Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000686.1 Hibiscus syriacus cultivar Beakdansim tig00001340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1443669
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:751030 original size:16 final size:16
Alignment explanation
Indices: 750998--751033 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
750988 GAAAAATACG
*
750998 AAAATAAAAAAATAAA
1 AAAATAAAAAAACAAA
*
751014 AAAATAAAAAAGCAAA
1 AAAATAAAAAAACAAA
751030 AAAA
1 AAAA
751034 AATGTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.03, G:0.03, T:0.08
Consensus pattern (16 bp):
AAAATAAAAAAACAAA
Found at i:765282 original size:22 final size:23
Alignment explanation
Indices: 765235--765290 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
765225 CGATGTTTCT
765235 TGGTATCGATAC-CCTTCACATA
1 TGGTATCGATACTCCTTCACATA
*
765257 -GGTATCGATACTCCTTC-CTTA
1 TGGTATCGATACTCCTTCACATA
765278 TGGTA-CTGATACT
1 TGGTATC-GATACT
765291 ATTCATACAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (23 bp):
TGGTATCGATACTCCTTCACATA
Found at i:774361 original size:16 final size:16
Alignment explanation
Indices: 774340--774370 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
774330 ATCAGAATAT
774340 AAGTAGATAAAACTAC
1 AAGTAGATAAAACTAC
774356 AAGTAGATAAAACTA
1 AAGTAGATAAAACTA
774371 GCCTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.10, G:0.13, T:0.19
Consensus pattern (16 bp):
AAGTAGATAAAACTAC
Found at i:777640 original size:28 final size:28
Alignment explanation
Indices: 777600--777661 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
777590 GTGTGAGTTT
* * *
777600 CATGATGCTAAGTGACCCCGAGCTACAC
1 CATGATACTAAGTGAACCCGAACTACAC
777628 CATGATACTAAGTGAACCCGAACTACAC
1 CATGATACTAAGTGAACCCGAACTACAC
777656 CATGAT
1 CATGAT
777662 GCTTACTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.19
Consensus pattern (28 bp):
CATGATACTAAGTGAACCCGAACTACAC
Found at i:785106 original size:43 final size:44
Alignment explanation
Indices: 785013--785194 Score: 167
Period size: 43 Copynumber: 4.2 Consensus size: 44
785003 ATAAAAATCA
* * *
785013 TCACAATAGGTTCAGACATCTAGCGGCA-TTTTCTTATAAACGC
1 TCACAATAGGTTCAAACATTTAGCAGCATTTTTCTTATAAACGC
* * * * *
785056 TGA-AATAGGTTCATATATTTAGCAACATTTTTCTTACAAACGC
1 TCACAATAGGTTCAAACATTTAGCAGCATTTTTCTTATAAACGC
*
785099 -CACAATAGGTTCAAACATTTAGCAGCTTTTTTCTTATAAACGC
1 TCACAATAGGTTCAAACATTTAGCAGCATTTTTCTTATAAACGC
* * * * * ** *
785142 T-GCAATAGATTCAGACTTTTCGTGGCGTTTTTCTTATAAACG-
1 TCACAATAGGTTCAAACATTTAGCAGCATTTTTCTTATAAACGC
*
785184 TCGCAATAGGT
1 TCACAATAGGT
785195 AGGTAATTTA
Statistics
Matches: 113, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 21 0.19
43 92 0.81
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (44 bp):
TCACAATAGGTTCAAACATTTAGCAGCATTTTTCTTATAAACGC
Found at i:789567 original size:58 final size:60
Alignment explanation
Indices: 789497--789615 Score: 224
Period size: 58 Copynumber: 2.0 Consensus size: 60
789487 TTCGACCTAT
789497 AAGGGGAAAATAGGGAAATTATGGAAAAATT-TACTAAGTTTAGA-ATGATGTATGGTTG
1 AAGGGGAAAATAGGGAAATTATGGAAAAATTATACTAAGTTTAGATATGATGTATGGTTG
789555 AAGGGGAAAATAGGGAAATTATGGAAAAATTATACTAAGTTTAGATATGATGTATGGTTG
1 AAGGGGAAAATAGGGAAATTATGGAAAAATTATACTAAGTTTAGATATGATGTATGGTTG
789615 A
1 A
789616 TTCTACAAGC
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 31 0.53
59 13 0.22
60 15 0.25
ACGTcount: A:0.42, C:0.02, G:0.27, T:0.29
Consensus pattern (60 bp):
AAGGGGAAAATAGGGAAATTATGGAAAAATTATACTAAGTTTAGATATGATGTATGGTTG
Found at i:790572 original size:38 final size:38
Alignment explanation
Indices: 790530--790605 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
790520 AGCTTGGTAA
790530 GTGTCTCAAAATACATCAAAATATTTTTTAGAAAATTT
1 GTGTCTCAAAATACATCAAAATATTTTTTAGAAAATTT
790568 GTGTCTCAAAATACATCAAAATATTTTTTAGAAAATTT
1 GTGTCTCAAAATACATCAAAATATTTTTTAGAAAATTT
790606 TCTAAGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (38 bp):
GTGTCTCAAAATACATCAAAATATTTTTTAGAAAATTT
Found at i:796905 original size:30 final size:31
Alignment explanation
Indices: 796846--796906 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
796836 AATAAAATAC
* * *
796846 ATAAAATAAAGAAGATAATAACAATACAAAA
1 ATAAAATAAAGAAGATAAAAAAAAGACAAAA
*
796877 ATAAAA-ATAGAAGATAAAAAAAAGACAAAA
1 ATAAAATAAAGAAGATAAAAAAAAGACAAAA
796907 TGAAATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (31 bp):
ATAAAATAAAGAAGATAAAAAAAAGACAAAA
Found at i:797005 original size:2 final size:2
Alignment explanation
Indices: 796998--797067 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
796988 GAATTAAAAG
796998 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
797040 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
797068 ACGATAGAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:798690 original size:110 final size:110
Alignment explanation
Indices: 798556--798762 Score: 351
Period size: 110 Copynumber: 1.9 Consensus size: 110
798546 GCTCTGGAAA
* * *
798556 TTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTTCAATA
1 TTGTTTGTTGACAATCAGCCGCCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
*
798621 TCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
66 TCCCTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
* *
798666 TTGTTTGTTGACAATCAGTCGCCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATA
1 TTGTTTGTTGACAATCAGCCGCCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
*
798731 TCCCTCGCTGTGAAGTTGAAATTGGCTCTGAA
66 TCCCTCGCTGTGAAGTTGAAATTGACTCTGAA
798763 ACTGGGAAGC
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 90 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (110 bp):
TTGTTTGTTGACAATCAGCCGCCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
TCCCTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
Found at i:821183 original size:27 final size:27
Alignment explanation
Indices: 821140--821202 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
821130 ATAACAATAC
821140 AAAAATAAAAATAAAAATAGAAGATA-A-
1 AAAAATAAAAATAAAAAT-GAA-ATATAT
*
821167 AAAAATAAAAGA-CAAAATGAAATATAT
1 AAAAATAAAA-ATAAAAATGAAATATAT
821194 AAAAATAAA
1 AAAAATAAA
821203 TATATATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 3 0.09
26 4 0.12
27 24 0.75
28 1 0.03
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (27 bp):
AAAAATAAAAATAAAAATGAAATATAT
Found at i:821203 original size:14 final size:14
Alignment explanation
Indices: 821069--821246 Score: 84
Period size: 14 Copynumber: 12.6 Consensus size: 14
821059 AAAGAGGCAC
*
821069 AAAAACAAATATA-
1 AAAAATAAATATAT
*
821082 AAAAATATATATAT
1 AAAAATAAATATAT
* *
821096 AAATA-AAATACAT
1 AAAAATAAATATAT
* *
821109 AAAATAAAGAAGATAAT
1 AAAA-ATA-AATAT-AT
* *
821126 AACAATAACA-ATAC
1 AAAAATAA-ATATAT
821140 AAAAATAAA-A-AT
1 AAAAATAAATATAT
* *
821152 AAAAATAGAAGATAA
1 AAAAATA-AATATAT
*
821167 AAAAATAAA-AGA-
1 AAAAATAAATATAT
*
821179 CAAAATGAAATATAT
1 AAAAAT-AAATATAT
821194 AAAAATAAATATAT
1 AAAAATAAATATAT
*
821208 ATAATATATAATTATAGT
1 A-AA-A-ATAAATATA-T
*
821226 AATAA-AAATATAT
1 AAAAATAAATATAT
821239 AAAAATAA
1 AAAAATAA
821247 TAATGATATA
Statistics
Matches: 126, Mismatches: 22, Indels: 33
0.70 0.12 0.18
Matches are distributed among these distances:
12 13 0.10
13 34 0.27
14 35 0.28
15 20 0.16
16 8 0.06
17 14 0.11
18 2 0.02
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (14 bp):
AAAAATAAATATAT
Found at i:821209 original size:16 final size:15
Alignment explanation
Indices: 821083--821256 Score: 62
Period size: 15 Copynumber: 11.7 Consensus size: 15
821073 ACAAATATAA
821083 AAAATATATATATAAAT
1 AAAATATATA-A-AAAT
*
821100 AAAATACAT-AAAAT
1 AAAATATATAAAAAT
* *
821114 AAAGAAGATAATAACAAT
1 -AA-AATAT-ATAAAAAT
* *
821132 AACA-ATACAAAAAT
1 AAAATATATAAAAAT
821146 -AAA-A-ATAAAAAT
1 AAAATATATAAAAAT
* * *
821158 AGAAGATAAAAAAAT
1 AAAATATATAAAAAT
* *
821173 -AAA-AGA-CAAAAT
1 AAAATATATAAAAAT
*
821185 GAAATATATAAAAAT
1 AAAATATATAAAAAT
*
821200 -AAATATATATAATAT
1 AAAATATATA-AAAAT
* **
821215 ATAAT-TATAGTAAT
1 AAAATATATAAAAAT
821229 AAAAATATATAAAAAT
1 -AAAATATATAAAAAT
821245 AATAATGATATA
1 AA-AAT-ATATA
821257 TGAAAAAGAA
Statistics
Matches: 117, Mismatches: 24, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
12 12 0.10
13 10 0.09
14 26 0.22
15 31 0.26
16 17 0.15
17 17 0.15
18 4 0.03
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (15 bp):
AAAATATATAAAAAT
Found at i:821343 original size:2 final size:2
Alignment explanation
Indices: 821338--821386 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
821328 ACCCAAATGA
821338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
821380 AT AT AT A
1 AT AT AT A
821387 AGAATAATGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:831128 original size:5 final size:5
Alignment explanation
Indices: 831118--831147 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
831108 TTCATACTTG
831118 CATTA CATTA CATTA CATTTA CATTA CATT
1 CATTA CATTA CATTA CA-TTA CATTA CATT
831148 TATATTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (5 bp):
CATTA
Found at i:831158 original size:11 final size:11
Alignment explanation
Indices: 831118--831149 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
831108 TTCATACTTG
831118 CATTACA-TTA
1 CATTACATTTA
831128 CATTACATTTA
1 CATTACATTTA
831139 CATTACATTTA
1 CATTACATTTA
831150 TATTGCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (11 bp):
CATTACATTTA
Found at i:834890 original size:55 final size:56
Alignment explanation
Indices: 834823--834932 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 56
834813 CCCTTGTTTG
* * *
834823 AGATCTGATTAGATGTGGAGACATTAAAG-GATTAGGATAAATCCTTCTTGTGAAA
1 AGATCTGATTAGATGTGGAGACATGAAAGAAATTAGGATAAATCCTTATTGTGAAA
*
834878 AGATCTTATTAGATGTGGAGACATGAAAGAAATTAGGATAAATCCTTATTGTGAA
1 AGATCTGATTAGATGTGGAGACATGAAAGAAATTAGGATAAATCCTTATTGTGAA
834933 TTGTTTCAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 27 0.54
56 23 0.46
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (56 bp):
AGATCTGATTAGATGTGGAGACATGAAAGAAATTAGGATAAATCCTTATTGTGAAA
Found at i:835045 original size:22 final size:22
Alignment explanation
Indices: 835017--835069 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
835007 TCTATATTTG
* * *
835017 CAAAGATGTTAGGTTCCCTTTT
1 CAAAGATGATAGATTCCCTTTA
*
835039 CAAAGATGATAGATTCTCTTTA
1 CAAAGATGATAGATTCCCTTTA
835061 CAAAGATGA
1 CAAAGATGA
835070 AAGCTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (22 bp):
CAAAGATGATAGATTCCCTTTA
Found at i:835657 original size:20 final size:20
Alignment explanation
Indices: 835632--835753 Score: 165
Period size: 20 Copynumber: 6.1 Consensus size: 20
835622 TTTCCCGCGA
*
835632 ATTTGTAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGAGTC
*
835652 ATTTGTAAAGACTTCGAGTC
1 ATTTGTAAAGCCTTCGAGTC
835672 ATTTGTAAAGCCTTCGAGTC
1 ATTTGTAAAGCCTTCGAGTC
*
835692 ATTTTTAAAGCCTTCGAGTC
1 ATTTGTAAAGCCTTCGAGTC
*
835712 ATTTGTAAATCCTTC-AGGTC
1 ATTTGTAAAGCCTTCGA-GTC
* * *
835732 ATTTATAAATCCTTCGGGTC
1 ATTTGTAAAGCCTTCGAGTC
835752 AT
1 AT
835754 CTGTTAGTCT
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.01
20 91 0.99
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (20 bp):
ATTTGTAAAGCCTTCGAGTC
Found at i:838703 original size:3 final size:3
Alignment explanation
Indices: 838695--838739 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
838685 TATGTATCAT
838695 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
838740 AAGCGAGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:839102 original size:134 final size:134
Alignment explanation
Indices: 838862--839593 Score: 849
Period size: 134 Copynumber: 5.6 Consensus size: 134
838852 ATAAGAGATC
