Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 77 of 290
Found at i:25567404 original size:81 final size:79
Alignment explanation
Indices: 25567206--25567920 Score: 403
Period size: 81 Copynumber: 8.8 Consensus size: 79
25567196 TACAAGGATG
* * * ** ** *
25567206 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAAT
1 TTTTGGTAATTTTACAAA-CTAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT-TAGTAA-
* *
25567270 TTTTAGAAAGTCAAGGGTA
63 TTTTACAAA--CCAGGGTA
* ** * * *** *
25567289 TTTTTGTAATTTTGTAAATTAGGGGAATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATT
1 TTTTGGTAATTTTACAAACTA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATT
*
25567354 TCACAAACCAGTGGTA
65 TTACAAACCAG-GGTA
* * *
25567370 TTTTGGTAATTTTACAAACTAGGAGTATTATGGTAGTTTTACAAACCAGGGGTATTTTAGTAATT
1 TTTTGGTAATTTTACAAACTAGG-GTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATT
*
25567435 TTACAGACCAGGGTA
65 TTACAAACCAGGGTA
* * * * **
25567450 ATTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATT
1 TTTTGGTAATTTTAC-AAACTAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATT
** **
25567515 TTGTAAATTGAGGGTA
65 TTACAAA-CCAGGGTA
***** **** * *** * * * * * ****
25567531 AAACAGTAATTCCGTAAATTAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATT
1 TTTTGGTAATTTTACAAACT-AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATT
* * **
25567596 CTGCAAATTAAGGGTA
65 TTACAAA-CCAGGGTA
****** * * * ** * *
25567612 AAACAATAATTATGTA-AATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAATAAT
1 TTTTGGTAATT-T-TACAAACTAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAAT
** *
25567676 TTTACAGGTCGAGGGTA
64 TTTACA-AACCAGGGTA
** * *
25567693 TTTCAGTAATTTCACAAA-TCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTT-GATAA
1 TTTTGGTAATTTTACAAACT-A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-TAA
* *
25567756 TTTCACAAACTAGGGGTA
63 TTTTACAAACCA-GGGTA
* *
25567774 TTTTGGTAGTTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATT
1 TTTTGGTAATTTTACAAACTA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATT
25567839 TTACAAACCATGGGTA
65 TTACAAACCA-GGGTA
* * * * *
25567855 TTTTGGTGATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
1 TTTTGGTAATTTTACAAA-CTAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATT
25567920 T
65 T
25567921 GGTAAACTAA
Statistics
Matches: 483, Mismatches: 131, Indels: 38
0.74 0.20 0.06
Matches are distributed among these distances:
79 1 0.00
80 70 0.14
81 355 0.73
82 15 0.03
83 42 0.09
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (79 bp):
TTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
TACAAACCAGGGTA
Found at i:25567927 original size:27 final size:27
Alignment explanation
Indices: 25567206--25567920 Score: 325
Period size: 27 Copynumber: 26.4 Consensus size: 27
25567196 TACAAGGATG
* * *
25567206 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
** ** **
25567233 TTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* * * *
25567260 TTTCT-ATAATTTTTAGAAAGTCAAGGGTA
1 TTT-TGGTAA-TTTTACAAA-CCAGGGGTA
* ** ** *
25567289 TTTTTGTAATTTTGTAAATTAGGGGAA
1 TTTTGGTAATTTTACAAACCAGGGGTA
**
25567316 TTTTGGTAATTTTACAAA-TTGAGGGTA
1 TTTTGGTAATTTTACAAACCAG-GGGTA
* *
25567343 TTTTGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* *
25567370 TTTTGGTAATTTTACAAACTAGGAGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* *
25567397 TTATGGTAGTTTTACAAACCAGGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* *
25567424 TTTTAGTAATTTTACAGACCA-GGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* ** *
25567450 ATTTGGTAATTTTACTGATC-GAGGGTA
1 TTTTGGTAATTTTACAAACCAG-GGGTA
** *
25567477 TTTTGGTAATTTTGTAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* ** **
25567504 TTTTAGTAATTTTGTAAA-TTGAGGGTA
1 TTTTGGTAATTTTACAAACCAG-GGGTA
***** **** ** *
25567531 AAACAGTAATTCCGTAAATTAAGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
*** * * * *
25567558 AAATAGTAATTCTATAAATC-GAGGGTA
1 TTTTGGTAATTTTACAAACCAG-GGGTA
***** * * ** *
25567585 AAACAGTAATTCTGCAAATTAAGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
****** * *
25567612 AAACAATAATTATGTA-AATCGA-GGGTA
1 TTTTGGTAATT-T-TACAAACCAGGGGTA
* **
25567639 CTTTGGTAATTTTACAAGTC-GAGGGTA
1 TTTTGGTAATTTTACAAACCAG-GGGTA
** ***
25567666 TTTTAATAATTTTACAGGTC-GAGGGTA
1 TTTTGGTAATTTTACAAACCAG-GGGTA
** * *
25567693 TTTCAGTAATTTCACAAATCAGGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* *
25567720 TTTTGGTAATTTTACAAACTAAGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* * *
25567747 TTTTGATAATTTCACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* *
25567774 TTTTGGTAGTTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* *
25567801 TTTTGGTAATTTTACAAACTAAGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* *
25567828 TTTTAGTAATTTTACAAACCATGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
* *
25567855 TTTTGGTGATTTTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
*
25567882 TTTTAGTAATTTTACAAACCAGGGGTA
1 TTTTGGTAATTTTACAAACCAGGGGTA
25567909 TTTTGGTAATTT
1 TTTTGGTAATTT
25567921 GGTAAACTAA
Statistics
Matches: 548, Mismatches: 121, Indels: 38
0.78 0.17 0.05
Matches are distributed among these distances:
25 2 0.00
26 26 0.05
27 485 0.89
28 21 0.04
29 14 0.03
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACCAGGGGTA
Found at i:25568811 original size:22 final size:22
Alignment explanation
Indices: 25568783--25568824 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
25568773 ATAACATGTG
25568783 CCACATATA-TCATGAGCTCAGA
1 CCACATA-ACTCATGAGCTCAGA
25568805 CCACATAACTCATGAGCTCA
1 CCACATAACTCATGAGCTCA
25568825 TATTGCATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.36, C:0.31, G:0.12, T:0.21
Consensus pattern (22 bp):
CCACATAACTCATGAGCTCAGA
Found at i:25571060 original size:56 final size:56
Alignment explanation
Indices: 25570974--25571093 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
25570964 ACAAGGGATG
25570974 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
25571030 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
25571086 ATGGGCAA
1 ATGGGCAA
25571094 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:25572221 original size:54 final size:54
Alignment explanation
Indices: 25572150--25572256 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
25572140 CAGGGGAAAT
* **
25572150 TTTAAGAAAAATCTGGTATTGATTGGCCAAGTCTAAAATTCTGAAAATTTTATC
1 TTTAAGAAAAATATGGTATTGATTGGCCAAACCTAAAATTCTGAAAATTTTATC
* *
25572204 TTTAAGAAAAATATGGTATTTATTGGCCAAACCTAAAATTCTGGAAATTTTAT
1 TTTAAGAAAAATATGGTATTGATTGGCCAAACCTAAAATTCTGAAAATTTTAT
25572257 GGATGGAAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (54 bp):
TTTAAGAAAAATATGGTATTGATTGGCCAAACCTAAAATTCTGAAAATTTTATC
Found at i:25572647 original size:34 final size:35
Alignment explanation
Indices: 25572607--25572674 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 35
25572597 ATTTGAATAG
25572607 ATGTGAAAGTG-TATATATGTGATAAGGCCTAAGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAAGA
25572641 ATGTGAAAGTGTATATATATGTGATAAGGCCTAA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAA
25572675 TGGCCGATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 11 0.34
36 21 0.66
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (35 bp):
ATGTGAAAGTGATATATATGTGATAAGGCCTAAGA
Found at i:25572724 original size:47 final size:47
Alignment explanation
Indices: 25572639--25572950 Score: 450
Period size: 47 Copynumber: 6.6 Consensus size: 47
25572629 TAAGGCCTAA
* *
25572639 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGAT
25572688 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
* *
25572735 GAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
* * *
25572782 GAATGTGAACA-TGTGTATGTGTGATAAGGCTGAATGGCCAATGTGAT
1 GAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
* *
25572829 GAATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
25572876 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
* * *
25572923 GGATGTGGAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
25572951 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 231 0.94
48 1 0.00
49 13 0.05
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
Found at i:25593420 original size:25 final size:25
Alignment explanation
Indices: 25593381--25593430 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
25593371 ATGATGGTAC
**
25593381 ATGATATATTGATATTTTGAAATGG
1 ATGATATATTGATATAATGAAATGG
25593406 ATGATATA-TGTATATAATGAAATGG
1 ATGATATATTG-ATATAATGAAATGG
25593431 TAAGATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (25 bp):
ATGATATATTGATATAATGAAATGG
Found at i:25594225 original size:17 final size:16
Alignment explanation
Indices: 25594203--25594234 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
25594193 TTCCAGCTTA
25594203 TTGGAAGCTCGATCGGG
1 TTGGAAGCTC-ATCGGG
25594220 TTGGAAGCTCATCGG
1 TTGGAAGCTCATCGG
25594235 AGATTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.25
Consensus pattern (16 bp):
TTGGAAGCTCATCGGG
Found at i:25607284 original size:37 final size:37
Alignment explanation
Indices: 25607225--25607351 Score: 141
Period size: 37 Copynumber: 3.7 Consensus size: 37
25607215 AGCTCAGACG
* *
25607225 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25607262 AAATCTCCACACGTAGTCATCGGGTCTTACCC-G---
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25607295 --A-----ACACGTAGTCATCCGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25607325 TAATCTCCACACGTAGTCATCGGGTCT
1 AAATCTCCACACGTAGTCATCGGGTCT
25607352 CACTCGGAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
26 23 0.31
27 1 0.01
31 1 0.01
32 1 0.01
36 1 0.01
37 48 0.64
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25607306 original size:26 final size:26
Alignment explanation
Indices: 25607270--25607320 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25607260 CAAAATCTCC
*
25607270 ACACGTAGTCATCGGGTCTTACCCGA
1 ACACGTAGTCATCCGGTCTTACCCGA
25607296 ACACGTAGTCATCCGGTCTTACCCG
1 ACACGTAGTCATCCGGTCTTACCCG
25607321 GACATAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.24
Consensus pattern (26 bp):
ACACGTAGTCATCCGGTCTTACCCGA
Found at i:25607332 original size:63 final size:63
Alignment explanation
Indices: 25607233--25607351 Score: 202
Period size: 63 Copynumber: 1.9 Consensus size: 63
25607223 CGAAATCTCC
* *
25607233 ACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGA
1 ACACGAAGTCATCCGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGA
* *
25607296 ACACGTAGTCATCCGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCT
1 ACACGAAGTCATCCGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCT
25607352 CACTCGGAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (63 bp):
ACACGAAGTCATCCGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGA
Found at i:25607637 original size:22 final size:22
Alignment explanation
Indices: 25607611--25607733 Score: 60
Period size: 23 Copynumber: 5.3 Consensus size: 22
25607601 GCTCACATTC
25607611 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
25607633 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
25607657 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
25607680 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
25607704 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
25607727 ATCACAT
1 ATCACAT
25607734 ATATGCATGT
Statistics
Matches: 75, Mismatches: 8, Indels: 36
0.63 0.07 0.30
Matches are distributed among these distances:
22 17 0.23
23 24 0.32
24 24 0.32
25 10 0.13
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:25607640 original size:47 final size:47
Alignment explanation
Indices: 25607564--25607949 Score: 646
Period size: 47 Copynumber: 8.1 Consensus size: 47
25607554 TATATATATT
* *
25607564 TCACATTGACCATTCGGCTTTACTCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTA-TCACACATATGCATGCTCACATTCA
25607612 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
25607659 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * *
25607706 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCGCATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
25607753 TCACATAATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCAC---ATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
25607803 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
25607850 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * ***
25607897 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
25607944 TCACAT
1 TCACAT
25607950 AAAATCCTAA
Statistics
Matches: 322, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
47 258 0.80
48 20 0.06
50 44 0.14
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:25607801 original size:191 final size:192
Alignment explanation
Indices: 25607568--25607951 Score: 707
Period size: 191 Copynumber: 2.0 Consensus size: 192
25607558 TATATTTCAC
*
25607568 ATTGACCATTCGGCTTTACTCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTT
1 ATTGACCATTCGGCCTTACTCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTT
25607633 ATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCT
66 ATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCT
* ** *
25607698 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCGCATTCATCACATA
131 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATA
*
25607760 ATTGGCCATTCGGCCTTA-TCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTT
1 ATTGACCATTCGGCCTTACTCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTT
25607824 ATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCT
66 ATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCT
25607889 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATA
131 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATA
25607951 A
1 A
25607952 AATCCTAAAT
Statistics
Matches: 186, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
191 170 0.91
192 16 0.09
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (192 bp):
ATTGACCATTCGGCCTTACTCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCT
CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATA
Found at i:25607828 original size:22 final size:22
Alignment explanation
Indices: 25607802--25607924 Score: 60
Period size: 23 Copynumber: 5.3 Consensus size: 22
25607792 GCTCACATTC
25607802 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
25607824 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
25607848 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
25607871 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
25607895 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
25607918 ATCACAT
1 ATCACAT
25607925 ATATACACAT
Statistics
Matches: 75, Mismatches: 8, Indels: 36
0.63 0.07 0.30
Matches are distributed among these distances:
22 17 0.23
23 24 0.32
24 24 0.32
25 10 0.13
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:25622824 original size:28 final size:30
Alignment explanation
Indices: 25622793--25622851 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
25622783 TGAAATTGTC
25622793 AATTAGGG-GCTAAAT-TAAGAAA-TGTGAA
1 AATT-GGGTGCTAAATGTAAGAAATTGTGAA
* *
25622821 AATTGGGTGTTAAATGTGAGAAATTGTGAA
1 AATTGGGTGCTAAATGTAAGAAATTGTGAA
25622851 A
1 A
25622852 TATATGGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 3 0.12
28 10 0.38
29 6 0.23
30 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.27, T:0.29
Consensus pattern (30 bp):
AATTGGGTGCTAAATGTAAGAAATTGTGAA
Found at i:25629664 original size:29 final size:28
Alignment explanation
Indices: 25629622--25629678 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 28
25629612 ATCAACAAGT
25629622 ATCATAATACACAAGTGGCATAAGTAAAA
1 ATCATAATACACAAGTGGCAT-AGTAAAA
25629651 ATCATAATACACAAGTGGCATAGTAAAA
1 ATCATAATACACAAGTGGCATAGTAAAA
25629679 CTTAATCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (28 bp):
ATCATAATACACAAGTGGCATAGTAAAA
Found at i:25630096 original size:48 final size:46
Alignment explanation
Indices: 25629966--25630138 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
25629956 TCTCGTAGCA
* *
25629966 GATGCATGTCCTAGACATGTCTTATACTAGCT-TACATCTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGCC
* *
25630012 GATGCATGTCCCAGACATGTCTTACACTAGCGCTCATCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCC
* * ** *
25630058 GGTGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGGCC
*
25630106 GATGCATATCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
25630139 ACAATAACCC
Statistics
Matches: 110, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
46 58 0.53
47 28 0.25
48 23 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCC
Found at i:25639751 original size:14 final size:14
Alignment explanation
Indices: 25639732--25639760 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25639722 CGAATAGACT
25639732 ATGAAAACATCCAA
1 ATGAAAACATCCAA
25639746 ATGAAAACATCCAA
1 ATGAAAACATCCAA
25639760 A
1 A
25639761 AACATCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.21, G:0.07, T:0.14
Consensus pattern (14 bp):
ATGAAAACATCCAA
Found at i:25645998 original size:93 final size:93
Alignment explanation
Indices: 25645890--25646061 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
25645880 GCCCATAAGT
* * * *
25645890 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTGAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25645955 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
25645983 GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
25646048 CGAGTTTGGATGCC
66 CGAGCTCGGATGCC
25646062 CAAATATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:25646053 original size:46 final size:46
Alignment explanation
Indices: 25645882--25646051 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 46
25645872 TGTAACCCGC
* **
25645882 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
25645928 CCATAAGTGAACTCGGACTGAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** * *
25645974 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
25646021 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
25646052 TTTGGATGCC
Statistics
Matches: 99, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 65 0.66
47 34 0.34
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:25649503 original size:40 final size:39
Alignment explanation
Indices: 25649459--25649643 Score: 228
Period size: 40 Copynumber: 4.7 Consensus size: 39
25649449 GCCACTAGCT
*
25649459 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * *
25649499 CAAATGCCTTTGGGACTTAGCCCTGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
*
25649538 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
25649578 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
25649618 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
25649644 TATCATTCGA
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
39 38 0.30
40 87 0.70
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:25657617 original size:40 final size:40
Alignment explanation
Indices: 25657508--25657635 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
25657498 CCTTTGGAGT
*
25657508 TTAG-CCGGATATAGCCAATAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
* * * *
25657547 TTAGCCCGGATATAG-TAGCTTGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGCCA-CTAGCTCAAATGCCTTCGGGAC
25657587 TTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGCCACTAGCTCAAATGCCT-TCGGGAC
25657627 TTAGCCCGG
1 TTAGCCCGG
25657636 TTATCATCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
39 8 0.11
40 66 0.88
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
Found at i:25659247 original size:30 final size:30
Alignment explanation
Indices: 25659195--25659291 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
25659185 TTATGGAACA
*
25659195 AAGATAACTAGAAAACT-GAATAAAGAAATCC
1 AAGATAA--AGAAACCTAGAATAAAGAAATCC
*
25659226 AAGATAGAGAAACCTAGAATAAAGAAATCC
1 AAGATAAAGAAACCTAGAATAAAGAAATCC
* * *
25659256 -AGATTAAAGAGATCC-AGGATAAAGAAACCC
1 AAGA-TAAAGA-AACCTAGAATAAAGAAATCC
25659286 AAGATA
1 AAGATA
25659292 CGATACTATG
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
29 10 0.18
30 34 0.61
31 12 0.21
ACGTcount: A:0.56, C:0.13, G:0.16, T:0.14
Consensus pattern (30 bp):
AAGATAAAGAAACCTAGAATAAAGAAATCC
Found at i:25659291 original size:15 final size:15
Alignment explanation
Indices: 25659214--25659291 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
25659204 AGAAAACTGA
25659214 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
25659229 ATAGAGAAA-CCTAG
1 ATAAAGAAATCCAAG
25659243 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
25659258 ATTAAAGAGATCCAGG
1 A-TAAAGAAATCCAAG
*
25659274 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
25659289 ATA
1 ATA
25659292 CGATACTATG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.10
15 42 0.82
16 4 0.08
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:25660614 original size:154 final size:154
Alignment explanation
Indices: 25660448--25660756 Score: 591
Period size: 154 Copynumber: 2.0 Consensus size: 154
25660438 TTAACATAGA
*
25660448 TAAGTTCATTTCATTATAATCCTTTATCTCATAAAATTTATATATCATTAACATTCATCAACATT
1 TAAGTTCATTTCATTATAATCCTTTATCTCATAAAAATTATATATCATTAACATTCATCAACATT
25660513 CGACGTCCAAATCAAGACAATGACATTTTCATTCATATCATAATATTATAACTTTTATTCATACC
66 CGACGTCCAAATCAAGACAATGACATTTTCATTCATATCATAATATTATAACTTTTATTCATACC
25660578 TCTACTACTTTCTATTTATTCCGT
131 TCTACTACTTTCTATTTATTCCGT
*
25660602 TAAGTTCATTTCATTATAATCCTTTATCTCATAAAAATTATATATCATTAACATTCATCAATATT
1 TAAGTTCATTTCATTATAATCCTTTATCTCATAAAAATTATATATCATTAACATTCATCAACATT
*
