Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 69 of 279
Found at i:22796094 original size:220 final size:220
Alignment explanation
Indices: 22795705--22796149 Score: 683
Period size: 220 Copynumber: 2.0 Consensus size: 220
22795695 AGATGATTTG
* * * *
22795705 CTTTGGTTGTTTTCACAACAAAGCAGATACAAGATGATTTGGCATTCTTGTGTTTACAAGGAGTA
1 CTTTGGATGTTTTCACAACAAAGCAGATACAAGATGATTTGACATTCTTGTGTTTACAAAGAGCA
** * *
22795770 AGTCGAAGAAATAGTAGATCTGACCTTTAGGTGTTTACACTAAAGCAAATCCAAGATGATTTGGC
66 AAACGAAGAAATAGCAGATCTGACCTTCAGGTGTTTACACTAAAGCAAATCCAAGATGATTTGGC
**
22795835 ATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCCATATTTGACGGAGAGC
131 ATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGC
22795900 AGATCGAAGACATAGCAGATCTGAC
196 AGATCGAAGACATAGCAGATCTGAC
* * *
22795925 CTTTGGATGTTTTCACATCGAAGCAGATATAAGATGATTTGACATTCTTGTGTTTACAAAGAGCA
1 CTTTGGATGTTTTCACAACAAAGCAGATACAAGATGATTTGACATTCTTGTGTTTACAAAGAGCA
* * * *
22795990 AAACGAAGACATAGCAGATTTGACCTTCAGGTGTTTACACTGAAGCAAATCCAAGATGATTTGGT
66 AAACGAAGAAATAGCAGATCTGACCTTCAGGTGTTTACACTAAAGCAAATCCAAGATGATTTGGC
* * * * *
22796055 GTCTCTGTATTGTCAGTGAACAAATCGAAGAAACAGATTTGGCATCTTCATATTCAATGGAGAGC
131 ATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGC
*
22796120 AGATCGAAGACGTAGCAGATCTGAC
196 AGATCGAAGACATAGCAGATCTGAC
22796145 CTTTG
1 CTTTG
22796150 TGACGGAGAG
Statistics
Matches: 202, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
220 202 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (220 bp):
CTTTGGATGTTTTCACAACAAAGCAGATACAAGATGATTTGACATTCTTGTGTTTACAAAGAGCA
AAACGAAGAAATAGCAGATCTGACCTTCAGGTGTTTACACTAAAGCAAATCCAAGATGATTTGGC
ATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGC
AGATCGAAGACATAGCAGATCTGAC
Found at i:22796161 original size:41 final size:41
Alignment explanation
Indices: 22796113--22796190 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
22796103 CATATTCAAT
*
22796113 GGAGAGCAGATCGAAGACGTAGCAGATCTGACCTTTGTGAC
1 GGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTGTGAC
*
22796154 GGAGAGCAGATCGAAGACATAGCAGATTTGACCTTTG
1 GGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTG
22796191 GATGTTTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.21
Consensus pattern (41 bp):
GGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTGTGAC
Found at i:22798714 original size:47 final size:47
Alignment explanation
Indices: 22798614--22799033 Score: 646
Period size: 47 Copynumber: 8.9 Consensus size: 47
22798604 TAGTATGGCG
* * *
22798614 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAACTGTATATATA--TGATAGGGCC
22798663 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
22798710 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
22798757 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
22798804 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
* *
22798851 TAATGGCCGATGTGATGAA--TGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAACTGTATATATA--TGATAGGGCC
22798898 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
* * *
22798945 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
* * * * * * * *
22798992 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATA
22799034 AGTCCCGAAG
Statistics
Matches: 350, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
45 15 0.04
47 285 0.81
49 50 0.14
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAACTGTATATATATGATAGGGCC
Found at i:22800555 original size:40 final size:40
Alignment explanation
Indices: 22800432--22800600 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
22800422 GGCTAAATGT
* **
22800432 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTT
1 CGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCC
* *
22800472 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCC
**
22800512 CGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCC
1 CGAAGAGCATTCGTGCTAGTGATATATCCG-GACTAAGTCC
* * * * *
22800552 CGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAGGTCC
1 CGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCC
22800592 CGAAGAGCA
1 CGAAGAGCA
22800601 ATCATGCTGG
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 114 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCC
Found at i:22800612 original size:40 final size:40
Alignment explanation
Indices: 22800409--22800600 Score: 213
Period size: 40 Copynumber: 4.8 Consensus size: 40
22800399 GAGAATTGAG
* * * **
22800409 AGTGAAATGTCCGGGCTAAATGTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
22800449 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
22800489 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** *
22800529 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
22800569 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
22800601 ATCATGCTGG
Statistics
Matches: 132, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:22802981 original size:47 final size:47
Alignment explanation
Indices: 22802928--22803342 Score: 704
Period size: 47 Copynumber: 8.7 Consensus size: 47
22802918 TTAGGATTCT
22802928 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
22802975 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
22803022 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
22803071 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
22803120 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
22803167 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
22803214 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
22803261 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
22803308 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
22803343 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 259 0.73
49 95 0.27
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:22803215 original size:192 final size:188
Alignment explanation
Indices: 22802928--22803342 Score: 704
Period size: 192 Copynumber: 2.2 Consensus size: 188
22802918 TTAGGATTCT
22802928 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
22802993 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
* * ** *
22803058 GGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
129 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAAGGCCGAATGGCCA
22803120 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
22803185 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* *
22803250 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
131 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCA
* * *
22803308 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
22803343 TCCCGAAGGG
Statistics
Matches: 213, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
188 53 0.25
190 46 0.22
192 114 0.54
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (188 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCA
Found at i:22803517 original size:37 final size:37
Alignment explanation
Indices: 22803461--22803539 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22803451 CCGAGCTCTA
* * *
22803461 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
22803498 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22803535 AAGAC
1 AAGAC
22803540 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:22818690 original size:54 final size:54
Alignment explanation
Indices: 22818500--22818713 Score: 241
Period size: 54 Copynumber: 4.0 Consensus size: 54
22818490 TTTCCTTTTT
* * * * *
22818500 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATA
* * ** * *
22818554 -AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCCTTTCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATA
* * * * *
22818607 TTAACTTATCAATTCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATA
1 -GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATA
* * *
22818662 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTA
22818714 CCAAATGCCA
Statistics
Matches: 134, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
53 45 0.34
54 46 0.34
55 43 0.32
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (54 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATA
Found at i:22818836 original size:47 final size:46
Alignment explanation
Indices: 22818670--22818894 Score: 177
Period size: 47 Copynumber: 4.8 Consensus size: 46
22818660 TAGAACTTAT
* * * * * *
22818670 CAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATC-TTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCAATGC
** *
22818715 CAAATGCCATGT-TCCAATCATGGTCTTACATGGTATCCTTGTCTTAGTGC
1 C-AATGCCATGTCT-TGA-CATGGTCTTACATGGTATCCTTGTC--AATGC
** ** *
22818765 CAATGCCACATCTTGATGTGGTCTTACATGGAATCCTTAGTCAATGC
1 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT-GTCAATGC
* * * * ** *
22818812 CGATGCCATGTCTTGACATGGTCTTATAAGGGATCCTTG-CCTTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCAATGC
*
22818857 CAATGCTATGTCTTGACATGGTCTTACATGGTATCCTT
1 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
22818895 AACCGTCAAT
Statistics
Matches: 140, Mismatches: 32, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
45 38 0.27
46 10 0.07
47 57 0.41
48 19 0.14
49 12 0.09
50 4 0.03
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (46 bp):
CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCAATGC
Found at i:22818983 original size:44 final size:44
Alignment explanation
Indices: 22818900--22818983 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
22818890 TCCTTAACCG
* * *
22818900 TCAATTCCTCTTTAAATGCCATGTTATAAACATGAACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTACAAACATGAACTTTTCCA
* * * *
22818944 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAAACATGAACTTT
22818984 GAGATATCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAAACATGAACTTTTCCA
Found at i:22819560 original size:30 final size:30
Alignment explanation
Indices: 22819521--22819581 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
22819511 TCCCTAAATC
*
22819521 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACCTTTGCAAAATTACAATTTTGCCCCT
** *
22819551 AAACCTTTGCAAAATTATGATTTTGTCCCT
1 AAACCTTTGCAAAATTACAATTTTGCCCCT
22819581 A
1 A
22819582 GGCTCGGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACCTTTGCAAAATTACAATTTTGCCCCT
Found at i:22836141 original size:42 final size:41
Alignment explanation
Indices: 22836094--22836213 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 41
22836084 TACCGTACCA
* *
22836094 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACA-GTAATCTCATATCG
* * * **
22836136 ATGCCAATAGCCCAGTTATGGTCTTATACAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACAGTAA-TCTCATATCG
*
22836179 ATGCCATATCCCAGGTATGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACA-GTAATCT
22836214 TAGTAATCCT
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 29 0.46
43 34 0.54
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACAGTAATCTCATATCG
Found at i:22841660 original size:17 final size:17
Alignment explanation
Indices: 22841638--22841704 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
22841628 CATCATTAGC
22841638 CACATT-ACCAAACATTT
1 CACATTCACCAAACA-TT
22841655 CACATTCATGCCATAA-A-T
1 CACATTCA--CCA-AACATT
*
22841673 CACATT-TCCAAACAATT
1 CACATTCACCAAAC-ATT
22841690 CACATTCACCAAACA
1 CACATTCACCAAACA
22841705 ACCATGATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
14 2 0.05
15 3 0.08
16 1 0.03
17 14 0.35
18 14 0.35
20 4 0.10
21 2 0.05
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.25
Consensus pattern (17 bp):
CACATTCACCAAACATT
Found at i:22841703 original size:18 final size:17
Alignment explanation
Indices: 22841638--22841705 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
22841628 CATCATTAGC
*
22841638 CACATTACCAAACATTT
1 CACATTACCAAACAATT
*
22841655 CACATTCATGCCATA-AA-T
1 CACATT-A--CCAAACAATT
*
22841673 CACATTTCCAAACAATT
1 CACATTACCAAACAATT
22841690 CACATTCACCAAACAA
1 CACATT-ACCAAACAA
22841706 CCATGATCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
15 4 0.10
16 2 0.05
17 13 0.32
18 16 0.40
19 1 0.03
20 4 0.10
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (17 bp):
CACATTACCAAACAATT
Found at i:22843287 original size:42 final size:43
Alignment explanation
Indices: 22843187--22843299 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
22843177 AGCTCATACA
* * *** *
22843187 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAATTATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAAAAAATCAAGTATCG
*
22843230 ATGCC-ACTGTTCCAGACAG-GGTCTTACAAAAAATCAAGTA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAAAAAATCAAGTATCG
22843272 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
22843300 CGATAACACA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 26 0.45
43 30 0.52
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACAAAAAATCAAGTATCG
Found at i:22854082 original size:7 final size:6
Alignment explanation
Indices: 22854048--22854086 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
22854038 GTTTAAAAAC
* * *
22854048 TTTTTA TTTTTA TTTTTA TTTTCA CTTTTA TCTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
22854087 ATCTTAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:22862255 original size:27 final size:27
Alignment explanation
Indices: 22862215--22862279 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
22862205 AGGAAGCGTC
*
22862215 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
22862242 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
22862269 CTGGTGGCTCT
1 CTGGTGGCTCT
22862280 ACCATGATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:22862292 original size:27 final size:25
Alignment explanation
Indices: 22862234--22862326 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 25
22862224 ATGCCACAAT
* *
22862234 TATCTGATCTGGTGGCTCTGCCACATA
1 TATCTGTTCTGGTGGCTCT-AC-CATA
22862261 TATCTGTTCTGGTGGCTCTACCATGA
1 TATCTGTTCTGGTGGCTCTACCAT-A
* *
22862287 TCATCTGTATCTAGTGACTCTATCACAT-
1 T-ATCTGT-TCTGGTGGCTCTA-C-CATA
22862315 TATCTGTTCTGG
1 TATCTGTTCTGG
22862327 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
25 3 0.05
26 7 0.12
27 30 0.54
28 12 0.21
29 1 0.02
30 3 0.05
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (25 bp):
TATCTGTTCTGGTGGCTCTACCATA
Found at i:22864045 original size:16 final size:16
Alignment explanation
Indices: 22864026--22864058 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
22864016 AGAAGGGACC
22864026 CCAGCTGATAGGGTAA
1 CCAGCTGATAGGGTAA
22864042 CCAGCTGATAGGGTAA
1 CCAGCTGATAGGGTAA
22864058 C
1 C
22864059 TTGGAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.18
Consensus pattern (16 bp):
CCAGCTGATAGGGTAA
Found at i:22868576 original size:40 final size:40
Alignment explanation
Indices: 22868532--22868635 Score: 181
Period size: 40 Copynumber: 2.6 Consensus size: 40
22868522 TCCTCGTTCA
*
22868532 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCGCACG
* *
22868572 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCGCACG
22868612 AATGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
22868636 CAGCATTCAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCGCACG
Found at i:22873543 original size:13 final size:13
Alignment explanation
Indices: 22873525--22873551 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22873515 TGAATTAGTA
22873525 TGTGTGAAAATTT
1 TGTGTGAAAATTT
22873538 TGTGTGAAAATTT
1 TGTGTGAAAATTT
22873551 T
1 T
22873552 ATCGTTTGTG
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:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:22874763 original size:44 final size:44
Alignment explanation
Indices: 22874645--22874764 Score: 179
Period size: 44 Copynumber: 2.7 Consensus size: 44
22874635 TATGTGTTAT
* *
22874645 CGTGTAAGACCACATCTAGGG-CGTTGGCATCGACTTATAATTTA
1 CGTGTAAGACCACGTCT-GGGACGTTGGCATTGACTTATAATTTA
* * *
22874689 CGTGTAAGACCACGTCTGGGATGTTGGCATTGGCTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGACTTATAATTTA
22874733 CGTGTAAGACCACGTCTGGGACGTTGGCATTG
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTG
22874765 TACGAGCTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
43 3 0.04
44 66 0.96
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATTGACTTATAATTTA
Found at i:22880222 original size:16 final size:16
Alignment explanation
Indices: 22880201--22880231 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22880191 ATTGGGTTGA
*
22880201 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
22880217 GAAAATTAATTAATT
1 GAAAATTAATTAATT
22880232 AAATTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:22880256 original size:4 final size:5
Alignment explanation
Indices: 22880219--22880254 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
22880209 TTTAATTGGA
22880219 AAATT -AATT -AATT AAATT AAATT AAATT AAA-T AAAT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAAT
22880255 AATGTCTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 12 0.41
5 17 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:22880479 original size:25 final size:25
Alignment explanation
Indices: 22880445--22880522 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 25
22880435 AAGATTGTTT
*
22880445 TTCTATTAAATAGACATTAAATGCA
1 TTCTACTAAATAGACATTAAATGCA
* **
22880470 TTCTACTAAA-AG--ATT--GT-TT
1 TTCTACTAAATAGACATTAAATGCA
*
22880489 TTCTATTAAATAGACATTAAATGCA
1 TTCTACTAAATAGACATTAAATGCA
22880514 TTCTACTAA
1 TTCTACTAA
22880523 TTCAACTAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 12
0.64 0.15 0.20
Matches are distributed among these distances:
19 9 0.24
20 3 0.08
22 6 0.16
24 3 0.08
25 17 0.45
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (25 bp):
TTCTACTAAATAGACATTAAATGCA
Found at i:22880479 original size:44 final size:44
Alignment explanation
Indices: 22880425--22880522 Score: 187
Period size: 44 Copynumber: 2.2 Consensus size: 44
22880415 CTCTCTCCTA
*
22880425 ATTCAACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
1 ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
22880469 ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
1 ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
22880513 ATTCTACTAA
1 ATTCTACTAA
22880523 TTCAACTAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (44 bp):
ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
Found at i:22889395 original size:47 final size:46
Alignment explanation
Indices: 22889341--22889464 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 46
22889331 TGTGTGTGCT