* * * * * ** *
838862 TGTTCTGCTGTCACTCAGAGAATATCAGATCTAG-GGATGAGTGATATGTTCCGCTTCTTCTAAA
1 TGTTCCGCTATCACTCAGGGAATATCAAATCTTGAAAATGAGTGATATGTTCCGCTTCTTCTGAA
* *
838926 GGGAATATCAGATCTGGATGAATTGAT-CATTTCCGA-TGTCACTCAGGGAAGATTGAATCGTGG
66 GGGAATATCAGATCTGGATGAGTTGATCCA-TTCC-ACTGTCACTCAGGGAAGATTGAATCATGG
838989 TAGACT
129 TAGACT
* *
838995 TGTTCCGCTATCACTCAGGGAATATCAAATCTT-AAGAATGAGTGATTTGTTCTGCTTCTTCTGA
1 TGTTCCGCTATCACTCAGGGAATATCAAATCTTGAA-AATGAGTGATATGTTCCGCTTCTTCTGA
** *
839059 AGGGAATATCAGATCTGGATGAGTTGATTTATTCCACTATCACTCAGGGAAGATTGAATCATGGT
65 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCATGGT
839124 AGACT
130 AGACT
* * * *
839129 TGTTCCGCTATCACTCAGGGAATATCAAATCTTGAAAAAT-AGTGACATGTTCAGCTTTTTCTAA
1 TGTTCCGCTATCACTCAGGGAATATCAAATCTTG-AAAATGAGTGATATGTTCCGCTTCTTCTGA
* * * ** *
839193 AGAGAATATCATATCTGGATGAGTTGATCTATTCTGCTGTCACTCAGGGAAGATTAAATCATGGT
65 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCATGGT
839258 AGACT
130 AGACT
* * * * *
839263 TGTTCCGC-AGTCACTCAGAGAATATCAAATCTTGAAAAAGAATGATTTGTTCCACTTCTTCTGA
1 TGTTCCGCTA-TCACTCAGGGAATATCAAATCTTGAAAATGAGTGATATGTTCCGCTTCTTCTGA
* * *
839327 AGGGAATATCAGATCTAGATGAGTTGATCCATTCCGCTGTCACTCAAGGAAGATTGAATCATGGT
65 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCATGGT
839392 AGACT
130 AGACT
* ** * * * * *
839397 TATTCCGCTGCCACTCAGGGAATATCAAATATTGAAAAAGAGTGATCTGTTCCACTTTTTCTGAA
1 TGTTCCGCTATCACTCAGGGAATATCAAATCTTGAAAATGAGTGATATGTTCCGCTTCTTCTGAA
*
839462 GGGAATATCAGA--TAGATGAGTTGATCCATTCCACTGTCACTCAGGG-A-A--G----AT--T-
66 GGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCATGGTA
839514 G--T
131 GACT
* * * * *
839516 TGTTCCACTGTCACTCAGGGAATATAAAATCTTGAAAAAGAGTGATATGTTCCACTTCTTCTGAA
1 TGTTCCGCTATCACTCAGGGAATATCAAATCTTGAAAATGAGTGATATGTTCCGCTTCTTCTGAA
839581 GGGAATATCAGAT
66 GGGAATATCAGAT
839594 AGATGGATTT
Statistics
Matches: 530, Mismatches: 59, Indels: 33
0.85 0.09 0.05
Matches are distributed among these distances:
119 71 0.13
121 1 0.00
122 1 0.00
124 2 0.00
128 1 0.00
130 1 0.00
131 1 0.00
132 32 0.06
133 34 0.06
134 380 0.72
135 4 0.01
136 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (134 bp):
TGTTCCGCTATCACTCAGGGAATATCAAATCTTGAAAATGAGTGATATGTTCCGCTTCTTCTGAA
GGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCATGGTA
GACT
Found at i:839737 original size:79 final size:79
Alignment explanation
Indices: 839595--839743 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 79
839585 ATATCAGATA
* * *
839595 GATGGATTTGCTTCACTATTCTTCCGTGAAGGCTTAAGATGGCCCAGAGGACTTCAACGTCATGC
1 GATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGGCCCAAAGGACTTCAACATCATGC
839660 TCGGATGGCTTACT
66 TCGGATGGCTTACT
* *
839674 GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCAAAGGA-TTTAAGCATCATG
1 GATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGGCCCAAAGGACTTCAA-CATCATG
839738 CTCGGA
65 CTCGGA
839744 AGATTTACTG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
78 4 0.06
79 60 0.94
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (79 bp):
GATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGGCCCAAAGGACTTCAACATCATGC
TCGGATGGCTTACT
Found at i:852114 original size:2 final size:2
Alignment explanation
Indices: 852107--852163 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
852097 TCAATCTACA
852107 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
852149 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
852164 ATTTCTGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:852543 original size:85 final size:85
Alignment explanation
Indices: 852211--852531 Score: 482
Period size: 85 Copynumber: 3.8 Consensus size: 85
852201 GTCTTTTTAA
* * * *
852211 ATGACGTGTGCTTCAATGACACGCAATGTAAGTCATATATGCGTGTCATAAATTTATGACACACA
1 ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
* **
852276 AATGTATGTCA-AACAGATTT
66 AATGTGTGTCATATTA-ATTT
* *
852296 ATGATGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACA
1 ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
* *
852361 AATATGTGTCATCTTAATTT
66 AATGTGTGTCATATTAATTT
*
852381 ATGACGGGGGCTTTAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
1 ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
852446 AATGTGTGTCATATTAATTT
66 AATGTGTGTCATATTAATTT
* * * *
852466 ATGACGGAGGCTTCAATGACGCGTAATGTAAGTCATACATGCGCGTCATAGATTTATGACACACA
1 ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
852531 A
66 A
852532 TTGCGCGTCA
Statistics
Matches: 214, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
85 213 1.00
86 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (85 bp):
ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
AATGTGTGTCATATTAATTT
Found at i:857034 original size:18 final size:17
Alignment explanation
Indices: 857003--857040 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
856993 ATTTTAAGAC
*
857003 TAATTATAATATTAGTA
1 TAATTATAATATTAGGA
857020 TAATTATATATATTAGGA
1 TAATTATA-ATATTAGGA
857038 TAA
1 TAA
857041 CTTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (17 bp):
TAATTATAATATTAGGA
Found at i:857988 original size:2 final size:2
Alignment explanation
Indices: 857981--858005 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
857971 AATTTATTGG
857981 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 T
858006 GGTAAGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:858738 original size:44 final size:44
Alignment explanation
Indices: 858675--858766 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
858665 AAAATTCTTT
*
858675 TATGGGTACATTGTACCGATGTTGTTCTTACAGTATCGATACTG
1 TATGGGTACATTATACCGATGTTGTTCTTACAGTATCGATACTG
858719 TATGGGTACATTATACCGATGTTGTTCTTACAGTATCGATACTG
1 TATGGGTACATTATACCGATGTTGTTCTTACAGTATCGATACTG
858763 TATG
1 TATG
858767 AAAAAGTACT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (44 bp):
TATGGGTACATTATACCGATGTTGTTCTTACAGTATCGATACTG
Found at i:858750 original size:22 final size:22
Alignment explanation
Indices: 858681--858750 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
858671 CTTTTATGGG
*
858681 TACATTGTACCGATGTTGTTCT
1 TACATTATACCGATGTTGTTCT
* ** **
858703 TACAGTAT--CGATACTGTATGGG
1 TACATTATACCGATGTTGT-T-CT
858725 TACATTATACCGATGTTGTTCT
1 TACATTATACCGATGTTGTTCT
858747 TACA
1 TACA
858751 GTATCGATAC
Statistics
Matches: 33, Mismatches: 11, Indels: 8
0.63 0.21 0.15
Matches are distributed among these distances:
20 7 0.21
21 1 0.03
22 17 0.52
23 1 0.03
24 7 0.21
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (22 bp):
TACATTATACCGATGTTGTTCT
Found at i:859278 original size:27 final size:27
Alignment explanation
Indices: 859248--859301 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
859238 TTCTCTTGTA
859248 AATATTAGTGTTTAGTGAGCCCAATCT
1 AATATTAGTGTTTAGTGAGCCCAATCT
859275 AATATTAGTGTTTAGTGAGCCCAATCT
1 AATATTAGTGTTTAGTGAGCCCAATCT
859302 TTGTAAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (27 bp):
AATATTAGTGTTTAGTGAGCCCAATCT
Found at i:860659 original size:24 final size:24
Alignment explanation
Indices: 860631--860695 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
860621 GATTGGACTG
**
860631 AATATAAATGAACGATTATAAACA
1 AATATAAATGAACGAACATAAACA
* * **
860655 GATATAATTGAACGAACATTCACA
1 AATATAAATGAACGAACATAAACA
860679 AATATAAATGAACGAAC
1 AATATAAATGAACGAAC
860696 TATCATTTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.54, C:0.12, G:0.11, T:0.23
Consensus pattern (24 bp):
AATATAAATGAACGAACATAAACA
Found at i:865965 original size:76 final size:74
Alignment explanation
Indices: 865780--865986 Score: 229
Period size: 75 Copynumber: 2.8 Consensus size: 74
865770 CAAAGTCAAA
* * * * **
865780 AATTCCA-TATTGCTCAGAGGGAATCGATTCCCCCCATAGGAGGAACCGATTCCCCCTTGAATGG
1 AATTCCAGTA-TGCTCGGAGGGAACCGA-TCCCCCCATGGGAGGAACCGATTCCCCC-TAAACAG
865844 TTTAGCTCCGAG
63 TTTAGCTCCGAG
* * * *
865856 ATTTTCAGAATGCTCGGAGGGAACCGATTCCCCCTATGGGAGGAACCGATTCCCCCTAAACAGTT
1 AATTCCAGTATGCTCGGAGGGAACCGA-TCCCCCCATGGGAGGAACCGATTCCCCCTAAACAGTT
* *
865921 TTGCTCTGAG
65 TAGCTCCGAG
* *
865931 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCAAGGG-GGTACCGATTCCCCCT
1 AATTCCAGTATGCTCGGAGGGAACCGAT-CCCCCCATGGGAGGAACCGATTCCCCCT
865987 TGTACAACGG
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
74 16 0.14
75 47 0.42
76 47 0.42
77 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (74 bp):
AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCATGGGAGGAACCGATTCCCCCTAAACAGTTT
AGCTCCGAG
Found at i:871711 original size:20 final size:20
Alignment explanation
Indices: 871686--871725 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
871676 TTTTGGTGCA
*
871686 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
871706 GAGGGAACCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
871726 TGAAGGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.38, G:0.25, T:0.17
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:873746 original size:9 final size:8
Alignment explanation
Indices: 873724--873774 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
873714 TGTTTCAATA
873724 TTTTGGAT
1 TTTTGGAT
873732 ATTTTGGAT
1 -TTTTGGAT
873741 TGTTT-GAT
1 T-TTTGGAT
873749 TTTGTGGAT
1 TTT-TGGAT
*
873758 TGTTGGA-
1 TTTTGGAT
873765 TTTTGGAT
1 TTTTGGAT
873773 TT
1 TT
873775 ATGAATGGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 8 0.22
8 12 0.33
9 16 0.44
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (8 bp):
TTTTGGAT
Found at i:873758 original size:17 final size:17
Alignment explanation
Indices: 873726--873769 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
873716 TTTCAATATT
873726 TTGGATATTT-TGGATTG
1 TTGGAT-TTTGTGGATTG
*
873743 TTTGATTTTGTGGATTG
1 TTGGATTTTGTGGATTG
873760 TTGGATTTTG
1 TTGGATTTTG
873770 GATTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
TTGGATTTTGTGGATTG
Found at i:874499 original size:76 final size:75
Alignment explanation
Indices: 874371--874579 Score: 285
Period size: 76 Copynumber: 2.8 Consensus size: 75
874361 CAAAGTCAAA
* * * **
874371 AATTCCAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCAT-GGAGGAACCGATTCCCCCCTAAACAGT
874436 TTGGCTCCGAG
65 TTGGCTCCGAG
*
874447 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATGGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCAT-GGAGGAACCGATTCCCCCCTAAACAGT
*
874512 TTTGCTCCGAG
65 TTGGCTCCGAG
* * * *
874523 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCAATGG-GGTATCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCC-ATGGAGGAACCGATTCCCCCCT
874580 TGTACAACGG
Statistics
Matches: 119, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
75 15 0.13
76 102 0.86
77 2 0.02
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATGGAGGAACCGATTCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:875528 original size:12 final size:12
Alignment explanation
Indices: 875500--875536 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
875490 TTTGGTAATC
875500 CCCGCCCCGATTA
1 CCCGCCCCGA-TA
875513 CCCGCCCCGATA
1 CCCGCCCCGATA
*
875525 CCCGACCCGATA
1 CCCGCCCCGATA
875537 AATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.19, C:0.54, G:0.16, T:0.11
Consensus pattern (12 bp):
CCCGCCCCGATA
Found at i:875598 original size:24 final size:25
Alignment explanation
Indices: 875571--875632 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
875561 ATATATATAT
875571 ATAATATTA-ATTA-ATTTAATTTAA
1 ATAATATTATA-TACATTTAATTTAA
*
875595 ATAA-ACTATATACATTTAATTTAA
1 ATAATATTATATACATTTAATTTAA
875619 AT-ATATATATATAC
1 ATAATAT-TATATAC
875633 CTGGCCCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
23 6 0.19
24 19 0.59
25 7 0.22
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (25 bp):
ATAATATTATATACATTTAATTTAA
