGGGAG
131 TTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAT
* * * * * *
23402183 ATTTGTATTTTTCAGCTTATTACCCTACTGCTTAGGGGGTTAAGGCTTGTTGCCTTCGATCTGCT
1 ATCTGTATTTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCT
* *
23402248 CCATTATTGTTTAGAGGAGATCTGTATTTT
66 CCACTACTGTTTAGAGGAGATCTGTATTTT
23402278 TCTATCTGCT
Statistics
Matches: 384, Mismatches: 43, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
167 147 0.38
168 83 0.22
169 6 0.02
170 5 0.01
171 64 0.17
172 5 0.01
174 7 0.02
175 67 0.17
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (168 bp):
ATCTGTATTTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCT
CCACTACTGTTTAGAGGAGATCTGTATTTTCCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGC
TTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAT
Found at i:23402184 original size:251 final size:253
Alignment explanation
Indices: 23401694--23402279 Score: 822
Period size: 251 Copynumber: 2.3 Consensus size: 253
23401684 TCAGCCTGTG
* ** ** *
23401694 ACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTACTTAGAGAGATA
1 ACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAG-GGGAT-
* *
23401759 AGATCTGTAATTTTCAGCCTGTTATCCTACTGCTTAGAGAGTTAAGGCTCGCTGTCTTCGATCTG
64 --ATCTGTATTTTTCAGCCTGTTATCCTACTGCTTAGAGAGTTAAGGCTCGCTGTCTTCGATCTA
* *
23401824 CTCCACTACTGTTTAGGGATAAGATCTGTAATTTTCCAGCCTGTTACCCTACTACTTAGGGGGTT
127 CTCCACTACTGTTTAGGG--AAGATCTGTAATTTTCCAGCCTATTACCCTACTACTTAGGGGGTC
* * *
23401889 AAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATTTTTATTTTCCAGAC-TATT
190 AAAGCTTGCTGTCTTCGATCTACTCCACTACTGTTTAGGGGAGATTTGTATTTTCCAG-CTTATT
* *
23401953 ACTCTACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGCTCCACTACTGTTTAGGGGATAT
1 ACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGATAT
* *
23402018 CTGTATTTTTCAGCCTGTTA-CCTTACTGCTTA-AGGGGTTAAGGCTTGCTGTCTTCGATCTACT
66 CTGTATTTTTCAGCCTGTTATCC-TACTGCTTAGA-GAGTTAAGGCTCGCTGTCTTCGATCTACT
**
23402081 CCACTACTGTTTAGGG-AGATCTGT-ATTTTCCAGCCTATTACCCTACTGTTTAGGGGGTCAAAG
129 CCACTACTGTTTAGGGAAGATCTGTAATTTTCCAGCCTATTACCCTACTACTTAGGGGGTCAAAG
*
23402144 CTTGCTGTCTTCGATCTACTCCACTACTGTTTAGGGGAGATTTGTATTTTTCAGCTTATT
194 CTTGCTGTCTTCGATCTACTCCACTACTGTTTAGGGGAGATTTGTATTTTCCAGCTTATT
* * * * * *
23402204 ACCCTACTGCTTAGGGGGTTAAGGCTTGTTGCCTTCGATCTGCTCCATTATTGTTTAGAGGAGAT
1 ACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGATAT
23402269 CTGTATTTTTC
66 CTGTATTTTTC
23402280 TATCTGCTCC
Statistics
Matches: 296, Mismatches: 28, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
250 1 0.00
251 157 0.53
252 8 0.03
254 3 0.01
255 72 0.24
258 4 0.01
259 51 0.17
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (253 bp):
ACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGATAT
CTGTATTTTTCAGCCTGTTATCCTACTGCTTAGAGAGTTAAGGCTCGCTGTCTTCGATCTACTCC
ACTACTGTTTAGGGAAGATCTGTAATTTTCCAGCCTATTACCCTACTACTTAGGGGGTCAAAGCT
TGCTGTCTTCGATCTACTCCACTACTGTTTAGGGGAGATTTGTATTTTCCAGCTTATT
Found at i:23402278 original size:84 final size:84
Alignment explanation
Indices: 23401584--23402279 Score: 783
Period size: 84 Copynumber: 8.2 Consensus size: 84
23401574 TAGGGAGATA
* * * * *
23401584 AGATCTGTAATTTTCAGCTTGCTT-CCCTACTGCTTAGGGGGATAAGAC-T-CATCGTCTTTGAT
1 AGATCTGTATTTTTCAGCCTG-TTACCCTACTGCTTAGGGGGTTAAGGCTTGC-T-GTCTTCGAT
* *
23401646 C-ACTCCACTA-TTTCTTAGGGAG
63 CTGCTCCACTACTGT-TTAGGG-G
* * * **
23401668 ATAAGATCTGTAATTTTCAGCCTGTGACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGAT
1 ---AGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGAT
** *
23401733 CTGCTCCACTACTACTTAGAGAGATA
63 CTGCTCCACTACTGTTTAG-G-G--G
* * * * *
23401759 AGATCTGTAATTTTCAGCCTGTTATCCTACTGCTTAGAGAGTTAAGGCTCGCTGTCTTCGATCTG
1 AGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
*
23401824 CTCCACTACTGTTTAGGGATA
66 CTCCACTACTGTTTAGGG--G
* *
23401845 AGATCTGTAATTTTCCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTGTCTTCGATCT
1 AGATCTGT-ATTTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCT
23401910 GCTCCACTACTGTTTAGGGG
65 GCTCCACTACTGTTTAGGGG
* * * * * * *
23401930 AGATTTTTATTTTCCAGACTATTACTCTACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATCTG
1 AGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
23401995 CTCCACTACTGTTTAGGGG
66 CTCCACTACTGTTTAGGGG
* * * *
23402014 ATATCTGTATTTTTCAGCCTGTTACCTTACTGCTTAAGGGGTTAAGGCTTGCTGTCTTCGATCTA
1 AGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
23402079 CTCCACTACTGTTTA-GGG
66 CTCCACTACTGTTTAGGGG
* * * * * *
23402097 AGATCTGTATTTTCCAGCCTATTACCCTACTGTTTAGGGGGTCAAAGCTTGCTGTCTTCGATCTA
1 AGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
23402162 CTCCACTACTGTTTAGGGG
66 CTCCACTACTGTTTAGGGG
* * * * *
23402181 AGATTTGTATTTTTCAGCTTATTACCCTACTGCTTAGGGGGTTAAGGCTTGTTGCCTTCGATCTG