22889341 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-AT-GAAATGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTGATAGAAA-GCC
* * *
22889388 AGTGTAAGACATGTCTGGGATATGCATCAG-CATTGATACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATA-GAAAGCC
*
22889434 AGTGTAAGACATGTCTGGGACATGCTTCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
22889465 TACGAGATGT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 4 0.06
45 2 0.03
46 30 0.45
47 31 0.46
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATAGAAAGCC
Found at i:22904839 original size:16 final size:18
Alignment explanation
Indices: 22904813--22904845 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22904803 TGTAATTGGG
22904813 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
22904830 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
22904846 TTTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:22904858 original size:26 final size:24
Alignment explanation
Indices: 22904824--22904877 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
22904814 TGAGAAAATT
22904824 ATTTAATTGA-AAAATTAATTTATTTA
1 ATTTAATTGAGAAAA-TAA--TATTTA
*
22904850 ATTTTATTGAGAAAATAATATTTA
1 ATTTAATTGAGAAAATAATATTTA
22904874 ATTT
1 ATTT
22904878 GAGAAATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 10 0.38
26 12 0.46
27 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (24 bp):
ATTTAATTGAGAAAATAATATTTA
Found at i:22906237 original size:11 final size:11
Alignment explanation
Indices: 22906206--22906231 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22906196 TTATTACTTA
22906206 AATTTCACAAC
1 AATTTCACAAC
22906217 AATTTCACAAC
1 AATTTCACAAC
22906228 AATT
1 AATT
22906232 ATACAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (11 bp):
AATTTCACAAC
Found at i:22915880 original size:43 final size:43
Alignment explanation
Indices: 22915805--22915890 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
22915795 GTTACGTGAA
* * *
22915805 TCGCATCCATTATGAACTCGGACCTGTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATGC
* * *
22915848 TCGCATCCATAATGAACTCA-AGCCTCTTAACGAGGTCGGATGC
1 TCGCATCCATAATGAACTCAGA-CCTCTCAACGAGCTCAGATGC
22915891 CACATATCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATGC
Found at i:22935484 original size:45 final size:45
Alignment explanation
Indices: 22935420--22935507 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
22935410 CAGAGTTAGC
*
22935420 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATTATCCCGG
1 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCCGG
22935465 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCC
1 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCC
22935508 TAGGTATTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (45 bp):
TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCCGG
Found at i:22973591 original size:79 final size:79
Alignment explanation
Indices: 22973455--22973673 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 79
22973445 AACTTCTATT
* * ** * * *
22973455 CAGCTCTTGTGAGCTTCTGTTGGCATGTTTTGGATGGACCAGCTCTTATGAGGTTCTGTTTGGCA
1 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTTTGGCA
*
22973520 TGTTT-TGATTGGAC
66 TGTTTCAG-TTGGAC
*
22973534 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAACTCTTA-CAGGCTTCTGTTTGGC
1 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGG-TTCTGTTTGGC
*
22973598 ATGTTTCAGTTGGAT
65 ATGTTTCAGTTGGAC
** * * * *
22973613 CAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTT
1 CAGCTCTTATGAGCTTCT-TTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTT
22973674 AGGTGTGTTC
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.03
79 78 0.66
80 36 0.30
81 2 0.02
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.41
Consensus pattern (79 bp):
CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTTTGGCA
TGTTTCAGTTGGAC
Found at i:22973682 original size:40 final size:40
Alignment explanation
Indices: 22973454--22973673 Score: 268
Period size: 40 Copynumber: 5.5 Consensus size: 40
22973444 CAACTTCTAT
* ** *
22973454 TCAGCTCTTGTGAGCTTCTG-TTGGCATGTTTTGGATGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
* * *
22973493 CCAGCTCTTATGAGGTTCTGTTTGGCATGTTT-TGATTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAG-TTGGA
*
22973533 CCAGCTCTTATGAGCTTCT-TTTGGCATGTTTCAGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
* *
22973572 TCAACTCTTA-CAGGCTTCTGTTTGGCATGTTTCAGTTGGA
1 TCAGCTCTTATGA-GCTTCTGTTTGGCATGTTTCAGTTGGA
** * *
22973612 TCAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
22973652 TCAGCTCTTATGAGCTTCTGTT
1 TCAGCTCTTATGAGCTTCTGTT
22973674 AGGTGTGTTC
Statistics
Matches: 158, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 49 0.31
40 107 0.68
41 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.41
Consensus pattern (40 bp):
TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
Found at i:22973685 original size:119 final size:117
Alignment explanation
Indices: 22973467--22973688 Score: 277
Period size: 119 Copynumber: 1.9 Consensus size: 117
22973457 GCTCTTGTGA
** ** * *
22973467 GCTTCTGTTGGCATGTTTTGGATGGACCAGCTCTTATGAGGTTCTGTTTGGCATGTTTTGATTGG
1 GCTTCTGTTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTTAGATTGG
*
22973532 ACCAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAACTCTTACAG
66 ACCAGCTCTTATGAGCTTCTTTAGG-ATGTTTCAGTTGGATCAACTCTTACAG
* * * *
22973585 GCTTCTGTTTGGCATGTTTCAGTTGGATCAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAG-TT
1 GCTTCTG-TTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTT-AGATT
*
22973649 GGATCAGCTCTTATGAGCTTCTGTTAGG-TGTGTTCAGTTG
64 GGACCAGCTCTTATGAGCTTCT-TTAGGATGT-TTCAGTTG
22973689 ATCTGACAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 10 0.11
119 73 0.83
120 5 0.06
ACGTcount: A:0.15, C:0.17, G:0.27, T:0.41
Consensus pattern (117 bp):
GCTTCTGTTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTTAGATTGG
ACCAGCTCTTATGAGCTTCTTTAGGATGTTTCAGTTGGATCAACTCTTACAG
Found at i:22974181 original size:12 final size:12
Alignment explanation
Indices: 22974164--22974188 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22974154 ACTAGCTTGT
22974164 GGCTATGTTTAA
1 GGCTATGTTTAA
22974176 GGCTATGTTTAA
1 GGCTATGTTTAA
22974188 G
1 G
22974189 CCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (12 bp):
GGCTATGTTTAA
Found at i:22983607 original size:21 final size:20
Alignment explanation
Indices: 22983562--22983607 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
22983552 TTGTTGGAAT
22983562 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
22983581 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
22983602 GGTTGA
1 GGTTGA
22983608 TTGTATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:22989241 original size:24 final size:24
Alignment explanation
Indices: 22989210--22989270 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
22989200 TGAATCGGCA
* *
22989210 AAAT-TTGAAATGCCGGAAAGCTG
1 AAATATTGAAAAGCCGAAAAGCTG
22989233 AAATATTGAAAAGCCGAAAAGCTG
1 AAATATTGAAAAGCCGAAAAGCTG
*
22989257 AAATACTGAAAAGC
1 AAATATTGAAAAGC
22989271 AAAAGTTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.18
Consensus pattern (24 bp):
AAATATTGAAAAGCCGAAAAGCTG
Found at i:22989580 original size:29 final size:28
Alignment explanation
Indices: 22989531--22989602 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
22989521 GGTGAATTTG
* **
22989531 GGCCTAGTGGGCCATAAGAATATAAACTA
1 GGCCTAGTGGGCTATTTGAATA-AAACTA
* *
22989560 GGCC-AGATGGGCTATTTGAATAAAATTG
1 GGCCTAG-TGGGCTATTTGAATAAAACTA
22989588 GGCCTAGTGGGCTAT
1 GGCCTAGTGGGCTAT
22989603 ATGCATGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (28 bp):
GGCCTAGTGGGCTATTTGAATAAAACTA
Found at i:22989600 original size:28 final size:29
Alignment explanation
Indices: 22989528--22989603 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
22989518 GAAGGTGAAT
*
22989528 TTGGGCCTAGTGGGCCATAAGAATATAAA
1 TTGGGCCTAGTGGGCTATAAGAATATAAA
* * **
22989557 CTAGGCC-AGATGGGCTATTTGAATA-AAA
1 TTGGGCCTAG-TGGGCTATAAGAATATAAA
22989585 TTGGGCCTAGTGGGCTATA
1 TTGGGCCTAGTGGGCTATA
22989604 TGCATGTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
28 18 0.49
29 19 0.51
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCTATAAGAATATAAA
Found at i:22997667 original size:14 final size:13
Alignment explanation
Indices: 22997632--22997677 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
22997622 NNGGAAAAAA
*
22997632 AAAGA-AAAAGAG
1 AAAGAGAAAGGAG
*
22997644 AAGGAG-AAGGAG
1 AAAGAGAAAGGAG
22997656 AATAGAGAAAGGAG
1 AA-AGAGAAAGGAG
22997670 AAAGAGAA
1 AAAGAGAA
22997678 GGAAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 11 0.39
13 9 0.32
14 8 0.29
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (13 bp):
AAAGAGAAAGGAG
Found at i:22997667 original size:20 final size:19
Alignment explanation
Indices: 22997640--22997677 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
22997630 AAAAAGAAAA
*
22997640 AGAGAAGGAGAAGGAGAAT
1 AGAGAAGGAGAAAGAGAAT
22997659 AGAGAAAGGAGAAAGAGAA
1 AGAG-AAGGAGAAAGAGAA
22997678 GGAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.39, T:0.03
Consensus pattern (19 bp):
AGAGAAGGAGAAAGAGAAT
Found at i:22997773 original size:13 final size:12