Found at i:877962 original size:17 final size:18
Alignment explanation
Indices: 877931--877968 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
877921 AGCATCTTTT
877931 AAAACAATTTTAAGA-AA
1 AAAACAATTTTAAGACAA
877948 AAAAC-ATTTTAAAGACAA
1 AAAACAATTTT-AAGACAA
877966 AAA
1 AAA
877969 TAAGTCAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
17 9 0.47
18 5 0.26
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAACAATTTTAAGACAA
Found at i:884863 original size:33 final size:33
Alignment explanation
Indices: 884821--884889 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
884811 TCTCTTGCAG
884821 TGACCAATATAGCCTTCTCCTTTCATGACGAAA
1 TGACCAATATAGCCTTCTCCTTTCATGACGAAA
884854 TGACCAATATAGCCTTCTCCTTTCATGACGAAA
1 TGACCAATATAGCCTTCTCCTTTCATGACGAAA
884887 TGA
1 TGA
884890 TCAAGAAGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (33 bp):
TGACCAATATAGCCTTCTCCTTTCATGACGAAA
Found at i:886521 original size:36 final size:35
Alignment explanation
Indices: 886475--886603 Score: 107
Period size: 36 Copynumber: 3.5 Consensus size: 35
886465 ACAAAAATTT
886475 ATCTCACTTGAGATTGTCTTTCTTAAAACAAGATTC
1 ATCTCACTTGAGATTGT-TTTCTTAAAACAAGATTC
* * * * *
886511 ATCTCGCTTGAGATAGTTTCACTTGAAATAGAA-ATCTT
1 ATCTCACTTGAGATTGTTT-TCTT-AAA-ACAAGAT-TC
* *
886549 ATCTCACTTCAAATTGTTTTTCTTAAAACAAGATTC
1 ATCTCACTTGAGATTG-TTTTCTTAAAACAAGATTC
** *
886585 ATCTTGCTTGAGATAGTTT
1 ATCTCACTTGAGATTGTTT
886604 CACTCGAAGA
Statistics
Matches: 70, Mismatches: 17, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
35 5 0.07
36 33 0.47
37 10 0.14
38 19 0.27
39 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (35 bp):
ATCTCACTTGAGATTGTTTTCTTAAAACAAGATTC
Found at i:886571 original size:74 final size:74
Alignment explanation
Indices: 886438--886607 Score: 236
Period size: 74 Copynumber: 2.3 Consensus size: 74
886428 AACAAAAATT
* * * * *
886438 ATCTCGCTTGAGACAGTCTCA-TTTAATACAAAAATTTATCTCACTTGAGATTGTCTTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTTGAATACAAAAATTTATCTCACTTCAAATTGTCTTTCTTAAA
886502 ACAAGATTC
66 ACAAGATTC
* * *
886511 ATCTCGCTTGAGATAGTTTCACTTGAA-ATAGAAATCTTATCTCACTTCAAATTGTTTTTCTTAA
1 ATCTCGCTTGAGATAGTTTCACTTGAATACAAAAAT-TTATCTCACTTCAAATTGTCTTTCTTAA
886575 AACAAGATTC
65 AACAAGATTC
*
886585 ATCTTGCTTGAGATAGTTTCACT
1 ATCTCGCTTGAGATAGTTTCACT
886608 CGAAGAATTT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
73 25 0.29
74 61 0.71
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (74 bp):
ATCTCGCTTGAGATAGTTTCACTTGAATACAAAAATTTATCTCACTTCAAATTGTCTTTCTTAAA
ACAAGATTC
Found at i:886661 original size:38 final size:38
Alignment explanation
Indices: 886511--886813 Score: 141
Period size: 38 Copynumber: 8.1 Consensus size: 38
886501 AACAAGATTC
* *
886511 ATCTCGCTTGAGATAGTTTCACTTG-AAATAGAAATCTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAAAT-GAAATTTT
* * * * ** * * *
886549 ATCTCACTTCAAATTGTTTTTCT-TAAAA-CAAGA-TTC
1 ATCTCGCTTGAGATAGTTTCACTCGAAAATGAA-ATTTT
* ***
886585 ATCTTGCTTGAGATAGTTTCACTCGAAGAAT-TTTTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAA-AATGAAATTTT
886623 ATCTCGCTTGAGATAGTTTCACTCGAAAATGAAATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAAATGAAATTTT
* * * ** * * *
886661 ATATCACTTAAGATTA-TTTTTCT-TAAAA-CAAA-TTC
1 ATCTCGCTTGAGA-TAGTTTCACTCGAAAATGAAATTTT
886696 ATCTCGCTTGAGATAGTTTCACTC-AAACCAT-AAATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAA--ATGAAATTTT
* * * *
886734 ATCTCACTTGAGATTGTTTTC-CT-TAAAA-AAAATATTT
1 ATCTCGCTTGAGATAG-TTTCACTCGAAAATGAAAT-TTT
* * * *
886771 -TCTTGCTTAATATAGTTTCACTCGAAACAAGAAATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAA-ATGAAATTTT
886809 ATCTC
1 ATCTC
886814 ACTCCAGATT
Statistics
Matches: 192, Mismatches: 50, Indels: 45
0.67 0.17 0.16
Matches are distributed among these distances:
34 2 0.01
35 24 0.12
36 39 0.20
37 20 0.10
38 94 0.49
39 13 0.07
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.41
Consensus pattern (38 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAAATGAAATTTT
Found at i:886742 original size:73 final size:74
Alignment explanation
Indices: 886620--887018 Score: 396
Period size: 76 Copynumber: 5.3 Consensus size: 74
886610 AAGAATTTTT
* *
886620 TTTATCTCGCTTGAGATAGTTTCACTCGAAA-ATGAAATTTTATATCACTTAAGATTATTTTTCT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAAGAAATTTTATCTCACTTAAGATTATTTTTCT
886684 TAAAACAAA
66 TAAAACAAA
* * * * * *
886693 TTCATCTCGCTTGAGATAGTTTCACTC-AAACCATAAATTTTATCTCACTTGAGATTGTTTTCCT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAAGAAATTTTATCTCACTTAAGATTATTTTTCT
*
886757 TAAAAAAAA
66 TAAAACAAA
* * * * ** *
886766 TATTTTCTTGCTTAATATAGTTTCACTCGAAACAAGAAATTTTATCTCACTCCAGATTTTTTTTT
1 T-TTATCTCGCTTGAGATAGTTTCACTCGAAACAAGAAATTTTATCTCACTTAAGA--TTATTTT
886831 TCTTAAAACAAA
63 TCTTAAAACAAA
* * * * *
886843 CTTTGTC-CTGCTTGAGACAGCTTTCACTCGAAAC-AGAAAATTTGATCTCACTTGAGATTGTTT
1 -TTTATCTC-GCTTGAGATAG-TTTCACTCGAAACAAG-AAATTTTATCTCACTTAAGATTATTT
*
886906 TTCTTAAAACAGAC
62 TTCTTAAAACA-AA
* * * * *
886920 TTTGTCTCGCTTGAGACAGTTTTTACTCGAAACAAGAAATTTCATTTCACTTAAGATTGA-TTTT
1 TTTATCTCGCTTGAGATAG-TTTCACTCGAAACAAGAAATTTTATCTCACTTAAGATT-ATTTTT
886984 CTTAAAGA-AAA
64 CTTAAA-ACAAA
*
886995 TTTAATCTCGCTTGAGAAAGTTTC
1 TTT-ATCTCGCTTGAGATAGTTTC
887019 CCATGAAATA
Statistics
Matches: 270, Mismatches: 41, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
72 3 0.01
73 61 0.23
74 21 0.08
75 30 0.11
76 89 0.33
77 35 0.13
78 31 0.11
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (74 bp):
TTTATCTCGCTTGAGATAGTTTCACTCGAAACAAGAAATTTTATCTCACTTAAGATTATTTTTCT
TAAAACAAA
Found at i:886771 original size:111 final size:112
Alignment explanation
Indices: 886511--886752 Score: 299
Period size: 112 Copynumber: 2.2 Consensus size: 112
886501 AACAAGATTC
* * * * * * *
886511 ATCTCGCTTGAGATAGTTTCACTTGAAATAGAAATCTTATCTCACTTCAAATTGTTTTTCTTAAA
1 ATCTCACTTGAGATAGTTTCACTCGAAAAAAAAATTTTATATCACTTCAAATTATTTTTCTTAAA
* * * ***
886576 ACAAGATTCATCTTGCTTGAGATAGTTTCACTCGAAGAATTTTTTTT
66 ACAAGATTCATCTCGCTTGAGATAGTTTCACTCAAACAATAAATTTT
* **
886623 ATCTCGCTTGAGATAGTTTCACTCGAAAATGAAATTTTATATCACTT-AAGATTATTTTTCTTAA
1 ATCTCACTTGAGATAGTTTCACTCGAAAAAAAAATTTTATATCACTTCAA-ATTATTTTTCTTAA
*
886687 AACAA-ATTCATCTCGCTTGAGATAGTTTCACTCAAACCATAAATTTT
65 AACAAGATTCATCTCGCTTGAGATAGTTTCACTCAAACAATAAATTTT
*
886734 ATCTCACTTGAGATTGTTT
1 ATCTCACTTGAGATAGTTT
886753 TCCTTAAAAA
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
111 54 0.47
112 60 0.53
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (112 bp):
ATCTCACTTGAGATAGTTTCACTCGAAAAAAAAATTTTATATCACTTCAAATTATTTTTCTTAAA
ACAAGATTCATCTCGCTTGAGATAGTTTCACTCAAACAATAAATTTT
Found at i:886942 original size:36 final size:36
Alignment explanation
Indices: 886827--886943 Score: 101
Period size: 36 Copynumber: 3.1 Consensus size: 36
886817 CCAGATTTTT
*
886827 TTTTTCTTAAAACAAACTTTGTC-CTGCTTGAGACAG
1 TTTTTCTTAAAACAGACTTTGTCTC-GCTTGAGACAG
** ** * * **
886863 CTTTCACTCGAAACAGAAAATTTGATCTCACTTGAGATTG
1 -TTTTTCTTAAAACAG--ACTTTG-TCTCGCTTGAGACAG
886903 TTTTTCTTAAAACAGACTTTGTCTCGCTTGAGACAG
1 TTTTTCTTAAAACAGACTTTGTCTCGCTTGAGACAG
886939 TTTTT
1 TTTTT
886944 ACTCGAAACA
Statistics
Matches: 59, Mismatches: 17, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
36 17 0.29
37 15 0.25
39 16 0.27
40 10 0.17
41 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (36 bp):
TTTTTCTTAAAACAGACTTTGTCTCGCTTGAGACAG
Found at i:890443 original size:15 final size:14
Alignment explanation
Indices: 890420--890488 Score: 61
Period size: 14 Copynumber: 4.8 Consensus size: 14
890410 ATAAATAACA
*
890420 TAAAATGAAAGGAC
1 TAAAATTAAAGGAC
*
890434 TAAAATTGAAAGGAA
1 TAAAATT-AAAGGAC
890449 TGAAAATTAAA-GAC
1 T-AAAATTAAAGGAC
890463 -ATAAATTAAAGGAC
1 TA-AAATTAAAGGAC
*
890477 TGAAATATAAAG
1 TAAAAT-TAAAG
890489 TTCATAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
12 1 0.02
13 8 0.18
14 15 0.33
15 15 0.33
16 6 0.13
ACGTcount: A:0.58, C:0.04, G:0.17, T:0.20
Consensus pattern (14 bp):
TAAAATTAAAGGAC
Found at i:890456 original size:16 final size:15
Alignment explanation
Indices: 890419--890460 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
890409 AATAAATAAC
890419 ATAAAA-TGAAAGGA
1 ATAAAATTGAAAGGA
*
890433 CTAAAATTGAAAGGA
1 ATAAAATTGAAAGGA
890448 ATGAAAATT-AAAG
1 AT-AAAATTGAAAG
890461 ACATAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.21
15 13 0.54
16 6 0.25
ACGTcount: A:0.60, C:0.02, G:0.19, T:0.19
Consensus pattern (15 bp):
ATAAAATTGAAAGGA
Found at i:890487 original size:28 final size:29
Alignment explanation
Indices: 890436--890515 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 29
890426 GAAAGGACTA
*
890436 AAATTGAAAGGAATGAAA-ATTAAAG-ACAT
1 AAATT-AAAGGACTGAAATA-TAAAGTACAT
*
890465 AAATTAAAGGACTGAAATATAAAGTTCAT
1 AAATTAAAGGACTGAAATATAAAGTACAT
* *
890494 AAAATAAA-GACTGAAATGTAAA
1 AAATTAAAGGACTGAAATATAAA
890516 TAAAATAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 29 0.64
29 16 0.36
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (29 bp):
AAATTAAAGGACTGAAATATAAAGTACAT
Found at i:892324 original size:51 final size:51
Alignment explanation
Indices: 892207--892324 Score: 123
Period size: 51 Copynumber: 2.3 Consensus size: 51
892197 ACCCTTAGCA
** * * *
892207 GTAAAGCGCGTCCCCTGTACCGCGCTATATGCTGATTTGGCACCACGTGGG
1 GTAAAGCGCGTCCCCTACACCGCGCTATATGATGAATTGGCAACACGTGGG
* * *
892258 GTATAGTGTGTCCCCTACACCGCGCTATATGATGACATTGG-ATACACGT-GG
1 GTAAAGCGCGTCCCCTACACCGCGCTATATGATGA-ATTGGCA-ACACGTGGG
*
892309 GTAAAGCGCGGCCCCT
1 GTAAAGCGCGTCCCCT
892325 GATCCGCGCT
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
51 44 0.83
52 9 0.17
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.24
Consensus pattern (51 bp):
GTAAAGCGCGTCCCCTACACCGCGCTATATGATGAATTGGCAACACGTGGG
Found at i:893741 original size:51 final size:51
Alignment explanation
Indices: 893637--893763 Score: 132
Period size: 51 Copynumber: 2.5 Consensus size: 51
893627 CTATGTGGCG
* * * * * *
893637 TATAGCGCGGAT-CAGGGGCCGCGCTTTACCCACGTGTATCCAATGTCATCA
1 TATAGCGCGG-TGCAGGGGACGCGCTATACCCACGTGGAGCCAATATCAGCA
* *
893688 TATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAA-ATCAGCA
1 TATAGCGCGGTGCAGGGGACGCGCTATA-CCCACGTGGAGCCAATATCAGCA
* *
893739 TATAGCACGGTGTAGGGGACGCGCT
1 TATAGCGCGGTGCAGGGGACGCGCT
893764 TTACTGCTAG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
50 1 0.02
51 51 0.80
52 12 0.19
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.19
Consensus pattern (51 bp):
TATAGCGCGGTGCAGGGGACGCGCTATACCCACGTGGAGCCAATATCAGCA
Found at i:893961 original size:28 final size:28
Alignment explanation
Indices: 893921--893977 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
893911 CCAGATTCGC
*
893921 AACGCGAACTTCGACTATCGCATTGCGA
1 AACGCGAACTTCGACTATCGCAATGCGA
893949 AACGCGAACTTCGACTATCGCAATGCGA
1 AACGCGAACTTCGACTATCGCAATGCGA
893977 A
1 A
893978 CTTGGACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (28 bp):
AACGCGAACTTCGACTATCGCAATGCGA
Found at i:893978 original size:21 final size:21
Alignment explanation
Indices: 893952--893998 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
893942 ATTGCGAAAC
893952 GCGAACTTCGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
* *
893973 GCGAACTTGGACTATTGCAAT
1 GCGAACTTCGACTATCGCAAT
893994 GCGAA
1 GCGAA
893999 TATGTAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (21 bp):
GCGAACTTCGACTATCGCAAT
Found at i:894286 original size:5 final size:6
Alignment explanation
Indices: 894247--894283 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
894237 GACACGTATT
*
894247 ACCAGG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