1 AGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
* * *
23402246 CTCCATTATTGTTTAGAGG
66 CTCCACTACTGTTTAGGGG
23402265 AGATCTGTATTTTTC
1 AGATCTGTATTTTTC
23402280 TATCTGCTCC
Statistics
Matches: 532, Mismatches: 67, Indels: 23
0.86 0.11 0.04
Matches are distributed among these distances:
83 75 0.14
84 229 0.43
85 6 0.01
86 13 0.02
87 119 0.22
88 86 0.16
89 3 0.01
90 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (84 bp):
AGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
CTCCACTACTGTTTAGGGG
Found at i:23402571 original size:89 final size:89
Alignment explanation
Indices: 23402281--23403027 Score: 425
Period size: 89 Copynumber: 8.4 Consensus size: 89
23402271 GTATTTTTCT
*
23402281 ATCTGCTCCATAGCCGATACATGGAA-ATAAGACCTGTAATTTTCAACCTGCTCTCTTGCTACCT
1 ATCTGCTCCATAGCCGATACAT-GAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTA-CT
* *
23402345 T-AGAGAGATAAGGTTGGTGGGTAAA
64 TCAGAGAGATAAGGCTGGTGGCTAAA
* * * * * * * * * * * *
23402370 ATTTGTTCTACAACTGATACAT-AGAGATAGGA-CTCGCCATTTTCGATCTGCT-TCATAGCCGA
1 ATCTGCTCCATAGCCGATACATGA-AGATAAGACCT-GCAATTTTCAACCTGCTCTC-TTG-CTA
* * ** *
23402432 -TACATG-GAGATAAGATCT-GTAATTCT-TA
62 CTTCA-GAGAGATAAG-GCTGGT--GGCTAAA
* * * *
23402460 GTCTGCTCCATAGCCGGTACATGAAGATAAGACCTGTAACTTTCAACCTGCTCTCTTGCTACTTC
1 ATCTGCTCCATAGCCGATACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTACTTC
23402525 AGAGAGATAAGGCTGGTGGCTAAA
66 AGAGAGATAAGGCTGGTGGCTAAA
* * * *
23402549 ATCTGCTCCATAGCCGATACATGGAGATAAGACCTGCAATTTTTAACCTGCTCTGTTGCTAATTC
1 ATCTGCTCCATAGCCGATACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTACTTC
23402614 AGAGAGATAAGGCTGGTGGCTAAA
66 AGAGAGATAAGGCTGGTGGCTAAA
* ** * * **
23402638 ATCTGCTCCATAGCCGATACATGGAGATAAGA-CTCGTC-ATTTTTTATCTGTTC-CATAACTGA
1 ATCTGCTCCATAGCCGATACATGAAGATAAGACCT-G-CAATTTTCAACCTGCTCTC-TTGCT-A
* * *** **
23402700 -TACATG-GAGATAAGATCT-GTAATTTTCA
62 CTTCA-GAGAGATAAG-GCTGGT-GGCTAAA
* * * * * * * *
23402728 GTCTGTTTCCTTACTA-CC--T-CAGGAAGATAAGACTTG-TATCTTCAACATGCTCTCTTGCTC
1 ATCTG-CTCC--A-TAGCCGATACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTA
* *
23402788 CCTCAGAGAGATAAGGCCGGTGGCTAAA
62 CTTCAGAGAGATAAGGCTGGTGGCTAAA
* * ** * * *
23402816 ATTTGCTCCATAGCCGATACATGGAGATAAGA-CT-CACCATTTTTGATCTGCTC-CATAGCCGA
1 ATCTGCTCCATAGCCGATACATGAAGATAAGACCTGCA--ATTTTCAACCTGCTCTC-TTG-CTA
* * ** *
23402878 -TACATG-GAGATAAGATCT-GTAATTCT-CA
62 CTTCA-GAGAGATAAG-GCTGGT--GGCTAAA
* *
23402906 GTCTGCTCCATAGCTGATACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTACTTC
1 ATCTGCTCCATAGCCGATACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTACTTC
23402971 AGAGAGATAAGGCTGGTGGCTAAA
66 AGAGAGATAAGGCTGGTGGCTAAA
*
23402995 ATCTGTTCCATAGCCGATACAT-AGAGATAAGAC
1 ATCTGCTCCATAGCCGATACATGA-AGATAAGAC
23403028 TCACCATTTT
Statistics
Matches: 479, Mismatches: 124, Indels: 110
0.67 0.17 0.15
Matches are distributed among these distances:
84 2 0.00
85 3 0.01
87 6 0.01
88 32 0.07
89 277 0.58
90 136 0.28
91 16 0.03
92 2 0.00
93 3 0.01
94 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (89 bp):
ATCTGCTCCATAGCCGATACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTACTTC
AGAGAGATAAGGCTGGTGGCTAAA
Found at i:23402576 original size:44 final size:44
Alignment explanation
Indices: 23402528--23402668 Score: 122
Period size: 44 Copynumber: 3.2 Consensus size: 44
23402518 CTACTTCAGA
23402528 GAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATG
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATG
* ***** ** * ** * ** *
23402572 GAGATAAGACCTGCAATTTTTAACCTGCTCTGTTGCTAATTCA-G
1 GAGATAAG-GCTGGTGGCTAAAATCTGCTCCATAGCCGATACATG
23402616 AGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATG
1 -GAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATG
23402661 GAGATAAG
1 GAGATAAG
23402669 ACTCGTCATT
Statistics
Matches: 64, Mismatches: 30, Indels: 6
0.64 0.30 0.06
Matches are distributed among these distances:
44 36 0.56
45 28 0.44
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
GAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATG
Found at i:23402624 original size:179 final size:179
Alignment explanation
Indices: 23402265--23402600 Score: 437
Period size: 179 Copynumber: 1.9 Consensus size: 179
23402255 TGTTTAGAGG
* * *
23402265 AGATCTGTATTTTTCTATCTGCTCCATAGCCGATACATGGAAATAAGACCTGTAATTTTCAACCT
1 AGATCTGTAATTCTCTATCTGCTCCATAGCCGATACATGGAAATAAGACCTGTAACTTTCAACCT
* * * * * *
23402330 GCTCTCTTGCTACCTTAGAGAGATAAGGTTGGTGGGTAAAATTTGTTCTACAACTGATACATAGA
66 GCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCACAACCGATACATAGA
* * * * *
23402395 GATAGGACTCGCCATTTTCGATCTGCTTCATAGCCGATACATGGAGATA
131 GATAAGACTCGCAATTTTCAACCTGCTTCATAGCCAATACATGGAGATA
*
23402444 AGATCTGTAATTCT-TAGTCTGCTCCATAGCCGGTACAT-GAAGATAAGACCTGTAACTTTCAAC