Alignment explanation
Indices: 22997751--22997812 Score: 65
Period size: 13 Copynumber: 5.1 Consensus size: 12
22997741 GTGTTTTTTC
22997751 TGTTATTATTAT
1 TGTTATTATTAT
22997763 TGTTGATTATTAT
1 TGTT-ATTATTAT
*
22997776 TGTT-TT-TTGT
1 TGTTATTATTAT
*
22997786 TGCTAGTTATTAT
1 TGTTA-TTATTAT
22997799 TGTTAGTTATTAT
1 TGTTA-TTATTAT
22997812 T
1 T
22997813 ATTGTTAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
10 6 0.14
11 2 0.05
12 6 0.14
13 28 0.67
ACGTcount: A:0.19, C:0.02, G:0.15, T:0.65
Consensus pattern (12 bp):
TGTTATTATTAT
Found at i:22997787 original size:20 final size:22
Alignment explanation
Indices: 22997762--22997802 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
22997752 GTTATTATTA
22997762 TTGTTG-A-TTATTATTGTTTT
1 TTGTTGCAGTTATTATTGTTTT
22997782 TTGTTGCTAGTTATTATTGTT
1 TTGTTGC-AGTTATTATTGTT
22997803 AGTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.15, C:0.02, G:0.17, T:0.66
Consensus pattern (22 bp):
TTGTTGCAGTTATTATTGTTTT
Found at i:22997811 original size:39 final size:35
Alignment explanation
Indices: 22997731--22997818 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 35
22997721 TGAATTTTTA
* *
22997731 TATTGTTATTGTGTTTTTTCTGTTATTATTATTGT
1 TATTATTATTGTTTTTTTTCTGTTATTATTATTGT
*
22997766 TGATTATTATTGTTTTTTGTTGCTAGTTATTATTGTTAGT
1 T-ATTATTATTGTTTTTT-TT-CT-GTTATTATTATT-GT
22997806 TATTATTATTGTT
1 TATTATTATTGTT
22997819 AGTAAAAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
35 1 0.02
36 14 0.31
37 2 0.04
38 2 0.04
39 23 0.51
40 3 0.07
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (35 bp):
TATTATTATTGTTTTTTTTCTGTTATTATTATTGT
Found at i:22997819 original size:16 final size:16
Alignment explanation
Indices: 22997752--22997821 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 16
22997742 TGTTTTTTCT
22997752 GTTATTATTATTGTT-
1 GTTATTATTATTGTTA
* * *
22997767 GATTATTATTGTTTTTT
1 G-TTATTATTATTGTTA
22997784 GTTGCTAGTTATTATTGTTA
1 G-T--TA-TTATTATTGTTA
22997804 GTTATTATTATTGTTA
1 GTTATTATTATTGTTA
22997820 GT
1 GT
22997822 AAAAAACCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
15 1 0.02
16 26 0.59
17 4 0.09
19 3 0.07
20 10 0.23
ACGTcount: A:0.20, C:0.01, G:0.16, T:0.63
Consensus pattern (16 bp):
GTTATTATTATTGTTA
Found at i:22997833 original size:19 final size:19
Alignment explanation
Indices: 22997811--22997873 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
22997801 TTAGTTATTA
22997811 TTATTGTTAGTAAAAAACC
1 TTATTGTTAGTAAAAAACC
* **
22997830 TTATTGTTATTGTTAATTA--
1 TTATTGTTA--GTAAAAAACC
22997849 TTATTGTTAGTAAAAAACCC
1 TTATTGTTAGTAAAAAA-CC
22997869 TTATT
1 TTATT
22997874 ATTATTGTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
17 5 0.15
19 18 0.55
20 5 0.15
21 5 0.15
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (19 bp):
TTATTGTTAGTAAAAAACC
Found at i:22997890 original size:13 final size:13
Alignment explanation
Indices: 22997872--22997914 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
22997862 AAAACCCTTA
22997872 TTATTATTGTTAG
1 TTATTATTGTTAG
*
22997885 TTATTATTATTGTTGG
1 ---TTATTATTGTTAG
22997901 TTATTATTGTTAG
1 TTATTATTGTTAG
22997914 T
1 T
22997915 AAAAAACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 13 0.52
16 12 0.48
ACGTcount: A:0.21, C:0.00, G:0.16, T:0.63
Consensus pattern (13 bp):
TTATTATTGTTAG
Found at i:22997890 original size:16 final size:16
Alignment explanation
Indices: 22997869--22997908 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
22997859 TAAAAAACCC
22997869 TTATTATTATTGTTAG
1 TTATTATTATTGTTAG
*
22997885 TTATTATTATTGTTGG
1 TTATTATTATTGTTAG
22997901 TTATTATT
1 TTATTATT
22997909 GTTAGTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (16 bp):
TTATTATTATTGTTAG
Found at i:22997931 original size:52 final size:54
Alignment explanation
Indices: 22997830--22997947 Score: 186
Period size: 55 Copynumber: 2.2 Consensus size: 54
22997820 GTAAAAAACC
*
22997830 TTATTGTTATTGTTAATTATTATTGTTAGTAAAAAACCCTTATTATTATTGTTAG
1 TTATTATTATTGTTAATTATTATTGTTAGTAAAAAACCCTTA-TATTATTGTTAG
**
22997885 TTATTATTATTGTTGGTTATTATTGTTAGTAAAAAACCC-TA-ATTATTGTTAG
1 TTATTATTATTGTTAATTATTATTGTTAGTAAAAAACCCTTATATTATTGTTAG
22997937 TTATTATTATT
1 TTATTATTATT
22997948 TTTTATTTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
52 22 0.37
54 2 0.03
55 36 0.60
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.53
Consensus pattern (54 bp):
TTATTATTATTGTTAATTATTATTGTTAGTAAAAAACCCTTATATTATTGTTAG
Found at i:23002169 original size:24 final size:24
Alignment explanation
Indices: 23002142--23002193 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
23002132 GTATGCGATT
* * *
23002142 GCTCAAGCTCTGGTTGTGGCTCAG
1 GCTCAAGCTCAGGATCTGGCTCAG
* *
23002166 GCTCCAGCTCAGGATCTGGCTCTG
1 GCTCAAGCTCAGGATCTGGCTCAG
23002190 GCTC
1 GCTC
23002194 TGGCTCGACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.27
Consensus pattern (24 bp):
GCTCAAGCTCAGGATCTGGCTCAG
Found at i:23005269 original size:52 final size:49
Alignment explanation
Indices: 23005184--23005538 Score: 428
Period size: 46 Copynumber: 7.3 Consensus size: 49
23005174 TGATTAAGTG
* * **
23005184 ATAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACA
1 ATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
* *
23005233 AGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---
1 A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
23005282 ATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-
1 ATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
23005330 --AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA
1 ATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
23005377 AGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
1 A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
* *
23005429 AGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-
1 A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
** *
23005480 --AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-
1 ATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
23005526 --AAAGTGATAAGTG
1 ATAAAGTGATAAGTG
23005539 GCTACACTTA
Statistics
Matches: 279, Mismatches: 16, Indels: 25
0.87 0.05 0.08
Matches are distributed among these distances:
46 143 0.51
48 1 0.00
49 2 0.01
50 1 0.00
52 132 0.47
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
ATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
Found at i:23005293 original size:98 final size:97
Alignment explanation
Indices: 23005172--23005538 Score: 483
Period size: 98 Copynumber: 3.7 Consensus size: 97
23005162 TTTGAGTACT
* * * *
23005172 TCTGATTAAGTGATAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
23005237 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
23005270 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
23005330 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
23005362 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
23005427 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
23005466 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
23005531 GATAAGTG
65 GA-AAGTG
23005539 GCTACACTTA
Statistics
Matches: 238, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 143 0.60
99 10 0.04
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:23005520 original size:196 final size:196
Alignment explanation
Indices: 23005186--23005538 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
23005176 ATTAAGTGAT
* * *
23005186 AAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
23005251 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
23005316 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
23005381 G
196 G
* * *
23005382 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
23005447 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
23005512 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
23005539 GCTACACTTA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:23005546 original size:37 final size:36
Alignment explanation
Indices: 23005502--23005610 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 36
23005492 GATAGCTTTA
23005502 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAG-GACAAAGTGATAAGTG
*
23005539 GCTACACTTATCTGATCAAGGAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGG-ACAAAGTGATAAGTG
*
23005576 GCTACACTTATCTGATCAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGGACAAAGTGATAAGTG
23005611 ATCATACGTA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
35 11 0.16
36 3 0.04
37 54 0.79
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGGACAAAGTGATAAGTG
Found at i:23007050 original size:33 final size:33
Alignment explanation
Indices: 23006946--23007054 Score: 152
Period size: 33 Copynumber: 3.4 Consensus size: 33
23006936 TTTCCCTAAA
23006946 ATAAAT-TATTATTTTGATATTTTA-TTTTTTT
1 ATAAATATATTATTTTGATATTTTATTTTTTTT
* * * *
23006977 ATAAAGATACTATTTTGGTATTTTATTTTTTTC
1 ATAAATATATTATTTTGATATTTTATTTTTTTT
23007010 ATAAATATATTATTTTGATATTTTATTATTTTTT
1 ATAAATATATTATTTTGATATTTTATT-TTTTTT
23007044 AT-AATATATTA
1 ATAAATATATTA
23007055 GTAAAAAACC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
31 5 0.07
32 16 0.24
33 39 0.58
34 7 0.10
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (33 bp):
