Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 75 of 187
Found at i:21962342 original size:17 final size:17
Alignment explanation
Indices: 21962257--21962341 Score: 91
Period size: 17 Copynumber: 5.1 Consensus size: 17
21962247 TACGATGTAG
* *
21962257 TATT-AATGAATTATTA
1 TATTGAATGAACTGTTA
21962273 TATTGAATGAACTGTTA
1 TATTGAATGAACTGTTA
* * *
21962290 TATTGTACGAACAGTTA
1 TATTGAATGAACTGTTA
*
21962307 TATGGAATGAACTGTTA
1 TATTGAATGAACTGTTA
* *
21962324 TTTTGCATGAACTGTTA
1 TATTGAATGAACTGTTA
21962341 T
1 T
21962342 TCGAATATTT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
16 4 0.07
17 52 0.93
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.42
Consensus pattern (17 bp):
TATTGAATGAACTGTTA
Found at i:21963405 original size:15 final size:15
Alignment explanation
Indices: 21963385--21963418 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21963375 ATATTTAAAC
*
21963385 AAATAAAAATAATGA
1 AAATAAAAACAATGA
*
21963400 AAATAAAAACAATTA
1 AAATAAAAACAATGA
21963415 AAAT
1 AAAT
21963419 TAACACACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
AAATAAAAACAATGA
Found at i:21980988 original size:109 final size:109
Alignment explanation
Indices: 21980850--21981048 Score: 290
Period size: 109 Copynumber: 1.8 Consensus size: 109
21980840 TATCAATAAT
* * * *
21980850 TTTTTTTGGGTGCTGCCTCTTCATGTGGAGGCACAAAAATTTGTAAAAAAAATTCTTTGGCCATA
1 TTTTTTTGGGTGCTGCATCCTCATATGGAGGCACAAAAATTTGTAAAAAAAATTATTTGGCCATA
* *
21980915 GCTCCAAATGTGGTGGCACCAATGTCAATAATTTTTTTTTTAAA
66 GCTCCAAATGCGATGGCACCAATGTCAATAATTTTTTTTTTAAA
* * * * *
21980959 TTTTTTTGGGTGTTGCATCCTGATATGGAGGCACCAAAATTTGTAAAAGAAATTATTTGGTCATA
1 TTTTTTTGGGTGCTGCATCCTCATATGGAGGCACAAAAATTTGTAAAAAAAATTATTTGGCCATA
*
21981024 TCTCCAAATGCGATGGCACCAATGT
66 GCTCCAAATGCGATGGCACCAATGT
21981049 TAGTAATATT
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
109 78 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (109 bp):
TTTTTTTGGGTGCTGCATCCTCATATGGAGGCACAAAAATTTGTAAAAAAAATTATTTGGCCATA
GCTCCAAATGCGATGGCACCAATGTCAATAATTTTTTTTTTAAA
Found at i:21981280 original size:97 final size:96
Alignment explanation
Indices: 21981068--21981499 Score: 371
Period size: 100 Copynumber: 4.3 Consensus size: 96
21981058 TTTTGGTGCC
* * * * * *
21981068 GCCTTTTCATGTGAAGGCACCAAAACCTGTAATAAAAAATTTCTTAATGCCAACACCAAATGTCG
1 GCCTCTTCATGTGGAGGCACCAAAATCAGT-A-AAAAAATTTCTTAGTGCCAACACCAAATGTGG
* *
21981133 TGGCACCAGTAATTTCTTTTTACTTTTTCGGTGTT
64 CGGCACCAATAA-TT-TTTTTACTTTTTCGGTGTT
* * * * *
21981168 GCCTCTTAATGTGGAGGCACCGAAATCAGTAAAAAAACTCCTTAGTGCCAACTCCAAATGTGGCG
1 GCCTCTTCATGTGGAGGCACCAAAATCAGTAAAAAAATTTCTTAGTGCCAACACCAAATGTGGCG
*
21981233 GCACCAATAATTTTTTTAAATTTTTCGGTGTT
66 GCACCAATAATTTTTTT-ACTTTTTCGGTGTT
* * * *
21981265 GCCTCTTCATGTGGAGGTACCCAAATCAATAAAAAATTATTTCTCTGGTGCCAACACCAAATGTG
1 GCCTCTTCATGTGGAGGCACCAAAATCAGTAAAAAA--ATTTCT-TAGTGCCAACACCAAATGTG
* * **
21981330 ACGGCACCAATAATTTTTTTACTTTTTGGGTGCC
63 GCGGCACCAATAATTTTTTTACTTTTTCGGTGTT
* * * * *
21981364 GCCTCTTCATGTAGAGGCACTAAAATTAGTAAAAAAAATTATTTTCTCTACTGCCAACTCCAAAT
1 GCCTCTTCATGTGGAGGCACCAAAATCAGT--AAAAAA--A-TTTCT-TAGTGCCAACACCAAAT
* ** * *
21981429 GTGGTGGCACCTGGTAAATTTATGTTTA-TTTTTAGGTGTC
60 GTGGCGGCACC-AAT-AATTT-T-TTTACTTTTTCGGTGTT
* ** *
21981469 GCCTGTAAATGTGGCGGCACCAAAATCAGTA
1 GCCTCTTCATGTGGAGGCACCAAAATCAGTA
21981500 CGTATATATA
Statistics
Matches: 272, Mismatches: 49, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
96 5 0.02
97 47 0.17
98 37 0.14
99 39 0.14
100 61 0.22
101 9 0.03
102 29 0.11
103 2 0.01
104 5 0.02
105 34 0.12
106 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (96 bp):
GCCTCTTCATGTGGAGGCACCAAAATCAGTAAAAAAATTTCTTAGTGCCAACACCAAATGTGGCG
GCACCAATAATTTTTTTACTTTTTCGGTGTT
Found at i:21986217 original size:7 final size:7
Alignment explanation
Indices: 21986205--21986229 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21986195 CTTTTATTCA
21986205 TTTCATT
1 TTTCATT
21986212 TTTCATT
1 TTTCATT
21986219 TTTCATT
1 TTTCATT
21986226 TTTC
1 TTTC
21986230 TTATCATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCATT
Found at i:21992710 original size:9 final size:9
Alignment explanation
Indices: 21992681--21992712 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
21992671 TTATTGAGTT
21992681 AATTAATTA
1 AATTAATTA
*
21992690 AACTAATTA
1 AATTAATTA
21992699 AATTAATTA
1 AATTAATTA
21992708 AATTA
1 AATTA
21992713 CTTTCTCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTAATTA
Found at i:21994055 original size:24 final size:24
Alignment explanation
Indices: 21994027--21994078 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
21994017 TTAGTAGGTC
* *
21994027 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
21994051 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
21994075 AAAT
1 AAAT
21994079 CTTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:21995898 original size:24 final size:24
Alignment explanation
Indices: 21995853--21995899 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
21995843 ATAAAAACTA
*
21995853 AACCCTAAAAACCCAAAAACAAAG
1 AACCCTAAAAACACAAAAACAAAG
* * *
21995877 AACCCTCAAAACATAAACACAAA
1 AACCCTAAAAACACAAAAACAAA
21995900 ATTCTCTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.62, C:0.30, G:0.02, T:0.06
Consensus pattern (24 bp):
AACCCTAAAAACACAAAAACAAAG
Found at i:21998271 original size:94 final size:94
Alignment explanation
Indices: 21998110--21998300 Score: 364
Period size: 94 Copynumber: 2.0 Consensus size: 94
21998100 AATTAAAAAA
21998110 TTTCCAAAAATATACTTAAGATGTGTTTGGGTAAGGAATTTATAGAAGGGGTTTCAATTGTATCA
1 TTTCCAAAAATATACTTAAGATGTGTTTGGGTAAGGAATTTATAGAAGGGGTTTCAATTGTATCA
21998175 AGGTTTTTAAAATTCTAAAAATGAATTTG
66 AGGTTTTTAAAATTCTAAAAATGAATTTG
* *
21998204 TTTCCCAAAATATACTTAAGATGTGTTTGGGTAAGGAATTTATAGGAGGGGTTTCAATTGTATCA
1 TTTCCAAAAATATACTTAAGATGTGTTTGGGTAAGGAATTTATAGAAGGGGTTTCAATTGTATCA
21998269 AGGTTTTTAAAATTCTAAAAATGAATTTG
66 AGGTTTTTAAAATTCTAAAAATGAATTTG
21998298 TTT
1 TTT
21998301 GTTTGGGTAA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (94 bp):
TTTCCAAAAATATACTTAAGATGTGTTTGGGTAAGGAATTTATAGAAGGGGTTTCAATTGTATCA
AGGTTTTTAAAATTCTAAAAATGAATTTG
Found at i:22007951 original size:18 final size:18
Alignment explanation
Indices: 22007928--22007967 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
22007918 AATTGAAGAA
22007928 GAAAAAGACTTTTCAGAT
1 GAAAAAGACTTTTCAGAT
22007946 GAAAAAGACTTTTCAGAT
1 GAAAAAGACTTTTCAGAT
22007964 GAAA
1 GAAA
22007968 TGATAGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.25
Consensus pattern (18 bp):
GAAAAAGACTTTTCAGAT
Found at i:22021000 original size:3 final size:3
Alignment explanation
Indices: 22020992--22021194 Score: 250
Period size: 3 Copynumber: 68.7 Consensus size: 3
22020982 GTGCATCCAT
* * * *
22020992 TTC TTC TTC TTC TTC TTC TTC TTC TTC CTC TTC TTT TTC CTC TTC CTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * ** * ** *
22021040 TTC CTC TTC TTC TTC CTC TTC TTC TTC ACC TTC TCC TTC ACC TTC TCC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * *
22021088 TTC TCC TTC TCC TTC TCC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
22021136 TTC TTC TTC TTC TTC -TC TTC TTC TTC -TC TTC -TC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
22021181 TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TT
22021195 TATAATACCT
Statistics
Matches: 167, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
2 6 0.04
3 161 0.96
ACGTcount: A:0.01, C:0.39, G:0.00, T:0.60
Consensus pattern (3 bp):
TTC
Found at i:22022719 original size:20 final size:19
Alignment explanation
Indices: 22022681--22022724 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
22022671 CTAAACCATC
*
22022681 TCATTGCATCTTATGTCAT
1 TCATTGCATCTTAGGTCAT
22022700 TGCATTGCAT-TTAGGTTCAT
1 T-CATTGCATCTTAGG-TCAT
22022720 TCATT
1 TCATT
22022725 TTCATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (19 bp):
TCATTGCATCTTAGGTCAT
Found at i:22024281 original size:18 final size:18
Alignment explanation
Indices: 22024258--22024292 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22024248 TCAAGTCTTT
* *
22024258 TATTTTGATTTTCTTATG
1 TATTTTAATTTTATTATG
22024276 TATTTTAATTTTATTAT
1 TATTTTAATTTTATTAT
22024293 CCACCTCCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (18 bp):
TATTTTAATTTTATTATG
Found at i:22028655 original size:3 final size:3
Alignment explanation
Indices: 22028647--22028672 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22028637 TCTTTTACAA
22028647 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
22028673 AAGATCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22029843 original size:125 final size:125
Alignment explanation
Indices: 22029631--22029876 Score: 397
Period size: 125 Copynumber: 2.0 Consensus size: 125
22029621 AAATTGCTTC
* * *
22029631 TACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACGCGATTTCGCTACAGT
1 TACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGT
22029696 GGTCATGTAAGAAATAATTTTTT-TTTGACGTTTACTGAGCAAATAGTATAAAATCGCTGA
66 GGTCATGTAAGAAATAATTTTTTCTTTGACGTTT-CTGAGCAAATAGTATAAAATCGCTGA
*
22029756 TACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTCCAGT
1 TACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAG-
* * *
22029821 TGGTCATGTAGGAAATAA-TTTTTCTTTGACGTTTCTGAGCAAATAGTGTCAAATCG
65 TGGTCATGTAAGAAATAATTTTTTCTTTGACGTTTCTGAGCAAATAGTATAAAATCG
22029877 TGCCCTCGTG
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
125 85 0.76
126 27 0.24
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (125 bp):
TACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGT
GGTCATGTAAGAAATAATTTTTTCTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTGA
Found at i:22031175 original size:28 final size:28
Alignment explanation
Indices: 22031142--22031660 Score: 618
Period size: 28 Copynumber: 19.7 Consensus size: 28
22031132 AAGTACAAAT
22031142 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
22031170 GTTAGGGTTTTTAATT-AATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
* *
22031197 GTTAAGATTTTTAATT-AATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
* * *
22031224 GTTAGGATTTTTAATT-AAGT-CA--A-
1 GTTAGGGTTTTTAATTAAATTAAATTAG
** *
22031247 GTTAGGGTTTTTAATTAAATTAGGTTAT
1 GTTAGGGTTTTTAATTAAATTAAATTAG
22031275 GTTAGGGTTTTTAATTAAATT--A-T--
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
22031298 GTTAGGGTTTTTAATTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
22031326 GTTAGGG--TTT--TT-AACTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
22031349 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
22031377 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
22031405 GTTAGGGTTTTTAATT-AATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
22031432 GTTAGGGTTTTTAATTAAGTT--A--A-
1 GTTAGGGTTTTTAATTAAATTAAATTAG
**
22031455 GTTAGGGTTTTTAATTAAATTAGGTTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
22031483 GTTAGAGTTTTTAATTAAATT--A-T--
1 GTTAGGGTTTTTAATTAAATTAAATTAG