1 AGATCTGTAATTCTCTA-TCTGCTCCATAGCCGATACATGGAA-ATAAGACCTGTAACTTTCAAC
* *
23402507 CTGCTCTCTTGCTA-CTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACAT
64 CTGCTCTCTTGCTACCTT-AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCACAACCGATACAT
* *
23402571 GGAGATAAGAC-CTGCAATTTTTAACCTGCT
128 AGAGATAAGACTC-GCAATTTTCAACCTGCT
23402601 CTGTTGCTAA
Statistics
Matches: 135, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
178 9 0.07
179 126 0.93
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (179 bp):
AGATCTGTAATTCTCTATCTGCTCCATAGCCGATACATGGAAATAAGACCTGTAACTTTCAACCT
GCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCACAACCGATACATAGA
GATAAGACTCGCAATTTTCAACCTGCTTCATAGCCAATACATGGAGATA
Found at i:23402957 original size:45 final size:44
Alignment explanation
Indices: 23402385--23403091 Score: 178
Period size: 45 Copynumber: 15.8 Consensus size: 44
23402375 TTCTACAACT
* * * * *
23402385 GATACATAGAGATAGGACTCGCCATTTTCGATCTGCTTCATAGCC
1 GATACATGGAGATAAGACT-GCAATTTTCAATCTGCTCCATAGCC
* *
23402430 GATACATGGAGATAAGATCTGTAATTCTT-AGTCTGCTCCATAGCC
1 GATACATGGAGATAAGA-CTGCAATT-TTCAATCTGCTCCATAGCC
* * * * * *
23402475 GGTACATGAAGATAAGACCTGTAACTTTCAACCTGCTCTC-TTG-C
1 GATACATGGAGATAAGA-CTGCAATTTTCAATCTGCTC-CATAGCC
* * * ***** **
23402519 TACTTCA-GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCC
1 GA-TACATG-GAGATAAGACTGCAATTTTCAATCTGCTCCATAGCC
* * ** * *
23402564 GATACATGGAGATAAGACCTGCAATTTTTAACCTGCTCTGTTGCT
1 GATACATGGAGATAAGA-CTGCAATTTTCAATCTGCTCCATAGCC
* * * ***** **
23402609 AATTCA-GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCC
1 GATACATG-GAGATAAGACTGCAATTTTCAATCTGCTCCATAGCC
** * * *
23402653 GATACATGGAGATAAGACTCGTC-ATTTTTTATCTGTTCCATAACT
1 GATACATGGAGATAAGACT-G-CAATTTTCAATCTGCTCCATAGCC
* * *
23402698 GATACATGGAGATAAGATCTGTAATTTTCAGTCTGTTTCCTTACTA-CC
1 GATACATGGAGATAAGA-CTGCAATTTTCAATCTG-CTCC--A-TAGCC
* * *
23402746 --T-CA-GGAAGATAAGACTTG-TATCTTCAA-CATGCTCTC-TTGCTC
1 GATACATGG-AGATAAGAC-TGCAATTTTCAATC-TGCTC-CATAGC-C
** * * ***** ** *
23402788 CCT-CA-GAGAGATAAGGCCGGTGGCTAAAATTTGCTCCATAGCC
1 GATACATG-GAGATAAGACTGCAATTTTCAATCTGCTCCATAGCC
**
23402831 GATACATGGAGATAAGACT-CACCATTTTTGATCTGCTCCATAGCC
1 GATACATGGAGATAAGACTGCA--ATTTTCAATCTGCTCCATAGCC
* * * *
23402876 GATACATGGAGATAAGATCTGTAATTCTCAGTCTGCTCCATAGCT
1 GATACATGGAGATAAGA-CTGCAATTTTCAATCTGCTCCATAGCC
* * *
23402921 GATACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTC-TTG-C
1 GATACATGGAGATAAGA-CTGCAATTTTCAATCTGCTC-CATAGCC
* * * ***** ** *
23402965 TACTTCA-GAGAGATAAGGCTGGTGGCTAAAATCTGTTCCATAGCC
1 GA-TACATG-GAGATAAGACTGCAATTTTCAATCTGCTCCATAGCC
* ** *
23403010 GATACATAGAGATAAGACT-CACCATTTTTGATCTGCTCTATAGCC
1 GATACATGGAGATAAGACTGCA--ATTTTCAATCTGCTCCATAGCC
* * *
23403055 GATACATAGAGATAAGATCTGTAATTTTCAGTCTGCT
1 GATACATGGAGATAAGA-CTGCAATTTTCAATCTGCT
23403092 TCCTTGCTAC
Statistics
Matches: 466, Mismatches: 148, Indels: 96
0.66 0.21 0.14
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 1 0.00
43 9 0.02
44 135 0.29
45 296 0.64
46 17 0.04
47 2 0.00
48 2 0.00
49 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
GATACATGGAGATAAGACTGCAATTTTCAATCTGCTCCATAGCC
Found at i:23403023 original size:223 final size:223
Alignment explanation
Indices: 23402348--23403025 Score: 636
Period size: 223 Copynumber: 3.0 Consensus size: 223
23402338 GCTACCTTAG
** * * * * * *
23402348 AGAGATAAGGTTGGTGGGTAAAATTTGTTCTACAACTGATACATAGAGATAGGACTCGCCATTTT
1 AGAGATAAGGCCGGTGGCTAAAATTTGCTCTATAGCTGATACATGGAGATAAGACTCGCCATTTT
* * * *
23402413 CGATCTGCTTCATAGCCGATACATGGAGATAAGATCTGTAATTCTTAGTCTGCTCCATAGCCGGT
66 AGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTCTTAGTCTGCTCCATAGCTGAT
*
23402478 ACATGAAGATAAGACCTGTAACTTTCAACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTG
131 ACATGAAGATAAGACCTGTAATTTTCAACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTG
23402543 GCTAAAATCTGCTCCATAGCCGATACAT
196 GCTAAAATCTGCTCCATAGCCGATACAT
* * ***** ** ** * * * * * *****
23402571 GGAGATAAGACCTGCAATTTTTAACCTGCTCTGTTGCTAATTCA-GAGAGATAAGGCT-GGTGGC
1 AGAGATAAGGCC-GGTGGCTAAAATTTGCTCTATAGCTGATACATG-GAGATAAGACTCGCCATT
* * * * * *
23402634 TAAAATCTGCTCCATAGCCGATACATGGAGATAAGA-CTCGTCATTTTTTA-TCTGTTCCATAAC
64 TTAGATCTGCTCCATAGCCGATACATGGAGATAAGATCT-GT-AATTCTTAGTCTGCTCCATAGC
* * ** * * * *
23402697 TGATACATGGAGATAAGATCTGTAATTTTCAGTCTG-TTTCCTTACTACCTCAG-GAAGATAAGA
127 TGATACATGAAGATAAGACCTGTAATTTTCAACCTGCTCT-CTTGCTACTTCAGAG-AGATAAGG
* ** ** * ** *
23402760 CTTGTATCTTCAA-CATGCTCTC-TTGCTCCCT-CAG
190 CTGGTGGCTAAAATC-TGCTC-CATAGC-CGATACAT
* * *
23402794 AGAGATAAGGCCGGTGGCTAAAATTTGCTCCATAGCCGATACATGGAGATAAGACTCACCATTTT
1 AGAGATAAGGCCGGTGGCTAAAATTTGCTCTATAGCTGATACATGGAGATAAGACTCGCCATTTT
* *