ATAAATATATTATTTTGATATTTTATTTTTTTT
Found at i:23007053 original size:17 final size:17
Alignment explanation
Indices: 23007003--23007054 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
23006993 GGTATTTTAT
23007003 TTTTTTCATAAATATATTA
1 TTTTTT-AT-AATATATTA
* * *
23007022 -TTTTGATATTTTATTA
1 TTTTTTATAATATATTA
23007038 TTTTTTATAATATATTA
1 TTTTTTATAATATATTA
23007055 GTAAAAAACC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
16 7 0.27
17 15 0.58
18 4 0.15
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTTTATAATATATTA
Found at i:23007378 original size:35 final size:35
Alignment explanation
Indices: 23007303--23007380 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
23007293 AAATTATTCC
* * *
23007303 TAAA-AATTAATAATTTAATTATTTTATAAATATG
1 TAAATAATTAATAAATTAATAATTTAATAAATATG
*
23007337 TAAATAATTAATAAAATTAATAATTTAAT-AATTTG
1 TAAATAATTAAT-AAATTAATAATTTAATAAATATG
*
23007372 TTAATAATT
1 TAAATAATT
23007381 TGTATACAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 4 0.11
35 20 0.54
36 13 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (35 bp):
TAAATAATTAATAAATTAATAATTTAATAAATATG
Found at i:23007650 original size:22 final size:18
Alignment explanation
Indices: 23007597--23007670 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 18
23007587 ATTTTCTCTA
23007597 TTCT-CTTCTCTTTCTCC
1 TTCTCCTTCTCTTTCTCC
23007614 TTCTCCTTCCTTCTTTCTCTC
1 TTCTCCTT-C-TCTTTCTC-C
* *
23007635 TAACTCTCCTTCTCTTTTTCT
1 T---TCTCCTTCTCTTTCTCC
* *
23007656 TTCTTCTTCTTTTTC
1 TTCTCCTTCTCTTTC
23007671 CCTCACCAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
17 4 0.09
18 14 0.31
19 1 0.02
20 8 0.18
21 3 0.07
22 7 0.16
23 1 0.02
24 7 0.16
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (18 bp):
TTCTCCTTCTCTTTCTCC
Found at i:23007925 original size:18 final size:18
Alignment explanation
Indices: 23007902--23007937 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
23007892 CTCGATCTAC
23007902 TAGC-TTTTGTTTCTTTTT
1 TAGCTTTTTG-TTCTTTTT
23007920 TAGCTTTTTGTTCTTTTT
1 TAGCTTTTTGTTCTTTTT
23007938 AACTAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.72
Consensus pattern (18 bp):
TAGCTTTTTGTTCTTTTT
Found at i:23009979 original size:9 final size:9
Alignment explanation
Indices: 23009960--23010000 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
23009950 TTTATACAAA
*
23009960 TAATTTGGT
1 TAATTCGGT
*
23009969 TAATTCAGT
1 TAATTCGGT
*
23009978 TAATTCGGG
1 TAATTCGGT
23009987 TAATTCGGT
1 TAATTCGGT
23009996 TAATT
1 TAATT
23010001 TAATACTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:23010731 original size:31 final size:31
Alignment explanation
Indices: 23010693--23010751 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
23010683 TTCATCTAGG
*
23010693 TAAGCCTTGTTTTTCTTCCATTCTTCAACTT
1 TAAGCCTTCTTTTTCTTCCATTCTTCAACTT
23010724 TAAGCCTTCTTTTTCTTCCATTCTTCAA
1 TAAGCCTTCTTTTTCTTCCATTCTTCAA
23010752 TTTTTTCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.17, C:0.27, G:0.05, T:0.51
Consensus pattern (31 bp):
TAAGCCTTCTTTTTCTTCCATTCTTCAACTT
Found at i:23014808 original size:18 final size:18
Alignment explanation
Indices: 23014785--23014845 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
23014775 CACTTTTAAA
23014785 ATGTAAATTTATTAATAT
1 ATGTAAATTTATTAATAT
* *
23014803 ATGTAAAAATAATTGAA-A-
1 ATGT-AAATTTATT-AATAT
*
23014821 ATATAAATTTATTAATAT
1 ATGTAAATTTATTAATAT
*
23014839 ATTTAAA
1 ATGTAAA
23014846 AACAACTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.06
17 8 0.24
18 13 0.39
19 8 0.24
20 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
ATGTAAATTTATTAATAT
Found at i:23016539 original size:41 final size:41
Alignment explanation
Indices: 23016400--23016552 Score: 218
Period size: 41 Copynumber: 3.7 Consensus size: 41
23016390 TTGAGTTTAC
23016400 GTGTAAGACCATATCTGGGATATGGCATCGATATGAACTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAACTTT
* * * **
23016441 GTGTAAGACCATAGCTAGGCTATTGGCATCGATATGAGAGC-CC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGA-A-CTTT
*
23016484 ATGTAAGACCATATCTGGGATATGGCATCGATATGAACTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAACTTT
23016525 GTGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
23016553 TGGTATGGTA
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
40 1 0.01
41 47 0.49
42 28 0.29
43 19 0.20
44 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAACTTT
Found at i:23021969 original size:179 final size:178
Alignment explanation
Indices: 23021649--23022004 Score: 436
Period size: 179 Copynumber: 2.0 Consensus size: 178
23021639 AGGCTATAAT
* * * * **
23021649 GCGAAATGATTTCAGCTGCCTATTTGTAGTGATTTCATACAAGATGGATTATTGCCTCTTTTTCC
1 GCGAAATGATTTCAGCTACCTATTTGCACTAATTTCATACAAGATGGATTATTAACTCTTTTTCC
*
23021714 AATAGAACAGATATGAATTACCTTAACAATTATTTTCATTACGAATTAACATATGACATATTGAT
66 AATAGAACAGATATGAATTACCTTAACAATTATTTTCATTACGAATTAACATATGACAGATTGAT
*
23021779 TCTAGAAAACTCACGCATAAAGATTCACACTTGGAGAATTTTTT-TACAA
131 TCTAAAAAACTCACGCATAAAGATT--CACTTGGAGAATTTTTTGTACAA
*
23021828 GCGAAATGATTTC-GTTTACCTATTTGCACTAATTTCATACAAGATGGATTATTAACTCTTTTTC
1 GCGAAATGATTTCAG-CTACCTATTTGCACTAATTTCATACAAGATGGATTATTAACTCTTTTTC
** * * * **
23021892 CAATAGAACAG-T-TGCAAATTACCTTAGTAATTGTTTTCATTGCGGATTAATGTAATGA-AGAT
65 CAATAGAACAGATATG--AATTACCTTAACAATTATTTTCATTACGAATTAACAT-ATGACAGAT
* * *
23021954 TGGTT-TCAAAAAACTCATGCATAGAGATTCACTTGGAGAATTTTTTGTACA
127 TGATTCT-AAAAAACTCACGCATAAAGATTCACTTGGAGAATTTTTTGTACA
23022005 TTTAGATTTA
Statistics
Matches: 152, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
177 19 0.12
178 7 0.05
179 122 0.80
180 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (178 bp):
GCGAAATGATTTCAGCTACCTATTTGCACTAATTTCATACAAGATGGATTATTAACTCTTTTTCC
AATAGAACAGATATGAATTACCTTAACAATTATTTTCATTACGAATTAACATATGACAGATTGAT
TCTAAAAAACTCACGCATAAAGATTCACTTGGAGAATTTTTTGTACAA
Found at i:23022182 original size:29 final size:29
Alignment explanation
Indices: 23022150--23022217 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
23022140 ATTCTTAAAT
*
23022150 GATAGTCACTACCAAACTCTTGTTTGGCA-
1 GATAGTCACTACCAAACTCTTGTTTAG-AG
* * *
23022179 GATAGTTACTATCAGACTCTTGTTTAGAG
1 GATAGTCACTACCAAACTCTTGTTTAGAG
23022208 GATAGTCACT
1 GATAGTCACT
23022218 GCGAACTCTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (29 bp):
GATAGTCACTACCAAACTCTTGTTTAGAG
Found at i:23023546 original size:48 final size:48
Alignment explanation
Indices: 23023475--23023570 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
23023465 TATGCACAGA
23023475 GTTAAACTCCTTGAATTTCGAGGGGGAAACCTACGAACTCAGTTGGTG
1 GTTAAACTCCTTGAATTTCGAGGGGGAAACCTACGAACTCAGTTGGTG
* * *
23023523 GTTAATCTCTTTGAATTTCGAGGGGGAAATCTACGAACTCAGTTGGTG
1 GTTAAACTCCTTGAATTTCGAGGGGGAAACCTACGAACTCAGTTGGTG
23023571 TAGCCAATGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (48 bp):
GTTAAACTCCTTGAATTTCGAGGGGGAAACCTACGAACTCAGTTGGTG
Found at i:23024681 original size:135 final size:132
Alignment explanation
Indices: 23024487--23024826 Score: 346
Period size: 135 Copynumber: 2.5 Consensus size: 132
23024477 TACATGTAAC
* * * * * *
23024487 CCCATGTTTAATGTCCTAGCAA-ACTCTATTGGTTTTTATAGTTGGGTTATGGTCTTACACCATG
1 CCCATGTTTAATGTCCTA--AAGACTCTATTAGTTGTCATAG-TGAGCTATGGTCTTACACCTTG
* * * *
23024551 TAACCCCATATTTAATGTCTTGGTGGACTCTT-TTGGTGT-TATAGTCGTGCTATCATCTTACA-
63 TAACCCCATATTTAATGTCCTGGCGGACT-TTATTGGT-TACATAGTCGGGCTATCATCTTACAT
23024613 CTGTATAA
126 CT-TATAA
23024621 GCCCATGTTTAATGTCCTAAAGGACTCTATTAGTTGTCATAGCTGAGCTATGGTCTTACACCTTG
1 -CCCATGTTTAATGTCCTAAA-GACTCTATTAGTTGTCATAG-TGAGCTATGGTCTTACACCTTG
* ** * **
23024686 CAACCTTATGTTTAATGTCCTGGCGGACTTTATTGGTTACCATAGTCGGGCTATGGTCTTACATC
63 TAACCCCATATTTAATGTCCTGGCGGACTTTATTGGTTA-CATAGTCGGGCTATCATCTTACATC
*
23024751 TTGTAA
127 TTATAA
* * * * *
23024757 CCCATGTTTAATATCCTAACAGAATCTATTATTTGTCAAAGTCGAGCTATGGTATTACACCTTGT
1 CCCATGTTTAATGTCCTAA-AGACTCTATTAGTTGTCATAGT-GAGCTATGGTCTTACACCTTGT
23024822 AACCC
64 AACCC
23024827 TTTTTGAGGC
Statistics
Matches: 172, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
133 2 0.01
134 4 0.02
135 140 0.81
136 24 0.14
137 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (132 bp):
CCCATGTTTAATGTCCTAAAGACTCTATTAGTTGTCATAGTGAGCTATGGTCTTACACCTTGTAA
CCCCATATTTAATGTCCTGGCGGACTTTATTGGTTACATAGTCGGGCTATCATCTTACATCTTAT
AA
Found at i:23024800 original size:67 final size:67
Alignment explanation
Indices: 23024453--23024826 Score: 272
Period size: 67 Copynumber: 5.6 Consensus size: 67
23024443 CTCCATATGC
* * * * * *
23024453 TGTCATAGTCAAGCTATAGTCTTATA-CATGTAACCCCATGTTTAATGTCCTAGCAAACTCTATT
1 TGTCATAGTCGAGCTATGGTCTTACACCTTGTAA-CCCATGTTTAATGTCCTAACAGACTCTATT
*
23024517 GGT
65 AGT
* * * * * * * * ****
23024520 TTTTATAGTTGGGTTATGGTCTTACACCATGTAACCCCATATTTAATGTCTTGGTGGACTCT-TT
1 TGTCATAGTCGAGCTATGGTCTTACACCTTGTAA-CCCATGTTTAATGTCCTAACAGACTCTATT
* *
23024584 TGG
65 AGT
* * ** *
23024587 TGTTATAGTCGTGCTATCATCTTACA-CTGTATAAGCCCATGTTTAATGTCCTAA-AGGACTCTA
1 TGTCATAGTCGAGCTATGGTCTTACACCT-TGTAA-CCCATGTTTAATGTCCTAACA-GACTCTA
23024650 TTAGT
63 TTAGT
* * ** * *
23024655 TGTCATAG-CTGAGCTATGGTCTTACACCTTGCAACCTTATGTTTAATGTCCTGGCGGACTTTAT
1 TGTCATAGTC-GAGCTATGGTCTTACACCTTGTAACC-CATGTTTAATGTCCTAACAGACTCTAT
*
23024719 TGGT
64 TAGT