22031506 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
** *
22031534 GTTAGGGTTTTTAATTAAATTAGGTGAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
22031562 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
22031590 GTTAGGGTTTTTAATTAAGTT--A--A-
1 GTTAGGGTTTTTAATTAAATTAAATTAG
* *
22031613 GTTAGGGTTTTTAATTATATTAAGTTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
22031641 GTTAGGGTTTTTAATCAAAT
1 GTTAGGGTTTTTAATTAAAT
22031661 AATGTCAAAA
Statistics
Matches: 429, Mismatches: 31, Indels: 62
0.82 0.06 0.12
Matches are distributed among these distances:
23 111 0.26
24 8 0.02
25 7 0.02
26 8 0.02
27 86 0.20
28 209 0.49
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (28 bp):
GTTAGGGTTTTTAATTAAATTAAATTAG
Found at i:22031289 original size:51 final size:51
Alignment explanation
Indices: 22031142--22031655 Score: 683
Period size: 51 Copynumber: 9.8 Consensus size: 51
22031132 AAGTACAAAT
22031142 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAA-TTAA
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
* * *
22031192 ATTAGGTTAAGATTTTTAATT-AATTAAATTAGGTTAGGATTTTTAATTAAGTCAA
1 GTTAGG----G-TTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
** * * *
22031247 GTTAGGGTTTTTAATTAAATTAGGTTATGTTAGGGTTTTTAATTAAATTAT
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
* * * *
22031298 GTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTTTTAACTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
*
22031349 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTA
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTT--A--A
22031404 GGTTAGGGTTTTTAATT-AATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
1 -GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
** * * *
22031455 GTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGAGTTTTTAATTAAATTAT
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
*
22031506 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTGA
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTA----A
22031561 GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
1 -GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
* *
22031613 GTTAGGGTTTTTAATTATATTAAGTTAGGTTAGGGTTTTTAAT
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAAT
22031656 CAAATAATGT
Statistics
Matches: 413, Mismatches: 33, Indels: 35
0.86 0.07 0.07
Matches are distributed among these distances:
50 30 0.07
51 238 0.58
52 1 0.00
53 2 0.00
54 29 0.07
55 48 0.12
56 65 0.16
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (51 bp):
GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
Found at i:22033044 original size:20 final size:20
Alignment explanation
Indices: 22033019--22033058 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22033009 TTTATTCTTA
22033019 CAAAATCTACATA-AAAATTT
1 CAAAATCTA-ATATAAAATTT
*
22033039 CAAAATTTAATATAAAATTT
1 CAAAATCTAATATAAAATTT
22033059 ACCTCGTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (20 bp):
CAAAATCTAATATAAAATTT
Found at i:22033823 original size:14 final size:15
Alignment explanation
Indices: 22033806--22033839 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22033796 AATAAATATC
22033806 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
22033820 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
22033835 TAAAA
1 TAAAA
22033840 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:22034048 original size:22 final size:22
Alignment explanation
Indices: 22034018--22034119 Score: 118
Period size: 22 Copynumber: 4.6 Consensus size: 22
22034008 TATGGATTTG
*
22034018 GAGATTTTTTGAAGGAAATTGA
1 GAGAATTTTTGAAGGAAATTGA
* * *
22034040 GAGTATTTTAGAAGGAATTTGA
1 GAGAATTTTTGAAGGAAATTGA
*
22034062 GAGAA-TTTTGAAAGGAATTTGA
1 GAGAATTTTTG-AAGGAAATTGA
22034084 GAGAATTTTTGAACGG-AATTGA
1 GAGAATTTTTGAA-GGAAATTGA
*
22034106 GAAAATTTTTGAAG
1 GAGAATTTTTGAAG
22034120 TATATTGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
21 5 0.07
22 57 0.83
23 7 0.10
ACGTcount: A:0.38, C:0.01, G:0.26, T:0.34
Consensus pattern (22 bp):
GAGAATTTTTGAAGGAAATTGA
Found at i:22034375 original size:42 final size:42
Alignment explanation
Indices: 22034312--22034412 Score: 184
Period size: 42 Copynumber: 2.4 Consensus size: 42
22034302 GGACGCACTA
*
22034312 ACGTGGACGCGATGTCTTGTCACGTACCCTGACATCGCGCTG
1 ACGTGGACGCGATGTCCTGTCACGTACCCTGACATCGCGCTG
*
22034354 ACGTGGACGCGATGTCCTGTCACGTACCCTGACATCGTGCTG
1 ACGTGGACGCGATGTCCTGTCACGTACCCTGACATCGCGCTG
22034396 ACGTGGACGCGATGTCC
1 ACGTGGACGCGATGTCC
22034413 CTCACCCTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.17, C:0.31, G:0.30, T:0.23
Consensus pattern (42 bp):
ACGTGGACGCGATGTCCTGTCACGTACCCTGACATCGCGCTG
Found at i:22036755 original size:26 final size:27
Alignment explanation
Indices: 22036725--22036778 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
22036715 ATAAGGTTGA
22036725 ACGCCACACT-GGAGAGTGATAAGTTC
1 ACGCCACACTCGGAGAGTGATAAGTTC
22036751 ACGCCACACTCGGAGAGTGATAAGTTC
1 ACGCCACACTCGGAGAGTGATAAGTTC
22036778 A
1 A
22036779 AGAAAGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (27 bp):
ACGCCACACTCGGAGAGTGATAAGTTC
Found at i:22037739 original size:28 final size:28
Alignment explanation
Indices: 22037699--22037757 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
22037689 TGAACATACT
* * *
22037699 TAATAGACAAAGACATGATTTTAATATG
1 TAATACACAAAGACATAATTTAAATATG
*
22037727 TAATACACTAAGACATAATTTAAATATG
1 TAATACACAAAGACATAATTTAAATATG
22037755 TAA
1 TAA
22037758 CATGCTATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.32
Consensus pattern (28 bp):
TAATACACAAAGACATAATTTAAATATG
Found at i:22039179 original size:17 final size:19
Alignment explanation
Indices: 22039153--22039192 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
22039143 ATACGTATAT
*
22039153 AAAATGATAAAATAAAA-A
1 AAAATGATAAAACAAAACA
22039171 AAAAT-ATAAAACAAAACA
1 AAAATGATAAAACAAAACA
22039189 AAAA
1 AAAA
22039193 CTTATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (19 bp):
AAAATGATAAAACAAAACA
Found at i:22039230 original size:2 final size:2
Alignment explanation
Indices: 22039223--22039263 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
22039213 AATATGTATG
22039223 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22039264 GTGAAATGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22039534 original size:2 final size:2
Alignment explanation
Indices: 22039527--22039553 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22039517 TGGAAAAATG
22039527 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
22039554 GTAAACTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22039687 original size:3 final size:3
Alignment explanation
Indices: 22039679--22039733 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
22039669 ATGCGTGTAT
22039679 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22039727 ATA ATA A
1 ATA ATA A
22039734 CCAAAATAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22041262 original size:100 final size:100
Alignment explanation
Indices: 22041139--22041629 Score: 734
Period size: 100 Copynumber: 4.9 Consensus size: 100
22041129 CCAATTACAA
* * * * * * * * *
22041139 TGTCGAGGAAACAAGATTTGCCGTCGT-AGCTTCAATCTGTTCAACTGCACCGCTAAGGAGGTAA
1 TGTCGGGGAAACCAGATCTGCCGTTGTGA-CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAA
* *
22041203 GATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGC
65 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAC
*
22041239 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
22041304 ATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAC
*
22041339 TGTCGGGGAAACCAGACCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
22041404 ATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAC
* *
22041439 TGTCAGGGAAACCAGATCTGCTGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
*
22041504 ATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCAC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAC
* *
22041539 TGTCGGGTAAACCAGATTTGTCC-TTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAA
1 TGTCGGGGAAACCAGATCTG-CCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAA
**
22041603 GATCCATCGTTGTGGCTTCAATCTTTT
65 GATCCGCCGTTGTGGCTTCAATCTTTT
22041630 CCACTTAATG
Statistics
Matches: 358, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
100 356 0.99
101 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (100 bp):
TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAC
Found at i:22041634 original size:50 final size:50
Alignment explanation
Indices: 22041158--22041626 Score: 316
Period size: 50 Copynumber: 9.4 Consensus size: 50
22041148 AACAAGATTT
* * * * *
22041158 GCCGTCGTAGCTTCAATCTGTTCAACTGCACCGCTAAGGAGGTAAGATCC
1 GCCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCAGGGAAGTAAGATCC
* * * * * * ***
22041208 GCCGTTGTGGCTTCAATCCT-TTTAATTGCGCTGTCGGGGAAACCAGATCC
1 GCCGTTGTGGCTTCAAT-CTGTTCAACTGCACCGCCAGGGAAGTAAGATCC
* * * *
22041258 GCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTC
1 GCCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCAGGGAAGTAAGATCC
* * * * * * * ***
22041308 ACCGTTGTGGCTTCAATCTTTTTAATTGCACTGTCGGGGAAACCAGA-CC
1 GCCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCAGGGAAGTAAGATCC
* * * *
22041357 TGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCT
1 -GCCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCAGGGAAGTAAGATCC
* * * * * * *** *
22041408 GCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATCT
1 GCCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCAGGGAAGTAAGATCC
* * * * *
22041458 GCTGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCT
1 GCCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCAGGGAAGTAAGATCC
* * * * * *** **
22041508 GCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTC-GGGTAAACCAGATTT
1 GCCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCAGGG-AAGTAAGATCC
* * *
22041558 GTCC-TTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCC
1 G-CCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCAGGGAAGTAAGATCC
**
22041608 ATCGTTGTGGCTTCAATCT
1 GCCGTTGTGGCTTCAATCT
22041627 TTTCCACTTA
Statistics
Matches: 302, Mismatches: 109, Indels: 16
0.71 0.26 0.04
Matches are distributed among these distances:
49 7 0.02
50 287 0.95
51 8 0.03
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.29
Consensus pattern (50 bp):
GCCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCAGGGAAGTAAGATCC
Found at i:22043171 original size:16 final size:15
Alignment explanation
Indices: 22043146--22043188 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
22043136 CCTTAGCCTC
22043146 TCCATTTTTATTTTG
1 TCCATTTTTATTTTG
22043161 TCCATTTTTTATTTT-
1 TCCA-TTTTTATTTTG
*
22043176 T-CATTTTCATTTT
1 TCCATTTTTATTTT
22043189 CATTTTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 9 0.35
14 2 0.08
15 5 0.19
16 10 0.38
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (15 bp):
TCCATTTTTATTTTG
Found at i:22043726 original size:23 final size:23