23402859 TGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTCTCAGTCTGCTCCATAGCTGAT
66 AGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTCTTAGTCTGCTCCATAGCTGAT
*
23402924 ACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTG
131 ACATGAAGATAAGACCTGTAATTTTCAACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTG
*
23402989 GCTAAAATCTGTTCCATAGCCGATACAT
196 GCTAAAATCTGCTCCATAGCCGATACAT
23403017 AGAGATAAG
1 AGAGATAAG
23403026 ACTCACCATT
Statistics
Matches: 330, Mismatches: 107, Indels: 36
0.70 0.23 0.08
Matches are distributed among these distances:
222 40 0.12
223 251 0.76
224 39 0.12
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (223 bp):
AGAGATAAGGCCGGTGGCTAAAATTTGCTCTATAGCTGATACATGGAGATAAGACTCGCCATTTT
AGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTCTTAGTCTGCTCCATAGCTGAT
ACATGAAGATAAGACCTGTAATTTTCAACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTG
GCTAAAATCTGCTCCATAGCCGATACAT
Found at i:23403028 original size:357 final size:357
Alignment explanation
Indices: 23402550--23403266 Score: 1182
Period size: 357 Copynumber: 2.0 Consensus size: 357
23402540 GTGGCTAAAA
* * *
23402550 TCTGCTCCATAGCCGATACATGGAGATAAGACCTGCAATTTTTAACCTGCTCTGTTGCTAATTCA
1 TCTGCTCCATAGCCGATACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTAATTCA
* **
23402615 GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGTCATTT
66 GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCACCATTT
* * * * *
23402680 TTTATCTGTTCCATAACTGATACATGGAGATAAGATCTGTAATTTTCAGTCTGTTTCCTTACTAC
131 TTGATCTGCTCCATAACCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTACTAC
* *
23402745 CTCAGGAAGATAAGACTTGTATCTTCAACATGCTCTCTTGCTCCCTCAGAGAGATAAGGCCGGTG
196 CTCAGGAAGATAAGACTTGTATCTTCAAAATGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTG
* * *
23402810 GCTAAAATTTGCTCCATAGCCGATACATGGAGATAAGACTCACCATTTTTGATCTGCTCCATAGC
261 GCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCACCATTTTCGATCTGCTCCATAGC
23402875 CGATACATGGAGATAAGATCTGTAATTCTCAG
326 CGATACATGGAGATAAGATCTGTAATTCTCAG
* *
23402907 TCTGCTCCATAGCTGATACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTACTTCA
1 TCTGCTCCATAGCCGATACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTAATTCA
*
23402972 GAGAGATAAGGCTGGTGGCTAAAATCTGTTCCATAGCCGATACATAGAGATAAGACTCACCATTT
66 GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCACCATTT
* * *
23403037 TTGATCTGCTCTATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTAC
131 TTGATCTGCTCCATAACCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTACTAC
*
23403102 CTCAGGAAGATAAGACTTGTATCTTTAAAATGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTG
196 CTCAGGAAGATAAGACTTGTATCTTCAAAATGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTG
** *
23403167 GCTAAAATCTGCTCCATAGTTGATACATAGAGATAAGACTCACCATTTTCGATCTGTTCCATAGC
261 GCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCACCATTTTCGATCTGCTCCATAGC
* *
23403232 CGATTCATGGAGATAAGATCTGTAATTTTCAG
326 CGATACATGGAGATAAGATCTGTAATTCTCAG
23403264 TCT
1 TCT
23403267 ACTTCCTTGC
Statistics
Matches: 332, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
357 332 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (357 bp):
TCTGCTCCATAGCCGATACATGAAGATAAGACCTGCAATTTTCAACCTGCTCTCTTGCTAATTCA
GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCACCATTT
TTGATCTGCTCCATAACCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTACTAC
CTCAGGAAGATAAGACTTGTATCTTCAAAATGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTG
GCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCACCATTTTCGATCTGCTCCATAGC
CGATACATGGAGATAAGATCTGTAATTCTCAG
Found at i:23403045 original size:134 final size:134
Alignment explanation
Indices: 23402861--23403115 Score: 311
Period size: 134 Copynumber: 1.9 Consensus size: 134
23402851 ACCATTTTTG
* *** *
23402861 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTCTCAGTCTGCTCCATAGCTGATAC
1 ATCTGCTCCATAGCCGATACATAGAGATAAGATCACCAATTCTCAGTCTGCTCCATAGCCGATAC
*
23402926 AT-GAAGATAAGACCTGCAATTTTCAACCTGC-TCTCTTGCTACTTCA-GAGAGATAAGGCTGGT
66 ATAG-AGATAAGACCTGCAATTTTCAACCTGCTTC-CTTGCTACCTCAGGA-AGATAAGGCTGGT
23402988 GGCTAAA
128 GGCTAAA
* * * * *
23402995 ATCTGTTCCATAGCCGATACATAGAGATAAGACTCACCATTTTTGA-TCTGCTCTATAGCCGATA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGA-TCACCAATTCTCAGTCTGCTCCATAGCCGATA
* * **
23403059 CATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
65 CATAGAGATAAGACCTGCAATTTTCAACCTGCTTCCTTGCTACCTCAGGAAGATAAG
23403116 ACTTGTATCT
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
134 90 0.88
135 12 0.12
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (134 bp):
ATCTGCTCCATAGCCGATACATAGAGATAAGATCACCAATTCTCAGTCTGCTCCATAGCCGATAC
ATAGAGATAAGACCTGCAATTTTCAACCTGCTTCCTTGCTACCTCAGGAAGATAAGGCTGGTGGC