25660667 CGACGTCCAAATCAAGACAATGACATTTTCATTCATATCATAATATTATAACTTTTTTTCATACC
66 CGACGTCCAAATCAAGACAATGACATTTTCATTCATATCATAATATTATAACTTTTATTCATACC
25660732 TCTACTACTTTCTATTTATTCCGT
131 TCTACTACTTTCTATTTATTCCGT
25660756 T
1 T
25660757 CATCTTATCA
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 152 1.00
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.43
Consensus pattern (154 bp):
TAAGTTCATTTCATTATAATCCTTTATCTCATAAAAATTATATATCATTAACATTCATCAACATT
CGACGTCCAAATCAAGACAATGACATTTTCATTCATATCATAATATTATAACTTTTATTCATACC
TCTACTACTTTCTATTTATTCCGT
Found at i:25662516 original size:93 final size:93
Alignment explanation
Indices: 25662385--25662556 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
25662375 GCCCATAAGT
* * *
25662385 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
25662450 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
25662478 GAACTCGGACTCAAGTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
25662543 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
25662557 GAAATATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:25662552 original size:46 final size:46
Alignment explanation
Indices: 25662377--25662552 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
25662367 TGTAACCCGC
* * *
25662377 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
25662423 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** * *
25662469 ACATCTCTCGAACTCGGACTCAAGTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
25662516 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
25662553 TGCCGAAATA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 73 0.68
47 34 0.32
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:25664795 original size:47 final size:47
Alignment explanation
Indices: 25664742--25664841 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 47
25664732 AGACAAGGAT
25664742 ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAG
1 ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAG
* *
25664789 ACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAG
1 ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAG
25664836 ACCATG
1 ACCATG
25664842 CCAAGGCATG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (47 bp):
ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAG
Found at i:25670883 original size:118 final size:118
Alignment explanation
Indices: 25670675--25670910 Score: 472
Period size: 118 Copynumber: 2.0 Consensus size: 118
25670665 ACGATTAAGG
25670675 ATACCATGTAAGACCATGTTAAGATATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTC
1 ATACCATGTAAGACCATGTTAAGATATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTC
25670740 AAGACATGGCATCGGCATTGATTAAGGACTCCATGTATGACCACATTAAGATT
66 AAGACATGGCATCGGCATTGATTAAGGACTCCATGTATGACCACATTAAGATT
25670793 ATACCATGTAAGACCATGTTAAGATATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTC
1 ATACCATGTAAGACCATGTTAAGATATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTC
25670858 AAGACATGGCATCGGCATTGATTAAGGACTCCATGTATGACCACATTAAGATT
66 AAGACATGGCATCGGCATTGATTAAGGACTCCATGTATGACCACATTAAGATT
25670911 TGGCATTGGC
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (118 bp):
ATACCATGTAAGACCATGTTAAGATATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTC
AAGACATGGCATCGGCATTGATTAAGGACTCCATGTATGACCACATTAAGATT
Found at i:25671095 original size:55 final size:54
Alignment explanation
Indices: 25670969--25671162 Score: 230
Period size: 54 Copynumber: 3.6 Consensus size: 54
25670959 GTAAGCTAAA
* * *
25670969 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
* * * **
25671023 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAAGAAAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTAT-AAGGCAAG
* * *
25671079 G-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
* **
25671131 GATACCACGTAAGACCATATCAAGACATGGCA
1 GATACCATGTAAGACCATGCCAAGACATGGCA
25671163 ATGGTAAGTT
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 7 0.06
53 27 0.23
54 39 0.33
55 38 0.32
56 7 0.06
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
Found at i:25671192 original size:108 final size:109
Alignment explanation
Indices: 25670974--25671197 Score: 310
Period size: 108 Copynumber: 2.1 Consensus size: 109
25670964 CTAAAGATAT
* *
25670974 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* * * *
25671039 ATGTCAAGACATGGCATTGATGAGTTACTATAAAGAAAAGGTCC
66 ATATCAAGACATGGCAATGATAAGTTACTAAAAAGAAAAGGTCC
* * *
25671083 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
25671147 ATATCAAGACATGGCAATGGTAAGTT-C-AAAAAGGAAAAGGTTCC
66 ATATCAAGACATGGCAATGATAAGTTACTAAAAA-GAAAAGG-TCC
*
25671191 CAAGTAA
1 CATGTAA
25671198 TCCAAAGACT
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
106 4 0.04
107 8 0.08
108 54 0.53
109 36 0.35
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATATCAAGACATGGCAATGATAAGTTACTAAAAAGAAAAGGTCC
Found at i:25676661 original size:50 final size:51
Alignment explanation
Indices: 25676579--25676711 Score: 153
Period size: 51 Copynumber: 2.6 Consensus size: 51
25676569 TTAGGTCATG
* ** * * **
25676579 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGAT-GGTT-AGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTCA-ATCACA
*
25676629 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCAATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTCAATCACA
* *
25676680 TGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA
25676712 AGAGATGGAT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
50 34 0.48
51 36 0.51
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTCAATCACA
Found at i:25676729 original size:51 final size:51
Alignment explanation
Indices: 25676627--25676764 Score: 152
Period size: 51 Copynumber: 2.7 Consensus size: 51
25676617 GGTTAGGTTG
* * *** *
25676627 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCAATCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATAGATTCAATCA
* **
25676678 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATGGATTTGATCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATAGATTCAATCA
* * * *
25676729 CAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGA
25676765 AGGTAGCTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 4 0.05
51 70 0.95
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (51 bp):
CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATAGATTCAATCA
Found at i:25681594 original size:26 final size:25
Alignment explanation
Indices: 25681558--25681628 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
25681548 AGGAAGCGCA
* *
25681558 AAAAGGACTTTTGCTCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTACC
* *
25681583 GAAAAGGGCTTTTACCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTACC
*
25681609 AAAAAGGC-TTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
25681629 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.28
25 7 0.18
26 21 0.54
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTACC
Found at i:25681640 original size:24 final size:24
Alignment explanation
Indices: 25681584--25681655 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
25681574 CAGTTTACCG
*
25681584 AAAAG-GGCTTTTACCCCAGTTTATC
1 AAAAGAGGC-TTTGCCCCAG-TTATC
*
25681609 AAAA-AGGCTTTGCCCCAGTTATT
1 AAAAGAGGCTTTGCCCCAGTTATC
**
25681632 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
25681656 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 8 0.20
24 17 0.43
25 15 0.38
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:25681884 original size:31 final size:31
Alignment explanation
Indices: 25681849--25681939 Score: 94
Period size: 38 Copynumber: 2.7 Consensus size: 31
25681839 CATTTACAGT
25681849 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* *
25681880 AAAGGATCCGGCCCAGTGTTATGGAATATGAAATATGA
1 AAAGGCTTCGGCCCA--G---T--AATATGAAATATGA
25681918 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTAATATG
25681940 CTTAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
30 5 0.10
31 13 0.27
33 2 0.04
36 2 0.04
38 27 0.55
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:25689493 original size:20 final size:20
Alignment explanation
Indices: 25689468--25689534 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
25689458 ATTCTGATAT
25689468 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
25689488 ACATGATATGTGTGATATGC
1 ACATGATATGTATGATATGC
25689508 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
25689528 ACATGAT
1 ACATGAT
25689535 GTATTCATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:25689495 original size:11 final size:11
Alignment explanation
Indices: 25689479--25689534 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
25689469 CATGATATGT
25689479 ATGATATGCAC
1 ATGATATGCAC
*
25689490 ATGATATG--T
1 ATGATATGCAC
*
25689499 GTGATATGCAC
1 ATGATATGCAC
*
25689510 ATGATATG--T
1 ATGATATGCAC
25689519 ATGATATGCAC
1 ATGATATGCAC
25689530 ATGAT
1 ATGAT
25689535 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:25689522 original size:9 final size:9
Alignment explanation
Indices: 25689470--25689526 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
25689460 TCTGATATAC
25689470 ATGATATGT
1 ATGATATGT
*
25689479 ATGATATGCAC
1 ATGATATG--T
25689490 ATGATATGT
1 ATGATATGT
* *
25689499 GTGATATGCAC
1 ATGATATG--T
25689510 ATGATATGT
1 ATGATATGT
25689519 ATGATATG
1 ATGATATG
25689527 CACATGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:25689548 original size:40 final size:40
Alignment explanation
Indices: 25689468--25689548 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
25689458 ATTCTGATAT
* *
25689468 ACATGATATGTATGATATGCACATGATATGTGTGATATGC
1 ACATGATATGTATGATATGCACATGATATATGTCATATGC
*
25689508 ACATGATATGTATGATATGCACATGATGTAT-TCATAATGC
1 ACATGATATGTATGATATGCACATGATATATGTCAT-ATGC
25689548 A
1 A
25689549 TTGGGATGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.08
40 34 0.92
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGATATATGTCATATGC
Found at i:25689619 original size:26 final size:25
Alignment explanation
Indices: 25689582--25689665 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
25689572 AGGAAGTGCA
*
25689582 AAAAGGGTTTTTGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATC
25689607 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
* *
25689633 AAAAAGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
25689656 AAAAGAGGCT
1 AAAAG-GGCT
25689666 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 8 0.15
24 13 0.25
25 7 0.13
26 24 0.46
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:25689911 original size:31 final size:31
Alignment explanation
Indices: 25689873--25689936 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
25689863 CGTTTACAGT
25689873 AAAGGCTTCAG-CCCAGTAATATGAAATATGA
1 AAAGGCTT-AGTCCCAGTAATATGAAATATGA
* **