** * * * *
23024723 TACCATAGTCGGGCTATGGTCTTACATCTTGTAACCCATGTTTAATATCCTAACAGAATCTATTA
1 TGTCATAGTCGAGCTATGGTCTTACACCTTGTAACCCATGTTTAATGTCCTAACAGACTCTATTA
*
23024788 TT
66 GT
* *
23024790 TGTCAAAGTCGAGCTATGGTATTACACCTTGTAACCC
1 TGTCATAGTCGAGCTATGGTCTTACACCTTGTAACCC
23024827 TTTTTGAGGC
Statistics
Matches: 234, Mismatches: 64, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
66 1 0.00
67 122 0.52
68 108 0.46
69 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (67 bp):
TGTCATAGTCGAGCTATGGTCTTACACCTTGTAACCCATGTTTAATGTCCTAACAGACTCTATTA
GT
Found at i:23028659 original size:19 final size:20
Alignment explanation
Indices: 23028621--23028661 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
23028611 AGTGACAAGT
* *
23028621 ATGTGGTAATAGTGAAATAC
1 ATGTGGTAATAATAAAATAC
23028641 ATGTGGTAA-AATAAAATAC
1 ATGTGGTAATAATAAAATAC
23028660 AT
1 AT
23028662 ATATTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.29
Consensus pattern (20 bp):
ATGTGGTAATAATAAAATAC
Found at i:23028671 original size:19 final size:19
Alignment explanation
Indices: 23028649--23028687 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23028639 ACATGTGGTA
23028649 AAATAA-AATACATATATTT
1 AAATAATAATA-ATATATTT
*
23028668 AAATAATAATAATCTATTT
1 AAATAATAATAATATATTT
23028687 A
1 A
23028688 CTTATTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAATAATAATATATTT
Found at i:23028717 original size:5 final size:5
Alignment explanation
Indices: 23028707--23028752 Score: 64
Period size: 5 Copynumber: 10.0 Consensus size: 5
23028697 TAAGTAAATG
23028707 TTATA TTATA -T-TA TTATA TTATA TTATA TTA-A -TATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
23028753 ATAAAAGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 4 0.11
4 4 0.11
5 29 0.78
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:23028725 original size:13 final size:13
Alignment explanation
Indices: 23028707--23028752 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
23028697 TAAGTAAATG
23028707 TTATATTATATTA
1 TTATATTATATTA
23028720 TTATATTATATTA
1 TTATATTATATTA
*
23028733 -TAT-TAATA-TA
1 TTATATTATATTA
23028743 TTATATTATA
1 TTATATTATA
23028753 ATAAAAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 2 0.07
11 7 0.24
12 7 0.24
13 13 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATATTATATTA
Found at i:23028728 original size:18 final size:18
Alignment explanation
Indices: 23028707--23028752 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
23028697 TAAGTAAATG
*
23028707 TTATATTATATTATTATA
1 TTATATTATATTAATATA
23028725 TTATATTATATTAATATA
1 TTATATTATATTAATATA
23028743 TTATATTATA
1 TTATATTATA
23028753 ATAAAAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATATTATATTAATATA
Found at i:23028763 original size:23 final size:23
Alignment explanation
Indices: 23028718--23028763 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23028708 TATATTATAT
* * **
23028718 TATTATATTATATTATATTAATA
1 TATTATATTATAATAAAAGAATA
23028741 TATTATATTATAATAAAAGAATA
1 TATTATATTATAATAAAAGAATA
23028764 AAACAAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTATATTATAATAAAAGAATA
Found at i:23028800 original size:19 final size:18
Alignment explanation
Indices: 23028763--23028801 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23028753 ATAAAAGAAT
* *
23028763 AAAACAAATAAATGAAAC
1 AAAACAAAAAAAAGAAAC
23028781 AAAACAAAAAGAAAGAAAC
1 AAAACAAAAA-AAAGAAAC
23028800 AA
1 AA
23028802 GAAAAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.77, C:0.10, G:0.08, T:0.05
Consensus pattern (18 bp):
AAAACAAAAAAAAGAAAC
Found at i:23039191 original size:27 final size:28
Alignment explanation
Indices: 23039107--23039204 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
23039097 CATGAGATTG
* * * *
23039107 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
23039136 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
23039164 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23039191 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
23039205 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:23039215 original size:27 final size:27
Alignment explanation
Indices: 23039135--23039217 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
23039125 TAAATTGTAC
* *
23039135 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
23039163 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
23039190 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
23039217 A
1 A
23039218 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:23039218 original size:29 final size:27
Alignment explanation
Indices: 23039107--23039218 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
23039097 CATGAGATTG
** * *
23039107 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
23039136 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
23039164 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
23039191 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
23039219 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:23040908 original size:22 final size:21
Alignment explanation
Indices: 23040881--23040929 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
23040871 TGTGAAAATA
*
23040881 TATTTAATTTC-TACATTCAAT
1 TATTTAATTTCGAAC-TTCAAT
23040902 TAATTTAATTTCGAACTTCAAT
1 T-ATTTAATTTCGAACTTCAAT
23040924 TATTTA
1 TATTTA
23040930 TTTAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 17 0.68
23 2 0.08
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTAATTTCGAACTTCAAT
Found at i:23045356 original size:15 final size:15
Alignment explanation
Indices: 23045336--23045365 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23045326 GATCATTTCC
23045336 CCGTGCCAACATGTT
1 CCGTGCCAACATGTT
23045351 CCGTGCCAACATGTT
1 CCGTGCCAACATGTT
23045366 TGCTCATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (15 bp):
CCGTGCCAACATGTT
Found at i:23051915 original size:18 final size:18
Alignment explanation
Indices: 23051892--23051974 Score: 105
Period size: 18 Copynumber: 4.6 Consensus size: 18
23051882 GCAGAGAACC
*
23051892 ATTTTGACTAGCATGACA
1 ATTTTGACCAGCATGACA
23051910 ATTTTGACCAGCATGACA
1 ATTTTGACCAGCATGACA
* * *
23051928 ATTTTGATCAGCATTATA
1 ATTTTGACCAGCATGACA
*
23051946 ATTTTGACCAGCATTG-TA
1 ATTTTGACCAGCA-TGACA
23051964 ATTTTGACCAG
1 ATTTTGACCAG
23051975 TAGTGTAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
18 57 0.98
19 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (18 bp):
ATTTTGACCAGCATGACA
Found at i:23051981 original size:18 final size:18
Alignment explanation
Indices: 23051909--23051989 Score: 92
Period size: 18 Copynumber: 4.5 Consensus size: 18
23051899 CTAGCATGAC
*
23051909 AATTTTGACCAGCA-TGAC
1 AATTTTGACCAGCAGTG-T
* * *
23051927 AATTTTGATCAGCATTAT
1 AATTTTGACCAGCAGTGT
*
23051945 AATTTTGACCAGCATTGT
1 AATTTTGACCAGCAGTGT
*
23051963 AATTTTGACCAGTAGTGT
1 AATTTTGACCAGCAGTGT
23051981 AATTTTGAC
1 AATTTTGAC
23051990 TAGAATTATA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
18 54 0.98
19 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (18 bp):
AATTTTGACCAGCAGTGT
Found at i:23051984 original size:36 final size:36
Alignment explanation
Indices: 23051892--23051989 Score: 101
Period size: 36 Copynumber: 2.7 Consensus size: 36
23051882 GCAGAGAACC
* *
23051892 ATTTTGACTAGCA-TGACAATTTTGACCAGCATGACA
1 ATTTTGACCAGCAGT-ATAATTTTGACCAGCATGACA
* * *
23051928 ATTTTGATCAGCATTATAATTTTGACCAGCATTG-TA
1 ATTTTGACCAGCAGTATAATTTTGACCAGCA-TGACA
* *
23051964 ATTTTGACCAGTAGTGTAATTTTGAC
1 ATTTTGACCAGCAGTATAATTTTGAC
23051990 TAGAATTATA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
36 49 0.94
37 3 0.06
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (36 bp):
ATTTTGACCAGCAGTATAATTTTGACCAGCATGACA
Found at i:23051998 original size:54 final size:54
Alignment explanation
Indices: 23051892--23052000 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 54
23051882 GCAGAGAACC
* *
23051892 ATTTTGACTAGCATGACAATTTTGACCAGCATGACAATTTTGATCAGCATTATA
1 ATTTTGACCAGCATGACAATTTTGACCAGCATGACAATTTTGATCAGAATTATA
* * *
23051946 ATTTTGACCAGCATTG-TAATTTTGACCAGTAGTG-TAATTTTGA-CTAGAATTATA
1 ATTTTGACCAGCA-TGACAATTTTGACCAGCA-TGACAATTTTGATC-AGAATTATA
23052000 A
1 A
23052001 CTTCCACCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
53 1 0.02
54 42 0.89
55 4 0.09
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (54 bp):
ATTTTGACCAGCATGACAATTTTGACCAGCATGACAATTTTGATCAGAATTATA
Found at i:23052996 original size:21 final size:21
Alignment explanation
Indices: 23052957--23052996 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23052947 GACTGATACC
*
23052957 ATGCTAGAAGAATAGAAGAAT
1 ATGCTAGAAGAACAGAAGAAT
23052978 ATGCTAGAAGGAACA-AAGA
1 ATGCTAGAA-GAACAGAAGA
23052997 GAACTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.53, C:0.07, G:0.25, T:0.15
Consensus pattern (21 bp):
ATGCTAGAAGAACAGAAGAAT
Found at i:23054663 original size:78 final size:78
Alignment explanation
Indices: 23054568--23054715 Score: 226
Period size: 78 Copynumber: 1.9 Consensus size: 78
23054558 AAATGAAAGA
* * ** *
23054568 TTTGTTGTTCCCCTCGACTTACCTT-GGCCTTTTAAATTGACCTTCACTCAAAGGTAATTTCATT
1 TTTGTGGTTCCCCTCGACCTACCTTAACCCTTTT-AATTGACCTTCACTCAAAGCTAATTTCATT
*
23054632 AGGACAGAGAGTCC