TAAA
Found at i:23403274 original size:178 final size:178
Alignment explanation
Indices: 23402590--23403299 Score: 1023
Period size: 178 Copynumber: 4.0 Consensus size: 178
23402580 ACCTGCAATT
* * ** *
23402590 TTTAACCTGCTCTGTTGCTAATTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
1 TTTAACATGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGA
* ** * * * *
23402655 TACATGGAGATAAGACTCGTCATTTTTTATCTGTTCCATAACTGATACATGGAGATAAGATCTGT
66 TACATAGAGATAAGACTCACCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGT
* *
23402720 AATTTTCAGTCTGTTTCCTTACTACCTCAGGAAGATAAGACTTGTATC
131 AATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATC
* * *
23402768 TTCAACATGCTCTCTTGCTCCCTCAGAGAGATAAGGCCGGTGGCTAAAATTTGCTCCATAGCCGA
1 TTTAACATGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGA
*
23402833 TACATGGAGATAAGACTCACCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGT
66 TACATAGAGATAAGACTCACCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGT
* * * * *
23402898 AATTCTCAGTCTGC-TCCATAGCTGA--TACATGAAGATAAGACCTGCAAT-
131 AATTTTCAGTCTGCTTCC-TTGCT-ACCT-CAGGAAGATAAGACTTG-TATC
* * * *
23402946 TTTCAACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGTTCCATAGCCG
1 TTT-AACATGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCG
* *
23403011 ATACATAGAGATAAGACTCACCATTTTTGATCTGCTCTATAGCCGATACATAGAGATAAGATCTG
65 ATACATAGAGATAAGACTCACCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTG
23403076 TAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATC
130 TAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATC
* **
23403125 TTTAAAATGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGTTGA
1 TTTAACATGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGA
* * *
23403190 TACATAGAGATAAGACTCACCATTTTCGATCTGTTCCATAGCCGATTCATGGAGATAAGATCTGT
66 TACATAGAGATAAGACTCACCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGT
*
23403255 AATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGT
131 AATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGT
23403300 GAATTCACCG
Statistics
Matches: 474, Mismatches: 49, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
177 4 0.01
178 310 0.65
179 156 0.33
180 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (178 bp):
TTTAACATGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGA
TACATAGAGATAAGACTCACCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGT
AATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATC
Found at i:23407663 original size:19 final size:19
Alignment explanation
Indices: 23407639--23407684 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
23407629 TGTGAAGTTT
*
23407639 AATGCACATG-ATGCAATG
1 AATGCAAATGCATGCAATG
*
23407657 CAATGCAAATGCATGGAATG
1 -AATGCAAATGCATGCAATG
23407677 AATGCAAA
1 AATGCAAA
23407685 AGAAAGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (19 bp):
AATGCAAATGCATGCAATG
Found at i:23410116 original size:43 final size:44
Alignment explanation
Indices: 23410069--23410153 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 44
23410059 TAATGATAAT
* * *
23410069 AATATTAGTATATAAATAGAAA-TA-AAAATATAATAATAGTAGA
1 AATATAAGTAGATAAATAAAAATTAGAAAA-ATAATAATAGTAGA
*
23410112 AATATAAGTAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AATATAAGTAGATAAATAAAAATTAGAAAAATAATAATAGTA
23410154 TTAGAATAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 19 0.53
44 14 0.39
45 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.29
Consensus pattern (44 bp):
AATATAAGTAGATAAATAAAAATTAGAAAAATAATAATAGTAGA
Found at i:23410129 original size:37 final size:34
Alignment explanation
Indices: 23410064--23410134 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
23410054 AGTAATAATG
* *
23410064 ATAATAATATTAGTATATAAATAGAAATAAAAAT
1 ATAATAATAGTAGAATATAAATAGAAATAAAAAT
*
23410098 ATAATAATAGTAGAAATATAAGTAGATAAATAAAAAT
1 ATAATAATAGTAG-AATATAAATAG--AAATAAAAAT
23410135 TAGATAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 12 0.39
35 9 0.29
37 10 0.32
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (34 bp):
ATAATAATAGTAGAATATAAATAGAAATAAAAAT
Found at i:23411798 original size:20 final size:21
Alignment explanation
Indices: 23411764--23411817 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
23411754 TGATGATATT
*
23411764 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
23411785 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
23411805 TTTTATTATTTTA
1 TTATATTATTTTA
23411818 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:23411816 original size:8 final size:8
Alignment explanation
Indices: 23411803--23411844 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
23411793 TTTAATGAGA
23411803 TATTTTAT
1 TATTTTAT
23411811 TATTTTAT
1 TATTTTAT