25689904 AAAGGCTTTGTCCCAGTGTTATGAAATATGA
1 AAAGGCTTAGTCCCAGTAATATGAAATATGA
25689935 AA
1 AA
25689937 TATGAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAGGCTTAGTCCCAGTAATATGAAATATGA
Found at i:25692571 original size:13 final size:13
Alignment explanation
Indices: 25692553--25692577 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25692543 TAATGGTATA
25692553 TTGAATCCATGAC
1 TTGAATCCATGAC
25692566 TTGAATCCATGA
1 TTGAATCCATGA
25692578 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:25694250 original size:47 final size:47
Alignment explanation
Indices: 25694169--25694515 Score: 516
Period size: 47 Copynumber: 7.4 Consensus size: 47
25694159 AATGTGAAAG
*
25694169 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
25694217 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
25694264 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
25694311 TGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
25694358 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
25694405 GGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
25694452 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
25694498 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
25694516 TCCCGAAGGG
Statistics
Matches: 274, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 261 0.95
48 12 0.04
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:25694690 original size:37 final size:37
Alignment explanation
Indices: 25694634--25694713 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
25694624 CCGGGCTCTA
* * *
25694634 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
25694671 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
25694708 AAGACT
1 AAGACT
25694714 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:25696362 original size:14 final size:14
Alignment explanation
Indices: 25696343--25696370 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25696333 CTTCGATGAG
25696343 TTAGAAGAAACTAT
1 TTAGAAGAAACTAT
25696357 TTAGAAGAAACTAT
1 TTAGAAGAAACTAT
25696371 GAGCAAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
TTAGAAGAAACTAT
Found at i:25697662 original size:50 final size:51
Alignment explanation
Indices: 25697587--25697723 Score: 168
Period size: 50 Copynumber: 2.7 Consensus size: 51
25697577 TATGGATGAA
* *
25697587 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGAT-GG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAGC
* * * * *
25697637 TTAGGTCGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCCGATAGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAGC
* * * *
25697688 TTCGATCACATGTGTGGTACTAAGTGCAGGCCACTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
25697724 TGTGTAAGAG
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 42 0.58
51 31 0.42
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (51 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAGC
Found at i:25697724 original size:51 final size:50
Alignment explanation
Indices: 25697587--25697769 Score: 168
Period size: 51 Copynumber: 3.6 Consensus size: 50
25697577 TATGGATGAA
* * * *
25697587 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATGG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATGC
* * * * *
25697637 TTAGGTCGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCCGATAGC
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGAT-GC
* * * * ** *
25697688 TTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATGGT
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGAT-GC
* * * *
25697739 TTTGATCACAAGTGTAGTACTATGTGAAGGC
1 TTAGATCACATGTGTAGTACTAAGTGCAGGC
25697770 AACTTTGTGA
Statistics
Matches: 108, Mismatches: 24, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 42 0.39
51 66 0.61
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (50 bp):
TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATGC
Found at i:25697794 original size:51 final size:51
Alignment explanation
Indices: 25697682--25697820 Score: 136
Period size: 51 Copynumber: 2.7 Consensus size: 51
25697672 ATGCGTACCC
* * * * * *
25697682 GATAGCTTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCAACTATGTGAAAAA
* * * * *
25697733 GATGGTTTTGATCACAAGTGTAGTACTATGTGAAGGCAACTTTGTGAAAAA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCAACTATGTGAAAAA
* * *
25697784 GGTAGCTTTGA-CTACAAGGGTGGTACCATGTGCAGGC
1 GATAGCTTTGATC-ACAAGTGTGGTACTATGTGCAGGC
25697821 CACCGAGTAT
Statistics
Matches: 69, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
50 1 0.01
51 68 0.99
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (51 bp):
GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCAACTATGTGAAAAA
Found at i:25698814 original size:14 final size:14
Alignment explanation
Indices: 25698795--25698822 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25698785 CACTACGATC
25698795 ATTCTTATTTTGAA
1 ATTCTTATTTTGAA
25698809 ATTCTTATTTTGAA
1 ATTCTTATTTTGAA
25698823 TTATGGCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
ATTCTTATTTTGAA
Found at i:25709501 original size:29 final size:29
Alignment explanation
Indices: 25709438--25709505 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
25709428 TAATCAACCG
*
25709438 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
25709467 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
25709496 CGCACACTTA
1 CGCACACTTA
25709506 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:25709618 original size:174 final size:174
Alignment explanation
Indices: 25709327--25709654 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
25709317 AACTCAAGGT
* *
25709327 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
25709392 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
25709457 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
25709501 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
25709566 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
25709631 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
25709655 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:25709646 original size:29 final size:30
Alignment explanation
Indices: 25709607--25709685 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
25709597 CTTAATAATC
25709607 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
25709637 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
25709666 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
25709686 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:25713319 original size:54 final size:54
Alignment explanation
Indices: 25713133--25713380 Score: 331
Period size: 54 Copynumber: 4.6 Consensus size: 54
25713123 CTTACCATTT
* * *
25713133 CCATG-CTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
1 CCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
* **
25713185 TCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATG
1 CCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATG
* * * *
25713240 CCATGTCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCGATG
1 CCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
** * *
25713294 CCATGTATTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
25713348 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGCCTTGGCATGGTCTTACATGATATCCTT
25713381 ATCTTACCAA
Statistics
Matches: 175, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
52 6 0.03
53 29 0.17
54 93 0.53
55 45 0.26
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
Found at i:25713417 original size:47 final size:47
Alignment explanation
Indices: 25713359--25713480 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
25713349 CATGCCTTGG
25713359 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* * *
25713406 CATGGTTTTACATGGTATCCTTTTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
25713453 CATGGTCTTACATGATATACTTGTCTTA
1 CATGGTCTTACATGATATCCTTATCTTA
25713481 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:25716040 original size:54 final size:54
Alignment explanation
Indices: 25715853--25716212 Score: 402
Period size: 54 Copynumber: 6.6 Consensus size: 54
25715843 AACCTACCAT
* * * *
25715853 TGCCATGTCTTGACATGGTCTTACGTGATATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGTCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATCAA
* ***
25715906 TGCCATGCCTTGGCATGGTCTTACATG-GGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGTCTTGGCATGGTCTTACATGATTTCC-TTGCCTTATAG-AACTCATCAA
* ** * * *
25715961 TGCCATGTCTTGACATTATCTTACATGATTTCCTTACCTTATAGAACTTATCTA
1 TGCCATGTCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATCAA
* *
25716015 TGCCATGTATTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATCAA
* *** *
25716069 TGCCATGCCTTGGCATGGTCTTACATG-GGACCTTTGCCTTATAGTACCTCATCAA
1 TGCCATGTCTTGGCATGGTCTTACATGATTTCC-TTGCCTTATAG-AACTCATCAA
* * *
25716124 TGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATCAA
* * * * *
25716178 TGCCATGCCTTAGCATAGACTTACATGATATCCTT
1 TGCCATGTCTTGGCATGGTCTTACATGATTTCCTT
25716213 ATCTTACCAA
Statistics
Matches: 255, Mismatches: 45, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
52 2 0.01
53 35 0.14
54 129 0.51
55 85 0.33
56 4 0.02
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
TGCCATGTCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATCAA
Found at i:25716052 original size:109 final size:108
Alignment explanation
Indices: 25715853--25716218 Score: 418
Period size: 109 Copynumber: 3.4 Consensus size: 108
25715843 AACCTACCAT
* * * * * *
25715853 TGCCATGTCTTGACATGGTCTTACGTGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
1 TGCCATGCCTTGACATGATCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGTCTT
*** *
25715917 GGCATGGTCTTACATG-GGACCTTTGCCTTATAGTAACTCATCAA
66 GGCATGGTCTTACATGATTTCC-TTGCCTTATAG-AACTTATCAA
* * * * * *
25715961 TGCCATGTCTTGACATTATCTTACATGATTTCCTTACCTTATAGAACTTATCTATGCCATGTATT
1 TGCCATGCCTTGACATGATCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGTCTT
25716026 GGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
66 GGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
* * ** * *
25716069 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTACCTCATCAATGCCATGTC
1 TGCCATGCCTTGACATGATCTTACATGATATCC-TTACCTTATAG-AACTCATCAATGCCATGTC
* *
25716133 TTGACATGATCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
64 TTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
*
25716178 TGCCATGCCTT-AGCATAGA-CTTACATGATATCCTTATCTTA
1 TGCCATGCCTTGA-CAT-GATCTTACATGATATCCTTACCTTA
25716219 CCAAATGCCA
Statistics
Matches: 217, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
107 2 0.01
108 79 0.36
109 131 0.60
110 5 0.02
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (108 bp):
TGCCATGCCTTGACATGATCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGTCTT
GGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