Alignment explanation
Indices: 22043696--22043747 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
22043686 CGGTAGAGGT
22043696 TTTTTTGTTTCTTTTTGT-TTTTA
1 TTTTTTG-TTCTTTTTGTCTTTTA
* *
22043719 TTTTTTGTTCTTTTTTTCTTTTC
1 TTTTTTGTTCTTTTTGTCTTTTA
22043742 TTTTTT
1 TTTTTT
22043748 CCTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.02, C:0.08, G:0.06, T:0.85
Consensus pattern (23 bp):
TTTTTTGTTCTTTTTGTCTTTTA
Found at i:22043735 original size:13 final size:13
Alignment explanation
Indices: 22043707--22043747 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
22043697 TTTTTGTTTC
22043707 TTTTTGTT-TTTAT
1 TTTTTGTTCTTT-T
22043720 TTTTTGTTCTTTT
1 TTTTTGTTCTTTT
22043733 TTTCTT-TTCTTTT
1 TTT-TTGTTCTTTT
22043746 TT
1 TT
22043748 CCTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 21 0.81
14 5 0.19
ACGTcount: A:0.02, C:0.07, G:0.05, T:0.85
Consensus pattern (13 bp):
TTTTTGTTCTTTT
Found at i:22043745 original size:22 final size:21
Alignment explanation
Indices: 22043696--22043758 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
22043686 CGGTAGAGGT
22043696 TTTTTTGTTTCTTTTTGTTTTTA
1 TTTTTTG-TTCTTTTT-TTTTTA
22043719 TTTTTTGTTCTTTTTTTCTTT-
1 TTTTTTGTTCTTTTTTT-TTTA
* *
22043740 TCTTTT-TTCCTTTTTTTTT
1 TTTTTTGTTCTTTTTTTTTT
22043759 GCATTGAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
19 3 0.08
20 9 0.24
21 7 0.19
22 11 0.30
23 7 0.19
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.84
Consensus pattern (21 bp):
TTTTTTGTTCTTTTTTTTTTA
Found at i:22043752 original size:13 final size:13
Alignment explanation
Indices: 22043726--22043758 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22043716 TTATTTTTTG
*
22043726 TTCTTTTTTTCTT
1 TTCTTTTTTCCTT
22043739 TTCTTTTTTCCTT
1 TTCTTTTTTCCTT
22043752 TT-TTTTT
1 TTCTTTTT
22043759 GCATTGAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTCTTTTTTCCTT
Found at i:22048278 original size:21 final size:21
Alignment explanation
Indices: 22048252--22048298 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
22048242 TAATTAGGTA
22048252 TCTACTAAGGTTAAGAGTAAT
1 TCTACTAAGGTTAAGAGTAAT
22048273 TCTACTAAGGTTAAGAGTAAT
1 TCTACTAAGGTTAAGAGTAAT
22048294 TCTAC
1 TCTAC
22048299 CTAGGGTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (21 bp):
TCTACTAAGGTTAAGAGTAAT
Found at i:22049729 original size:19 final size:21
Alignment explanation
Indices: 22049709--22049758 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
22049699 AGAAAAACAA
*
22049709 TATATATATATAAA-T-ATAA
1 TATATATATATAAACTAAGAA
22049728 TATATA-A-ATAAACTAAGAA
1 TATATATATATAAACTAAGAA
22049747 TATATATATATA
1 TATATATATATA
22049759 TGTGTGTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 5 0.19
18 2 0.08
19 15 0.58
20 1 0.04
21 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
TATATATATATAAACTAAGAA
Found at i:22049732 original size:13 final size:14
Alignment explanation
Indices: 22049707--22049737 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
22049697 AAAGAAAAAC
22049707 AATATATATATATA
1 AATATATATATATA
22049721 AATATA-ATATATA
1 AATATATATATATA
22049734 AATA
1 AATA
22049738 AACTAAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATATATATATA
Found at i:22049732 original size:17 final size:19
Alignment explanation
Indices: 22049710--22049756 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
22049700 GAAAAACAAT
*
22049710 ATATATATATAAA-T-ATA
1 ATATATATATAAACTAAGA
*
22049727 ATATATAAATAAACTAAGA
1 ATATATATATAAACTAAGA
22049746 ATATATATATA
1 ATATATATATA
22049757 TATGTGTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 12 0.48
18 1 0.04
19 12 0.48
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATATATATAAACTAAGA
Found at i:22050061 original size:3 final size:3
Alignment explanation
Indices: 22050053--22050164 Score: 136
Period size: 3 Copynumber: 40.3 Consensus size: 3
22050043 ATGCGTGTAT
*
22050053 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22050101 ATA ATA TATA AT- ATA AT- ATA AT- ATA AT- ATA AT- ATA AT- ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22050141 AT- ATA AT- ATA AT- ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22050165 CCAAAATAAC
Statistics
Matches: 96, Mismatches: 2, Indels: 22
0.80 0.02 0.18
Matches are distributed among these distances:
2 20 0.21
3 73 0.76
4 3 0.03
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:22050089 original size:30 final size:25
Alignment explanation
Indices: 22050051--22050163 Score: 136
Period size: 25 Copynumber: 4.1 Consensus size: 25
22050041 ATATGCGTGT
22050051 ATATAATAATAATGATAATAATAATAATA
1 ATATAAT-ATAAT-ATAAT-ATAAT-ATA
22050080 ATAATAATAATAATAATAATAATAATATATA
1 AT-ATAAT-ATAAT-ATAAT-AT-A-ATATA
22050111 ATATAATATAATATAATATAATATA
1 ATATAATATAATATAATATAATATA
22050136 ATATAATATAATATAATATAATATA
1 ATATAATATAATATAATATAATATA
22050161 ATA
1 ATA
22050164 ACCAAAATAA
Statistics
Matches: 80, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
25 33 0.41
26 1 0.01
27 2 0.03
28 5 0.06
29 7 0.09
30 24 0.30
31 6 0.08
32 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (25 bp):
ATATAATATAATATAATATAATATA
Found at i:22053872 original size:18 final size:17
Alignment explanation
Indices: 22053834--22053867 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22053824 CTATTTCCTT
22053834 TTTCTTTTTCATTTTTCA
1 TTTCTTTTTCA-TTTTCA
22053852 TTTCTTTTTC-TTTTCA
1 TTTCTTTTTCATTTTCA
22053868 AATTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTCATTTTCA
Found at i:22053879 original size:24 final size:25
Alignment explanation
Indices: 22053826--22053881 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
22053816 TTTTATCACT
* **
22053826 ATTTCCTTTTTCTTTTTCATTTTTC
1 ATTTTCTTTTTCTTTTTCAAATTTC
*
22053851 A-TTTCTTTTTC-TTTTCAAATTTG
1 ATTTTCTTTTTCTTTTTCAAATTTC
22053874 ATTTTCTT
1 ATTTTCTT
22053882 GCTCATTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 10 0.38
24 15 0.58
25 1 0.04
ACGTcount: A:0.12, C:0.16, G:0.02, T:0.70
Consensus pattern (25 bp):
ATTTTCTTTTTCTTTTTCAAATTTC
Found at i:22057135 original size:37 final size:36
Alignment explanation
Indices: 22057094--22057230 Score: 152
Period size: 37 Copynumber: 3.7 Consensus size: 36
22057084 CCTTAGATGT
22057094 GTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAG
1 GTCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAG
*
22057131 GTCTATACTC-ACACTTTTTAAAGGTTGCCTTAGACAAG
1 GTCTAT-CCCAAC-CTTTTTAAAGGTTGCCTTAGAC-AG
* * **
22057169 ATCTATCCCAACCATTTT-AAGGTTGCCTTAGATGG
1 GTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAG
* *
22057204 GTTTATCCCAACCTTTTTTAAATGTTG
1 GTCTATCCCAACC-TTTTTAAAGGTTG
22057231 GCATTGACTA
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
35 12 0.14
36 18 0.21
37 42 0.50
38 12 0.14
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (36 bp):
GTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAG
Found at i:22063869 original size:39 final size:40
Alignment explanation
Indices: 22063815--22063897 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 40
22063805 TCTCAAGGCC
* *
22063815 TAATAAAATATTTATTATATTT-ATTTGTGTTTTTTAATA
1 TAATAAAATATTTATTATATTTAAGTAGTGTTTTTTAATA
22063854 TAATAAAATATTTATTATATTTAGAGTAGTGTTTTTTAATA
1 TAATAAAATATTTATTATATTTA-AGTAGTGTTTTTTAATA
22063895 TAA
1 TAA
22063898 ATATTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 22 0.55
41 18 0.45
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (40 bp):
TAATAAAATATTTATTATATTTAAGTAGTGTTTTTTAATA
Found at i:22067499 original size:20 final size:20
Alignment explanation
Indices: 22067474--22067529 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
22067464 TTCTAACGTG
22067474 TATTAAAATTTAG-AATTAAA
1 TATTAAAATTT-GTAATTAAA
22067494 TATTAAAATTTGTAATTAAA
1 TATTAAAATTTGTAATTAAA
* * *
22067514 TTTTAAGATTTCTAAT
1 TATTAAAATTTGTAAT
22067530 GTAGTACCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (20 bp):
TATTAAAATTTGTAATTAAA
Found at i:22067879 original size:28 final size:28
Alignment explanation
Indices: 22067847--22067908 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
22067837 TAAAAAATTG
* * *
22067847 TAAAAAGATGTTATAAA-TAAAAAAAAC
1 TAAAAAAATGTGAAAAATTAAAAAAAAC
*
22067874 TAAAAAAATGTGAAAAATTAAGAAAAAC
1 TAAAAAAATGTGAAAAATTAAAAAAAAC
*
22067902 TACAAAA
1 TAAAAAA
22067909 TTAATCATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.19
Consensus pattern (28 bp):
TAAAAAAATGTGAAAAATTAAAAAAAAC
Found at i:22071172 original size:13 final size:12
Alignment explanation
Indices: 22071115--22071176 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 12
22071105 GGCAGTGACG
22071115 GAAAAAAGAAAA
1 GAAAAAAGAAAA
22071127 GAAAAAGAGAGAAA
1 GAAAAA-AGA-AAA
*
22071141 GAGAATAGAGAAAGGA
1 GA-AA-AAAGAAA--A
22071157 GAAAGAAAGAAAA
1 GAAA-AAAGAAAA
22071170 GAAAAAA
1 GAAAAAA
22071177 ATAGAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
12 9 0.22
13 8 0.20
14 7 0.17
15 13 0.32
16 4 0.10
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.02
Consensus pattern (12 bp):
GAAAAAAGAAAA
Found at i:22071560 original size:3 final size:3
Alignment explanation
Indices: 22071554--22071596 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
22071544 GTAAAAAAAC
22071554 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22071597 GTGTTAGTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22071572 original size:76 final size:78
Alignment explanation
Indices: 22071355--22071579 Score: 226
Period size: 76 Copynumber: 2.9 Consensus size: 78
22071345 GTTTAGTTAT
* * * *
22071355 TAATAATTATTGTTACTTAGTATTATTGCTAGTAAAAAACTAATATTATTATTATTGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAA--AATATTATTATTATTATTA-TTAT
22071420 TAGGATTAGTAAAAACCC
63 T--GATTAGTAAAAACCC
* **** * * *
22071438 TAATTATTATT-TTAGTTAGTATCATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATT-
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAAATATTATTATTATTA-TTATTATTG
*
22071500 TTTAGT-AAAACCC
65 ATTAGTAAAAACCC
* *
22071513 TAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAAACTATTATTATTATTATTATTATT-A
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAAATATTATTATTATTATTATTATTGA
22071577 TTA
66 TTA
22071580 TTATTATTAT
Statistics
Matches: 116, Mismatches: 23, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
75 18 0.16
76 39 0.34
77 10 0.09
79 14 0.12
80 6 0.05
82 19 0.16
83 10 0.09
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (78 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAAATATTATTATTATTATTATTATTGA
TTAGTAAAAACCC
Found at i:22074894 original size:161 final size:159
Alignment explanation
Indices: 22074518--22075068 Score: 869
Period size: 161 Copynumber: 3.5 Consensus size: 159
22074508 NNNNNNNNNA
* * *
22074518 CCCTTTGTTCGTAGTTCTCTTTTTTCCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGCA
1 CCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTA
22074583 TTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGT-TTTTTTAT
66 TTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAT
*