894284 CGAGACGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.30, C:0.51, G:0.19, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:894877 original size:21 final size:21
Alignment explanation
Indices: 894853--894924 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
894843 ATGCAATACT
894853 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
894874 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
894895 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
894916 ATCGCAACG
1 ATCGCAACG
894925 TGAACTTCGA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 9 0.22
21 23 0.56
23 9 0.22
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:894909 original size:42 final size:42
Alignment explanation
Indices: 894850--894943 Score: 179
Period size: 42 Copynumber: 2.2 Consensus size: 42
894840 CAAATGCAAT
894850 ACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCG
1 ACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCG
*
894892 ACTATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTCG
1 ACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCG
894934 ACTATCGCAA
1 ACTATCGCAA
894944 TGCGAATATG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (42 bp):
ACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCG
Found at i:894940 original size:21 final size:20
Alignment explanation
Indices: 894874--894943 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
894864 TTTGGAATAA
894874 ATCGCAACGCGAACTTCGACT
1 ATCGCAACG-GAACTTCGACT
* * *
894895 ATCGCAAC-GAATTTGGAAT
1 ATCGCAACGGAACTTCGACT
894914 AAATCGCAACGTGAACTTCGACT
1 --ATCGCAACG-GAACTTCGACT
894937 ATCGCAA
1 ATCGCAA
894944 TGCGAATATG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 8 0.21
21 23 0.59
23 8 0.21
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGGAACTTCGACT
Found at i:895023 original size:90 final size:91
Alignment explanation
Indices: 894902--895086 Score: 254
Period size: 90 Copynumber: 2.0 Consensus size: 91
894892 ACTATCGCAA
*
894902 CGAATTTGGAATAAATCGCAACGTGAACTTCGACTATCGCAATGCGAATATGTA-A-A-TCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCG-AT-T-TACATATTCGCAA
*
894964 TGCGATAGTCGAAGTTCGTGTTGCGATAGT
63 TGCGATAGTC-AAGTTCGTATTGCGATAGT
* *
894994 CGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGC
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGATTTACATATTCGCAATGC
*
895057 GATAGTCAAGTTCGTATTGCGATATT
66 GATAGTCAAGTTCGTATTGCGATAGT
895083 CGAA
1 CGAA
895087 GTTCGCGTTA
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
87 2 0.02
88 2 0.02
89 24 0.28
90 47 0.55
91 1 0.01
92 9 0.11
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (91 bp):
CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGATTTACATATTCGCAATGC
GATAGTCAAGTTCGTATTGCGATAGT
Found at i:895070 original size:20 final size:21
Alignment explanation
Indices: 895047--895092 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
895037 GATTTACATA
895047 TTCGCATTGCGATAGTC-AAG
1 TTCGCATTGCGATAGTCGAAG
* *
895067 TTCGTATTGCGATATTCGAAG
1 TTCGCATTGCGATAGTCGAAG
895088 TTCGC
1 TTCGC
895093 GTTACGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCGAAG
Found at i:897401 original size:10 final size:10
Alignment explanation
Indices: 897377--897415 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
897367 CGTTTGAGTT
897377 TATA-TATTA
1 TATATTATTA
897386 TATATTATGT-
1 TATATTAT-TA
897396 TATATTATTA
1 TATATTATTA
897406 TATATTATTA
1 TATATTATTA
897416 GTTATATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.19
10 21 0.78
11 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (10 bp):
TATATTATTA
Found at i:898477 original size:11 final size:11
Alignment explanation
Indices: 898461--898494 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
898451 AAATCATTAG
898461 AAAAAAAGAGA
1 AAAAAAAGAGA
898472 AAAAAAAGAGA
1 AAAAAAAGAGA
* *
898483 ACAGAAAGAGA
1 AAAAAAAGAGA
898494 A
1 A
898495 GGGATAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:899389 original size:18 final size:17
Alignment explanation
Indices: 899366--899409 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
899356 CATTGGCATC
899366 ATATATATTAATATGTAT
1 ATATATATTAATAT-TAT
*
899384 ATATATAGTTTATATTAT
1 ATATATA-TTAATATTAT
899402 ATATATAT
1 ATATATAT
899410 ATATGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 17 0.71
19 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
ATATATATTAATATTAT
Found at i:899423 original size:26 final size:25
Alignment explanation
Indices: 899369--899417 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
899359 TGGCATCATA
*
899369 TATATTAATATGTATATATATAGTT
1 TATATTAATATATATATATATAGTT
899394 TATATT-ATATATATATATAT-GTT
1 TATATTAATATATATATATATAGTT
899417 T
1 T
899418 TTTATAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.17
24 13 0.57
25 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (25 bp):
TATATTAATATATATATATATAGTT
Found at i:899715 original size:5 final size:5
Alignment explanation
Indices: 899705--899732 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
899695 AAGTGTTTTC
899705 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
899733 TTTGTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:906326 original size:81 final size:81
Alignment explanation
Indices: 906157--906651 Score: 778
Period size: 81 Copynumber: 6.1 Consensus size: 81
906147 GTTCTTAAAA
* *
906157 TAAAAGATTACTTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTG-AAGTTAGATAAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
906221 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* *
906237 TAAAAGATTAATTTCCTAGTTGTGCATTTTGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
906302 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* * *
906318 TAAAAGATTAATTGCCTAGTTGTACATTTGGCAGAAAGGTGTCAATATTACAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
* *
906383 GATAAAT-TCTTTGAG
66 GCTAAATGCCTTTGAG
* * * *
906398 TAAAAGATTAATTGCCTAGTTGTGTATTTGGCATAAATGTGCCAATATTGTAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
906463 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* * * *
906479 TAGAAGATTAATTGCTTAGTTGTGCATTTGGAAGAAAGGTGCCAATATTGCAAGTTAGATGAAAT
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
* *
906544 GCTAAATGCTTTTAAG
66 GCTAAATGCCTTTGAG
* * *
906560 TAAAAGATTAATTGCCTAGCTGTGCATTTGGAAGAAAGGTGCTAATATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
906625 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
906641 TAAAAGATTAA
1 TAAAAGATTAA
906652 ATGCTTAACA
Statistics
Matches: 376, Mismatches: 37, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
80 118 0.31
81 258 0.69
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
GCTAAATGCCTTTGAG
Found at i:906442 original size:161 final size:160
Alignment explanation
Indices: 906157--906651 Score: 756
Period size: 161 Copynumber: 3.1 Consensus size: 160
906147 GTTCTTAAAA
* * *
906157 TAAAAGATTACTTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGAAGTTAGATAAAAGG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTCAAGTTAGATGAAAGG
* *
906222 CTAAATGCCTTTGAGTAAAAGATTAATTTCCTAGTTGTGCATTTTGCAGAAAGGTGCCAATATTG
66 CTAAAT-CCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTG
906287 CAAGTTAGATGAAAGGCTAAATGCCTTTGAG
130 CAAGTTAGATGAAAGGCTAAATGCCTTTGAG
* *
906318 TAAAAGATTAATTGCCTAGTTGTACATTTGGCAGAAAGGTGTCAATATTACAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATT-CAAGTTAGATGAAAG
* * * * *
906383 GATAAATTCTTTGAGTAAAAGATTAATTGCCTAGTTGTGTATTTGGCATAAATGTGCCAATATTG
65 GCTAAATCCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTG
*
906448 TAAGTTAGATGAAAGGCTAAATGCCTTTGAG
130 CAAGTTAGATGAAAGGCTAAATGCCTTTGAG
* * * *
906479 TAGAAGATTAATTGCTTAGTTGTGCATTTGGAAGAAAGGTGCCAATATTGCAAGTTAGATGAAAT
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATT-CAAGTTAGATGAAAG
* * * * *
906544 GCTAAATGCTTTTAAGTAAAAGATTAATTGCCTAGCTGTGCATTTGGAAGAAAGGTGCTAATATT
65 GCTAAAT-CCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATT
906609 GCAAGTTAGATGAAAGGCTAAATGCCTTTGAG
129 GCAAGTTAGATGAAAGGCTAAATGCCTTTGAG
906641 TAAAAGATTAA
1 TAAAAGATTAA
906652 ATGCTTAACA
Statistics
Matches: 300, Mismatches: 32, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
161 192 0.64
162 108 0.36
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (160 bp):
TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTCAAGTTAGATGAAAGG
CTAAATCCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGC
AAGTTAGATGAAAGGCTAAATGCCTTTGAG
Found at i:906590 original size:242 final size:242
Alignment explanation
Indices: 906157--906651 Score: 787
Period size: 242 Copynumber: 2.0 Consensus size: 242
906147 GTTCTTAAAA
*
906157 TAAAAGATTACTTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGAAGTTAGATAAAAGG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGAAGTTAGATAAAAGG
* * *
906222 CTAAATGCCTTTGAGTAAAAGATTAATTTCCTAGTTGTGCATTTTGCAGAAAGGTGCCAATATTG
66 CTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATTTGGAAGAAAGGTGCCAATATTG
* * *
906287 CAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGTTGTACATTTGGCAG
131 CAAGTTAGATGAAAGGCTAAATGCCTTTAAGTAAAAGATTAATTGCCTAGCTGTACATTTGGAAG
*
906352 AAAGGTG-TCAATATTACAAGTTAGATGAAAGGATAAAT-TCTTTGAG
196 AAAGGTGCT-AATATTACAAGTTAGATGAAAGGATAAATGCCTTTGAG
* * * *
906398 TAAAAGATTAATTGCCTAGTTGTGTATTTGGCATAAATGTGCCAATATTGTAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTG-AAGTTAGATAAAAG
* *
906463 GCTAAATGCCTTTGAGTAGAAGATTAATTGCTTAGTTGTGCATTTGGAAGAAAGGTGCCAATATT
65 GCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATTTGGAAGAAAGGTGCCAATATT
* * *
906528 GCAAGTTAGATGAAATGCTAAATGCTTTTAAGTAAAAGATTAATTGCCTAGCTGTGCATTTGGAA
130 GCAAGTTAGATGAAAGGCTAAATGCCTTTAAGTAAAAGATTAATTGCCTAGCTGTACATTTGGAA
* *
906593 GAAAGGTGCTAATATTGCAAGTTAGATGAAAGGCTAAATGCCTTTGAG
195 GAAAGGTGCTAATATTACAAGTTAGATGAAAGGATAAATGCCTTTGAG
906641 TAAAAGATTAA
1 TAAAAGATTAA
906652 ATGCTTAACA
Statistics
Matches: 232, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
241 46 0.20
242 167 0.72
243 19 0.08
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (242 bp):
TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGAAGTTAGATAAAAGG
CTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATTTGGAAGAAAGGTGCCAATATTG
CAAGTTAGATGAAAGGCTAAATGCCTTTAAGTAAAAGATTAATTGCCTAGCTGTACATTTGGAAG
AAAGGTGCTAATATTACAAGTTAGATGAAAGGATAAATGCCTTTGAG
Found at i:909856 original size:24 final size:25
Alignment explanation
Indices: 909810--909857 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
909800 CCCAATAATG
909810 CTACTACACTCTTCTTTACTTATCC
1 CTACTACACTCTTCTTTACTTATCC
*
909835 CTACTA-ACT-TTCCTTTATTTATC
1 CTACTACACTCTT-CTTTACTTATC
909858 TTCTTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 13 0.62
25 6 0.29
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.48
Consensus pattern (25 bp):
CTACTACACTCTTCTTTACTTATCC
Found at i:915704 original size:81 final size:81
Alignment explanation
Indices: 915482--915894 Score: 550
Period size: 81 Copynumber: 5.1 Consensus size: 81
915472 TATTAAGCAT
* * * * *
915482 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTCACTTGCAATATTGGTACATTTCTACCAA
1 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTTGCACCTTTCTGCCAA
*
915547 ATGCACAACTAGGAAA
66 ATGCACAACTAGGCAA
* * *
915563 TTAATCTTTTACTCAAAAGCATTTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCA
1 TTAATATTTTACTCAAAGGCA-TTTAGCCTTTCATCTAACTTGCAATATTTGCACCTTTCTGCCA
**
915628 AATGCACAGGTAGGCAA
65 AATGCACAACTAGGCAA
** ** *
915645 TTAATATTTTACTCAAAGATATTTAGCCTTTCATCTAACTTGCAATATTTGCTTCTTTCTACCAA
1 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTTGCACCTTTCTGCCAA
915710 ATGCACAGAC-A--C--
66 ATGCACA-ACTAGGCAA
* * * *