Found at i:25716122 original size:163 final size:162
Alignment explanation
Indices: 25715853--25716212 Score: 585
Period size: 163 Copynumber: 2.2 Consensus size: 162
25715843 AACCTACCAT
* *
25715853 TGCCATGTCTTGACATGGTCTTACGTGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGGCATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
*
25715918 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATTATCTT
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGATCTT
*
25715983 ACATGATTTCCTTACCTTATAGAACTTATCTA
131 ACATGATTTCCTTACCTTATAGAACTTATCAA
* * * *
25716015 TGCCATGTATTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTGGCATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
*
25716080 GGCATGGTCTTACATGGGACCTTTGCCTTATAGTACCTCATCAATGCCATGTCTTGACATGATCT
65 GGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGATCT
*
25716145 TACATGATTTCCTTGCCTTATAGAACTTATCAA
130 TACATGATTTCCTTACCTTATAGAACTTATCAA
* * * *
25716178 TGCCATGCCTTAGCATAGACTTACATGATATCCTT
1 TGCCATGTCTTGGCATGGTCTTACATGATATCCTT
25716213 ATCTTACCAA
Statistics
Matches: 181, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
162 38 0.21
163 143 0.79
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (162 bp):
TGCCATGTCTTGGCATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGATCTT
ACATGATTTCCTTACCTTATAGAACTTATCAA
Found at i:25723379 original size:37 final size:37
Alignment explanation
Indices: 25723320--25723428 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
25723310 AGCTCAGACG
* * *
25723320 AAATATCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25723357 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25723394 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25723429 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25723682 original size:48 final size:49
Alignment explanation
Indices: 25723574--25723715 Score: 198
Period size: 50 Copynumber: 2.9 Consensus size: 49
25723564 GCACATCGCC
* * *
25723574 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCATATATGCATATCTCA-A
*
25723624 TATATATTTCACATT-GACCATTCGGCTTTACCATATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCATATATGCATATCTCAA
25723672 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCAT
1 TACATATTTCACATTAGCCATTCGGCTTTA-C-CATATATGCAT
25723716 GTTCATATTC
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
48 28 0.34
49 3 0.04
50 52 0.63
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCATATATGCATATCTCAA
Found at i:25723711 original size:50 final size:50
Alignment explanation
Indices: 25723574--25723809 Score: 210
Period size: 47 Copynumber: 4.9 Consensus size: 50
25723564 GCACATCGCC
*
25723574 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTC--A
*
25723624 TATATATTTCACATT-GACCATTCGGCTTTA-C-CATATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATATGCATATCTCA
*
25723672 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATGT-TCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
** * * * * *
25723721 T--AT-TCACCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC-
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
* * * *
25723767 -ACAT-TCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCAT
25723810 GTTCACATTC
Statistics
Matches: 163, Mismatches: 13, Indels: 23
0.82 0.07 0.12
Matches are distributed among these distances:
46 1 0.01
47 74 0.45
48 34 0.21
49 8 0.05
50 46 0.28
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (50 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
Found at i:25723744 original size:47 final size:47
Alignment explanation
Indices: 25723632--25723873 Score: 274
Period size: 47 Copynumber: 5.1 Consensus size: 47
25723622 TATATATATT
* * * *
25723632 TCACATTGACCATTCGGCTTTA-C-CATATATGCATATCTCATACATAT-T
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACAT-TCA
* * * *
25723680 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
25723727 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
25723774 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
** * * **
25723821 TCACATTGGCCATTCATCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
25723868 TCACAT
1 TCACAT
25723874 AAAATCCTAA
Statistics
Matches: 170, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
46 1 0.01
47 134 0.79
48 20 0.12
49 3 0.02
50 12 0.07
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:25723874 original size:25 final size:25
Alignment explanation
Indices: 25723795--25723874 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
25723785 ATTCGGCCTT
**
25723795 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* *
25723820 ATCACAT-T-GGC-CATTCATCCTT-
1 ATCACATATATGCACATTCA-CATTC
* *
25723842 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCACATTCACATTC
25723867 ATCACATA
1 ATCACATA
25723875 AAATCCTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 10 0.24
23 6 0.15
24 5 0.12
25 20 0.49
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:25728865 original size:40 final size:40
Alignment explanation
Indices: 25727914--25728863 Score: 1603
Period size: 40 Copynumber: 23.8 Consensus size: 40
25727904 CCAGCATGAT
* * * * **
25727914 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
* * * *
25727954 TGCTTTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
* * *
25727994 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
* * *
25728034 TGCTCTTCGGGACTTAGTCCAAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728074 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728114 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728154 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728194 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728234 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728274 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728314 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728354 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728394 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728434 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728474 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728514 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728554 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
* *
25728594 TGCTCTTCGGGACTTAGCCCAGATACATCAGTCGCATGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
* * * *
25728634 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
* * * *
25728674 TGCTCTTCAGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
* * *
25728714 TGCTCTTCGGGACTTAGTCCAAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
25728754 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
* *
25728794 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
* *
25728834 TGCTCTTCGGGACTTAGCCCGGATATATCA
1 TGCTCTTCGGGACTTAGCCCAGATACATCA
25728864 CTCTCAGTTC
Statistics
Matches: 876, Mismatches: 34, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 876 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCAGATACATCAGTAGCACGAA
Found at i:25729059 original size:36 final size:36
Alignment explanation
Indices: 25729012--25729080 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
25729002 CTTATGAGAA
25729012 TGATTTTGTGATGACCTGGTGATTATAGGTCTACAC
1 TGATTTTGTGATGACCTGGTGATTATAGGTCTACAC
*
25729048 TGATTTTGTGATGACCTTGTGATTATAGGTCTA
1 TGATTTTGTGATGACCTGGTGATTATAGGTCTA
25729081 TACTTATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.42
Consensus pattern (36 bp):
TGATTTTGTGATGACCTGGTGATTATAGGTCTACAC
Found at i:25739967 original size:8 final size:8
Alignment explanation
Indices: 25739954--25739990 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
25739944 GTAGAACGGC
25739954 AAAAGCCA
1 AAAAGCCA
*
25739962 AAAAGCCG
1 AAAAGCCA
*
25739970 AAATGCCA
1 AAAAGCCA
25739978 AAAAGCCA
1 AAAAGCCA
25739986 AAAAG
1 AAAAG
25739991 TCGAGAGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.59, C:0.22, G:0.16, T:0.03
Consensus pattern (8 bp):
AAAAGCCA
Found at i:25740708 original size:40 final size:40
Alignment explanation
Indices: 25740653--25740766 Score: 131
Period size: 40 Copynumber: 2.9 Consensus size: 40
25740643 ACTGTGGACA
* *
25740653 TACTGATGGCTTTGTGATGCTATTGATGGCTTTGTGCTAC
1 TACTGATGGCTTTGTGACGCTATTGATGGCTTTGTACTAC
* * * *
25740693 TACTGATGTCTTTGTGCCACTACTGATGGCTTTGTACTAC
1 TACTGATGGCTTTGTGACGCTATTGATGGCTTTGTACTAC
* * *
25740733 TATTGATGGATTTCT-ACCGCTATTGATGGCTTTG
1 TACTGATGGCTTTGTGA-CGCTATTGATGGCTTTG
25740767 ATCCGCTACT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.42
Consensus pattern (40 bp):
TACTGATGGCTTTGTGACGCTATTGATGGCTTTGTACTAC
Found at i:25740760 original size:60 final size:60
Alignment explanation
Indices: 25740653--25740785 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
25740643 ACTGTGGACA
* * * * * *
25740653 TACTGATGGCTTTGTGATGCTATTGATGGCTTTGTGCTACTACTGATGTCTTTG-TGCCAC
1 TACTGATGGCTTTGTGATACTATTGATGGATTTCTACCACTACTGATGGCTTTGAT-CCAC
* * *
25740713 TACTGATGGCTTTGT-ACTACTATTGATGGATTTCTACCGCTATTGATGGCTTTGATCCGC
1 TACTGATGGCTTTGTGA-TACTATTGATGGATTTCTACCACTACTGATGGCTTTGATCCAC
*
25740773 TACTCATGGCTTT
1 TACTGATGGCTTT
25740786 CTGCCATATA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
59 1 0.02
60 59 0.97
61 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (60 bp):
TACTGATGGCTTTGTGATACTATTGATGGATTTCTACCACTACTGATGGCTTTGATCCAC
Found at i:25740772 original size:20 final size:20
Alignment explanation
Indices: 25740653--25740785 Score: 99
Period size: 20 Copynumber: 6.7 Consensus size: 20
25740643 ACTGTGGACA
**
25740653 TACTGATGGCTTTGTGA-TGC
1 TACTGATGGCTTTGT-ACCAC
* * *
25740673 TATTGATGGCTTTGTGCTAC
1 TACTGATGGCTTTGTACCAC
* *
25740693 TACTGATGTCTTTGTGCCAC
1 TACTGATGGCTTTGTACCAC
*
25740713 TACTGATGGCTTTGTACTAC
1 TACTGATGGCTTTGTACCAC
* * * *
25740733 TATTGATGGATTTCTACCGC
1 TACTGATGGCTTTGTACCAC
* *
25740753 TATTGATGGCTTTG-ATCCGC
1 TACTGATGGCTTTGTA-CCAC
*
25740773 TACTCATGGCTTT
1 TACTGATGGCTTT
25740786 CTGCCATATA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
19 1 0.01
20 92 0.99
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (20 bp):
TACTGATGGCTTTGTACCAC
Found at i:25740857 original size:26 final size:26
Alignment explanation
Indices: 25740828--25740900 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
25740818 GTTATTGTTT
*
25740828 CTGGCAAATTTGCTACGATACTATTA
1 CTGGCAACTTTGCTACGATACTATTA
* * * *
25740854 CTGGCATCTTTGCTGCAATACTGTTA
1 CTGGCAACTTTGCTACGATACTATTA
* *
25740880 CTGGCAGCTATGCTACGATAC
1 CTGGCAACTTTGCTACGATAC
25740901 CGGTGCGTTG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (26 bp):
CTGGCAACTTTGCTACGATACTATTA
Found at i:25740884 original size:52 final size:52
Alignment explanation
Indices: 25740800--25740900 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 52