22074647 ATAAATTTAGTAAAAAACTCTTATTTTGG
131 ATAAATTTAGTAAAAAACCCTTATTTTGG
* * * *
22074676 CCCTTTGTTTGTATTTTTCTTTTTTCCTGGATTTTATTACTTTAAAAAAATATACTATTTTTGTA
1 CCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTA
*
22074741 TTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAT
66 TTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAT
22074806 ATAAATTTAGTAAAAAAAACCCTTATTTTGG
131 ATAAATTTAGT--AAAAAACCCTTATTTTGG
* * *
22074837 CCCTTTGTCCGTATTTTTCTTTTTTCCCGTATCTTATTACTTTCAAAAAATATACTATTTTCGTA
1 CCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTA
* *
22074902 TTTTATTATTTTATATTATTTTAGTACATAATATTTGAAATGTATTAATTTATTGTGTTTTTTAT
66 TTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAT
22074967 ATAAATTTAGTAAAAAACCCTTATTTTGG
131 ATAAATTTAGTAAAAAACCCTTATTTTGG
* * **
22074996 CCATTTGTTCGTATTTTTCTTATTTT--CGAATTTTATTACTTTCAGTAAATATACTATTTTC--
1 CCCTTTGTTCGTATTTTTCTT-TTTTCCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGT
*
22075057 ATTTTTTTATTT
65 ATTTTATTATTT
22075069 CTTTTCGTAT
Statistics
Matches: 363, Mismatches: 26, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
156 11 0.03
158 144 0.40
159 56 0.15
160 4 0.01
161 148 0.41
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (159 bp):
CCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTA
TTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAT
ATAAATTTAGTAAAAAACCCTTATTTTGG
Found at i:22075262 original size:23 final size:25
Alignment explanation
Indices: 22075217--22075267 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
22075207 TTGGTTTTTT
22075217 TACATGCTAAATAAATTTCATAA-AAAA
1 TACATGCTAAATAAA--T-ATAATAAAA
22075244 TACATGCTAAATAAA-ATAATAAAA
1 TACATGCTAAATAAATATAATAAAA
22075268 CATATAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
27 15 0.65
ACGTcount: A:0.59, C:0.10, G:0.04, T:0.27
Consensus pattern (25 bp):
TACATGCTAAATAAATATAATAAAA
Found at i:22075478 original size:30 final size:29
Alignment explanation
Indices: 22075435--22075505 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 29
22075425 CTCCTCCTCC
22075435 TTCTTCTTCTTCTTCTCCTTTCCTTTTCT
1 TTCTTCTTCTTCTTCTCCTTTCCTTTTCT
*
22075464 TTCTTTTTCTTTCTTCTCCTTTCCTTTTCT
1 TTCTTCTTC-TTCTTCTCCTTTCCTTTTCT
* *
22075494 ATCTTCTCCTTC
1 TTCTTCTTCTTC
22075506 AGCCGAATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 11 0.30
30 26 0.70
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (29 bp):
TTCTTCTTCTTCTTCTCCTTTCCTTTTCT
Found at i:22075485 original size:20 final size:20
Alignment explanation
Indices: 22075462--22075504 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
22075452 CTTTCCTTTT
* *
22075462 CTTTCTTTTTCTTTCTTCTC
1 CTTTCCTTTTCTATCTTCTC
22075482 CTTTCCTTTTCTATCTTCTC
1 CTTTCCTTTTCTATCTTCTC
22075502 CTT
1 CTT
22075505 CAGCCGAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTTCCTTTTCTATCTTCTC
Found at i:22081295 original size:13 final size:13
Alignment explanation
Indices: 22081277--22081301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22081267 TATGTTACTA
22081277 AATTATAATATTT
1 AATTATAATATTT
22081290 AATTATAATATT
1 AATTATAATATT
22081302 AAAATTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTATAATATTT
Found at i:22081405 original size:39 final size:37
Alignment explanation
Indices: 22081362--22081437 Score: 98
Period size: 39 Copynumber: 2.0 Consensus size: 37
22081352 TTATATAAAC
* *
22081362 ATTTATTAATAATTGAATAAAAAACTATTATTAAATTAT
1 ATTTAATAATAATTGAAT-AAAAA-TATGATTAAATTAT
* *
22081401 ATTTAATAATAATTGTATTAAAATATGATTAAATTAT
1 ATTTAATAATAATTGAATAAAAATATGATTAAATTAT
22081438 TTATTATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 13 0.39
38 4 0.12
39 16 0.48
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (37 bp):
ATTTAATAATAATTGAATAAAAATATGATTAAATTAT
Found at i:22082793 original size:16 final size:16
Alignment explanation
Indices: 22082772--22082824 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
22082762 TTGATTCGTT
22082772 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
22082788 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
22082804 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
22082820 GTAAT
1 GTAAT
22082825 AGGTAATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:22082893 original size:44 final size:46
Alignment explanation
Indices: 22082806--22082898 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
22082796 ATAGATGCGT
*
22082806 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
22082852 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
22082896 AAT
1 AAT
22082899 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:22082894 original size:39 final size:44
Alignment explanation
Indices: 22082806--22082911 Score: 141
Period size: 39 Copynumber: 2.5 Consensus size: 44
22082796 ATAGATGCGT
*
22082806 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--ATGG
22082852 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
*
22082891 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
22082912 CATAAGTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 19 0.33
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 19 0.33
ACGTcount: A:0.29, C:0.04, G:0.32, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
Found at i:22083109 original size:18 final size:17
Alignment explanation
Indices: 22083057--22083109 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
22083047 TTTTTATTAA
22083057 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
22083075 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
22083092 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
22083110 CATAATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 9 0.27
18 24 0.73
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22083229 original size:120 final size:120
Alignment explanation
Indices: 22083091--22083406 Score: 589
Period size: 120 Copynumber: 2.6 Consensus size: 120
22083081 TTTAATAAAA
* *
22083091 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATATTTTAAAAGT-CTTATTATT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAA-TAATTATTATT
*
22083155 AAATATAATTTAATAAAAATATATAATTTGATAAAATTCTAGTATTAAAATATTAT
65 AAATATAATTTAATAAAAATATATAATTTGATAAAATTATAGTATTAAAATATTAT
22083211 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
22083276 AATATAATTTAATAAAAATATATAATTTGATAAAATTATAGTATTAAAATATTAT
66 AATATAATTTAATAAAAATATATAATTTGATAAAATTATAGTATTAAAATATTAT
22083331 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
22083396 AATATAATTTA
66 AATATAATTTA
22083407 TAATCTACTT
Statistics
Matches: 192, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
119 1 0.01
120 191 0.99
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAATAAAAATATATAATTTGATAAAATTATAGTATTAAAATATTAT
Found at i:22083240 original size:61 final size:60
Alignment explanation
Indices: 22083091--22083393 Score: 305
Period size: 59 Copynumber: 5.0 Consensus size: 60
22083081 TTTAATAAAA
* *
22083091 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA-TTTTAAAAGTCTTAT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAGTATTAAAA-TATTAT
* * * ** * * * *
22083151 TAT-TAAATATAATTTAATAAAAATATATAAT-TTGATAAAATTCTAGTATTAAAATATTAT
1 TATATGAATTTACTAAAATCATAATATATAATACT-ATAAAA-TATAGTATTAAAATATTAT
*
22083211 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT-TTAAAATAATTAT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAGTATTAAAAT-ATTAT
* * * ** * * *
22083271 TAT-TAAATATAATTTAATAAAAATATATAAT-TTGATAAAATTATAGTATTAAAATATTAT
1 TATATGAATTTACTAAAATCATAATATATAATACT-ATAAAA-TATAGTATTAAAATATTAT
*
22083331 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT-TTAAAATAATTAT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAGTATTAAAAT-ATTAT
22083391 TAT
1 TAT
22083394 TAAATATAAT
Statistics
Matches: 192, Mismatches: 39, Indels: 24
0.75 0.15 0.09
Matches are distributed among these distances:
58 2 0.01
59 68 0.35
60 52 0.27
61 68 0.35
62 2 0.01
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (60 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAGTATTAAAATATTAT
Found at i:22083300 original size:18 final size:18
Alignment explanation
Indices: 22083277--22083315 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
22083267 TTATTATTAA
22083277 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
* *
22083295 ATATAATTTGATAAAATT
1 ATATAATTTAATAAAAAT
22083313 ATA
1 ATA
22083316 GTATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:22089932 original size:13 final size:13
Alignment explanation
Indices: 22089914--22089940 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22089904 AGCTTTTAAG
22089914 CAATGGTAATATC
1 CAATGGTAATATC
22089927 CAATGGTAATATC
1 CAATGGTAATATC
22089940 C
1 C
22089941 TTGAACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (13 bp):
CAATGGTAATATC
Found at i:22091188 original size:15 final size:15
Alignment explanation
Indices: 22091139--22091191 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
22091129 TTGACTTAGG
* *
22091139 TTATATTTTAGTCAC
1 TTATGTTTTAATCAC
* * *
22091154 TTATGTTTGAA-AAG
1 TTATGTTTTAATCAC
22091168 TTATGTTTTAATCAC
1 TTATGTTTTAATCAC
22091183 TTATGTTTT
1 TTATGTTTT
22091192 TATTTTGTTA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (15 bp):
TTATGTTTTAATCAC
Found at i:22100534 original size:132 final size:132
Alignment explanation
Indices: 22100368--22100677 Score: 503
Period size: 132 Copynumber: 2.3 Consensus size: 132
22100358 ATTACTTTTG
* ** *
22100368 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTAATCTTCAATCTATTCCGCTGCTGCCCAG
1 TCTGCTCCACTACTGCTT-AGGGAGACAAGATCTGTAATCTTCAATCTATTCCGCTGCTGCCCAG
*
22100433 GGAAGTAGAATTACTAGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATATT
65 GGAAGTAGAATTACTAGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATATT
22100498 CGA
130 CGA
* * *
22100501 TCTGCTCCACTACTGCTTAGGGAGGCATGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGG
1 TCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCGCTGCTGCCCAGG
* * *
22100566 GAAGTAGAATTACTGGCTTCAATATACTCCATTGCAACTTCAGGGAGGTAAAATCCGCCATCTTC
66 GAAGTAGAATTACTAGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATATTC
22100631 GA
131 GA
*
22100633 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
1 TCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAAT
22100678 TTGTTCAATT
Statistics
Matches: 162, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
132 147 0.91
133 15 0.09
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (132 bp):
TCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCGCTGCTGCCCAGG
GAAGTAGAATTACTAGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATATTC
GA
Found at i:22110689 original size:17 final size:18
Alignment explanation
Indices: 22110634--22110689 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
22110624 TATTATTTTT
22110634 ATATAAAACAATTTAAAA-A
1 ATATAAAAC-A-TTAAAATA
* *
22110653 ATATAATACATCAAATATA
1 ATATAAAACATTAAA-ATA
22110672 ATA-AAAACATTAAAATA
1 ATATAAAACATTAAAATA