915722 TTAATCTTTTACTCAAAGGCATTTAGCCTTTAATCTAACTTCCAATA-TTGTCACCTTTCTGTCA
1 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTTG-CACCTTTCTGCCA
915786 AATGCACAACTAGGCAA
65 AATGCACAACTAGGCAA
* *
915803 TTAATATTTTACTCAAAGGCATTTAGTCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
1 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTTGCACCTTTCTGCCAA
915868 ATGCACAACTAGGCAA
66 ATGCACAACTAGGCAA
*
915884 TTAATCTTTTA
1 TTAATATTTTA
915895 TTTTAAGAAC
Statistics
Matches: 288, Mismatches: 35, Indels: 18
0.84 0.10 0.05
Matches are distributed among these distances:
76 5 0.02
77 60 0.21
79 2 0.01
81 149 0.52
82 72 0.25
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (81 bp):
TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTTGCACCTTTCTGCCAA
ATGCACAACTAGGCAA
Found at i:915811 original size:158 final size:159
Alignment explanation
Indices: 915482--915894 Score: 555
Period size: 158 Copynumber: 2.6 Consensus size: 159
915472 TATTAAGCAT
* *
915482 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTCACTTGCAATA-TTGGTACATTTCTACCA
1 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTTGCTAC-TTTCTACCA
* *
915546 AATGCACAACTAGGAAATTAATCTTTTACTCAAAAGCATTTTAGCCTTTCATCTAACTTGCAATA
65 AATGCACAAC----AAATTAATCTTTTACTCAAAAGCATTTTAGCCTTTAATCTAACTTCCAATA
**
915611 TTGGCACCTTTCTGCCAAATGCACAGGTAGGCAA
126 TTGGCACCTTTCTGCCAAATGCACAACTAGGCAA
** *
915645 TTAATATTTTACTCAAAGATATTTAGCCTTTCATCTAACTTGCAATATTTGCTTCTTTCTACCAA
1 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTTGCTACTTTCTACCAA
* * *
915710 ATGCACAGAC-ACTTAATCTTTTACTCAAAGGCA-TTTAGCCTTTAATCTAACTTCCAATATTGT
66 ATGCACA-ACAAATTAATCTTTTACTCAAAAGCATTTTAGCCTTTAATCTAACTTCCAATATTGG
*
915773 CACCTTTCTGTCAAATGCACAACTAGGCAA
130 CACCTTTCTGCCAAATGCACAACTAGGCAA
* * *
915803 TTAATATTTTACTCAAAGGCATTTAGTCTTTCATCTAACTTGCAATATTGGC-ACCTTTCTGCCA
1 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTTGCTA-CTTTCTACCA
915867 AATGCACAACTAGGCAATTAATCTTTTA
65 AATGCACAAC-A---AATTAATCTTTTA
915895 TTTTAAGAAC
Statistics
Matches: 222, Mismatches: 20, Indels: 17
0.86 0.08 0.07
Matches are distributed among these distances:
157 2 0.01
158 119 0.54
159 21 0.09
162 12 0.05
163 61 0.27
164 7 0.03
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (159 bp):
TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTTGCTACTTTCTACCAA
ATGCACAACAAATTAATCTTTTACTCAAAAGCATTTTAGCCTTTAATCTAACTTCCAATATTGGC
ACCTTTCTGCCAAATGCACAACTAGGCAA
Found at i:916441 original size:95 final size:95
Alignment explanation
Indices: 916313--916513 Score: 258
Period size: 95 Copynumber: 2.1 Consensus size: 95
916303 CCATACCATG
* * * * * *
916313 GTATCAATACTTCTATATTATGGTATTGATACTCCCTTTCAGTATCGATACCATTTCGACATTCT
1 GTATCGATACTTCTATACTATAGTATCGATACTCCCTTTCAGTATCGATAACATTTCGACATTAT
* **
916378 GGAATACATGGTATCGATACTTTTCTCCTA
66 GGAATACAAGGTATCGATACCATTCTCCTA
* *
916408 GTATCGATACTTCTATACTATAGTATCGATACTCCCTTTCAGTATCTATAACATTTCTACATTAT
1 GTATCGATACTTCTATACTATAGTATCGATACTCCCTTTCAGTATCGATAACATTTCGACATTAT
* * * * *
916473 GGATTCCAAGGTATCTATACCATTGTCTTA
66 GGAATACAAGGTATCGATACCATTCTCCTA
916503 GTATCGATACT
1 GTATCGATACT
916514 CACATCAGTA
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (95 bp):
GTATCGATACTTCTATACTATAGTATCGATACTCCCTTTCAGTATCGATAACATTTCGACATTAT
GGAATACAAGGTATCGATACCATTCTCCTA
Found at i:919093 original size:64 final size:64
Alignment explanation
Indices: 919040--919202 Score: 229
Period size: 65 Copynumber: 2.5 Consensus size: 64
919030 CGGTGCACCA
*
919040 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAACCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAACCAGAGTGCATCGATGCATGG
** * **
919104 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAACCAGAGTGCATCGATGCATGG
* *
919169 AGAGTGCATCGGTGCATGAAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
919203 CAATTAATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 39 0.45
65 47 0.55
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAACCAGAGTGCATCGATGCATGG
Found at i:919174 original size:19 final size:19
Alignment explanation
Indices: 919150--919186 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
919140 GAAAATATTC
919150 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
919169 AGAGTGCATCGGTGCATG
1 AGAGTGCATCGATGCATG
919187 AAATGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:919242 original size:65 final size:63
Alignment explanation
Indices: 919044--919251 Score: 212
Period size: 65 Copynumber: 3.2 Consensus size: 63
919034 GCACCAAGTG
* * *
919044 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAACCTGGTGCATCGATGCATGG-CTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTG-AAAAT-TCATGATGCATCGATGCATGGAC-TG
919108 -
63 A
*
919108 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGATGCATGAAATGCATTCGATG-TTTG-AAA-ATTCATGA-TGCATCGATGCATGGACT
919170 GA
62 GA
* *
919172 GTGCATCGGTGCATGAAATGCATTCGATG-TTCAATTAATTCATTGATGCATCGATGCATGGACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATTCA-TGATGCATCGATGCATGGACT
919236 GA
62 GA
*
919238 TGCATCGGTGCATG
1 TGCATCGATGCATG
919252 CCTTTGAATA
Statistics
Matches: 125, Mismatches: 7, Indels: 23
0.81 0.05 0.15
Matches are distributed among these distances:
62 2 0.02
63 8 0.06
64 45 0.36
65 66 0.53
66 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (63 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCATGATGCATCGATGCATGGACTGA
Found at i:921771 original size:41 final size:40
Alignment explanation
Indices: 921704--921784 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 40
921694 AAAACCCGAC
* *
921704 GGATGCATCGGTGCATGGTATTATGCATCGATGCATCAAAG
1 GGATGCATCGATGCATGGTATAATGCATCGATGCAT-AAAG
* *
921745 GGATGCATCGATGCATTGT-TAAATGCATCGGTGCATAAAG
1 GGATGCATCGATGCATGGTAT-AATGCATCGATGCATAAAG
921785 CACAAAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 5 0.14
41 30 0.86
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (40 bp):
GGATGCATCGATGCATGGTATAATGCATCGATGCATAAAG
Found at i:925115 original size:22 final size:21
Alignment explanation
Indices: 925089--925135 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
925079 AAGGTCAAAA
*
925089 ATCAAATTGTTTGAAAATTG-AT
1 ATCAAATGGTTT-AAAA-TGAAT
925111 ATC-AATGGTTTAAAATGAAT
1 ATCAAATGGTTTAAAATGAAT
925131 ATCAA
1 ATCAA
925136 TTACGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 2 0.09
20 9 0.41
21 8 0.36
22 3 0.14
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (21 bp):
ATCAAATGGTTTAAAATGAAT
Found at i:937891 original size:18 final size:18
Alignment explanation
Indices: 937868--937904 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
937858 TTGACCAGTT
937868 CCGACCCGACCCATTGAC
1 CCGACCCGACCCATTGAC
* *
937886 CCGACCTGACCCGTTGAC
1 CCGACCCGACCCATTGAC
937904 C
1 C
937905 GGGTGATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.49, G:0.19, T:0.14
Consensus pattern (18 bp):
CCGACCCGACCCATTGAC
Found at i:937947 original size:29 final size:30
Alignment explanation
Indices: 937905--938031 Score: 151
Period size: 29 Copynumber: 4.4 Consensus size: 30
937895 CCCGTTGACC
* *
937905 GGGTGATATTTTGGGAA-TTAATTCGAAAT
1 GGGTGCTATTTTGGGAATTTAATTCAAAAT
937934 GGGTGCTATTTTGGGAATTTAATTCAAAAAT
1 GGGTGCTATTTTGGGAATTTAATTC-AAAAT
*
937965 --ATGCTATTTTGGGAATTTAATTCAAAAT
1 GGGTGCTATTTTGGGAATTTAATTCAAAAT
*
937993 --GTGCTATTTTGGGTA-TTAATTCGAAAA-
1 GGGTGCTATTTTGGGAATTTAATTC-AAAAT
938020 GGGTGCTATTTT
1 GGGTGCTATTTT
938032 AGTAATTATT
Statistics
Matches: 88, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
27 7 0.08
28 22 0.25
29 48 0.55
30 7 0.08
31 4 0.05
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (30 bp):
GGGTGCTATTTTGGGAATTTAATTCAAAAT
Found at i:938027 original size:57 final size:57
Alignment explanation
Indices: 937905--938059 Score: 161
Period size: 57 Copynumber: 2.7 Consensus size: 57
937895 CCCGTTGACC
* *
937905 GGGTGATATTTTGGGAATTAATTCGAAATGGGTGCTATTTTGGGAATTTAATTCAAAA
1 GGGTGCTATTTTGGGAATTAATTCAAAAT-GGTGCTATTTTGGGAATTTAATTCAAAA
*** *
937963 ATATGCTATTTTGGGAATTTAATTCAAAAT-GTGCTATTTTGGGTA-TTAATTCGAAAA
1 GGGTGCTATTTTGGGAA-TTAATTCAAAATGGTGCTATTTTGGGAATTTAATTC-AAAA
* * * * *
938020 GGGTGCTATTTTAGTAATTATTTTAAAAAGTGTGCTATTT
1 GGGTGCTATTTTGGGAATTAATTCAAAATG-GTGCTATTT
938060 ATGTAAAATG
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
56 16 0.20
57 30 0.38
58 22 0.28
59 11 0.14
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (57 bp):
GGGTGCTATTTTGGGAATTAATTCAAAATGGTGCTATTTTGGGAATTTAATTCAAAA
Found at i:938039 original size:29 final size:28
Alignment explanation
Indices: 937905--938059 Score: 150
Period size: 29 Copynumber: 5.4 Consensus size: 28
937895 CCCGTTGACC
* *
937905 GGGTGATATTTTGGGAATTAATTCGAAAT
1 GGGTGCTATTTTGGGAATTAATTC-AAAA
937934 GGGTGCTATTTTGGGAATTTAATTCAAAA
1 GGGTGCTATTTTGGGAA-TTAATTCAAAA
***
937963 ATATGCTATTTTGGGAATTTAATTCAAAA
1 GGGTGCTATTTTGGGAA-TTAATTCAAAA
* *
937992 -TGTGCTATTTTGGGTATTAATTCGAAAA
1 GGGTGCTATTTTGGGAATTAATTC-AAAA
* * * *
938020 GGGTGCTATTTTAGTAATTATTTTAAAAA
1 GGGTGCTATTTTGGGAATTA-ATTCAAAA
*
938049 GTGTGCTATTT
1 GGGTGCTATTT
938060 ATGTAAAATG
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.06
28 18 0.17
29 74 0.69
30 9 0.08
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (28 bp):
GGGTGCTATTTTGGGAATTAATTCAAAA
Found at i:944468 original size:65 final size:64
Alignment explanation
Indices: 944392--944537 Score: 204
Period size: 65 Copynumber: 2.3 Consensus size: 64
944382 TACACTAGGG
* * * *
944392 GTGCATCGGTACACTAATTATATTCGATGTTTCAA-AAGAGCCAGGAGTGCATCGATGCATGGTC
1 GTGCATCGGTACACAAACTACATTCGATGTTTCAATAA-AGCCAAGAGTGCATCGATGCATGGT-
944456 T
64 T
**
944457 GTGCATCGGTACACAAACTACATTCGATGTTTCAATAAATTCAAGAGTGCATCGATGCATGGTT
1 GTGCATCGGTACACAAACTACATTCGATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGGTT
*
944521 GTGCATCGATACACAAA
1 GTGCATCGGTACACAAA
944538 ATGCATTCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
64 17 0.23
65 54 0.74
66 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (64 bp):
GTGCATCGGTACACAAACTACATTCGATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGGTT
Found at i:946365 original size:6 final size:6
Alignment explanation
Indices: 946354--946378 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
946344 TGTTGCAAAA
946354 GTGAAT GTGAAT GTGAAT GTGAAT G
1 GTGAAT GTGAAT GTGAAT GTGAAT G
946379 GGGGCAATTT
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:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (6 bp):
GTGAAT
Found at i:946766 original size:4 final size:4
Alignment explanation
Indices: 946746--946845 Score: 60
Period size: 4 Copynumber: 24.0 Consensus size: 4
946736 ACATAGAAAT
*
946746 TAAA TGAA TATAA TAAA TAAA TAAA TAAA TATAA T-AA T-AA TAATTA
1 TAAA TAAA TA-AA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA TAA--A
* *** * * *
946792 TTAA TTTT TAAA TATAA TAAA TAAA TATAA TATA TAAA TATA TAAA AAAA
1 TAAA TAAA TAAA TA-AA TAAA TAAA TA-AA TAAA TAAA TAAA TAAA TAAA
946842 TAAA
1 TAAA
946846 AAAAATAATT
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
3 6 0.08
4 51 0.68
5 15 0.20
6 3 0.04
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (4 bp):
TAAA
Found at i:946768 original size:13 final size:13
Alignment explanation
Indices: 946746--946859 Score: 92
Period size: 13 Copynumber: 9.0 Consensus size: 13
946736 ACATAGAAAT
*
946746 TAAATGAATATAA
1 TAAATAAATATAA
946759 TAAATAAATA-AA
1 TAAATAAATATAA
*
946771 TAAATATA-ATAA
1 TAAATAAATATAA
*
946783 T-AATAATTATTAA
1 TAAATAAATA-TAA
***
946796 TTTTTAAATATAA
1 TAAATAAATATAA
946809 TAAATAAATATAA
1 TAAATAAATATAA
*
946822 TATATAAATAT-A
1 TAAATAAATATAA
* *
946834 TAAAAAAATAAAA
1 TAAATAAATATAA
* *
946847 AAAATAATTATAA