23411819 TA--TTAT
1 TATTTTAT
23411825 T-TTATTAT
1 TATT-TTAT
23411833 TATTTTAT
1 TATTTTAT
23411841 TATT
1 TATT
23411845 AATTATTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 5 0.17
8 23 0.77
9 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTTTAT
Found at i:23411821 original size:3 final size:3
Alignment explanation
Indices: 23411803--23411851 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
23411793 TTTAATGAGA
23411803 TAT T-T TAT TAT T-T TAT TAT TAT T-T TAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
23411848 TAT T
1 TAT T
23411852 TAGTATAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.20
3 30 0.73
4 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:23411823 original size:11 final size:11
Alignment explanation
Indices: 23411807--23411845 Score: 78
Period size: 11 Copynumber: 3.5 Consensus size: 11
23411797 ATGAGATATT
23411807 TTATTATTTTA
1 TTATTATTTTA
23411818 TTATTATTTTA
1 TTATTATTTTA
23411829 TTATTATTTTA
1 TTATTATTTTA
23411840 TTATTA
1 TTATTA
23411846 ATTATTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:23411827 original size:19 final size:19
Alignment explanation
Indices: 23411803--23411844 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
23411793 TTTAATGAGA
23411803 TATTTTATTATTTTATTAT
1 TATTTTATTATTTTATTAT
23411822 TATTTTATTATTATT-TTAT
1 TATTTTATTATT-TTATTAT
23411841 TATT
1 TATT
23411845 AATTATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TATTTTATTATTTTATTAT
Found at i:23414033 original size:46 final size:46
Alignment explanation
Indices: 23413981--23414162 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
23413971 AGTGTGCTCT
*
23413981 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
23414027 CTGATATGAAATGCGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
23414073 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
23414119 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
23414163 TCATGTCAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 122 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:23418904 original size:39 final size:39
Alignment explanation
Indices: 23418856--23418931 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
23418846 TATATTACCA
*
23418856 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCT
1 GCACAAAGCCTACGGGACTTTAGCCCGGATACATTTCCT
*
23418895 GCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
1 GCACAAAGCCTACGGGACTTTAGCCCGGATACATTTC
23418932 TAGTATCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
GCACAAAGCCTACGGGACTTTAGCCCGGATACATTTCCT
Found at i:23421632 original size:21 final size:20
Alignment explanation
Indices: 23421608--23421676 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
23421598 AATGCTGATA
23421608 ATAATAATCTAATATAAAACT
1 ATAATAAT-TAATATAAAACT
* *
23421629 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACT
*
23421648 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACT
23421669 ATAATAAT
1 ATAATAAT
23421677 AATCATTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.08
19 12 0.31
20 2 0.05
21 19 0.49
22 3 0.08
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (20 bp):
ATAATAATTAATATAAAACT
Found at i:23422798 original size:9 final size:9
Alignment explanation
Indices: 23422784--23422833 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
23422774 TTTATACAAA
23422784 TAATTCGGT
1 TAATTCGGT
*
23422793 TAATTCAGT
1 TAATTCGGT
* *
23422802 TAATTTGGG
1 TAATTCGGT
*
23422811 TAATTCGGG
1 TAATTCGGT
*
23422820 TAATACGGT
1 TAATTCGGT
23422829 TAATT
1 TAATT
23422834 TTATACTTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (9 bp):
TAATTCGGT
Found at i:23424712 original size:28 final size:23
Alignment explanation
Indices: 23424655--23424715 Score: 61
Period size: 28 Copynumber: 2.5 Consensus size: 23
23424645 TGAATTGAAA
23424655 ATTG-ATTGAAAAGTGGAAAATG
1 ATTGAATTGAAAAGTGGAAAATG
*
23424677 ATTAAATTGAAAATGTGAGAAAATTGCG
1 ATTGAATTGAAAA-GTG-GAAAA-T--G
23424705 ATTGAATTGAA
1 ATTGAATTGAA
23424716 TTGAGATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 3 0.10
23 8 0.26
24 3 0.10
25 5 0.16
26 1 0.03
28 11 0.35
ACGTcount: A:0.46, C:0.02, G:0.23, T:0.30
Consensus pattern (23 bp):
ATTGAATTGAAAAGTGGAAAATG
Found at i:23424870 original size:41 final size:39
Alignment explanation
Indices: 23424824--23424925 Score: 93
Period size: 38 Copynumber: 2.6 Consensus size: 39
23424814 ACCTCGAGTT
* **
23424824 GATGAGACACTGGGTGTCATACTGTTACTTCAGATAGATTC
1 GATGAGACACTGGGTGTCACACT-TTACTTCAGATAG-GCC
** * * *
23424865 GATGAGGTACTGGGT-AC-CACTTTACTTCGGCTAGGCC
1 GATGAGACACTGGGTGTCACACTTTACTTCAGATAGGCC
23424902 GATGAGACACTGGGTGTCA-ACTTT
1 GATGAGACACTGGGTGTCACACTTT
23424926 GCTTTGAACT
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