25740790 CATATACTGA
* ** * * *
25740800 TACTGGTAGCTTTGCTGCGTTATTGTTTCTGGCAAATTTGCTACGATACTAT
1 TACTGGCAGCTTTGCTGCAATACTGTTACTGGCAAATATGCTACGATACTAT
* **
25740852 TACTGGCATCTTTGCTGCAATACTGTTACTGGCAGCTATGCTACGATAC
1 TACTGGCAGCTTTGCTGCAATACTGTTACTGGCAAATATGCTACGATAC
25740901 CGGTGCGTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 40 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (52 bp):
TACTGGCAGCTTTGCTGCAATACTGTTACTGGCAAATATGCTACGATACTAT
Found at i:25741046 original size:28 final size:28
Alignment explanation
Indices: 25741004--25741062 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
25740994 TGTACTGTAT
25741004 TGTTACTGCATTGGGCTAAGGCCCACAC
1 TGTTACTGCATTGGGCTAAGGCCCACAC
* *
25741032 TGTTACTG-ATCTGGGCTTAGGCCCAGAC
1 TGTTACTGCAT-TGGGCTAAGGCCCACAC
25741060 TGT
1 TGT
25741063 GTTATTCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (28 bp):
TGTTACTGCATTGGGCTAAGGCCCACAC
Found at i:25742214 original size:60 final size:59
Alignment explanation
Indices: 25742121--25742239 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 59
25742111 GAAATGTCTT
*
25742121 AAAATGCATCCGAACTTGCCGCCTTGCAAGCATTGTAAAGGGTATCATTCAGGGGAATGC
1 AAAATGCATCCAAACTTGCCGCCTTGCAAGCATTGTAAAGGGTAT-ATTCAGGGGAATGC
* *
25742181 AAAATGCGTCCAAACTTGTCGCCTTGCAAGCATTGTAAAGGGTATATTCAGGGGAATGC
1 AAAATGCATCCAAACTTGCCGCCTTGCAAGCATTGTAAAGGGTATATTCAGGGGAATGC
25742240 CGAAGGAAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
59 14 0.25
60 42 0.75
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (59 bp):
AAAATGCATCCAAACTTGCCGCCTTGCAAGCATTGTAAAGGGTATATTCAGGGGAATGC
Found at i:25743564 original size:17 final size:17
Alignment explanation
Indices: 25743542--25743576 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
25743532 TTCCAGGGGC
25743542 CGAATGTACCCTTCCCA
1 CGAATGTACCCTTCCCA
25743559 CGAATGTACCCTTCCCA
1 CGAATGTACCCTTCCCA
25743576 C
1 C
25743577 TCATTCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.43, G:0.11, T:0.23
Consensus pattern (17 bp):
CGAATGTACCCTTCCCA
Found at i:25744700 original size:20 final size:20
Alignment explanation
Indices: 25744655--25744751 Score: 90
Period size: 20 Copynumber: 5.0 Consensus size: 20
25744645 GACTGTGGAC
*
25744655 CTACTGATGGC--TGTGCCG
1 CTACTGATGGCTTTCTGCCG
* *
25744673 CTATTGATGGCTTTCTGCTG
1 CTACTGATGGCTTTCTGCCG
* *
25744693 CTACTGATGGCTTTGTGCCA
1 CTACTGATGGCTTTCTGCCG
* * *
25744713 CTATTGATGGCTTTTTGCCT
1 CTACTGATGGCTTTCTGCCG
* *
25744733 CTACTCATAGCTTTCTGCC
1 CTACTGATGGCTTTCTGCC
25744752 ATATACTGAT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
18 10 0.16
20 53 0.84
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.39
Consensus pattern (20 bp):
CTACTGATGGCTTTCTGCCG
Found at i:25744718 original size:40 final size:40
Alignment explanation
Indices: 25744655--25744752 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
25744645 GACTGTGGAC
*
25744655 CTACTGATGGC--TGTGCCGCTATTGATGGCTTTCTG-CT
1 CTACTGATGGCTTTGTGCCACTATTGATGGCTTTCTGCCT
*
25744692 GCTACTGATGGCTTTGTGCCACTATTGATGGCTTTTTGCCT
1 -CTACTGATGGCTTTGTGCCACTATTGATGGCTTTCTGCCT
* * *
25744733 CTACTCATAGCTTTCTGCCA
1 CTACTGATGGCTTTGTGCCA
25744753 TATACTGATA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 11 0.21
40 39 0.75
41 2 0.04
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.39
Consensus pattern (40 bp):
CTACTGATGGCTTTGTGCCACTATTGATGGCTTTCTGCCT
Found at i:25744772 original size:27 final size:27
Alignment explanation
Indices: 25744740--25744804 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
25744730 CCTCTACTCA
25744740 TAGCTTT-CTGCCATATACTGATACTGG
1 TAGCTTTGCTGCCAT-TACTGATACTGG
* *
25744767 TAGCTTTGCTG-CGTTACTGTTACTGG
1 TAGCTTTGCTGCCATTACTGATACTGG
*
25744793 CAGCTTTGCTGC
1 TAGCTTTGCTGC
25744805 GATACTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 21 0.64
27 9 0.27
28 3 0.09
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
TAGCTTTGCTGCCATTACTGATACTGG
Found at i:25744791 original size:26 final size:26
Alignment explanation
Indices: 25744754--25744835 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 26
25744744 TTTCTGCCAT
* *
25744754 ATACTGATACTGGTAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
25744780 TTACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* * * *
25744806 ATACTATTATTGGCAGCTATGCTTCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
25744832 ATAC
1 ATAC
25744836 CGGTGTGTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:25747350 original size:34 final size:33
Alignment explanation
Indices: 25747290--25747361 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
25747280 TGTTACCGAC
* * *
25747290 ACTGAAATGGGCTAAGGCCCACACTGATACTGA
1 ACTGTAATGGGCTAAGACCCACACTGAAACTGA
*
25747323 TACTGTAATGGGCTAAGACCTTA-ACTGAAACTGA
1 -ACTGTAATGGGCTAAGACC-CACACTGAAACTGA
25747357 ACTGT
1 ACTGT
25747362 TACTGATACG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 5 0.15
34 27 0.82
35 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (33 bp):
ACTGTAATGGGCTAAGACCCACACTGAAACTGA
Found at i:25780030 original size:12 final size:12
Alignment explanation
Indices: 25780013--25780041 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
25780003 CCATACACGC
25780013 CCGTGTGCTTGG
1 CCGTGTGCTTGG
25780025 CCGTGTGCTTGG
1 CCGTGTGCTTGG
25780037 CCGTG
1 CCGTG
25780042 CCAAAACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.28, G:0.41, T:0.31
Consensus pattern (12 bp):
CCGTGTGCTTGG
Found at i:25788073 original size:46 final size:45
Alignment explanation
Indices: 25787981--25788147 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 45
25787971 GTACCAATGA
25787981 CATGTCCCAAACATGGTCTTACACT-GAC--ACATCTCATAGCAGATG
1 CATGTCCCAAACAT-GTCTTACACTAG-CTTACATCTCA-AGCAGATG
* * *
25788026 CATGTCCCAGACATGTCTTATACTAGCTTACATCTCAAGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTACATCTCAA-GCAGATG
* * *
25788072 CATGTCCCAAACATGTCTTACACTAGCGCT-CATCTCAATGCCGGTG
1 CATGTCCCAAACATGTCTTACACTAGC-TTACATCTCAA-GCAGATG
25788118 CCATGTCCCAAACATGGTCTTACACTAGCT
1 -CATGTCCCAAACAT-GTCTTACACTAGCT
25788148 CTGATAATGT
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
44 10 0.10
45 15 0.14
46 52 0.50
47 15 0.14
48 13 0.12
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (45 bp):
CATGTCCCAAACATGTCTTACACTAGCTTACATCTCAAGCAGATG
Found at i:25797805 original size:14 final size:14
Alignment explanation
Indices: 25797786--25797814 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25797776 CGAATAGACT
25797786 ATGAAAACATCCAA
1 ATGAAAACATCCAA
25797800 ATGAAAACATCCAA
1 ATGAAAACATCCAA
25797814 A
1 A
25797815 AACATCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.21, G:0.07, T:0.14
Consensus pattern (14 bp):
ATGAAAACATCCAA
Found at i:25803635 original size:47 final size:47
Alignment explanation
Indices: 25803582--25803681 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 47
25803572 AGACAAGGAT
25803582 ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAA
1 ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAA
* * * *
25803629 ACCATGTTTGGAACATGGCATTTGGTAAGATAAGTATATCATGTAAG
1 ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAA
25803676 ACCATG
1 ACCATG
25803682 CCAAGGCATG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (47 bp):
ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAA
Found at i:25803789 original size:55 final size:53
Alignment explanation
Indices: 25803671--25803856 Score: 205
Period size: 55 Copynumber: 3.5 Consensus size: 53
25803661 AGTATATCAT
* * * ** *
25803671 GTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCAT
1 GTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAGG-ACCCAC
* * * *
25803725 GTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGGAAAAGGTCCCAG
1 GTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-CAAGGACCCAC
* *
25803780 GTAAGACCAT-TCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGACACCAC
1 GTAAGACCATGT-CAAGACATGGCATTGATGAGTTCTATAAGGCAAGGAC-CCAC
25803833 GTAAGACCATGTCAAGACATGGCA
1 GTAAGACCATGTCAAGACATGGCA
25803857 ATGGTAAGTT
Statistics
Matches: 111, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
52 5 0.05
53 30 0.27
54 33 0.30
55 39 0.35
56 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.20
Consensus pattern (53 bp):
GTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGACCCAC
Found at i:25803842 original size:53 final size:54
Alignment explanation
Indices: 25803671--25803867 Score: 211
Period size: 53 Copynumber: 3.6 Consensus size: 54
25803661 AGTATATCAT
* * * * *
25803671 GTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCAT
1 GTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGACACCAC
* * * * *
25803725 GTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGGAAAAGGTC-CCAG
1 GTAAGACCATGTCAAGACATGGCATTGATAAGTT-CTATAAGG-CAAGGACACCAC
* * *
25803780 GTAAGACCAT-TCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGACACCAC
1 GTAAGACCATGT-CAAGACATGGCATTGATAAGTTCTATAAGGCAAGGACACCAC
* *
25803833 GTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 GTAAGACCATGTCAAGACATGGCATTGATAAGTTC
25803868 AAAAAGCAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 5 0.04
53 39 0.32
54 33 0.28
55 39 0.32
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
GTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGACACCAC
Found at i:25803886 original size:108 final size:109
Alignment explanation
Indices: 25803671--25803891 Score: 295
Period size: 108 Copynumber: 2.0 Consensus size: 109
25803661 AGTATATCAT
* *
25803671 GTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATG
1 GTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACCATG
* * * * *
25803736 TCAAGACATGGAATTGATGAGTTACTATAAGGAAAAGGTCCCAG
66 TCAAGACATGGAATTGATAAGTTACAAAAAGCAAAAGGTCCCAA
* * * *
25803780 GTAAGACCATTCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGACACCACGTAAGACCATG
1 GTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACCATG
*
25803844 TCAAGACATGGCAA-TGGTAAGTT-CAAAAAGCAAAAGGTTCCCAA
66 TCAAGACATGG-AATTGATAAGTTACAAAAAGCAAAAGG-TCCCAA
25803888 GTAA
1 GTAA
25803892 TCCAAAGACC
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
107 11 0.11
108 53 0.54
109 34 0.35
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (109 bp):
GTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACCATG
TCAAGACATGGAATTGATAAGTTACAAAAAGCAAAAGGTCCCAA
Found at i:25807308 original size:15 final size:17
Alignment explanation
Indices: 25807288--25807326 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
25807278 GTTATTGTCT
25807288 TTTAGTTGAG-A-TTGA
1 TTTAGTTGAGCAGTTGA
25807303 TTTAGTTGAGCAGTTGA
1 TTTAGTTGAGCAGTTGA
*
25807320 TTGAGTT
1 TTTAGTT
25807327 ATATGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 1 0.05
17 10 0.48
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.46