1 TAAATAAATATAA
946860 CATATTTTGT
Statistics
Matches: 78, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
11 5 0.06
12 22 0.28
13 46 0.59
14 5 0.06
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (13 bp):
TAAATAAATATAA
Found at i:946815 original size:33 final size:31
Alignment explanation
Indices: 946758--946864 Score: 106
Period size: 33 Copynumber: 3.3 Consensus size: 31
946748 AATGAATATA
*
946758 ATAAATAAATAAATAAATATAATAATAATAATT
1 ATAAATATATAAATAAATA-AATAA-AATAATT
* * *
946791 ATTAATTTTTAAATATAATAAATAAATATAATAT
1 ATAAATATATAAATA-AATAAATAAA-ATAAT-T
* *
946825 ATAAATATATAAAAAAATAAAAAAAATAATT
1 ATAAATATATAAATAAATAAATAAAATAATT
946856 ATAACATAT
1 ATAA-ATAT
946865 TTTGTAAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
31 5 0.08
32 10 0.16
33 30 0.49
34 16 0.26
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (31 bp):
ATAAATATATAAATAAATAAATAAAATAATT
Found at i:946921 original size:17 final size:18
Alignment explanation
Indices: 946893--946927 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
946883 ATAAAAAATT
*
946893 ATATACATAAATTATTAA
1 ATATACATAAATAATTAA
946911 ATATA-ATAAATAATTAA
1 ATATACATAAATAATTAA
946928 TAATACTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATACATAAATAATTAA
Found at i:947127 original size:3 final size:3
Alignment explanation
Indices: 947116--947179 Score: 119
Period size: 3 Copynumber: 21.0 Consensus size: 3
947106 ACTTTTTTTT
947116 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
947162 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
947180 CCCAAACCCA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:949073 original size:118 final size:118
Alignment explanation
Indices: 948888--949207 Score: 416
Period size: 118 Copynumber: 2.7 Consensus size: 118
948878 TAAACCAGTT
*
948888 AACATTTCCAATCGA-ATGGTTCATAATGAG---AACTCATCCAATGAGGGAGAAGAAGTTCATA
1 AACATTTCCAAT-GAGATAGTTCATAATGAGAAAAACTCATCCAATGAGGGAGAAGAAGTTCATA
* * * * *
948949 ATGAGAATAACTTGTTAAACTTTTGTTCGAATCCATCATAGAAAG-ATCTGAATC
65 ATGAGAAGAACTTGTTAAACCTTTGTTCGAATCCACCACA-AAAGAAACTGAATC
* * *
949003 ATCATTTCCAATGAGATAGTTCATAATGAGAAAAACACATCTAATGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAATGAGATAGTTCATAATGAGAAAAACTCATCCAATGAGGGAGAAGAAGTTCATAA
* * *
949068 TGAGAAGAACTTGTTTAACCTTTGTTCGAATCCACCACAAAAGAAAGTGGATC
66 TGAGAAGAACTTGTTAAACCTTTGTTCGAATCCACCACAAAAGAAACTGAATC
* * * * *
949121 AACATTTCCAATGGGAGAGTTCATAATGAGAAAAACTCATCCAATGATGGAGAATAAGTTTATAA
1 AACATTTCCAATGAGATAGTTCATAATGAGAAAAACTCATCCAATGAGGGAGAAGAAGTTCATAA
* *
949186 TGAGAAGAACTTGATCAACCTT
66 TGAGAAGAACTTGTTAAACCTT
949208 GGCTAATCTA
Statistics
Matches: 178, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
114 2 0.01
115 25 0.14
117 4 0.02
118 147 0.83
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (118 bp):
AACATTTCCAATGAGATAGTTCATAATGAGAAAAACTCATCCAATGAGGGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTAAACCTTTGTTCGAATCCACCACAAAAGAAACTGAATC
Found at i:949421 original size:159 final size:159
Alignment explanation
Indices: 949087--949404 Score: 388
Period size: 159 Copynumber: 2.0 Consensus size: 159
949077 CTTGTTTAAC
* * *
949087 CTTTGTTCGAATCCACCACAAAAGAAAGTGGATCAACATTTCCAATGGGAGAGTTCATAATGAGA
1 CTTTGGTCG-ATCCATCACAAAAGAAAGTGGATCAACATTTCCAATGGGAGAGTCCATAATGAGA
* * * * *
949152 AAAACTCATCCAATGATGGAGAATAAGTTTATAATGAGAAGAACTTGATCAACCTTGGCTAATCT
65 AAAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGATCAACCTTAGCTAATCC
** * * *
949217 ATCGTATATGGAGTTAGATCAACATCATCA
130 ATCACATAAGGAGTTAGAACAACACCATCA
* *
949247 CTTTGGTCGATTCCATCACAAAA-AGAGGTGGATCAACATTTCC-ATTGGAGAGTCCATAATGAG
1 CTTTGGTCGA-TCCATCACAAAAGA-AAGTGGATCAACATTTCCAATGGGAGAGTCCATAATGAG
* * * * *
949310 AAGAACTCATCCGATGAGGGATAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCATT
64 AAAAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGATCAACCTTAGCT-A-A
*
949375 TCCATCACATAAGGAGTTGGAACAACACCA
127 TCCATCACATAAGGAGTTAGAACAACACCA
949405 ATACTTGGCT
Statistics
Matches: 133, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
159 73 0.55
160 37 0.28
161 23 0.17
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (159 bp):
CTTTGGTCGATCCATCACAAAAGAAAGTGGATCAACATTTCCAATGGGAGAGTCCATAATGAGAA
AAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGATCAACCTTAGCTAATCCA
TCACATAAGGAGTTAGAACAACACCATCA
Found at i:949554 original size:203 final size:202
Alignment explanation
Indices: 949240--949623 Score: 588
Period size: 203 Copynumber: 1.9 Consensus size: 202
949230 TTAGATCAAC
* * * * *
949240 ATCATCACTTTGGTCGATTCCATCACAAAAAGAGGTGGATCAACATTTCCATTGGAGAGTCCATA
1 ATCATCAATTTGGTCAAATCCATCACAAAAAGAGGTGGATAAACATTTCCAGTGGAGAGTCCATA
*
949305 ATGAGAAGAACTCATCCGATGAGGGATAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGC
66 ATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGC
949370 TCATTTCCATCACATAAGGAGTTGGAACAACACCAATACTTGGCTCATCCATTGCACATGGAGTT
131 TCATTTCCATCACATAAGGAGTTGGAACAACACCAA-ACTTGGCTCATCCATTGCACATGGAGTT
949435 GGACCAGT
195 GGACCAGT
* * * * * * *
949443 ATCATCAATTTGTTCAAATCCATCACAGAAGGAGTTGGCTAAACATTTCTAGTGGAGAGTTCATA
1 ATCATCAATTTGGTCAAATCCATCACAAAAAGAGGTGGATAAACATTTCCAGTGGAGAGTCCATA
*
949508 ATGAGACGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGC
66 ATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGC
* * ** *
949573 TCGTTTCCATCACATAAGTAGTTGGAACAACACTGACCTTGGCTCATCCAT
131 TCATTTCCATCACATAAGGAGTTGGAACAACACCAAACTTGGCTCATCCAT
949624 CACATAAGGA
Statistics
Matches: 162, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
202 14 0.09
203 148 0.91
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (202 bp):
ATCATCAATTTGGTCAAATCCATCACAAAAAGAGGTGGATAAACATTTCCAGTGGAGAGTCCATA
ATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGC
TCATTTCCATCACATAAGGAGTTGGAACAACACCAAACTTGGCTCATCCATTGCACATGGAGTTG
GACCAGT
Found at i:949643 original size:24 final size:25
Alignment explanation
Indices: 949611--949669 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
949601 AACACTGACC
*
949611 TTGGCTCA-TCCATCACATAAGGAA
1 TTGGATCACTCCATCACATAAGGAA
*
949635 TTGGATCATCGTCCATCACATAAGGAG
1 TTGGATCA-C-TCCATCACATAAGGAA
949662 TTGGATCA
1 TTGGATCA
949670 GCATCAGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 7 0.23
27 23 0.77
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
TTGGATCACTCCATCACATAAGGAA
Found at i:957503 original size:23 final size:23
Alignment explanation
Indices: 957407--957496 Score: 180
Period size: 23 Copynumber: 3.9 Consensus size: 23
957397 GTATGTATCG
957407 ATGCATCCCTAACGTGTGCATCA
1 ATGCATCCCTAACGTGTGCATCA
957430 ATGCATCCCTAACGTGTGCATCA
1 ATGCATCCCTAACGTGTGCATCA
957453 ATGCATCCCTAACGTGTGCATCA
1 ATGCATCCCTAACGTGTGCATCA
957476 ATGCATCCCTAACGTGTGCAT
1 ATGCATCCCTAACGTGTGCAT
957497 AGATGCACTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (23 bp):
ATGCATCCCTAACGTGTGCATCA
Found at i:959251 original size:6 final size:6
Alignment explanation
Indices: 959242--959299 Score: 54
Period size: 5 Copynumber: 10.3 Consensus size: 6
959232 GGGAAAATAT
* *
959242 AGAAAA AGAAAA AGAAAA A-ATAT AG-AAA AG-AAA A-AAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
959286 A-AAAA AGGAAAA AG
1 AGAAAA A-GAAAA AG
959300 CGAGAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 19 0.44
6 19 0.44
7 5 0.12
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (6 bp):
AGAAAA
Found at i:959255 original size:23 final size:23
Alignment explanation
Indices: 959198--959276 Score: 90
Period size: 22 Copynumber: 3.5 Consensus size: 23
959188 TATAGAAGAA
* *
959198 AAAAATGAAAAATAGAAAAGATAG
1 AAAAA-GAAAAAGAGAAAATATAG
* *
959222 AAAAAG-GAAAGGGAAAATATAG
1 AAAAAGAAAAAGAGAAAATATAG
*
959244 AAAAAGAAAAAGAAAAAATATAG
1 AAAAAGAAAAAGAGAAAATATAG
959267 -AAAAGAAAAA
1 AAAAAGAAAAA
959277 AAAAGAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 28 0.60
23 14 0.30
24 5 0.11
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (23 bp):
AAAAAGAAAAAGAGAAAATATAG
Found at i:959270 original size:16 final size:15
Alignment explanation
Indices: 959244--959291 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
959234 GAAAATATAG
959244 AAAAAGAAAAAGAAAA
1 AAAAAG-AAAAGAAAA
*
959260 AATATAGAAAAGAAAA
1 AA-AAAGAAAAGAAAA
959276 AAAAAGAAAA-AAAA
1 AAAAAGAAAAGAAAA
959290 AA
1 AA
959292 GGAAAAAGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 13 0.45
17 3 0.10
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.04
Consensus pattern (15 bp):
AAAAAGAAAAGAAAA
Found at i:961126 original size:45 final size:45
Alignment explanation
Indices: 961073--961379 Score: 257
Period size: 45 Copynumber: 6.8 Consensus size: 45
961063 TCTTTCGATA
* * *
961073 TTATTCTTGACTTCCTCGTGAATAGGAGTCAATCTTTTAGTGTTG
1 TTATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTG
* * * * *
961118 TTATTCTTGACTTCCTCGTGAAGAGAAATCAATCTTTTAGTATTG
1 TTATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTG
* * * ** *
961163 TCATTCTCT-ACTTTCTTGTGAAGATTAGTTAATCTTTTAGTGTTG
1 TTATTCT-TGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTG
* * *
961208 TT-TTCCTTGACTTTATCGCAAAGATGG-GTCAATCTTTTCGTGTTG
1 TTATT-CTTGACTTTCTCGCGAAGA-GGAGTCAATCTTTTAGTGTTG
* * * * *
961253 CCT-TCCTTGACTTTCTTGCGAAGAGGAATCAATCTTTTAGTGTTA
1 -TTATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTG
* * * * *
961298 TCT-TTCTTGACTTTCTCACAAAGAGAAGTCGATCTTTTAATGTTG
1 T-TATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTG
* * *
961343 TCATTCTTGACTTTCTCGCGGAGATGAGTCAA-CTTTT
1 TTATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTT
961380 TAGTAGTATC
Statistics
Matches: 208, Mismatches: 46, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
44 10 0.05
45 195 0.94
46 3 0.01
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (45 bp):
TTATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTG
Found at i:961383 original size:90 final size:89
Alignment explanation
Indices: 961075--961379 Score: 294
Period size: 90 Copynumber: 3.4 Consensus size: 89
961065 TTTCGATATT
* * * * * **
961075 ATTCTTGACTTCCTCGTGAATAGGAGTCAATCTTTTAGTGTTGTTATTCTTGACTTCCTCGTGAA
1 ATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTATT-TTCTTGACTTTCTCGCAAA
* *
961140 GAGAAATCAATCTTTTAGTATTGTC
65 GAGAAGTCAATCTTTTAGTGTTGTC
* * ** * * *
961165 ATTCTCT-ACTTTCTTGTGAAGATTAGTTAATCTTTTAGTGTTGTTTTCCTTGACTTTATCGCAA
1 ATTCT-TGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTATTTT-CTTGACTTTCTCGCAA
* *
961229 AGATG-GGTCAATCTTTTCGTGTTG-C
64 AGA-GAAGTCAATCTTTTAGTGTTGTC
* * * *
961254 CTTCCTTGACTTTCTTGCGAAGAGGAATCAATCTTTTAGTGTTATCTTTCTTGACTTTCTCACAA
1 ATT-CTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTAT-TTTCTTGACTTTCTCGCAA
* *
961319 AGAGAAGTCGATCTTTTAATGTTGTC
64 AGAGAAGTCAATCTTTTAGTGTTGTC
* *
961345 ATTCTTGACTTTCTCGCGGAGATGAGTCAA-CTTTT
1 ATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTT
961380 TAGTAGTATC
Statistics
Matches: 175, Mismatches: 32, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
89 12 0.07
90 155 0.89
91 8 0.05
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (89 bp):
ATTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTATTTTCTTGACTTTCTCGCAAAG
AGAAGTCAATCTTTTAGTGTTGTC
Found at i:962340 original size:136 final size:135
Alignment explanation
Indices: 962041--962355 Score: 432
Period size: 136 Copynumber: 2.3 Consensus size: 135
962031 TGAAAATATA
*
962041 TGATCTCCCCTGAAAGAAGAGTGGAGCATACCCGTCTTCCAAAGACTTCTTGAGTCTTATCTCCA
1 TGATCT-CCCTGAAAGAAGAGTGGAGCATACCCGTCTTCCAAAGACTTCTCGAGTCTTATCTCCA
* *
962106 TGAAAGAATAGTGGAGCAGACTCGTCTTCAAACATTGATCTGACTACCCTAAAAGAGAAACATAT
65 TGAAAGAAGAGTGGAGCAGACTCGTCTTCAAACATTGATCTGACTACCCAAAAAGAGAAACATAT
962171 CAAGTC
130 CAAGTC
* * * * * *