65 AAGACAGAGAGTCC
23054646 TTTGTGGTTCCCCTCGACCTACCTTAACCCTTTTAATTGACCTTCACTCAAAGCTAATTTCATTA
1 TTTGTGGTTCCCCTCGACCTACCTTAACCCTTTTAATTGACCTTCACTCAAAGCTAATTTCATTA
23054711 AGACA
66 AGACA
23054716 AAGAATCATT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 57 0.90
79 6 0.10
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (78 bp):
TTTGTGGTTCCCCTCGACCTACCTTAACCCTTTTAATTGACCTTCACTCAAAGCTAATTTCATTA
AGACAGAGAGTCC
Found at i:23054909 original size:31 final size:32
Alignment explanation
Indices: 23054871--23054930 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
23054861 TTATCCACGG
23054871 CAAAGAAAACCCTA-TT-ATCTCTATCATAACT
1 CAAAGAAAACCCTACTTCA-CTCTATCATAACT
*
23054902 CAAAGAAAGCCCTACTTCACTCTATCATA
1 CAAAGAAAACCCTACTTCACTCTATCATA
23054931 TGATTTGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 13 0.50
32 12 0.46
33 1 0.04
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.27
Consensus pattern (32 bp):
CAAAGAAAACCCTACTTCACTCTATCATAACT
Found at i:23057917 original size:11 final size:10
Alignment explanation
Indices: 23057884--23057937 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
23057874 CCTGGGCAGT
23057884 AGAAGAAAA-
1 AGAAGAAAAG
23057893 A-AAGAAAA-
1 AGAAGAAAAG
*
23057901 AAAAGAATAAG
1 AGAAGAA-AAG
23057912 AGAAGAAACAG
1 AGAAGAAA-AG
23057923 AGAAGAAAA-
1 AGAAGAAAAG
23057932 AGAAGA
1 AGAAGA
23057938 GGAGGAGAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
8 8 0.20
9 12 0.30
10 4 0.10
11 16 0.40
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02
Consensus pattern (10 bp):
AGAAGAAAAG
Found at i:23058296 original size:18 final size:20
Alignment explanation
Indices: 23058273--23058312 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
23058263 CTATTTATTT
23058273 TTCATTTT-TCTCC-ACTTC
1 TTCATTTTCTCTCCTACTTC
*
23058291 TTCATTTTCTTTCCTACTTC
1 TTCATTTTCTCTCCTACTTC
23058311 TT
1 TT
23058313 TTTCTTCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.10, C:0.30, G:0.00, T:0.60
Consensus pattern (20 bp):
TTCATTTTCTCTCCTACTTC
Found at i:23058997 original size:21 final size:21
Alignment explanation
Indices: 23058972--23059018 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
23058962 TTTCTTAAGT
23058972 CTTCTT-CTTTGTCACCTTTTG
1 CTTCTTCCTTTGT-ACCTTTTG
* *
23058993 CTTCTTCCTTTGTAGCTTTTT
1 CTTCTTCCTTTGTACCTTTTG
23059014 CTTCT
1 CTTCT
23059019 GCTGCTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.04, C:0.28, G:0.09, T:0.60
Consensus pattern (21 bp):
CTTCTTCCTTTGTACCTTTTG
Found at i:23062476 original size:24 final size:24
Alignment explanation
Indices: 23062441--23062488 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
23062431 AACAAGTTGC
*
23062441 ACGTTGTGGTCAAGCCATTAAATA
1 ACGTTGTAGTCAAGCCATTAAATA
*
23062465 ACGTTGTAGTCAAGCCATTGAATA
1 ACGTTGTAGTCAAGCCATTAAATA
23062489 TTGCAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (24 bp):
ACGTTGTAGTCAAGCCATTAAATA
Found at i:23063174 original size:30 final size:30
Alignment explanation
Indices: 23063139--23063198 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23063129 AGTTTAAAGG
23063139 TAGTTCATTTTTTATTTATCATTTAAATTC
1 TAGTTCATTTTTTATTTATCATTTAAATTC
*
23063169 TAGTTCATTTTTTATTTATCTTTTAAATTC
1 TAGTTCATTTTTTATTTATCATTTAAATTC
23063199 CAAAAATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (30 bp):
TAGTTCATTTTTTATTTATCATTTAAATTC
Found at i:23064227 original size:17 final size:18
Alignment explanation
Indices: 23064196--23064229 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23064186 ATGAATTACT
23064196 GTTGTTATTACTATTATA
1 GTTGTTATTACTATTATA
*
23064214 GTTG-TATTATTATTAT
1 GTTGTTATTACTATTAT
23064230 TTACTCGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (18 bp):
GTTGTTATTACTATTATA
Found at i:23066417 original size:46 final size:46
Alignment explanation
Indices: 23066350--23067348 Score: 1828
Period size: 46 Copynumber: 21.7 Consensus size: 46
23066340 TGTAACACGC
* * * *
23066350 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCACAT
* * *
23066396 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ATAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCACAT
* *
23066446 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066489 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066535 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066581 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066627 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066673 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066719 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066765 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066811 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066857 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066903 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066949 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23066995 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23067041 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23067087 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23067133 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23067179 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23067225 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23067271 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
23067317 CCATAAGTGAACTCGGACTCAACTCAACGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT
23067349 CTGGATGCCC
Statistics
Matches: 932, Mismatches: 11, Indels: 20
0.97 0.01 0.02
Matches are distributed among these distances:
42 3 0.00
43 3 0.00
44 2 0.00
45 4 0.00
46 883 0.95
47 28 0.03
48 2 0.00
49 2 0.00
50 2 0.00
51 3 0.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
Found at i:23073470 original size:19 final size:19
Alignment explanation
Indices: 23073412--23073470 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
23073402 CAATTTTTTT
23073412 ACAATTTAATCCTTGTTATACA
1 ACAATTTAATCCTT-TT-T-CA
* * *
23073434 A-AATTTACTACTTGTTCA
1 ACAATTTAATCCTTTTTCA
23073452 ACAATTTAATCCTTTTTCA
1 ACAATTTAATCCTTTTTCA
23073471 TTTCCAGCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 3 0.10
19 15 0.50
20 1 0.03
21 10 0.33
22 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (19 bp):
ACAATTTAATCCTTTTTCA
Found at i:23073715 original size:24 final size:24
Alignment explanation
Indices: 23073683--23073764 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 24
23073673 CCTTCGTCTG
*
23073683 TTTCTTTCTCCTTTTTCTTTTTTT
1 TTTCTTTCTCCTTTTTCTTTTCTT
* * * *
23073707 TTTCTTTCTCGTTTTGCTTCTCTG
1 TTTCTTTCTCCTTTTTCTTTTCTT
23073731 TTTCGTTTCTACC--TTTCTATTTCTT
1 TTTC-TTTCT-CCTTTTTCT-TTTCTT
23073756 TTTCTTTCT
1 TTTCTTTCT
23073765 TTCTTTATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 32 0.70
25 13 0.28
26 1 0.02
ACGTcount: A:0.02, C:0.23, G:0.05, T:0.70
Consensus pattern (24 bp):
TTTCTTTCTCCTTTTTCTTTTCTT
Found at i:23076600 original size:20 final size:19
Alignment explanation
Indices: 23076559--23076611 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
23076549 ACACATGCAT
23076559 AACATAA-CATTTATCATC
1 AACATAATCATTTATCATC
23076577 AACATAATCA-TTATACATTC
1 AACATAATCATTTAT-CA-TC
23076597 AACATAATCATTTAT
1 AACATAATCATTTAT
23076612 TACTAGCCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.35
19 4 0.13
20 12 0.39
21 4 0.13
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (19 bp):
AACATAATCATTTATCATC
Found at i:23077493 original size:18 final size:20
Alignment explanation
Indices: 23077456--23077494 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23077446 AAGAAAAAAT
*
23077456 ATAGTTTGAAGAATAAGAAA
1 ATAGTGTGAAGAATAAGAAA
23077476 ATAGTGTGAA-AA-AAGAAA
1 ATAGTGTGAAGAATAAGAAA
23077494 A
1 A
23077495 AAATGGCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (20 bp):
ATAGTGTGAAGAATAAGAAA
Found at i:23083726 original size:30 final size:31
Alignment explanation
Indices: 23083680--23083740 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
23083670 ATCCTGAGCC
23083680 TAGGGGCAAAAATGTAAATATG-CAAAATTT
1 TAGGGGCAAAAATGTAAATATGCCAAAATTT
* * * *
23083710 TAGGGGTAAAATTGTAATTTTGCCAAAATTT
1 TAGGGGCAAAAATGTAAATATGCCAAAATTT
23083741 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (31 bp):
TAGGGGCAAAAATGTAAATATGCCAAAATTT
Found at i:23086636 original size:8 final size:8
Alignment explanation
Indices: 23086625--23086657 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
23086615 GTTTACAGTC
23086625 ATACATAT
1 ATACATAT
23086633 ATACATAT
1 ATACATAT
*
23086641 ATACACAT
1 ATACATAT
23086649 AT-CATAT
1 ATACATAT
23086656 AT
1 AT
23086658 GGATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (8 bp):
ATACATAT
Found at i:23087533 original size:15 final size:15
Alignment explanation
Indices: 23087513--23087542 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23087503 GGAAGAAAAG
23087513 GCGTCAATTTTTCTT
1 GCGTCAATTTTTCTT
23087528 GCGTCAATTTTTCTT
1 GCGTCAATTTTTCTT
23087543 TCTCCAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (15 bp):
GCGTCAATTTTTCTT
Found at i:23087810 original size:37 final size:37
Alignment explanation
Indices: 23087758--23087833 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
23087748 AACCACTAGA
*