22110689 A
1 A
22110690 ATGTTTCCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 8 0.26
18 11 0.35
19 12 0.39
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (18 bp):
ATATAAAACATTAAAATA
Found at i:22111144 original size:20 final size:20
Alignment explanation
Indices: 22111091--22111150 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
22111081 AATTTATAAA
*
22111091 AATAATATTTA-AAATATTT
1 AATAATTTTTATAAATATTT
*
22111110 AATAATTTTTGTAAATATTT
1 AATAATTTTTATAAATATTT
*
22111130 -CTAATTTTTCATAAATTATTT
1 AATAATTTTT-ATAAA-TATTT
22111151 GATTTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 17 0.50
20 12 0.35
21 5 0.15
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (20 bp):
AATAATTTTTATAAATATTT
Found at i:22120383 original size:5 final size:5
Alignment explanation
Indices: 22120375--22120399 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
22120365 AGTTAAAATA
22120375 ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT
22120400 GTTTTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:22121355 original size:43 final size:43
Alignment explanation
Indices: 22121302--22121417 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
22121292 ATGTGTTTTT
* *
22121302 CATGTAAGACCACATCAGGGACGTTGGCATCGACT-TGTGTTTA
1 CATGTAAGACCACGTCAGGGACGTTGGCATCGA-TATGTGATTA
* **
22121345 CGTGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATGTGATTA
1 CATGTAAGACCAC-GTCAGGGAC-GTTGGCATCGATATGTGATTA
22121388 CATGTAAGACCACGTCTA-GGACGTTGGCAT
1 CATGTAAGACCACGTC-AGGGACGTTGGCAT
22121418 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
42 3 0.05
43 54 0.92
44 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCACGTCAGGGACGTTGGCATCGATATGTGATTA
Found at i:22129191 original size:2 final size:2
Alignment explanation
Indices: 22129186--22129210 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22129176 CTCTCTTTAT
22129186 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
22129211 TATTTAGATT
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:22134082 original size:21 final size:22
Alignment explanation
Indices: 22134057--22134108 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
22134047 TATTTAACCC
*
22134057 AAAATTAATTGGATTAT-AATT
1 AAAATTAATTAGATTATAAATT
* *
22134078 AAAATCAATTATATTATAAATT
1 AAAATTAATTAGATTATAAATT
*
22134100 AATATTAAT
1 AAAATTAAT
22134109 AAATTGGACC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (22 bp):
AAAATTAATTAGATTATAAATT
Found at i:22134242 original size:10 final size:10
Alignment explanation
Indices: 22134229--22134253 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22134219 GAATTTATCG
22134229 AAAATAAATC
1 AAAATAAATC
22134239 AAAATAAATC
1 AAAATAAATC
22134249 AAAAT
1 AAAAT
22134254 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATC
Found at i:22137646 original size:98 final size:98
Alignment explanation
Indices: 22137467--22137663 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
22137457 ATACAATAAA
* *
22137467 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATGCGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
* *
22137532 CCTTTAGAATCTCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
* *
22137565 ACTTTAAAAGAACATCCACTTGTCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
22137630 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
22137663 A
1 A
22137664 TGATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:22137959 original size:15 final size:15
Alignment explanation
Indices: 22137941--22137974 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
22137931 AAATGTTATG
22137941 ATGATAAATACAACA
1 ATGATAAATACAACA
*
22137956 ATGATAAATACATCA
1 ATGATAAATACAACA
22137971 ATGA
1 ATGA
22137975 CATAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.24
Consensus pattern (15 bp):
ATGATAAATACAACA
Found at i:22139140 original size:21 final size:21
Alignment explanation
Indices: 22139114--22139210 Score: 162
Period size: 21 Copynumber: 4.7 Consensus size: 21
22139104 AATCATATCT
*
22139114 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
*
22139135 TCTAAGATTGCACATATCATA
1 TCTAAGATTGCATATATCATA
22139156 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
22139177 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
22139196 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
22139211 CCTAGAAAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 19 0.27
21 52 0.73
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:22139191 original size:40 final size:41
Alignment explanation
Indices: 22139107--22139210 Score: 169
Period size: 40 Copynumber: 2.6 Consensus size: 41
22139097 ATTACAAAAT
*
22139107 CATATC-T-TCTAAGATTGTATATATCATATCTAAGATTGCA
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTG-A
22139147 CATATCATATCTAAGATTGCATATATCATATCTAAGATTG-
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGA
22139187 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
22139211 CCTAGAAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
40 30 0.49
41 1 0.02
42 30 0.49
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (41 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTGA
Found at i:22139585 original size:44 final size:45
Alignment explanation
Indices: 22139488--22140197 Score: 664
Period size: 44 Copynumber: 16.1 Consensus size: 45
22139478 GAACAAAATT
* * * * * *
22139488 TGCTATCTTCGATCTTCTTC-ACGCCAATACATGAAGACAATATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
22139532 TGCTTTCTTCGATCAACTTCGCCACCAGTATGGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * * *
22139577 TAC-ATCTTCGATCCACTTCACTACCAATATAGGAAGACAGGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* ** * * *
22139621 TGCTATCTTCAATCTACTT-TACGCCAATACATGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * *
22139665 TGCTTTCTTCGATCTACTTCGCCACCAGTAT-GGGAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
22139709 TGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
22139752 TGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
22139796 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAATACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
22139841 TAC-ATCTTTGATCCACTTCGCTACCAATATAGGAAGAC-AGAATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG-ATC
*** * * *
22139885 TGCTATCTTCGATCTACTTC-ATGCCAATACATGAAGACAAGATA
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * *
22139929 TGCTTTCTTCGATCTACTTCGCCACCAGTAT-GGGAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
22139973 TGC-ATCTTCGATCCACTTC-CTACCAACATAGGAAGACAGGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
22140016 TGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * *
22140060 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
22140105 TGC-ATCTTCGATCCAC-TC-CCTACTAATATAGGAAGACAGGACC
1 TGCTATCTTCGATCTACTTCGCC-ACCAATATAGGAAGACAAGATC
* * * *
22140148 TGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
22140192 TGCTAT
1 TGCTAT
22140198 TTTTAACCTG
Statistics
Matches: 528, Mismatches: 122, Indels: 32
0.77 0.18 0.05
Matches are distributed among these distances:
42 17 0.03
43 79 0.15
44 330 0.62
45 102 0.19
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (45 bp):
TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
Found at i:22139787 original size:131 final size:132
Alignment explanation
Indices: 22139488--22140195 Score: 1231
Period size: 131 Copynumber: 5.4 Consensus size: 132
22139478 GAACAAAATT
* * *
22139488 TGCTATCTTCGATCTTCTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCAACTTCG
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
*
22139553 CCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCACTACCAATATAGGAAGACAGG
66 CCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGG
22139618 ATC
130 ATC
* *
22139621 TGCTATCTTCAATCTACTTTACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
*
22139686 CCACCAGTATGGG-AGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGA
66 CCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGA
22139750 TC
131 TC
22139752 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
* * * *
22139817 CCACCAGTATGGGAATACAAGATCTACATCTTTGATCCACTTCGCTACCAATATAGGAAGACAGA
66 CCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGG
22139882 ATC
130 ATC
* *
22139885 TGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATATGCTTTCTTCGATCTACTTCG
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
*
22139950 CCACCAGTATGGG-AGACAAGATCTGCATCTTCGATCCACTTCCTACCAACATAGGAAGACAGGA
66 CCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGA
22140014 TC
131 TC
22140016 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
* *
22140081 CCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTCCCTACTAATATAGGAAGACAGGA
66 CCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGA
*
22140146 CC
131 TC
22140148 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
22140196 ATTTTTAACC
Statistics
Matches: 545, Mismatches: 27, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
131 197 0.36
132 177 0.32
133 171 0.31
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (132 bp):
TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
CCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGA
TC
Found at i:22139958 original size:264 final size:264
Alignment explanation
Indices: 22139488--22140195 Score: 1256
Period size: 264 Copynumber: 2.7 Consensus size: 264
22139478 GAACAAAATT
* * *
22139488 TGCTATCTTCGATCTTCTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCAACTTCG
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
22139553 CCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCACTACCAATATAGGAAGACAGG
66 CCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCACTACCAATATAGGAAGACAGG
* *
22139618 ATCTGCTATCTTCAATCTACTTTACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
131 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
* *
22139683 TCGCCACCAGTATGGGAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
196 TCGCCACCAGTATGGGAGACAAGATCTGCATCTTCGATCCACTTCCTACCAACATAGGAAGACAG
22139748 GATC
261 GATC
22139752 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
* * * *
22139817 CCACCAGTATGGGAATACAAGATCTACATCTTTGATCCACTTCGCTACCAATATAGGAAGACAGA
66 CCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCACTACCAATATAGGAAGACAGG
* *
22139882 ATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATATGCTTTCTTCGATCTACT
131 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
22139947 TCGCCACCAGTATGGGAGACAAGATCTGCATCTTCGATCCACTTCCTACCAACATAGGAAGACAG
196 TCGCCACCAGTATGGGAGACAAGATCTGCATCTTCGATCCACTTCCTACCAACATAGGAAGACAG
22140012 GATC
261 GATC
22140016 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
* * *
22140081 CCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC-TCCCTACTAATATAGGAAGACAGG
66 CCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCACTACCAATATAGGAAGACAGG
*
22140145 ACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