962177 TGATCTCCCTTGAAATAAGAGTAGAGCAGACCCGTCTTCCAAAGATTTCTCGAGTTTTATCTCCT
1 TGATCTCCC-TGAAAGAAGAGTGGAGCATACCCGTCTTCCAAAGACTTCTCGAGTCTTATCTCCA
* * * * *
962242 TGAAAGAAGAGTGGAGCTGACTCGTTTTCCAATATTGATCTGACTACCCGAAAAAGAGGAACATA
65 TGAAAGAAGAGTGGAGCAGACTCGTCTTCAAACATTGATCTGACTACCC-AAAAAGAGAAACATA
962307 TCAAGTC
129 TCAAGTC
* * * * *
962314 TTATCTCCCTGAAAGAATATTGGAGCATACTCGTTTTCCAAA
1 TGATCTCCCTGAAAGAAGAGTGGAGCATACCCGTCTTCCAAA
962356 ATTGATCTGA
Statistics
Matches: 155, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
135 3 0.02
136 124 0.80
137 28 0.18
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (135 bp):
TGATCTCCCTGAAAGAAGAGTGGAGCATACCCGTCTTCCAAAGACTTCTCGAGTCTTATCTCCAT
GAAAGAAGAGTGGAGCAGACTCGTCTTCAAACATTGATCTGACTACCCAAAAAGAGAAACATATC
AAGTC
Found at i:962346 original size:81 final size:81
Alignment explanation
Indices: 962233--962659 Score: 581
Period size: 81 Copynumber: 5.2 Consensus size: 81
962223 TTCTCGAGTT
* *
962233 TTATCTCCTTGAAAGAAGAGTGGAGC-TGACTCGTTTTCCAATATTGATCTGACTACCCGAAAAA
1 TTATCTCCCTGAAAGAAGAGTGGAGCAT-ACTCGTTTTCCAAAATTGATCTGACTACCCGAAAAA
*
962297 GAGGAACATATCAAGTC
65 GAGGAACAAATCAAGTC
* * *
962314 TTATCTCCCTGAAAGAATATTGGAGCATACTCGTTTTCCAAAATTGATCTGACTACTCGAAAAAA
1 TTATCTCCCTGAAAGAAGAGTGGAGCATACTCGTTTTCCAAAATTGATCTGACTACCCG---AAA
962379 ATAGAGGAACAAATCAAGTC
63 A-AGAGGAACAAATCAAGTC
* * *
962399 TTATCTCCTTGAAAGAAGAGTGGAGCATACTCATTTTCCAATATTGATCTGACTACCCGAAAAAG
1 TTATCTCCCTGAAAGAAGAGTGGAGCATACTCGTTTTCCAAAATTGATCTGACTACCCGAAAAAG
*
962464 AGGAACGAATCAAGTC
66 AGGAACAAATCAAGTC
* * *
962480 TTATCTCCCTGAAAGAAGAGTAGAGCATACTCGTTTTCCAAAATTGATCTAACTACCTGAAAAAG
1 TTATCTCCCTGAAAGAAGAGTGGAGCATACTCGTTTTCCAAAATTGATCTGACTACCCGAAAAAG
* *
962545 ATGAACAAATCAAAT-
66 AGGAACAAATCAAGTC
* *
962560 TGTATCTCCCTGAAAGAATAGTGGAGCATACTCATTTTCCAAAATTGATCTGACTACCCGAAAAA
1 T-TATCTCCCTGAAAGAAGAGTGGAGCATACTCGTTTTCCAAAATTGATCTGACTACCCG-AAAA
*
962625 AGAGGAACAGATCAAGTC
64 AGAGGAACAAATCAAGTC
* * *
962643 -GATATCCATGAAAGAAG
1 TTATCTCCCTGAAAGAAG
962660 TGGAGCGAAT
Statistics
Matches: 304, Mismatches: 34, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
80 1 0.00
81 206 0.68
82 23 0.08
84 4 0.01
85 70 0.23
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (81 bp):
TTATCTCCCTGAAAGAAGAGTGGAGCATACTCGTTTTCCAAAATTGATCTGACTACCCGAAAAAG
AGGAACAAATCAAGTC
Found at i:962508 original size:166 final size:161
Alignment explanation
Indices: 962232--962659 Score: 612
Period size: 166 Copynumber: 2.6 Consensus size: 161
962222 TTTCTCGAGT
*
962232 TTTATCTCCTTGAAAGAAGAGTGGAGC-TGACTCGTTTTCCAATATTGATCTGACTACCCGAAAA
1 TTTATCTCCTTGAAAGAAGAGTGGAGCAT-ACTCATTTTCCAATATTGATCTGACTACCCGAAAA
* * * *
962296 AGAGGAACATATCAAGTCTTATCTCCCTGAAAGAATATTGGAGCATACTCGTTTTCCAAAATTGA
65 AGAGGAACAGATCAAGTCTTATCTCCCTGAAAGAAGAGTAGAGCATACTCGTTTTCCAAAATTGA
* *
962361 TCTGACTA-CTCGAAAAAAATAGAGGAACAAATCAAG
130 TCTAACTACCT-G---AAAA-AGAGGAACAAATCAAA
962397 TCTTATCTCCTTGAAAGAAGAGTGGAGCATACTCATTTTCCAATATTGATCTGACTACCCGAAAA
1 T-TTATCTCCTTGAAAGAAGAGTGGAGCATACTCATTTTCCAATATTGATCTGACTACCCGAAAA
962462 AGAGGAAC-GAATCAAGTCTTATCTCCCTGAAAGAAGAGTAGAGCATACTCGTTTTCCAAAATTG
65 AGAGGAACAG-ATCAAGTCTTATCTCCCTGAAAGAAGAGTAGAGCATACTCGTTTTCCAAAATTG
*
962526 ATCTAACTACCTGAAAAAGATGAACAAATCAAA
129 ATCTAACTACCTGAAAAAGAGGAACAAATCAAA
* * *
962559 TTGTATCTCCCTGAAAGAATAGTGGAGCATACTCATTTTCCAAAATTGATCTGACTACCCGAAAA
1 TT-TATCTCCTTGAAAGAAGAGTGGAGCATACTCATTTTCCAATATTGATCTGACTACCCG-AAA
* * *
962624 AAGAGGAACAGATCAAGTC-GATATCCATGAAAGAAG
64 AAGAGGAACAGATCAAGTCTTATCTCCCTGAAAGAAG
962660 TGGAGCGAAT
Statistics
Matches: 242, Mismatches: 14, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
161 1 0.00
162 84 0.35
163 24 0.10
164 1 0.00
165 1 0.00
166 128 0.53
167 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (161 bp):
TTTATCTCCTTGAAAGAAGAGTGGAGCATACTCATTTTCCAATATTGATCTGACTACCCGAAAAA
GAGGAACAGATCAAGTCTTATCTCCCTGAAAGAAGAGTAGAGCATACTCGTTTTCCAAAATTGAT
CTAACTACCTGAAAAAGAGGAACAAATCAAA
Found at i:964851 original size:18 final size:20
Alignment explanation
Indices: 964815--964851 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
964805 TAATACAAGG
*
964815 ATGAGAGATGAAGTCAAATA
1 ATGAGAGATAAAGTCAAATA
964835 ATGAGA-ATAAAGT-AAAT
1 ATGAGAGATAAAGTCAAAT
964852 TGATGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 6 0.38
20 6 0.38
ACGTcount: A:0.54, C:0.03, G:0.22, T:0.22
Consensus pattern (20 bp):
ATGAGAGATAAAGTCAAATA
Found at i:964862 original size:161 final size:157
Alignment explanation
Indices: 964561--964881 Score: 597
Period size: 161 Copynumber: 2.0 Consensus size: 157
964551 GGTTTTGTGT
964561 AAAATGTCTACAGGTTGTAGATACGTTCTCTATAAATTAAAATATTATAAACAAATATTTTTATA
1 AAAATGTCTACAGGTTGTAGATACGTTCTCTATAAATTAAAATATTATAAACAAATATTTTTATA
964626 ATTAATCAAACTATTTAAAATAATACAAGGATGAGATGAAGTCAAATAATGAGAATAAAGTAAAT
66 ATTAATCAAACTATTTAAAATAATACAAGGATGAGATGAAGTCAAATAATGAGAATAAAGTAAAT
964691 TGATGTATTTGGTGAGAAATAAAAGTG
131 TGATGTATTTGGTGAGAAATAAAAGTG
*
964718 AAAATGTCTACAGGTTGTATATACGTTCTCTATAAATTAAAAATATTATAAACAAATATTTTTTA
1 AAAATGTCTACAGGTTGTAGATACGTTCTCTATAAATT-AAAATATTATAAACAAATA-TTTTTA
964783 TAATTAATCAAACTATTTAAAATAATACAAGGATGAGAGATGAAGTCAAATAATGAGAATAAAGT
64 TAATTAATCAAACTATTTAAAATAATACAAGGAT--GAGATGAAGTCAAATAATGAGAATAAAGT
964848 AAATTGATGTATTTGGTGAGAAATAAAAGTG
127 AAATTGATGTATTTGGTGAGAAATAAAAGTG
964879 AAA
1 AAA
964882 GAAAACATGA
Statistics
Matches: 159, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
157 37 0.23
158 19 0.12
159 40 0.25
161 63 0.40
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.32
Consensus pattern (157 bp):
AAAATGTCTACAGGTTGTAGATACGTTCTCTATAAATTAAAATATTATAAACAAATATTTTTATA
ATTAATCAAACTATTTAAAATAATACAAGGATGAGATGAAGTCAAATAATGAGAATAAAGTAAAT
TGATGTATTTGGTGAGAAATAAAAGTG
Found at i:965220 original size:25 final size:25
Alignment explanation
Indices: 965192--965269 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
965182 TTTTTTTTAA
965192 TATTAATTGATTTAATGAGATAAAT
1 TATTAATTGATTTAATGAGATAAAT
* *
965217 TATTAA---ATTTAAT-AAATACGAT
1 TATTAATTGATTTAATGAGATA-AAT
*
965239 TATTAATTGATTTAATGAGATAAAA
1 TATTAATTGATTTAATGAGATAAAT
965264 TATTAA
1 TATTAA
965270 ATTTAATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
21 4 0.09
22 15 0.35
25 20 0.47
26 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.42
Consensus pattern (25 bp):
TATTAATTGATTTAATGAGATAAAT
Found at i:965226 original size:22 final size:22
Alignment explanation
Indices: 965201--965276 Score: 82
Period size: 22 Copynumber: 3.3 Consensus size: 22
965191 ATATTAATTG
965201 ATTTAATGAGATAAATTATTAA
1 ATTTAATGAGATAAATTATTAA
* *
965223 ATTTAAT-AAATACGATTATTAA
1 ATTTAATGAGATA-AATTATTAA
*
965245 TTGATTTAATGAGATAAAATATTAA
1 ---ATTTAATGAGATAAATTATTAA
965270 ATTTAAT
1 ATTTAAT
965277 AAATACAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
21 4 0.09
22 22 0.50
25 14 0.32
26 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.42
Consensus pattern (22 bp):
ATTTAATGAGATAAATTATTAA
Found at i:965246 original size:47 final size:47
Alignment explanation
Indices: 965192--965287 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
965182 TTTTTTTTAA
* *
965192 TATTAATTGATTTAATGAGATAAATTATTAAATTTAATAAATACGAT
1 TATTAATTGATTTAATGAGATAAAATATTAAATTTAATAAATACAAT
965239 TATTAATTGATTTAATGAGATAAAATATTAAATTTAATAAATACAAT
1 TATTAATTGATTTAATGAGATAAAATATTAAATTTAATAAATACAAT
965286 TA
1 TA
965288 AAGTTTAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (47 bp):
TATTAATTGATTTAATGAGATAAAATATTAAATTTAATAAATACAAT
Found at i:966441 original size:54 final size:54
Alignment explanation
Indices: 966370--966501 Score: 176
Period size: 54 Copynumber: 2.4 Consensus size: 54
966360 ATAAGTTCTT
* * * *
966370 TGGGGTGCACACGTAGTGCCGATACGATCGTTTATAAACTTATTATGAATT-TCG
1 TGGGTTGCACACTTAGTGACGATACGATCGTTCATAAACTTATTATGAATTAT-G
* *
966424 TGGGTTGCACACTTAGTGATGATACGGTCGTTCATAAACTTATTATGAATTATG
1 TGGGTTGCACACTTAGTGACGATACGATCGTTCATAAACTTATTATGAATTATG
* *
966478 TGGGTTGTACACTTAGTGTCGATA
1 TGGGTTGCACACTTAGTGACGATA
966502 GTACACATAG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 67 0.99
55 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGACGATACGATCGTTCATAAACTTATTATGAATTATG
Found at i:968778 original size:21 final size:21
Alignment explanation
Indices: 968752--968791 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
968742 TCAATTATGT
968752 ATCGAT-ACACTGCTACAGTGC
1 ATCGATGA-ACTGCTACAGTGC
968773 ATCGATGAACTGCTACAGT
1 ATCGATGAACTGCTACAGT
968792 CATTTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (21 bp):
ATCGATGAACTGCTACAGTGC
Found at i:977365 original size:214 final size:208
Alignment explanation
Indices: 976972--977396 Score: 698
Period size: 214 Copynumber: 2.0 Consensus size: 208
976962 TCAGTTTATG
976972 TTAAACACAGACATATAACTGAAAAAAAATATTGGCAATACCTTTATTCAATAAATTGTAAATAA
1 TTAAACACAGACATATAACTGAAAAAAAATATTGGCAATACCTTTATTCAATAAATTGTAAATAA
*
977037 ATGTTTATTCACAATGATTGGTTTTGGGCACACTCTAATAATATACTTTTAATAATAACTGAAAA
66 ATGTTTAATCACAATGATTGGTTTTGGGCACACTCTAATAATATACTTTTAATAATAACTGAAAA
977102 GCACTTATTTTCATTTTCTATTAAAATTCATCCAATCTAAAAATTCCAGACTCAATATTATCGGT
131 GCACTTATTTTCATTTTCTATTAAAATTCATCCAATCTAAAAATTCCAGACTCAATATTATCGGT
977167 ACCCC-CTATGGT
196 ACCCCACTATGGT
977179 TTAAACACAGACATATAACTG-AAAAAAATATTGGCAATACCTTTATTCAATAAATTGGTAAATA
1 TTAAACACAGACATATAACTGAAAAAAAATATTGGCAATACCTTTATTCAATAAATT-GTAAATA
977243 AATGTATTACAATCATCATATGATTGGTCTTTGGGCACACTCTAATAATTTATACTTTTAATAAT
65 AATGT-TT--AATCA-CA-ATGATTGGT-TTTGGGCACACTCTAATAA--TATACTTTTAATAAT
977308 -ACTGAAAAGCAC-TATTATTTCATTTTCTATT-AAATTCATCCAATCTAAAAATTCCAGACTCA
122 AACTGAAAAGCACTTA-T-TTTCATTTTCTATTAAAATTCATCCAATCTAAAAATTCCAGACTCA
977370 ATATTATCGGTACCCCTACTATGGT
185 ATATTATCGGTACCCC-ACTATGGT
977395 TT
1 TT
977397 CGATACTCCC
Statistics
Matches: 204, Mismatches: 1, Indels: 17
0.92 0.00 0.08
Matches are distributed among these distances:
206 35 0.17
207 33 0.16
208 2 0.01
210 4 0.02
211 2 0.01
212 9 0.04
213 21 0.10
214 60 0.29
215 29 0.14
216 9 0.04
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (208 bp):
TTAAACACAGACATATAACTGAAAAAAAATATTGGCAATACCTTTATTCAATAAATTGTAAATAA
ATGTTTAATCACAATGATTGGTTTTGGGCACACTCTAATAATATACTTTTAATAATAACTGAAAA
GCACTTATTTTCATTTTCTATTAAAATTCATCCAATCTAAAAATTCCAGACTCAATATTATCGGT
ACCCCACTATGGT
Found at i:983972 original size:19 final size:19
Alignment explanation
Indices: 983948--983989 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
983938 TCTTCAAAGA
983948 ACACATCAAACCAAGAATC
1 ACACATCAAACCAAGAATC
983967 ACACATCAAACCAAGAATC
1 ACACATCAAACCAAGAATC
983986 ACAC
1 ACAC
983990 TACTTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.33, G:0.05, T:0.10
Consensus pattern (19 bp):
ACACATCAAACCAAGAATC
Found at i:986771 original size:117 final size:117
Alignment explanation
Indices: 986565--986798 Score: 468
Period size: 117 Copynumber: 2.0 Consensus size: 117
986555 GTGGTACCCC
986565 AAGGACACTTGTGTTTTTATTGGTATTTCTTTTAGGATTTTTAGAGTCTCAAGTAGAAAATGATG
1 AAGGACACTTGTGTTTTTATTGGTATTTCTTTTAGGATTTTTAGAGTCTCAAGTAGAAAATGATG
986630 GCTGAGGGCTGCTGCTGTTTTTTGGGTTTATATATATATAAGCTGTACGCGT
66 GCTGAGGGCTGCTGCTGTTTTTTGGGTTTATATATATATAAGCTGTACGCGT
986682 AAGGACACTTGTGTTTTTATTGGTATTTCTTTTAGGATTTTTAGAGTCTCAAGTAGAAAATGATG
1 AAGGACACTTGTGTTTTTATTGGTATTTCTTTTAGGATTTTTAGAGTCTCAAGTAGAAAATGATG
986747 GCTGAGGGCTGCTGCTGTTTTTTGGGTTTATATATATATAAGCTGTACGCGT
66 GCTGAGGGCTGCTGCTGTTTTTTGGGTTTATATATATATAAGCTGTACGCGT
986799 TCTATTGGCT
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (117 bp):
AAGGACACTTGTGTTTTTATTGGTATTTCTTTTAGGATTTTTAGAGTCTCAAGTAGAAAATGATG
GCTGAGGGCTGCTGCTGTTTTTTGGGTTTATATATATATAAGCTGTACGCGT
Found at i:990224 original size:3 final size:3