37 14 0.29
38 17 0.35
39 3 0.06
40 1 0.02
41 13 0.27
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCACACTTTACTTCAGATAGGCC
Found at i:23425250 original size:12 final size:12
Alignment explanation
Indices: 23425233--23425257 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23425223 ATATATTGAG
23425233 AATGGCAAATTT
1 AATGGCAAATTT
23425245 AATGGCAAATTT
1 AATGGCAAATTT
23425257 A
1 A
23425258 TATTTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AATGGCAAATTT
Found at i:23425627 original size:10 final size:10
Alignment explanation
Indices: 23425608--23425641 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
23425598 TAAAAAAATA
23425608 CCTT-TTTTT
1 CCTTCTTTTT
23425617 CCTTCTTTTT
1 CCTTCTTTTT
*
23425627 CGTTCTTTTT
1 CCTTCTTTTT
23425637 CCTTC
1 CCTTC
23425642 CCTCCCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (10 bp):
CCTTCTTTTT
Found at i:23425720 original size:3 final size:3
Alignment explanation
Indices: 23425704--23425779 Score: 70
Period size: 3 Copynumber: 26.3 Consensus size: 3
23425694 GTGCCTCCTC
* *
23425704 CTT CTC CTT ATT CTT CTT C-T CTT CTT -TT CTT CTT CTT CTT CTT C-T
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * *
23425749 CCT CTT CTT -TT TTT CTT CTA CTT CTTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT C
23425780 CTAGTCGAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
2 8 0.13
3 49 0.82
4 3 0.05
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:23425745 original size:28 final size:28
Alignment explanation
Indices: 23425704--23425779 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
23425694 GTGCCTCCTC
* *
23425704 CTTCTCCTTATTCTTCTTCTCTTCTTTT
1 CTTCTTCTTCTTCTTCTTCTCTTCTTTT
*
23425732 CTTCTTCTTCTTCTTCTCCTCTTCTTTT
1 CTTCTTCTTCTTCTTCTTCTCTTCTTTT
* *
23425760 TTTCTTCTACTTCTTTCTTC
1 CTTCTTCTTCTTC-TTCTTC
23425780 CTAGTCGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 36 0.88
29 5 0.12
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (28 bp):
CTTCTTCTTCTTCTTCTTCTCTTCTTTT
Found at i:23425991 original size:21 final size:21
Alignment explanation
Indices: 23425965--23426021 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
23425955 CTTTTTTTTC
23425965 AGATTTTGTTTTTTTAACATT
1 AGATTTTGTTTTTTTAACATT
23425986 AGATTTTGTTTTTTTAACATT
1 AGATTTTGTTTTTTTAACATT
23426007 AGATTTTGTTTTTTT
1 AGATTTTGTTTTTTT
23426022 TTAAACAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.21, C:0.04, G:0.11, T:0.65
Consensus pattern (21 bp):
AGATTTTGTTTTTTTAACATT
Found at i:23427166 original size:42 final size:42
Alignment explanation
Indices: 23427105--23427217 Score: 181
Period size: 42 Copynumber: 2.7 Consensus size: 42
23427095 TCGTTTTCTC
**
23427105 GATGCCATAGTTCAACTATGGTCTTACACATATTCACATAAT
1 GATGCCATAGCCCAACTATGGTCTTACACATATTCACATAAT
* *
23427147 GATGCCATAGCCCAGCTATGGTCTTACACATATCCACATAAT
1 GATGCCATAGCCCAACTATGGTCTTACACATATTCACATAAT
*
23427189 GATGCCATAGCCCAACTATAGTCTTACAC
1 GATGCCATAGCCCAACTATGGTCTTACAC
23427218 GAATCACATA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (42 bp):
GATGCCATAGCCCAACTATGGTCTTACACATATTCACATAAT
Found at i:23427259 original size:46 final size:47
Alignment explanation
Indices: 23427188--23427307 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 47
23427178 ATCCACATAA
* * * *
23427188 TGATGCCATAGCCCA-ACTATAGTCTTACAC-GAATCACATATCTCAC
1 TGATGCCATATCCCAGA-TATGGTCTTACACAGAAGCACATATCACAC
* * *
23427234 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
* *
23427281 CGATGTCATATCCCAGATATGGTCTTA
1 TGATGCCATATCCCAGATATGGTCTTA
23427308 TACGGAAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 25 0.40
47 38 0.60
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
Found at i:23427371 original size:31 final size:31
Alignment explanation
Indices: 23427336--23427577 Score: 344
Period size: 31 Copynumber: 7.8 Consensus size: 31
23427326 CTTGTCACTT
* *
23427336 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
23427367 GTAGCCGGAGCTATCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
23427398 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
23427429 GTAGCCGTAA-CTACCACTTTTCACTGATCAG
1 GTAGCCG-AAGCTACCACTTTTCACTGATCAG
*
23427460 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
23427491 GTTGCCGGAA-CTACCACTTTTCATTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
23427522 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
23427553 GTAGTTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
23427578 TGTCATTTGT
Statistics
Matches: 190, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
30 5 0.03
31 181 0.95
32 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:23427660 original size:50 final size:51
Alignment explanation
Indices: 23427559--23427681 Score: 178