131 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
22140196 ATTTTTAACC
Statistics
Matches: 422, Mismatches: 22, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
263 69 0.16
264 353 0.84
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (264 bp):
TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
CCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCACTACCAATATAGGAAGACAGG
ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
TCGCCACCAGTATGGGAGACAAGATCTGCATCTTCGATCCACTTCCTACCAACATAGGAAGACAG
GATC
Found at i:22140274 original size:44 final size:44
Alignment explanation
Indices: 22140199--22140497 Score: 185
Period size: 44 Copynumber: 6.9 Consensus size: 44
22140189 ATCTGCTATT
* * * *
22140199 TTTAACCTGCTCCACTGTAATTTCAGG-GAGATAGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTAT-GGC
**
22140243 TTTAATCTGCTCCACTGCAACTTC-GGAGAGATAAGATT-TTCC
1 TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTATGGC
* *
22140285 ATCTTCAGTCTGC-CTCACTGCAACTTCAGGAG-GATAAGACT-T-GC
1 -T-TT-AATCTGCTC-CACTGCAACTTCAGGAGAGATAAGATTATGGC
* * *
22140329 TTACTTAGTCTGCTCCACTGCAACTTCAGG-GAGATAAGACTA--GA
1 -T--TTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTATGGC
*** * * * **
22140373 TGCGATCTGCT-CACTGCAACTTCA-AAGGGATAAGATCTGTGAT
1 TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGAT-TATGGC
* * * *
22140416 TTTAATCCGCTGCACTACAACTTCAGGA-AGATAGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTAT-GGC
* *
22140460 TCTAATCTGCTCCACTGCAACTTCAGG-GATATAAGATT
1 TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATT
22140498 TGCCATCTTC
Statistics
Matches: 199, Mismatches: 38, Indels: 36
0.73 0.14 0.13
Matches are distributed among these distances:
40 21 0.11
41 7 0.04
42 1 0.01
43 15 0.08
44 119 0.60
45 32 0.16
46 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTATGGC
Found at i:22140437 original size:84 final size:84
Alignment explanation
Indices: 22140293--22140448 Score: 192
Period size: 84 Copynumber: 1.8 Consensus size: 84
22140283 CCATCTTCAG
* * * * *
22140293 TCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAG
1 TCTGCCTCACTGCAACTTCAAGAGGATAAGACTTGATTA-TTAATCCGCTCCACTACAACTTCAG
*
22140358 GGAGATAAGACTAGATGCGA
65 GAAGATAAGACTAGATGCGA
*
22140378 TCTG-CTCACTGCAACTTCAA-AGGGATAAGATCTGTGATT-TTAATCCGCTGCACTACAACTTC
1 TCTGCCTCACTGCAACTTCAAGA-GGATAAGA-CT-TGATTATTAATCCGCTCCACTACAACTTC
22140440 AGGAAGATA
63 AGGAAGATA
22140449 GGATTATCGG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
83 1 0.02
84 50 0.82
85 6 0.10
86 4 0.07
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (84 bp):
TCTGCCTCACTGCAACTTCAAGAGGATAAGACTTGATTATTAATCCGCTCCACTACAACTTCAGG
AAGATAAGACTAGATGCGA
Found at i:22140639 original size:132 final size:132
Alignment explanation
Indices: 22140464--22141526 Score: 1725
Period size: 132 Copynumber: 8.1 Consensus size: 132
22140454 ATCGGCTCTA
* ** * * * * *
22140464 ATCTGCTCCACTGCAACTTCAGGGATATAAGATTTGCCATCTTCAACCTTCTCCACTGCTGCTCA
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCA
* * *
22140529 GGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCTGTCT
65 GGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCT
22140594 TCG
130 TCG
* *
22140597 ATCTGTTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
* * *
22140662 GAAGACAA-GCTTGGTGGCTCAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTCACCGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTT
22140726 CG
131 CG
* *
22140728 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGTTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
* *
22140793 GGAGACAAGGCTTGGTGGCTTAAATCTGGTTCCCACTATCTTGGAAAGATAAGATTCACCGACTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTT
22140858 CG
131 CG
* **
22140860 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCATTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
* *
22140925 GGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTT
22140990 CG
131 CG
*
22140992 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
* * *
22141057 GGAGACAAAGATTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTT
22141122 CG
131 CG
* * * *
22141124 ATCTGCTCCACTACTACTTAGGGAGATAAGATTTACAATTTTCAACCTTCTCCGCTGCTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
* *
22141189 GGAGACAACGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTT
22141254 CG
131 CG
* *
22141256 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCCGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
*
22141321 GGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGA-CGTCT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC-ACCGTCT
22141385 TCG
130 TCG
*
22141388 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
*
22141453 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCATTATCTTGGAAAGATAAGATTCACCGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTT
*
22141518 TG
131 CG
22141520 ATCTGCT
1 ATCTGCT
22141527 TCGCTGTCGG
Statistics
Matches: 864, Mismatches: 63, Indels: 7
0.93 0.07 0.01
Matches are distributed among these distances:
131 123 0.14
132 726 0.84
133 15 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (132 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTT
CG
Found at i:22141298 original size:44 final size:44
Alignment explanation
Indices: 22140590--22141457 Score: 208
Period size: 44 Copynumber: 19.8 Consensus size: 44
22140580 AAGATTCGCT
* * *
22140590 GTCTTCGATCTGTTCTACTACTGCTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * * * * ***
22140634 ATCTTCAACCTTCTCCGCTGCTGCTCAGGAAGACAAGCT-TGGT
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * *
22140677 GGC-TCAAATCTGCTTTCCACTA-T-CTT-GGAAAGATAAGAT-TCACC
1 GTCTTC-AATCTGC--TCCACTACTGCTTAGG-GAGATAAGATCT-ACA
*
22140721 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * * * **
22140765 ATTTTCAACCTTCTCCGCTGCTG-TTCAGGGAGACAAG-GCT-TG
1 GTCTTCAATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACA
* * * *
22140807 GTGGCTTAAATCTGGTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCACC
1 GT--CTTCAATCT-GCT-CCACTACTGCTTAGG-GAGATAAGATCT-ACA
* * *
22140853 GACTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * * * **
22140897 ATCTTCAACCTTCTCCATTGCTGCTCAGGGAGACAAG-GCT-TG
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * *
22140939 GTGGC-TCAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCGCC
1 GT--CTTC-AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACA
* *
22140985 GTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * * ***
22141029 ATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAAGAT-TGGT
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGA-TAAGATCTACA
* * * * *
22141073 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCGCC
1 GTCTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACA
* * *
22141117 GTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATTTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * * * ***
22141161 ATTTTCAACCTTCTCCGCTGCTGCTTAGGGAGACAACGCT-TTGT
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAA-GATCTACA
* * * *
22141205 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCACC
1 GTCTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACA
*
22141249 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * * * **
22141293 ATCTTCAACCTTCTCCACTGCCGCTCAGGGAGACAAG-GCT-TG
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* *
22141335 GTGGC-TCAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCGAC-
1 GT--CTTC-AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGA-TCTACA
* *
22141381 GTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * *
22141425 ATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
22141458 CAAGGCTTGG
Statistics
Matches: 569, Mismatches: 185, Indels: 140
0.64 0.21 0.16
Matches are distributed among these distances:
42 43 0.08
43 65 0.11
44 388 0.68
45 46 0.08
46 27 0.05
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
Found at i:22142807 original size:11 final size:11
Alignment explanation
Indices: 22142782--22142814 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
22142772 GGCCTCTCCA
22142782 TTTTCTTTCTTC
1 TTTTCTTT-TTC
22142794 TTTTCTTTTTC
1 TTTTCTTTTTC
22142805 TTTT-TTTTTC
1 TTTTCTTTTTC
22142815 GAAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.29
11 7 0.33
12 8 0.38
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:22147790 original size:23 final size:25
Alignment explanation
Indices: 22147738--22147784 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
22147728 CAATTGAAAT
22147738 AAAAATAAATAAAAGGATAAATTAAG
1 AAAAATAAATAAAA-GATAAATTAAG
*
22147764 AAAAATAAA-AAAA-ATTAATTA
1 AAAAATAAATAAAAGATAAATTA
22147785 CAAAAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
25 4 0.20
26 9 0.45
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (25 bp):
AAAAATAAATAAAAGATAAATTAAG
Found at i:22148127 original size:21 final size:21
Alignment explanation
Indices: 22148101--22148157 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
22148091 AATCATATCT
* *
22148101 TCTAAGATTGTATATATTATA
1 TCTAAGATTGCATATATCATA
22148122 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
22148143 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
22148158 CCTAGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:22148877 original size:15 final size:16
Alignment explanation
Indices: 22148853--22148885 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22148843 TTTTTAAATT
22148853 AAAAATTTAAGTACTG
1 AAAAATTTAAGTACTG
*
22148869 AAAAA-TTAAGTATTG
1 AAAAATTTAAGTACTG
22148884 AA
1 AA
22148886 TTTATATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (16 bp):
AAAAATTTAAGTACTG
Found at i:22159653 original size:21 final size:21
Alignment explanation
Indices: 22159598--22159688 Score: 92
Period size: 21 Copynumber: 4.3 Consensus size: 21
22159588 GTGTTTTACT
* *
22159598 TTCTGTTTAGCTCTTTCGAGC
1 TTCTGTTCAGCTCTTACGAGC
* *
22159619 TTCAGTTTAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
* * *
22159640 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
* **
22159661 TTCTGTTCGGCTCTTTTGAGC
1 TTCTGTTCAGCTCTTACGAGC
22159682 TTCTGTT
1 TTCTGTT
22159689 GGAGTATCTG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.47
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTACGAGC
Found at i:22162324 original size:3 final size:3
Alignment explanation
Indices: 22162303--22162342 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
22162293 TAGCCATTTT
* *
22162303 TTA TTT TTA TTA -CA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22162343 CATTCTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 1 0.03
3 31 0.97
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22164299 original size:41 final size:42
Alignment explanation
Indices: 22164254--22164332 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
22164244 GAGGTGTGAT
* * *
22164254 TTCGTGTAAGACCATGTCT-GAGACATTGGCATC-ATATATGA
1 TTCGTATAAAACCATGTCTAG-GACAGTGGCATCGATATATGA
*