Alignment explanation
Indices: 990216--990246 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
990206 GTATTAATCG
990216 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
990247 GGGACGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:990612 original size:133 final size:134
Alignment explanation
Indices: 990359--991022 Score: 702
Period size: 133 Copynumber: 5.0 Consensus size: 134
990349 AGATTGATGC
* * * * ** *
990359 AGACTTGTTCCACTATTACTCAAGGAATATTAAATCTTGAAAGAGAGGGATTTGTTCTGCTT-TT
1 AGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGAGAGATGTTCTGTTTCTT
* * * * *
990423 ATTGAGGGAAAATCATATCTGGGGGA-GTTGATTCATTCCACTGTCATTCAGGGAAGATTGAATC
66 CTTGAGGGAAAATCAGATCT-AGGGATGTTGATTCATTCCACTTTCCTTCAGGGAAGATTGAATC
990487 GAGGA
130 GAGGA
* * * * *
990492 AAACTTATTCTACTGTTACTCAGGGAATATCAAATCTTGAAAGTGATAGAGATGTTCTGTTTCTT
1 AGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGAGAGATGTTCTGTTTCTT
* * *
990557 CTTGAGGGAAAATCAGATCTAGGGATATTTATTCATTCCAATTTCCTT-AGGGAAGATTGAATCG
66 CTTGAGGGAAAATCAGATCTAGGGATGTTGATTCATTCCACTTTCCTTCAGGGAAGATTGAATCG
*
990621 AGGC
131 AGGA
* * * *
990625 AGACTTGTTCCACCGTTACTCAGGGAATATCTAATC-TGAAA-AGAGAGGGATTTGTTATGTTTC
1 AGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGAGAGA--TGTTCTGTTTC
* * * * *
990688 TTCTTAAGGGAGAATCAGATCTAGGGATATTGATTCATTCCACTTTTCTTCATGGAAGATTGAAT
64 TTCTTGAGGGAAAATCAGATCTAGGGATGTTGATTCATTCCACTTTCCTTCAGGGAAGATTGAAT
*
990753 CGAGGT
129 CGAGGA
* * * * ** * * *
990759 AGACTTGTTCCACTATTACTAAGGGAATATCAAAT-TTGAAATAGAGGGATCTGATCCGCTTCTT
1 AGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGAGAGATGTTCTGTTTCTT
* * * * * *
990823 CTTGAAGGAAAATCATATCTATGGATGTTGATTCATTCTA-TTGTTCTTCAGGAAAGATTGAATC
66 CTTGAGGGAAAATCAGATCTAGGGATGTTGATTCATTCCACTT-TCCTTCAGGGAAGATTGAATC
990887 GAGGA
130 GAGGA
* * * * * * *
990892 AGACTTGTTCCACTGTTACTAATGGAATATCAAAT-ATGAAAGACATG-TATATGTTCCGCTTT-
1 AGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGA-GAGAGATGTTCTG-TTTC
*
990954 TTCTTGAGGTAAAATCAGATCTAGGGATGTTGATTCATTCCACTATT-CTTCAGGGAAGATTGAA
64 TTCTTGAGGGAAAATCAGATCTAGGGATGTTGATTCATTCCACT-TTCCTTCAGGGAAGATTGAA
991018 TCGAG
128 TCGAG
991023 TTCTATTTGC
Statistics
Matches: 445, Mismatches: 74, Indels: 24
0.82 0.14 0.04
Matches are distributed among these distances:
131 6 0.01
132 7 0.02
133 330 0.74
134 96 0.22
135 6 0.01
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (134 bp):
AGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGAGAGATGTTCTGTTTCTT
CTTGAGGGAAAATCAGATCTAGGGATGTTGATTCATTCCACTTTCCTTCAGGGAAGATTGAATCG
AGGA
Found at i:990835 original size:266 final size:266
Alignment explanation
Indices: 990357--991022 Score: 792
Period size: 266 Copynumber: 2.5 Consensus size: 266
990347 TAAGATTGAT
* *
990357 GCAGACTTGTTCCACTATTACTCAAGGAATAT-TAAATCTTGAAAGAGAGGGATTTGTTCTGCTT
1 GCAGACTTGTTCCACTGTTACTCAAGGAATATCT-AATC-TGAAAGAGAGGGATTTGTTCTGTTT
* * * *
990421 TTATTGAGGGAAAATCATATCTGGGGGA-GTTGATTCATTCCAC-TGTCATTCAGGGAAGATTGA
64 TTCTTGAGGGAAAATCAGATCT-AGGGATGTTGATTCATTCCACTTTTC-TTCAGGGAAGATTGA
* * * * *
990484 ATCGAGGAAAACTTATTCTACTGTTACTCAGGGAATATCAAATCTTGAAAGTGATAGAGATGTTC
127 ATCGAGGAAAACTTATTCCACTATTACTAAGGGAATATCAAATCTTGAAAGTGAGAGAGATGATC
* * * * *
990549 TGTTTCTTCTTGAGGGAAAATCAGATCTAGGGATATTTATTCATTCCAATT-TCCTT-AGGGAAG
192 CGCTTCTTCTTGAAGGAAAATCAGATCTAGGGATATTGATTCATT-CAATTGTCCTTCAGGAAAG
990612 ATTGAATCGAG
256 ATTGAATCGAG
* * *
990623 GCAGACTTGTTCCACCGTTACTCAGGGAATATCTAATCTGAAAAGAGAGGGATTTGTTATGTTTC
1 GCAGACTTGTTCCACTGTTACTCAAGGAATATCTAATCTG-AAAGAGAGGGATTTGTTCTGTTT-
* * * *
990688 TTCTTAAGGGAGAATCAGATCTAGGGATATTGATTCATTCCACTTTTCTTCATGGAAGATTGAAT
64 TTCTTGAGGGAAAATCAGATCTAGGGATGTTGATTCATTCCACTTTTCTTCAGGGAAGATTGAAT
* * * *
990753 CGAGGTAGACTTGTTCCACTATTACTAAGGGAATATCAAAT-TTGAAA-T-AGAGGGATCTGATC
129 CGAGGAAAACTTATTCCACTATTACTAAGGGAATATCAAATCTTGAAAGTGAGAGAGA--TGATC
* * * * *
990815 CGCTTCTTCTTGAAGGAAAATCATATCTATGGATGTTGATTCATTCTATTGTTCTTCAGGAAAGA
192 CGCTTCTTCTTGAAGGAAAATCAGATCTAGGGATATTGATTCATTCAATTGTCCTTCAGGAAAGA
990880 TTGAATCGAG
257 TTGAATCGAG
* * * * * * * *
990890 GAAGACTTGTTCCACTGTTACT-AATGGAATATCAAATATGAAAGACATGTATATGTTCCGCTTT
1 GCAGACTTGTTCCACTGTTACTCAA-GGAATATCTAATCTGAAAGAGAGGGATTTGTTCTG-TTT
* *
990954 TTCTTGAGGTAAAATCAGATCTAGGGATGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAAT
64 TTCTTGAGGGAAAATCAGATCTAGGGATGTTGATTCATTCCACTTTTCTTCAGGGAAGATTGAAT
991019 CGAG
129 CGAG
991023 TTCTATTTGC
Statistics
Matches: 340, Mismatches: 49, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
264 5 0.01
265 7 0.02
266 188 0.55
267 137 0.40
268 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (266 bp):
GCAGACTTGTTCCACTGTTACTCAAGGAATATCTAATCTGAAAGAGAGGGATTTGTTCTGTTTTT
CTTGAGGGAAAATCAGATCTAGGGATGTTGATTCATTCCACTTTTCTTCAGGGAAGATTGAATCG
AGGAAAACTTATTCCACTATTACTAAGGGAATATCAAATCTTGAAAGTGAGAGAGATGATCCGCT
TCTTCTTGAAGGAAAATCAGATCTAGGGATATTGATTCATTCAATTGTCCTTCAGGAAAGATTGA
ATCGAG
Found at i:993370 original size:163 final size:163
Alignment explanation
Indices: 993100--993425 Score: 643
Period size: 163 Copynumber: 2.0 Consensus size: 163
993090 AAATTAATGG
993100 GTTGGCTTCAGGTTGGCTTCCTCTTTTCTAATATTTTAGTCATCGAAGACGTCCTTTCTTTCTCA
1 GTTGGCTTCAGGTTGGCTTCCTCTTTTCTAATATTTTAGTCATCGAAGACGTCCTTTCTTTCTCA
*
993165 GTTCTTATGAACATTATAACATGCCCCTTTTTCTTGTCTTGGTATTTTAACTGGATGCGGACAAA
66 GTTCTTATGAACATTATAACATGCCCCTTTTTCTTGTCTTGGTATTTTAACTAGATGCGGACAAA
993230 ATGACGCAACTAGCATATTCAATTACTAGACTT
131 ATGACGCAACTAGCATATTCAATTACTAGACTT
993263 GTTGGCTTCAGGTTGGCTTCCTCTTTTCTAATATTTTAGTCATCGAAGACGTCCTTTCTTTCTCA
1 GTTGGCTTCAGGTTGGCTTCCTCTTTTCTAATATTTTAGTCATCGAAGACGTCCTTTCTTTCTCA
993328 GTTCTTATGAACATTATAACATGCCCCTTTTTCTTGTCTTGGTATTTTAACTAGATGCGGACAAA
66 GTTCTTATGAACATTATAACATGCCCCTTTTTCTTGTCTTGGTATTTTAACTAGATGCGGACAAA
993393 ATGACGCAACTAGCATATTCAATTACTAGACTT
131 ATGACGCAACTAGCATATTCAATTACTAGACTT
993426 TCTAACACAC
Statistics
Matches: 162, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 162 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (163 bp):
GTTGGCTTCAGGTTGGCTTCCTCTTTTCTAATATTTTAGTCATCGAAGACGTCCTTTCTTTCTCA
GTTCTTATGAACATTATAACATGCCCCTTTTTCTTGTCTTGGTATTTTAACTAGATGCGGACAAA
ATGACGCAACTAGCATATTCAATTACTAGACTT
Found at i:999126 original size:23 final size:21
Alignment explanation
Indices: 999082--999122 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
999072 GCTTTTAATA
999082 TATATATAAATTAAAAAAAAC
1 TATATATAAATTAAAAAAAAC
999103 TATATATAAATTAAAAAAAA
1 TATATATAAATTAAAAAAAA
999123 AACTCTAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TATATATAAATTAAAAAAAAC
Found at i:1001234 original size:180 final size:178
Alignment explanation
Indices: 1000745--1001250 Score: 440
Period size: 180 Copynumber: 2.8 Consensus size: 178
1000735 GCGCCAACTT
* * * * * * *
1000745 AAAGGCATATAGTGACAAATTTTGTAACTAAAATTTTTAGTAATTATGAC-AGAAAAATTGTCAC
1 AAAGTCATATAATGACAAATTTTGTAACTATAA-GTTTAATAATTATTACAAAAAAAATTGTCAC
* * * * * *
1000809 AACAAATAATGAGATTTAAATTTGTTGCGACAAATTTTTTTTGT-GATTATATATTTTAATTATA
65 AACAAATAATGAGATTCAAGTTT-TTGTGACAAATTATATTTGTAG-TTATAAATTTTAATTATA
* *
1000873 GTGACAAAAT-TATAGTCACAAATGATTATCTCCAATTTTTATACAAAAAC
128 GTGACAAAATATATTGTCACAAATGATTATCCCCAATTTTTATACAAAAAC
* * * * *
1000923 AAAATCATATAATGACATGAA--TTGTAACTATAAGCTATAATTATTTTTACAAAAAAAGTTGTC
1 AAAGTCATATAATGACA--AATTTTGTAACTATAAG-TTTAATAATTATTACAAAAAAAATTGTC
* * ** * *
1000986 ACAACAAATAATGAGATTCAAGTTTTTAGTAAAAAACAATGTTTGTCA-TTAT-ATTCTTTAATT
63 ACAACAAATAATGAGATTCAAGTTTTT-GTGACAAATTATATTTGT-AGTTATAAAT-TTTAATT
* **
1001049 ATAGTGACAAAATATATTGTCACAAA-GATT-TCCCTCATATTGTTT-TGCGCCAAA-
125 ATAGTGACAAAATATATTGTCACAAATGATTATCCC-CA-ATT-TTTATAC-AAAAAC
* * *
1001103 AAAGTCATATATTGACAACTTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAACATTGCCA
1 AAAGTCATATAATGACAAATTTTGTAACTATAAGT-TTAATAATTATTACAAAAAAA-ATTGTCA
* * * **
1001168 CAAAAAATAATGATATTCACGTTTTTGTGACAAATTATATTTGTAGTTATAAATTTTAGCTATAG
64 CAACAAATAATGAGATTCAAGTTTTTGTGACAAATTATATTTGTAGTTATAAATTTTAATTATAG
* **
1001233 TGATAGCATATATTGTCA
129 TGACAAAATATATTGTCA
1001251 TAACTATTTT
Statistics
Matches: 259, Mismatches: 50, Indels: 36
0.75 0.14 0.10
Matches are distributed among these distances:
178 42 0.16
179 76 0.29
180 105 0.41
181 36 0.14
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (178 bp):
AAAGTCATATAATGACAAATTTTGTAACTATAAGTTTAATAATTATTACAAAAAAAATTGTCACA
ACAAATAATGAGATTCAAGTTTTTGTGACAAATTATATTTGTAGTTATAAATTTTAATTATAGTG
ACAAAATATATTGTCACAAATGATTATCCCCAATTTTTATACAAAAAC
Found at i:1004616 original size:196 final size:194
Alignment explanation
Indices: 1004284--1004637 Score: 543
Period size: 196 Copynumber: 1.8 Consensus size: 194
1004274 AAAAATTATA
*
1004284 CAAATTTATTTTGTCACAATATTTTGTCGAAATAAAAATTGACAAATTTATTTAATCCAAAAAAT
1 CAAATTTATTTTGTCACAATATTTTGTCAAAATAAAAATTGACAAATTTATTTAATCCAAAAAAT
* * * * *
1004349 AATTTATAACAAATATTAATTTTTCATCATAAAAAATTGGGACAAGTAATATTCTTTCAGAATAA
66 AATGTATAACAAATATTAATTTCTCATCATAAAAAATTGGGACAAATAATACTCTTTCACAATAA
1004414 CAAATTGTAACAAAATGATTTAGTCACAATAACACGTTAAATTTAGCCAAAGTAAAAGTTGTGT
131 CAAATTGTAACAAAATGATTTAGTCACAATAACACGTTAAATTTAGCCAAAGTAAAAGTTGTGT
1004478 CAAATTTA-TTTGTC-CTAATATTTTGTCAAAATAAAAAATTGTGACAAATTTATTTAAT-CAAA
1 CAAATTTATTTTGTCAC-AATATTTTGTCAAAAT-AAAAA-T-TGACAAATTTATTTAATCCAAA
* * *
1004540 ATAATAATGTATAACAAATATTAATTTCTCGTTATAAAAAATTGTGACAAATAATACTCTTTCAC
62 A-AATAATGTATAACAAATATTAATTTCTCATCATAAAAAATTGGGACAAATAATACTCTTTCAC
* *
1004605 TATAACAAATTGTAACAAAATTATTTAGTCACA
126 AATAACAAATTGTAACAAAATGATTTAGTCACA
1004638 GTAAAAAAGT
Statistics
Matches: 144, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
192 1 0.01
193 21 0.15
194 13 0.09
195 6 0.04
196 103 0.72
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (194 bp):
CAAATTTATTTTGTCACAATATTTTGTCAAAATAAAAATTGACAAATTTATTTAATCCAAAAAAT
AATGTATAACAAATATTAATTTCTCATCATAAAAAATTGGGACAAATAATACTCTTTCACAATAA
CAAATTGTAACAAAATGATTTAGTCACAATAACACGTTAAATTTAGCCAAAGTAAAAGTTGTGT
Found at i:1005842 original size:21 final size:20
Alignment explanation
Indices: 1005816--1005855 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1005806 GCTAATAACC
1005816 AGATGAATTGAGTAGAGGCTG
1 AGATG-ATTGAGTAGAGGCTG
**
1005837 AGATGATTTTGTAGAGGCT
1 AGATGATTGAGTAGAGGCT
1005856 TAAGATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (20 bp):
AGATGATTGAGTAGAGGCTG
Found at i:1015828 original size:13 final size:13
Alignment explanation
Indices: 1015810--1015839 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1015800 TCATCTCCAC
*
1015810 TTTTCTTTCTTTA
1 TTTTCTTTCATTA
1015823 TTTTCTTTCATTA
1 TTTTCTTTCATTA
1015836 TTTT
1 TTTT
1015840 ATTTTCACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCTTTCATTA
Found at i:1021229 original size:20 final size:20
Alignment explanation
Indices: 1021192--1021230 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1021182 AGATTGAGTG
* * *
1021192 GATTTTGATGTTGTTTGCAT
1 GATTTTAATGATGATTGCAT
1021212 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
1021231 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAT
Found at i:1021422 original size:20 final size:21
Alignment explanation
Indices: 1021384--1021463 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
1021374 CAGAACCCCA
*
1021384 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
* * **
1021405 GGGGGGAATCGGTTCCCTTCAA
1 GGGGGGAATCGATTCCCCT-GT
* *
1021427 AGGGGGAATCGATCCCCCT-T
1 GGGGGGAATCGATTCCCCTGT
1021447 GAGGGGG-ATCGATTCCC
1 G-GGGGGAATCGATTCCC
1021464 TCTGCACCAA
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
20 9 0.20
21 21 0.47
22 15 0.33
ACGTcount: A:0.16, C:0.25, G:0.36, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Done.