Period size: 50 Copynumber: 2.4 Consensus size: 51
23427549 TCAGGTAGTT
* * *
23427559 GAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGTCATTAATCAGATAAGTGTAGCC
*
23427610 GAAGCTATCACTTATCACTT-TCACTTT-TCCTTAATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCA-TTTGTCATTAATCAGATAAGTGTAGCC
*
23427660 GAAACTATCACTTATCACTTGT
1 GAAGCTATCACTTATCACTTGT
23427682 TGCCATGGTC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
50 43 0.66
51 22 0.34
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (51 bp):
GAAGCTATCACTTATCACTTGTCATTTGTCATTAATCAGATAAGTGTAGCC
Found at i:23430102 original size:23 final size:23
Alignment explanation
Indices: 23430076--23430127 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
23430066 TTATTGCAAC
23430076 AACAAAAAAAATTAAGAGAACGA
1 AACAAAAAAAATTAAGAGAACGA
23430099 AACAAAAAAAATTAAGAGAACGA
1 AACAAAAAAAATTAAGAGAACGA
23430122 AACAAA
1 AACAAA
23430128 GGTAAGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.71, C:0.10, G:0.12, T:0.08
Consensus pattern (23 bp):
AACAAAAAAAATTAAGAGAACGA
Found at i:23431585 original size:44 final size:43
Alignment explanation
Indices: 23431532--23431617 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 43
23431522 ATTGTAGTAA
* * *
23431532 AATAGAAGTTGTGATAATAATATATTTAAAAATAATTACAATTT
1 AATAGAAGTTCTGATAAGAATACATTT-AAAATAATTACAATTT
* *
23431576 AATAGAAGTTCTGATAAGAATGCATTTAAAATAATTATAATT
1 AATAGAAGTTCTGATAAGAATACATTTAAAATAATTACAATT
23431618 CCATTGACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 14 0.38
44 23 0.62
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.37
Consensus pattern (43 bp):
AATAGAAGTTCTGATAAGAATACATTTAAAATAATTACAATTT
Found at i:23431726 original size:6 final size:6
Alignment explanation
Indices: 23431715--23431742 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23431705 AAAAATTATG
23431715 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
23431743 AATTTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:23448233 original size:26 final size:26
Alignment explanation
Indices: 23448204--23448255 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
23448194 GTGGTAAGTA
23448204 CGTCATCTTTGATCCTTTGAAATTAG
1 CGTCATCTTTGATCCTTTGAAATTAG
*
23448230 CGTCATCTTTGATCCTTTGTAATTAG
1 CGTCATCTTTGATCCTTTGAAATTAG
23448256 ACTTGGTGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.44
Consensus pattern (26 bp):
CGTCATCTTTGATCCTTTGAAATTAG
Found at i:23450243 original size:25 final size:27
Alignment explanation
Indices: 23450205--23450264 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 27
23450195 TATATGTCAA
23450205 AATTAT-TAATAAATTTAATTT-AT-T
1 AATTATATAATAAATTTAATTTGATGT
*
23450229 ATATTATATAA-AAATTTGATTTGATGT
1 A-ATTATATAATAAATTTAATTTGATGT
23450256 AATTATATA
1 AATTATATA
23450265 TAATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 1 0.03
25 15 0.48
26 13 0.42
27 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (27 bp):
AATTATATAATAAATTTAATTTGATGT
Found at i:23450331 original size:30 final size:32
Alignment explanation
Indices: 23450262--23450331 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
23450252 ATGTAATTAT
* *
23450262 ATATAATTTTTTTTATTTTTATATATTTAAAA
1 ATATAATTTTTATTATTTTTATATATTAAAAA
*
23450294 ATCTAATTTTTATTA-TTTT-TAT-TTAAATAA
1 ATATAATTTTTATTATTTTTATATATTAAA-AA
23450324 ATATAATT
1 ATATAATT
23450332 ATTTGTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 4 0.12
30 12 0.36
31 4 0.12
32 13 0.39
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (32 bp):
ATATAATTTTTATTATTTTTATATATTAAAAA
Found at i:23450695 original size:23 final size:23
Alignment explanation
Indices: 23450669--23450743 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
23450659 AATATGTGTT
23450669 TAAAAATAACATATAATAAATAA
1 TAAAAATAACATATAATAAATAA
* * * * **
23450692 TAAAATGTATCACT-T-GTAACTTT
1 TAAAA-ATAACA-TATAATAAATAA
23450715 TAAAAATAACATATAATAAATAA
1 TAAAAATAACATATAATAAATAA
23450738 TAAAAA
1 TAAAAA
23450744 ATCATTTTAG
Statistics
Matches: 36, Mismatches: 12, Indels: 8
0.64 0.21 0.14
Matches are distributed among these distances:
21 1 0.03
22 5 0.14
23 24 0.67
24 5 0.14
25 1 0.03
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.31
Consensus pattern (23 bp):
TAAAAATAACATATAATAAATAA
Found at i:23450927 original size:18 final size:18
Alignment explanation
Indices: 23450905--23450950 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
23450895 TATTTAATTA
23450905 ATTTTTATAATTTAAAAAT
1 ATTTTTAT-ATTTAAAAAT
23450924 -TTTTTAT-TTTAAAAAT
1 ATTTTTATATTTAAAAAT
23450940 AGTTTTTATAT
1 A-TTTTTATAT
23450951 ATATTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 9 0.38
18 14 0.58
19 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTTTATATTTAAAAAT
Done.