22164295 TTCGTATAAAACCCTGTCTAGGACAGTGGCATCGATAT
1 TTCGTATAAAACCATGTCTAGGACAGTGGCATCGATAT
22164333 GCATTAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 27 0.84
42 5 0.16
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (42 bp):
TTCGTATAAAACCATGTCTAGGACAGTGGCATCGATATATGA
Found at i:22167917 original size:15 final size:15
Alignment explanation
Indices: 22167886--22167951 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
22167876 GCTACCCCTT
*
22167886 TTATTTTATTTTATTA
1 TTATTTT-TTATATTA
22167902 TTATTTTTTATATTA
1 TTATTTTTTATATTA
* *
22167917 TT-TATTTTTATTTTCC
1 TTAT-TTTTTATATT-A
*
22167933 TAATTTTTTAT-TTA
1 TTATTTTTTATATTA
22167947 TTATT
1 TTATT
22167952 CTAATACTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
14 5 0.12
15 20 0.49
16 15 0.37
17 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTTTTTATATTA
Found at i:22167920 original size:22 final size:23
Alignment explanation
Indices: 22167884--22167951 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
22167874 AAGCTACCCC
*
22167884 TTTTATTTTATTTTATTATTATT
1 TTTTATATTATTTTATTATTATT
*
22167907 TTTTATATTA-TTTATTTTTATT
1 TTTTATATTATTTTATTATTATT
*
22167929 TTCCTA-ATT-TTTTATTTATTATT
1 TT-TTATATTATTTTA-TTATTATT
22167952 CTAATACTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 20 0.53
23 18 0.47
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTATATTATTTTATTATTATT
Found at i:22167992 original size:17 final size:18
Alignment explanation
Indices: 22167972--22168005 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22167962 GATTTTAAAT
22167972 TTATTTTAATT-TTTCTA
1 TTATTTTAATTATTTCTA
*
22167989 TTATTTTTATTATTTCT
1 TTATTTTAATTATTTCT
22168006 TTTTTACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATTTTAATTATTTCTA
Found at i:22168158 original size:24 final size:23
Alignment explanation
Indices: 22168112--22168158 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
22168102 GCTTTATTTA
* *
22168112 TTTATTTATTTTCTTAAACTTAT
1 TTTAATTATTTTCTTAAAATTAT
*
22168135 TTTAATTATTATTTTTAAAATTAT
1 TTTAATTATT-TTCTTAAAATTAT
22168159 ATTTTATGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTAATTATTTTCTTAAAATTAT
Found at i:22171715 original size:60 final size:60
Alignment explanation
Indices: 22171649--22171815 Score: 185
Period size: 60 Copynumber: 2.8 Consensus size: 60
22171639 ATATTTTAGG
* * * * *
22171649 TAAACTGCCA-AAAT-TGCAAACAAGCTGCCAGTATTGTGGACAAGCTACCAGTAATGCATA
1 TAAACTGCCAGAAATGTG--AACAAGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAAA
* * * *
22171709 TAAACTGCTAGTAATGTGGACTAGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAAA
1 TAAACTGCCAGAAATGTGAACAAGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAAA
* * * *
22171769 TAAACTGCTAGTAATGTGGACTAGCTACCAGTAATGTGAACAAGCCA
1 TAAACTGCCAGAAATGTGAACAAGCTACCAGTAATGTGAACAAGCCA
22171816 TCAGAATTGC
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
60 91 0.95
61 3 0.03
62 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (60 bp):
TAAACTGCCAGAAATGTGAACAAGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAAA
Found at i:22171741 original size:20 final size:20
Alignment explanation
Indices: 22171718--22171809 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 20
22171708 ATAAACTGCT
*
22171718 AGTAATGTGGACTAGCTACC
1 AGTAATGTGAACTAGCTACC
* *
22171738 AGTAATGTGAACAAGCCACC
1 AGTAATGTGAACTAGCTACC
* * * * *
22171758 AGTAATG-CAAATAAACTGCT
1 AGTAATGTGAACT-AGCTACC
*
22171778 AGTAATGTGGACTAGCTACC
1 AGTAATGTGAACTAGCTACC
22171798 AGTAATGTGAAC
1 AGTAATGTGAAC
22171810 AAGCCATCAG
Statistics
Matches: 53, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
19 2 0.04
20 49 0.92
21 2 0.04
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (20 bp):
AGTAATGTGAACTAGCTACC
Found at i:22171837 original size:60 final size:60
Alignment explanation
Indices: 22171671--22171841 Score: 236
Period size: 60 Copynumber: 2.9 Consensus size: 60
22171661 ATTGCAAACA
* * * * * *
22171671 AGCTGCCAGTATTGTGGACAAGCTACCAGTAATGCATATAAACTGCTAGTAATGTGGACT
1 AGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAAACAAACTGCTAGTAATGTGGACT
*
22171731 AGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAAATAAACTGCTAGTAATGTGGACT
1 AGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAAACAAACTGCTAGTAATGTGGACT
* * *
22171791 AGCTACCAGTAATGTGAACAAGCCATCAG-AATTGCAGACAAGCTGCTAGTA
1 AGCTACCAGTAATGTGAACAAGCCACCAGTAA-TGCAAACAAACTGCTAGTA
22171842 CTTCATTCTT
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
59 2 0.02
60 99 0.98
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (60 bp):
AGCTACCAGTAATGTGAACAAGCCACCAGTAATGCAAACAAACTGCTAGTAATGTGGACT
Found at i:22175764 original size:63 final size:63
Alignment explanation
Indices: 22175665--22175791 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
22175655 TAGAAATAGA
22175665 TAGTTAAAATCAACACTGGCCCTTCTGTGTCAATAGTTGCTTTACTGTTTTAACTAGTTGACT
1 TAGTTAAAATCAACACTGGCCCTTCTGTGTCAATAGTTGCTTTACTGTTTTAACTAGTTGACT
*
22175728 TAGTTAAAATCAACACTGGCCCTTCTGTTTCAATAGTTGCTTTACTGTTTTAACTAGTTGACT
1 TAGTTAAAATCAACACTGGCCCTTCTGTGTCAATAGTTGCTTTACTGTTTTAACTAGTTGACT
22175791 T
1 T
22175792 CACACCCCAC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (63 bp):
TAGTTAAAATCAACACTGGCCCTTCTGTGTCAATAGTTGCTTTACTGTTTTAACTAGTTGACT
Found at i:22177035 original size:37 final size:39
Alignment explanation
Indices: 22176976--22177050 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 39
22176966 CACGTTAACA
* *
22176976 TTTAATTGATTTTTAAAATTTAAAAA-TATTTTTTATAT
1 TTTAATTGAATTTTAAAATTTAAAAACAATTTTTTATAT
**
22177014 TTTAA-TGAATTTTAATTTTTAAAAACAATTTTTTATA
1 TTTAATTGAATTTTAAAATTTAAAAACAATTTTTTATA
22177051 ATTATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (39 bp):
TTTAATTGAATTTTAAAATTTAAAAACAATTTTTTATAT
Found at i:22177715 original size:6 final size:6
Alignment explanation
Indices: 22177704--22177742 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
22177694 ACATTTAAAA
22177704 ATAATT ATAATT ATAATT ATAATT ATAATT CATAATT AT
1 ATAATT ATAATT ATAATT ATAATT ATAATT -ATAATT AT
22177743 TAGTTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (6 bp):
ATAATT
Found at i:22178787 original size:22 final size:22
Alignment explanation
Indices: 22178757--22178798 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
22178747 ACAACAAAAC
*
22178757 AGGCTTTTAGCG-GCCTTTTTTT
1 AGGCCTTTAGCGCG-CTTTTTTT
22178779 AGGCCTTTAGCGCGCTTTTT
1 AGGCCTTTAGCGCGCTTTTT
22178799 AGCGCCGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.45
Consensus pattern (22 bp):
AGGCCTTTAGCGCGCTTTTTTT
Found at i:22178959 original size:43 final size:43
Alignment explanation
Indices: 22178870--22178966 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
22178860 ATGTCACTAA
* * * *
22178870 CTTTTGCGGCGTTTGTGTTTAAAGCGCCGCTAAAAGTCATGTT
1 CTTTTGCGGCGTTTGTGGTAAAAGCGCCGCTAAAAGACATGAT
* *
22178913 CTTTTGCGGTGTTTGTGGTAAAAGTGCCGCT-AAAGAACATGAT
1 CTTTTGCGGCGTTTGTGGTAAAAGCGCCGCTAAAAG-ACATGAT
*
22178956 CTTTAGCGGCG
1 CTTTTGCGGCG
22178967 CCTTACTCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
42 4 0.09
43 41 0.91
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.34
Consensus pattern (43 bp):
CTTTTGCGGCGTTTGTGGTAAAAGCGCCGCTAAAAGACATGAT
Found at i:22179037 original size:42 final size:43
Alignment explanation
Indices: 22178975--22179083 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 43
22178965 CGCCTTACTC
* *
22178975 AACATGATCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAA-
1 AACATGATCTTTAGCAGCGCTTTTAACACAAACGCCGCTAAAG
* *
22179017 AACATGATCTTTAGCAGCGCTTTAAATACAAACGCCGCTAAAG
1 AACATGATCTTTAGCAGCGCTTTTAACACAAACGCCGCTAAAG
22179060 AACATGATCTTTAGCAGCGCTTTT
1 AACATGATCTTTAGCAGCGCTTTT
22179084 GATAAAAGCG
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
42 38 0.62
43 23 0.38
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
AACATGATCTTTAGCAGCGCTTTTAACACAAACGCCGCTAAAG
Found at i:22179101 original size:43 final size:42
Alignment explanation
Indices: 22178975--22179102 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
22178965 CGCCTTACTC
* *
22178975 AACATGATCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAA-
1 AACATGATCTTTAGCAGCGCTTTTA-TACAAACGCCGCTAAAG
*
22179017 AACATGATCTTTAGCAGCGCTTTAAATACAAACGCCGCTAAAG
1 AACATGATCTTTAGCAGCGCTTT-TATACAAACGCCGCTAAAG
*
22179060 AACATGATCTTTAGCAGCGCTTTTGATA-AAAGCGCCACTAAAG
1 AACATGATCTTTAGCAGCGCTTTT-ATACAAA-CGCCGCTAAAG
22179103 GTCATAAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
42 40 0.52
43 37 0.48
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
AACATGATCTTTAGCAGCGCTTTTATACAAACGCCGCTAAAG
Found at i:22183869 original size:47 final size:48
Alignment explanation
Indices: 22183816--22183914 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 48
22183806 CATAGTTTTG
* * *
22183816 TTTAAGTAATATTTATAAAAATTAGATAAATTTATAAATTTTAGT-TT
1 TTTAAGTAATATATATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
22183863 TTTAAGTAATATATATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
1 TTTAAGTAATATATATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
22183911 TTTA
1 TTTA
22183915 TTTCATTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 42 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (48 bp):
TTTAAGTAATATATATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
Found at i:22183935 original size:19 final size:18
Alignment explanation
Indices: 22183899--22183952 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
22183889 TAAAATTAAA
22183899 AATTTTAGTGTTTTTATTTC
1 AATTTTA-T-TTTTTATTTC
* *
22183919 ATTTTTATTTTTGTATTTT
1 AATTTTATTTTT-TATTTC
*
22183938 AATTTTATTTCTTAT
1 AATTTTATTTTTTAT
22183953 AATTTGATCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (18 bp):
AATTTTATTTTTTATTTC
Found at i:22183937 original size:25 final size:26
Alignment explanation
Indices: 22183900--22183952 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
22183890 AAAATTAAAA
* *
22183900 ATTTTAGTGTTTTTATTTCATTT-TT
1 ATTTTAGTATTTTAATTTCATTTCTT
* *
22183925 ATTTTTGTATTTTAATTTTATTTCTT
1 ATTTTAGTATTTTAATTTCATTTCTT
22183951 AT
1 AT
22183953 AATTTGATCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (26 bp):
ATTTTAGTATTTTAATTTCATTTCTT
Found at i:22184282 original size:22 final size:22
Alignment explanation
Indices: 22184235--22184297 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
22184225 ATTACATAAT
*
22184235 TTAAA-CCCTAACT-C-GACCC
1 TTAAATCCCTAACTCCTAACCC
* * *
22184254 TTGAATCCTTAAGTCCTAACCC
1 TTAAATCCCTAACTCCTAACCC
*
22184276 TTAAATCCCTAACTCTTAACCC
1 TTAAATCCCTAACTCCTAACCC
22184298 CTAACCCCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
19 4 0.12
20 6 0.18
21 1 0.03
22 22 0.67
ACGTcount: A:0.30, C:0.37, G:0.05, T:0.29
Consensus pattern (22 bp):
TTAAATCCCTAACTCCTAACCC
Found at i:22184288 original size:15 final size:14
Alignment explanation
Indices: 22184268--22184336 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
22184258 ATCCTTAAGT
*
22184268 CCTAACCCTTAAATC
1 CCTAACCCTT-AACC