23087758 CCAGCAGGCCTATTCTGTTATATTTTCACAAACTTAT
1 CCAGCAGGCCCATTCTGTTATATTTTCACAAACTTAT
*
23087795 CCAGCAGGCCCATTCTGTTATATTTTCACACACTTAT
1 CCAGCAGGCCCATTCTGTTATATTTTCACAAACTTAT
23087832 CC
1 CC
23087834 TTATAAGCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.36
Consensus pattern (37 bp):
CCAGCAGGCCCATTCTGTTATATTTTCACAAACTTAT
Found at i:23091625 original size:14 final size:15
Alignment explanation
Indices: 23091606--23091634 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23091596 ATATTTAGCT
23091606 CTTTTC-TTTTGTTC
1 CTTTTCTTTTTGTTC
23091620 CTTTTCTTTTTGTTC
1 CTTTTCTTTTTGTTC
23091635 TATCGATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.72
Consensus pattern (15 bp):
CTTTTCTTTTTGTTC
Found at i:23094520 original size:26 final size:25
Alignment explanation
Indices: 23094484--23094538 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
23094474 TGTTTTTTAG
*
23094484 GTTTTTGGTGCTATTTTGGTGATGTT
1 GTTTTTGGTGCT-GTTTGGTGATGTT
* *
23094510 GTTTTTTGTGCTGTTTGGTGCTGTT
1 GTTTTTGGTGCTGTTTGGTGATGTT
23094535 -TTTT
1 GTTTT
23094539 GTGTTGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 4 0.15
25 11 0.42
26 11 0.42
ACGTcount: A:0.04, C:0.05, G:0.29, T:0.62
Consensus pattern (25 bp):
GTTTTTGGTGCTGTTTGGTGATGTT
Found at i:23094548 original size:12 final size:12
Alignment explanation
Indices: 23094509--23094558 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
23094499 TTGGTGATGT
23094509 TGTTTTTTGTGC
1 TGTTTTTTGTGC
*
23094521 TG--TTTGGTGC
1 TGTTTTTTGTGC
*
23094531 TGTTTTTTGTGT
1 TGTTTTTTGTGC
*
23094543 TG-TTTTTATGC
1 TGTTTTTTGTGC
23094554 TGTTT
1 TGTTT
23094559 GGTGTTGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 9 0.30
11 9 0.30
12 12 0.40
ACGTcount: A:0.02, C:0.06, G:0.26, T:0.66
Consensus pattern (12 bp):
TGTTTTTTGTGC
Found at i:23094555 original size:33 final size:33
Alignment explanation
Indices: 23094487--23094580 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 33
23094477 TTTTTAGGTT
* *
23094487 TTTGGTGCTATTTTGGTGATGTTGTTTTTTGTGCTG
1 TTTGGTGCTGTTTT-GTG-TGTTG-TTTTTATGCTG
*
23094523 TTTGGTGCTGTTTTTTGTGTTGTTTTTATGCTG
1 TTTGGTGCTGTTTTGTGTGTTGTTTTTATGCTG
*
23094556 TTTGGTGTTGTTTTGT-TGTTGTTTT
1 TTTGGTGCTGTTTTGTGTGTTGTTTT
23094581 GGTATTGTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
32 9 0.17
33 24 0.45
34 5 0.09
35 2 0.04
36 13 0.25
ACGTcount: A:0.03, C:0.04, G:0.29, T:0.64
Consensus pattern (33 bp):
TTTGGTGCTGTTTTGTGTGTTGTTTTTATGCTG
Found at i:23094565 original size:21 final size:22
Alignment explanation
Indices: 23094528--23094594 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
23094518 TGCTGTTTGG
*
23094528 TGCTGTTTTTTGTGTTGTTTTTA
1 TGCTG-TTTTGGTGTTGTTTTTA
23094551 TGCTG-TTTGGTGTTGTTTTGT-
1 TGCTGTTTTGGTGTTGTTTT-TA
* *
23094572 TGTTGTTTTGGTATTGTTTTTA
1 TGCTGTTTTGGTGTTGTTTTTA
23094594 T
1 T
23094595 ACTTAGGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 18 0.47
22 15 0.39
23 5 0.13
ACGTcount: A:0.04, C:0.03, G:0.25, T:0.67
Consensus pattern (22 bp):
TGCTGTTTTGGTGTTGTTTTTA
Found at i:23094570 original size:11 final size:11
Alignment explanation
Indices: 23094523--23094591 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 11
23094513 TTTTGTGCTG
*
23094523 TTTGGTGCTGTT
1 TTTGGTGTTG-T
*
23094535 TTTTGTGTTGT
1 TTTGGTGTTGT
** *
23094546 TTTTATGCTG-
1 TTTGGTGTTGT
23094556 TTTGGTGTTGT
1 TTTGGTGTTGT
*
23094567 TTTGTTGTTGT
1 TTTGGTGTTGT
*
23094578 TTTGGTATTGT
1 TTTGGTGTTGT
23094589 TTT
1 TTT
23094592 TATACTTAGG
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
10 7 0.15
11 31 0.67
12 8 0.17
ACGTcount: A:0.03, C:0.03, G:0.28, T:0.67
Consensus pattern (11 bp):
TTTGGTGTTGT
Found at i:23095539 original size:24 final size:25
Alignment explanation
Indices: 23095506--23095552 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23095496 CTTATTTTAA
* *
23095506 TATTTGTTTA-TATGTTTTTAAATG
1 TATTTATTTATTATATTTTTAAATG
23095530 TATTTATTTATTATATTTTTAAA
1 TATTTATTTATTATATTTTTAAA
23095553 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (25 bp):
TATTTATTTATTATATTTTTAAATG
Found at i:23095560 original size:25 final size:27
Alignment explanation
Indices: 23095513--23095564 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
23095503 TAATATTTGT
*
23095513 TTATATGTTTTTAAATGTATTTATTTA
1 TTATATGTTTTAAAATGTATTTATTTA
*
23095540 TTATAT-TTTTAAAAT-TTTTTATTTA
1 TTATATGTTTTAAAATGTATTTATTTA
23095565 ATGAAATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 8 0.35
27 6 0.26
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (27 bp):
TTATATGTTTTAAAATGTATTTATTTA
Found at i:23105343 original size:40 final size:39
Alignment explanation
Indices: 23105261--23105373 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 39
23105251 GCTTCTGTTT
* *
23105261 AGCTCTTATGAGCTTCTG-TTGGCGTGTTTCAGTAGGACC
1 AGCTCTTATGAGCTTCTGTTTGGTGT-TTTCAGTTGGACC
*
23105300 AGCTCTTATGAGCTTCTGTTTGGTGTATTTCAGTTGGATC
1 AGCTCTTATGAGCTTCTGTTTGGTGT-TTTCAGTTGGACC
* *
23105340 AGCTCTTATGAGCTTTTGTTTGGTGTGTTCAGTT
1 AGCTCTTATGAGCTTCTGTTTGGTGTTTTCAGTT
23105374 TATATGACGA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 25 0.37
40 42 0.63
ACGTcount: A:0.14, C:0.16, G:0.27, T:0.43
Consensus pattern (39 bp):
AGCTCTTATGAGCTTCTGTTTGGTGTTTTCAGTTGGACC
Found at i:23106751 original size:17 final size:17
Alignment explanation
Indices: 23106729--23106771 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
23106719 AAGTATGCAC
*
23106729 ATGTTTAGGAATGTTTA
1 ATGTTTAGGAATATTTA
*
23106746 ATGTTTAAGAATATTTA
1 ATGTTTAGGAATATTTA
*
23106763 ATGTATAGG
1 ATGTTTAGG
23106772 TGTTTTGTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
ATGTTTAGGAATATTTA
Found at i:23107256 original size:18 final size:18
Alignment explanation
Indices: 23107230--23107268 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
23107220 GTATATATTT
*
23107230 TAAATTTATTTAGGTAAA
1 TAAACTTATTTAGGTAAA
*
23107248 TAAACTTATTTAGGTAGA
1 TAAACTTATTTAGGTAAA
23107266 TAA
1 TAA
23107269 GTTTTATTCA
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:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (18 bp):
TAAACTTATTTAGGTAAA
Found at i:23108421 original size:37 final size:37
Alignment explanation
Indices: 23108371--23108448 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
23108361 CTTTAGCTCA
*
23108371 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
*
23108408 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
23108445 GACA
1 GACA
23108449 TTATTTCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (37 bp):
GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
Found at i:23108630 original size:128 final size:129
Alignment explanation
Indices: 23108380--23108637 Score: 466
Period size: 128 Copynumber: 2.0 Consensus size: 129
23108370 AGACAAAATC
*
23108380 TCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
23108445 GACATTATTTCCAAGTTTCATGTACATTTAATCACATGTTACAACATTCACATCGACTGTCATA
66 GACATTATTTCCAAGTTTCATGTACATTTAATCACATGTTACAACATTCACATCGACTGTCATA
* *
23108509 TCCACACGTAGTCATCGGGTC-TACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
23108573 GA-ATATATTTCCAAGTTTCATGTACATTTAATCACATGTTACAACATTCACATCGACTGTCATA
66 GACAT-TATTTCCAAGTTTCATGTACATTTAATCACATGTTACAACATTCACATCGACTGTCATA
23108637 T
1 T
23108638 TTGTAATTCA
Statistics
Matches: 125, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
127 2 0.02
128 104 0.83
129 19 0.15
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (129 bp):
TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
GACATTATTTCCAAGTTTCATGTACATTTAATCACATGTTACAACATTCACATCGACTGTCATA
Found at i:23108840 original size:47 final size:47
Alignment explanation
Indices: 23108779--23108963 Score: 289
Period size: 47 Copynumber: 3.9 Consensus size: 47
23108769 TACATATATT
* * * *
23108779 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
23108826 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
23108873 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
23108920 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
23108964 CACAATTATC
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:23108899 original size:22 final size:22
Alignment explanation
Indices: 23108872--23108947 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
23108862 GCTCACATTC
23108872 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTTGGCCTT
* ** *
23108894 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCAT-TTGGCCTT
*
23108918 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
23108941 ATCACAT
1 ATCACAT
23108948 ATATGCACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 10 0.25
25 7 0.17
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:23114626 original size:48 final size:48
Alignment explanation
Indices: 23114556--23114648 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
23114546 TACCTGTAGA
23114556 AAAAAAACAGTGGGCTGTAAATAGATGTTCACAACCAAATTCAAATCG
1 AAAAAAACAGTGGGCTGTAAATAGATGTTCACAACCAAATTCAAATCG
*
23114604 AAAAAAACAGTGGGCTGTAAATAGGTGTTCACAACCAAATTCAAA
1 AAAAAAACAGTGGGCTGTAAATAGATGTTCACAACCAAATTCAAA
23114649 CCAGATGGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.20
Consensus pattern (48 bp):
AAAAAAACAGTGGGCTGTAAATAGATGTTCACAACCAAATTCAAATCG
Done.