*
22184283 CCTAACTCTTAACC
1 CCTAACCCTTAACC
*
22184297 CCTAACCCCTAACC
1 CCTAACCCTTAACC
*
22184311 ACTAACCAC-TAACC
1 CCTAACC-CTTAACC
* *
22184325 CTTAAACCTTAA
1 CCTAACCCTTAA
22184337 ATCCCAACCT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
13 1 0.02
14 33 0.75
15 10 0.23
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (14 bp):
CCTAACCCTTAACC
Found at i:22184302 original size:7 final size:7
Alignment explanation
Indices: 22184268--22184325 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
22184258 ATCCTTAAGT
22184268 CCTAACC
1 CCTAACC
* *
22184275 CTTAAATC
1 CCT-AACC
*
22184283 CCTAACT
1 CCTAACC
*
22184290 CTTAACC
1 CCTAACC
22184297 CCTAACC
1 CCTAACC
22184304 CCTAACC
1 CCTAACC
*
22184311 ACTAACC
1 CCTAACC
*
22184318 ACTAACC
1 CCTAACC
22184325 C
1 C
22184326 TTAAACCTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 35 0.88
8 5 0.12
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.21
Consensus pattern (7 bp):
CCTAACC
Found at i:22184479 original size:7 final size:7
Alignment explanation
Indices: 22184467--22184599 Score: 56
Period size: 7 Copynumber: 18.6 Consensus size: 7
22184457 CTAGTTAATC
22184467 TAAACCA
1 TAAACCA
22184474 TAAACCA
1 TAAACCA
*
22184481 TAAA-CT
1 TAAACCA
*
22184487 TAAACCC
1 TAAACCA
*
22184494 TAAAACCC
1 T-AAACCA
22184502 TAAAACCA
1 T-AAACCA
*
22184510 TAAACCC
1 TAAACCA
*
22184517 TTAACACA
1 TAAAC-CA
*
22184525 T-AACCTT
1 TAAACC-A
*
22184532 TAAACCT
1 TAAACCA
*
22184539 TAAACCC
1 TAAACCA
* *
22184546 T-AGCCTT
1 TAAACC-A
*
22184553 TAAACCT
1 TAAACCA
22184560 TAAACCA
1 TAAACCA
* *
22184567 TAACCCC
1 TAAACCA
22184574 TAAACCCA
1 TAAA-CCA
*
22184582 TAATCCA
1 TAAACCA
*
22184589 TAAACCT
1 TAAACCA
22184596 TAAA
1 TAAA
22184600 ATGGTAACAC
Statistics
Matches: 99, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
6 9 0.09
7 62 0.63
8 28 0.28
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:22185031 original size:114 final size:113
Alignment explanation
Indices: 22184831--22185332 Score: 754
Period size: 114 Copynumber: 4.4 Consensus size: 113
22184821 ATCCCTGAGA
* *
22184831 ATTAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGAGC
1 ATTAGCGGCGCTTTCTT-AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
** *
22184896 TTAGGTTTTTTTGTAGCGCTTTCCCAAAAACGCCGCTAAAGCCATAAGC
65 TTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTAAGC
*
22184945 ATTAGCGGCGCTTTCTTAAAAGCGCCGCTAAATCCCCGAAAGATCAGAAAACGGCGTCGTTGGGC
1 ATTAGCGGCGCTTTCTTAAAA-CGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
* * *
22185010 TTAGGATTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAAGCCCTGAGC
65 TTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCT-AAAGCCCTAAGC
*
22185060 ATTAGCGGCGCTTTCTTATAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGC
1 ATTAGCGGCGCTTTCTTA-AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
* * *
22185125 TTAGGTTTTTTTACGGCGCTTTCTCAAAAACGCCACTAAAGCCCTGAA-C
65 TTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT-AAGC
* * * *
22185174 ATTAGCGGCGCTTTATTAAAAACGTCGCTAAATCCACGAAAGCTTAGAAAACGGCGTCGTTGGGC
1 ATTAGCGGCGCTTTCTT-AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
* * *
22185239 TTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGTCCTGAGC
65 TTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTAAGC
22185288 ATTAGCGGCGCTTTCTTAAGAACGCCGCTAAATCCCCGAAAGCTC
1 ATTAGCGGCGCTTTCTTAA-AACGCCGCTAAATCCCCGAAAGCTC
22185333 GTTGGGCTTA
Statistics
Matches: 351, Mismatches: 30, Indels: 14
0.89 0.08 0.04
Matches are distributed among these distances:
113 7 0.02
114 238 0.68
115 103 0.29
116 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (113 bp):
ATTAGCGGCGCTTTCTTAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTAAGC
Found at i:22185225 original size:229 final size:227
Alignment explanation
Indices: 22184818--22185332 Score: 789
Period size: 229 Copynumber: 2.3 Consensus size: 227
22184808 TAAATTATTT
* * *
22184818 TAAATCCCTGAGAATTAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTT-AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
** *
22184883 GGCGTCGTTGAGCTTAGGTTTTTTTGTAGCGCTTTCCCAAAAACGCCGCTAAAGCCATAAGCATT
65 GGCGTCGTTGAGCTTAGGTTTTTTTACAGCGCTTTCCCAAAAACGCCACTAAAGCCATAAGCATT
* * *
22184948 AGCGGCGCTTTCTTAAAAGCGCCGCTAAATCCCCGAAAGATCAGAAAACGGCGTCGTTGGGCTTA
130 AGCGGCGCTTTATTAAAAACGCCGCTAAATCCACGAAAGATCAGAAAACGGCGTCGTTGGGCTTA
*
22185013 GGATTTTTTGCGGCGCTTTCCCAAAAATGCCGC
195 GGATTTTTTGCGGCGCTTTCCCAAAAACGCCGC
*
22185046 TAAAAGCCCTGAGCATTAGCGGCGCTTTCTTATAAACGCCGCTAAATCCCCAAAAGCTCAGAAAA
1 T-AAAGCCCTGAGCATTAGCGGCGCTTTCTTA-AAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
* * * *
22185111 CGGCGTCGTTGGGCTTAGGTTTTTTTACGGCGCTTTCTCAAAAACGCCACTAAAGCCCTGAA-CA
64 CGGCGTCGTTGAGCTTAGGTTTTTTTACAGCGCTTTCCCAAAAACGCCACTAAAGCCAT-AAGCA
* * *
22185175 TTAGCGGCGCTTTATTAAAAACGTCGCTAAATCCACGAAAGCTTAGAAAACGGCGTCGTTGGGCT
128 TTAGCGGCGCTTTATTAAAAACGCCGCTAAATCCACGAAAGATCAGAAAACGGCGTCGTTGGGCT
* *
22185240 TAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
193 TAGGATTTTTTGCGGCGCTTTCCCAAAAACGCCGC
*
22185275 TAAAGTCCTGAGCATTAGCGGCGCTTTCTTAAGAACGCCGCTAAATCCCCGAAAGCTC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAA-AACGCCGCTAAATCCCCGAAAGCTC
22185333 GTTGGGCTTA
Statistics
Matches: 261, Mismatches: 22, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
227 1 0.00
228 55 0.21
229 203 0.78
230 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (227 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACG
GCGTCGTTGAGCTTAGGTTTTTTTACAGCGCTTTCCCAAAAACGCCACTAAAGCCATAAGCATTA
GCGGCGCTTTATTAAAAACGCCGCTAAATCCACGAAAGATCAGAAAACGGCGTCGTTGGGCTTAG
GATTTTTTGCGGCGCTTTCCCAAAAACGCCGC
Found at i:22186964 original size:22 final size:22
Alignment explanation
Indices: 22186934--22186976 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22186924 ACACCAAAAC
* * *
22186934 AGGCTTTTAGTGGCGCTTTTTT
1 AGGCCTTTAGCGGCACTTTTTT
22186956 AGGCCTTTAGCGGCACTTTTT
1 AGGCCTTTAGCGGCACTTTTT
22186977 AGCGCCGCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCACTTTTTT
Found at i:22187105 original size:44 final size:42
Alignment explanation
Indices: 22187049--22187210 Score: 137
Period size: 42 Copynumber: 3.8 Consensus size: 42
22187039 CGTCGCTAAC
22187049 TTTAGCGACGTTTTTAGAAACAAACGCCGCTAAAGAACAAGACA
1 TTTAGCGACGTTTTT--AAACAAACGCCGCTAAAGAACAAGACA
** * *
22187093 TTTAGCTG-CGTTTTTCCACAAACGCCGCTAAAGACCAAGACC
1 TTTAGC-GACGTTTTTAAACAAACGCCGCTAAAGAACAAGACA
* * * *** * *
22187135 TTTAACGGCGCTTTCCTACAAACGCCGCTAAAGACCAAGACC
1 TTTAGCGACGTTTTTAAACAAACGCCGCTAAAGAACAAGACA
* * ** *
22187177 TTTAACGACGCTTTTCCACAAACGTCGCTAAAGA
1 TTTAGCGACGTTTTTAAACAAACGCCGCTAAAGA
22187211 CCATAACCTT
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 89 0.86
44 13 0.12
45 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
TTTAGCGACGTTTTTAAACAAACGCCGCTAAAGAACAAGACA
Found at i:22187233 original size:42 final size:42
Alignment explanation
Indices: 22187068--22187294 Score: 253
Period size: 42 Copynumber: 5.4 Consensus size: 42
22187058 GTTTTTAGAA
* * * *
22187068 ACAAACGCCGCTAAAGAACAAGACATTTAGCTGCGTTTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
*
22187110 ACAAACGCCGCTAAAGACCAAGACCTTTAACGGCGC-TTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
* *
22187151 TACAAACGCCGCTAAAGACCAAGACCTTTAACGACGCTTTTCC
1 -ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
* *
22187194 ACAAACGTCGCTAAAGACCATA-ACCTTTAGCGGCACTTTTCGTC
1 ACAAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTTC--C
* * * * *
22187238 AAAAACGCCGCTATAGATCAA-ACCTTTAGCGGCACTTCTCAC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-C
*
22187280 AGAAACGCCGCTAAA
1 ACAAACGCCGCTAAA
22187295 AGCATAACTT
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
41 5 0.03
42 115 0.71
43 25 0.15
44 17 0.10
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (42 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
Found at i:22188519 original size:24 final size:24
Alignment explanation
Indices: 22188490--22188543 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
22188480 CTGATGAAAG
* *
22188490 ATGAACTGTTAAATACATGCAGAA
1 ATGAACTGTTAAACACATACAGAA
* *
22188514 ATGAACCGTTCAACACATACAGAA
1 ATGAACTGTTAAACACATACAGAA
22188538 A-GAACT
1 ATGAACT
22188544 TACTTTTCCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (24 bp):
ATGAACTGTTAAACACATACAGAA
Found at i:22190868 original size:2 final size:2
Alignment explanation
Indices: 22190861--22190885 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22190851 TTTTGAGATC
22190861 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
22190886 GGTTAGTAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22192269 original size:132 final size:134
Alignment explanation
Indices: 22192049--22192298 Score: 468
Period size: 132 Copynumber: 1.9 Consensus size: 134
22192039 CTAAAATAGA
22192049 TAGTTGCCTATTCATATCAATATGTTACTTTTTTTTATTTATTTATCAATTTTTTTTAAATCTAA
1 TAGTTGCCTATTCATATCAATATGTTAC-TTTTTTTATTTATTTATCAATTTTTTTTAAATCTAA
*
22192114 TATTTAAATATATCAAATGGTTTAGATTAAATATTTTTAAATATAAAAGCATTAATTTGAAGAAC
65 TATTTAAATATATCAAATAGTTTAGATTAAATATTTTTAAATATAAAAGCATTAATTTGAAGAAC
22192179 TATTT
130 TATTT
22192184 TAGTTGCCTATTCATATCAATATGTTAC-TTTTTTATTTATTTATCAA-TTTTTTTAAATCTAAT
1 TAGTTGCCTATTCATATCAATATGTTACTTTTTTTATTTATTTATCAATTTTTTTTAAATCTAAT
22192247 ATTTAAATATATCAAATAGTTTAGATTAAATATTTTTAAATATAAAAGCATT
66 ATTTAAATATATCAAATAGTTTAGATTAAATATTTTTAAATATAAAAGCATT
22192299 TTTAAATATA
Statistics
Matches: 114, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
132 67 0.59
133 19 0.17
135 28 0.25
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.50
Consensus pattern (134 bp):
TAGTTGCCTATTCATATCAATATGTTACTTTTTTTATTTATTTATCAATTTTTTTTAAATCTAAT
ATTTAAATATATCAAATAGTTTAGATTAAATATTTTTAAATATAAAAGCATTAATTTGAAGAACT
ATTT
Found at i:22193650 original size:41 final size:41
Alignment explanation
Indices: 22193537--22193813 Score: 364
Period size: 41 Copynumber: 6.8 Consensus size: 41
22193527 AGATTTTATT
* *
22193537 ATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGG-TC-AGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
* *
22193576 ATTAGTGGCGCTTTTTTCAGAAACGCCGCTAAAGGCACGAGC
1 ATTAGCGGCGC-TTTTTCAAAAACGCCGCTAAAGGCACGAGC
* *
22193618 ATCAGCGGCGCTTTATCAAAAACGCCGCTAAAGGTCA-GAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGG-CACGAGC
* * * *
22193659 ATTAGCGGCACTTTTTTAAAAACGCCGTTAAAGGCAGGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
* *
22193700 ATTAGCGGCACTTTTTCAAAAATGCCGCTAAAGGCACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
* *
22193741 ATTAGTGGCGCTTTTTCAAAAACGCAGCTAAAGGTCA-GAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGG-CACGAGC
*
22193782 ATTAGCGGCACTTTTTCAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
22193814 TGCCCCTAAA
Statistics
Matches: 208, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
39 10 0.05
40 23 0.11
41 159 0.76
42 16 0.08
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
Done.