Consensus pattern (17 bp):
TTTAGTTGAGCAGTTGA
Found at i:25809403 original size:30 final size:30
Alignment explanation
Indices: 25809355--25809416 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
25809345 TTTTTGAGCC
*
25809355 TAGGGGCAAAATCATAATTCTG-CAAAGGTT
1 TAGGGCCAAAATCATAATTCTGCCAAA-GTT
** *
25809385 TAGGGCCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGCCAAAATCATAATTCTGCCAAAGTT
25809415 TA
1 TA
25809417 AGTTAGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (30 bp):
TAGGGCCAAAATCATAATTCTGCCAAAGTT
Found at i:25810017 original size:44 final size:44
Alignment explanation
Indices: 25809952--25810036 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
25809942 TTGATATCTC
* *
25809952 AAAGTCCATGGTTGTACCATGGAAATTAAGGAAGAATTGACAAA
1 AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACAAA
* * * *
25809996 AAAGTCCAT-GTTCATAACATGGCATTTAATGAGGAATTGAC
1 AAAGTCCATGGTT-ATAACATGGAAATTAAGGAAGAATTGAC
25810037 GATTAAGGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACAAA
Found at i:25810256 original size:47 final size:47
Alignment explanation
Indices: 25810187--25810286 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 47
25810177 AGACAAGGAT
*
25810187 ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAG
1 ACCATGTTTGGAACATGGCATTTGGTAAGACAAAGATACCATGTAAG
* *
25810234 ACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATGTAAG
1 ACCATGTTTGGAACATGGCATTTGGTAAGACAAAGATACCATGTAAG
25810281 ACCATG
1 ACCATG
25810287 CCAAGGCATG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (47 bp):
ACCATGTTTGGAACATGGCATTTGGTAAGACAAAGATACCATGTAAG
Found at i:25810394 original size:55 final size:54
Alignment explanation
Indices: 25810268--25810482 Score: 227
Period size: 54 Copynumber: 4.0 Consensus size: 54
25810258 GTAAGATAAA
* * *
25810268 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGAAAG
* * * *
25810322 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGG-AAAG
* * * * * *
25810378 G-TCCCATGTAAGACCATCCCAAGGCATGGCATTGCTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGAAAG
* * * * * *
25810430 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGAAA
25810483 AGGTTCCCAA
Statistics
Matches: 134, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 39 0.29
54 46 0.34
55 41 0.31
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGAAAG
Found at i:25810473 original size:53 final size:54
Alignment explanation
Indices: 25810268--25810472 Score: 234
Period size: 55 Copynumber: 3.8 Consensus size: 54
25810258 GTAAGATAAA
* *
25810268 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAG
* * * * *
25810322 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGG-CAAG
* * * * *
25810378 G-TCCCATGTAAGACCATCCCAAGGCATGGCATTGCTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAG
* * * *
25810430 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
25810473 AAAAAGGAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 39 0.31
54 39 0.31
55 41 0.32
56 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAG
Found at i:25810491 original size:108 final size:109
Alignment explanation
Indices: 25810273--25810496 Score: 317
Period size: 108 Copynumber: 2.1 Consensus size: 109
25810263 ATAAAGATAT
* * *
25810273 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATCCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* * * *
25810338 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
* * *
25810382 CATGTAAGACCATCCCAAGGCATGGCATTGCTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATCCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
25810446 ATGTCAAGACATGGCAATGGTAAGTT-CAAAAAGGAAAAGGTTCC
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGG-TCC
*
25810490 CAAGTAA
1 CATGTAA
25810497 TCCAAAGACT
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
107 12 0.12
108 55 0.54
109 35 0.34
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATCCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:25816086 original size:51 final size:50
Alignment explanation
Indices: 25815931--25816117 Score: 151
Period size: 51 Copynumber: 3.7 Consensus size: 50
25815921 TGGTTTTAGG
* * * ** * *
25815931 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTTAGA
1 TCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAACAGATGGTTCGA
** * * * *
25815981 TTGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCA-ATAGCTTCAA
1 TCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTA-ACAGAT-GGTTCGA
* *
25816032 TCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATGGTTCTGA
1 TCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAACAGATGGTTC-GA
* * * * * *
25816083 TCACAAGAGTGGTACTATGTGAAGGCCACTTTGTG
1 TCACATGTGTAGTACTAAGTGCAGGCCACTATGTG
25816118 AAGAAGGTAG
Statistics
Matches: 110, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 38 0.35
51 72 0.65
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAACAGATGGTTCGA
Found at i:25820853 original size:20 final size:20
Alignment explanation
Indices: 25820828--25820874 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
25820818 ATTCTGATAT
25820828 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
25820848 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
25820868 ACATGAT
1 ACATGAT
25820875 GTATTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:25820982 original size:25 final size:26
Alignment explanation
Indices: 25820922--25820990 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
25820912 AGGAAGTGCA
25820922 AAAAGGGCTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
*
25820948 AAAAGGGCTTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTTGCCCCAGTTTACCG
25820973 AAAAGGGC-TTTGCCCCAG
1 AAAAGGGCTTTTGCCCCAG
25820991 ATATTAAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 10 0.24
25 8 0.19
26 24 0.57
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:25821005 original size:24 final size:24
Alignment explanation
Indices: 25820922--25821005 Score: 89
Period size: 26 Copynumber: 3.4 Consensus size: 24
25820912 AGGAAGTGCA
* *
25820922 AAAAGGGCTTTTGCCCCAGTTTACC
1 AAAAGGGC-TTTGCCCCAGTATATC
*
25820947 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGC-TTTGCCCCAGTATATC
*
25820973 AAAAGGGCTTTGCCCCAG-ATATT
1 AAAAGGGCTTTGCCCCAGTATATC
25820996 AAAAGAGGCT
1 AAAAG-GGCT
25821006 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
23 8 0.15
24 14 0.26
25 8 0.15
26 24 0.44
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTATATC
Found at i:25821267 original size:31 final size:31
Alignment explanation
Indices: 25821213--25821276 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
25821203 CGTTTACAGT
* *
25821213 AAAGGCTTCGGCCCAGCAATATGAAATATGA
1 AAAGGCTTCGGCCCAACAATATGAAATACGA
***
25821244 AAAGGCTTCGGCCCAATGTTATGAAATACGA
1 AAAGGCTTCGGCCCAACAATATGAAATACGA
25821275 AA
1 AA
25821277 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAACAATATGAAATACGA
Found at i:25824134 original size:48 final size:48
Alignment explanation
Indices: 25824063--25824168 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
25824053 CAAGATAAAT
* * *
25824063 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25824111 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
25824159 ATGTGTATAT
1 ATATGTATAT
25824169 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:25830249 original size:46 final size:46
Alignment explanation
Indices: 25830199--25830327 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
25830189 TGGTTGAGCA
* *
25830199 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
25830245 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
25830291 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25830328 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:25846121 original size:47 final size:47
Alignment explanation
Indices: 25846059--25846498 Score: 556
Period size: 47 Copynumber: 9.1 Consensus size: 47
25846049 ACACGTTTCG
* * *
25846059 CATTAGCCATTCGGCCTTACCACATATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
25846106 CATTGGCCATTCGGCCTTATCACGCATATATATACACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
* *
25846159 CATTGGCCATTCGGTCTTATCAGACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ***
25846206 CATTGGCCATTCGACCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
25846257 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCTTCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
25846304 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCTTCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25846351 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ***
25846398 CATTGGCCATTCGACCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
25846449 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCATATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25846496 CAT
1 CAT
25846499 AAAATCCTAA
Statistics
Matches: 346, Mismatches: 33, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
47 216 0.62
49 1 0.00
51 86 0.25
53 43 0.12
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:25846291 original size:98 final size:98
Alignment explanation
Indices: 25846059--25846498 Score: 672
Period size: 98 Copynumber: 4.5 Consensus size: 98
25846049 ACACGTTTCG
* * * *
25846059 CATTAGCCATTCGGCCTTACCACATATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
* *
25846124 ATCACGCATATATATACACAGGTTCACATTCATCA
66 ATCACACATATATAT--ACGGGTTCACATTCATCA
* *
25846159 CATTGGCCATTCGGTCTTATCAGACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
25846224 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACACATATATATACGGGTTCACATTCATCA
* * *
25846257 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCTTCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
*** * *
25846322 ATCACACATACGCAT----GTTCACATCCTTCA
66 ATCACACATATATATACGGGTTCACATTCATCA
25846351 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
25846416 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACACATATATATACGGGTTCACATTCATCA
* *
25846449 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCATATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
25846499 AAAATCCTAA
Statistics
Matches: 308, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
94 86 0.28
98 149 0.48
100 73 0.24
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
ATCACACATATATATACGGGTTCACATTCATCA
Found at i:25846397 original size:192 final size:194
Alignment explanation
Indices: 25846059--25846498 Score: 713
Period size: 192 Copynumber: 2.3 Consensus size: 194
25846049 ACACGTTTCG
* * * *
25846059 CATTAGCCATTCGGCCTTACCACATATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTT
* * * *
25846124 ATCACGCATATATATACACAGGTTCACATTCATCACATTGGCCATTCGGTCTTATCAGACATACG
66 ATCAC-C--A-ACATACACAGGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACG
25846189 CATGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATATATATACGGGTTCACATTCA
127 CATGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATATATATACGGGTTCACATTCA
25846254 TCA
192 TCA
*
25846257 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCTTCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTT
* * *
25846322 ATCA-C-ACATACGCATGTTCACATCCTTCACATTGGCCATTCGGCCTTATCACACATACGCATG
66 ATCACCAACATACACAGGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
25846385 TTCACATTCATCACATTGGCCATTCGACCTTATCACACATATATATACGGGTTCACATTCATCA
131 TTCACATTCATCACATTGGCCATTCGACCTTATCACACATATATATACGGGTTCACATTCATCA
*
25846449 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCATATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
25846499 AAAATCCTAA
Statistics
Matches: 228, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
192 163 0.71
196 1 0.00
198 64 0.28
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (194 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTT
ATCACCAACATACACAGGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
TTCACATTCATCACATTGGCCATTCGACCTTATCACACATATATATACGGGTTCACATTCATCA
Found at i:25850436 original size:40 final size:40
Alignment explanation
Indices: 25850392--25850703 Score: 480
Period size: 40 Copynumber: 7.8 Consensus size: 40
25850382 CCAGCATGAT
* * * *
25850392 TGCTCTTCGGGACCTAGCCCGAATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
25850432 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25850472 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25850512 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25850552 TGCTCCTCGAGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25850592 TGCTCTTCGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25850632 TGCTCCTCGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25850672 TGCTATTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
25850704 CTCAATTCTC
Statistics
Matches: 249, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 249 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:25852034 original size:37 final size:37
Alignment explanation
Indices: 25851973--25852191 Score: 384
Period size: 37 Copynumber: 5.9 Consensus size: 37
25851963 GCTCAGACGA
* * * *
25851973 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
25852010 AATCTCCACACGTAGTCATTGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
25852047 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
25852084 AATCTCCACACGTAGTCATCAGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
25852121 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
25852158 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25852192 ATATATTTCC
Statistics
Matches: 174, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 174 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:25852456 original size:47 final size:47
Alignment explanation
Indices: 25852397--25852543 Score: 231
Period size: 47 Copynumber: 3.1 Consensus size: 47
25852387 CATACACGTT
* * *
25852397 TCACATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
25852444 TCACATTGGCCATTTGGCCTTATCTCATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
25852491 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
25852538 TCACAT
1 TCACAT
25852544 AAAATCCTAA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 91 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:25853311 original size:413 final size:413
Alignment explanation
Indices: 25852544--25853370 Score: 1645
Period size: 413 Copynumber: 2.0 Consensus size: 413
25852534 TTCATCACAT
25852544 AAAATCCTAAATCAAAATATAAAATTTCATGTATTCACATCACAATTATCCAAATATACTTCACA
1 AAAATCCTAAATCAAAATATAAAATTTCATGTATTCACATCACAATTATCCAAATATACTTCACA
*
25852609 TACCACATATACTTTCACGTATACACATTGTCTTGGCTGAATCTACATCTATCATTTTCCAATAT
66 TACCACATATACTTTCACGTATACACATTGTCTTGGCTGAATCTACATCTATCATTTTCCAATAC
25852674 CACAATTTAGAATTCACGTATGGGTTTAATCAATAGCTTATGAGCAACTAAAACAAGTTTATCAA
131 CACAATTTAGAATTCACGTATGGGTTTAATCAATAGCTTATGAGCAACTAAAACAAGTTTATCAA
25852739 GGTTTACAACATAATCTCAAATTCAGCACAAGCTGTTTTTCCTGAGCAATAGTCACTAAATTATT
196 GGTTTACAACATAATCTCAAATTCAGCACAAGCTGTTTTTCCTGAGCAATAGTCACTAAATTATT
25852804 TATAACTAGAGCTACAAAACTCTAAATCACTTGCCGTTAATTTTTCCTGAATATAGACTTGTATA
261 TATAACTAGAGCTACAAAACTCTAAATCACTTGCCGTTAATTTTTCCTGAATATAGACTTGTATA
25852869 TATTCCATCCATAAAATTTCCAGAATATTAGGTTTGGCCAATGAATACCAGATTTTTCTTAAAGT
326 TATTCCATCCATAAAATTTCCAGAATATTAGGTTTGGCCAATGAATACCAGATTTTTCTTAAAGT
25852934 TCCCCTGTTTCACTGTTTGACTA
391 TCCCCTGTTTCACTGTTTGACTA
25852957 AAAATCCTAAATCAAAATATAAAATTTCATGTATTCACATCACAATTATCCAAATATACTTCACA
1 AAAATCCTAAATCAAAATATAAAATTTCATGTATTCACATCACAATTATCCAAATATACTTCACA
25853022 TACCACATATACTTTCACGTATACACATTGTCTTGGCTGAATCTACATCTATCATTTTCCAATAC
66 TACCACATATACTTTCACGTATACACATTGTCTTGGCTGAATCTACATCTATCATTTTCCAATAC
25853087 CACAATTTAGAATTCACGTATGGGTTTAATCAATAGCTTATGAGCAACTAAAACAAGTTTATCAA
131 CACAATTTAGAATTCACGTATGGGTTTAATCAATAGCTTATGAGCAACTAAAACAAGTTTATCAA
25853152 GGTTTACAACATAATCTCAAATTCAGCACAAGCTGTTTTTCCTGAGCAATAGTCACTAAATTATT
196 GGTTTACAACATAATCTCAAATTCAGCACAAGCTGTTTTTCCTGAGCAATAGTCACTAAATTATT
25853217 TATAACTAGAGCTACAAAACTCTAAATCACTTGCCGTTAATTTTTCCTGAATATAGACTTGTATA
261 TATAACTAGAGCTACAAAACTCTAAATCACTTGCCGTTAATTTTTCCTGAATATAGACTTGTATA
25853282 TATTCCATCCATAAAATTTCCAGAATATTAGGTTTGGCCAATGAATACCAGATTTTTCTTAAAGT
326 TATTCCATCCATAAAATTTCCAGAATATTAGGTTTGGCCAATGAATACCAGATTTTTCTTAAAGT
25853347 TCCCCTGTTTCACTGTTTGACTA
391 TCCCCTGTTTCACTGTTTGACTA
25853370 A
1 A
25853371 TCTGACCACT
Statistics
Matches: 413, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
413 413 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (413 bp):
AAAATCCTAAATCAAAATATAAAATTTCATGTATTCACATCACAATTATCCAAATATACTTCACA
TACCACATATACTTTCACGTATACACATTGTCTTGGCTGAATCTACATCTATCATTTTCCAATAC
CACAATTTAGAATTCACGTATGGGTTTAATCAATAGCTTATGAGCAACTAAAACAAGTTTATCAA
GGTTTACAACATAATCTCAAATTCAGCACAAGCTGTTTTTCCTGAGCAATAGTCACTAAATTATT
TATAACTAGAGCTACAAAACTCTAAATCACTTGCCGTTAATTTTTCCTGAATATAGACTTGTATA
TATTCCATCCATAAAATTTCCAGAATATTAGGTTTGGCCAATGAATACCAGATTTTTCTTAAAGT
TCCCCTGTTTCACTGTTTGACTA
Found at i:25857107 original size:26 final size:26
Alignment explanation
Indices: 25857070--25857142 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
25857060 GGAGGAAGTG
*
25857070 CAAAAAGTGCTTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTTTGCCCCAGTTTAC
* *
25857096 CAAAAAGGGCTTTTGCCCCAATTTAT
1 CAAAAAGGGCTTTTGCCCCAGTTTAC
*
25857122 C-AAAAGGGC-TGTGCCCCAGTT
1 CAAAAAGGGCTTTTGCCCCAGTT
25857143 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 10 0.24
25 8 0.19
26 24 0.57
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (26 bp):
CAAAAAGGGCTTTTGCCCCAGTTTAC
Found at i:25857155 original size:24 final size:24
Alignment explanation
Indices: 25857083--25857169 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 24
25857073 AAAGTGCTTT
* **
25857083 TGCCCCAGTTTACCAAAAAGGGCTTT
1 TGCCCCAG-TTATC-AAAAGGGCTAG
*
25857109 TGCCCCAATTTATCAAAAGGGCT-G
1 TGCCCC-AGTTATCAAAAGGGCTAG
*
25857133 TGCCCCAGTTATTAAAAGAGGCTAG
1 TGCCCCAGTTATCAAAAG-GGCTAG
25857158 -GCCTCCAGTTAT
1 TGCC-CCAGTTAT
25857170 ATGATAAAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
23 10 0.19
24 13 0.25
25 18 0.35
26 10 0.19
27 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (24 bp):
TGCCCCAGTTATCAAAAGGGCTAG
Found at i:25857397 original size:31 final size:31
Alignment explanation
Indices: 25857362--25857425 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
25857352 CGTTTACAGT
25857362 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* * **
25857393 AAAGGCTTCGTCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
25857424 AA
1 AA
25857426 TATGAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:25859413 original size:14 final size:14
Alignment explanation
Indices: 25859394--25859421 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25859384 CTTCGATGAG
25859394 TTAGAAGAAACTAT
1 TTAGAAGAAACTAT
25859408 TTAGAAGAAACTAT
1 TTAGAAGAAACTAT
25859422 GAGTAAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
TTAGAAGAAACTAT
Found at i:25860732 original size:50 final size:50
Alignment explanation
Indices: 25860639--25860800 Score: 153
Period size: 51 Copynumber: 3.2 Consensus size: 50
25860629 TATGGATGAA
* * *
25860639 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATGG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATGG
* ** * * * *
25860689 TTAGGTTGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCCGATAGC
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGAT-GG
* * * * **
25860740 TTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATGG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATGG
*
25860790 TTCTGATCACA
1 TT-AGATCACA
25860801 AGAGTGGTAC
Statistics
Matches: 89, Mismatches: 21, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
50 44 0.49
51 45 0.51
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATGG
Found at i:25860776 original size:51 final size:50
Alignment explanation
Indices: 25860639--25860777 Score: 152
Period size: 50 Copynumber: 2.8 Consensus size: 50
25860629 TATGGATGAA
* * * *
25860639 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATGG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATGC
* ** * * *
25860689 TTAGGTTGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCCGATAGC
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGAT-GC
* * *
25860740 TTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATG
25860778 TGTAAGAGAT
Statistics
Matches: 73, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 41 0.56
51 32 0.44
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATGC
Found at i:25860798 original size:51 final size:50
Alignment explanation
Indices: 25860644--25860830 Score: 149
Period size: 51 Copynumber: 3.7 Consensus size: 50
25860634 ATGAATTAGG
* * * * * * *
25860644 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATGGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAACAGATGGTTCGA
** * * * * * *
25860694 TTGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAACAGAT-GGTTCGA
* *
25860745 TCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATGGTTCTGA
1 TCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAACAGATGGTTC-GA
* * * * * *
25860796 TCACAAGAGTGGTACTATGTGAAGGCCACTTTGTG
1 TCACATGTGTAGTACTAAGTGCAGGCCACTATGTG
25860831 AAGAAGGTAG
Statistics
Matches: 110, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
50 40 0.36
51 70 0.64
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTAACAGATGGTTCGA
Found at i:25862351 original size:18 final size:18
Alignment explanation
Indices: 25862311--25862351 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
25862301 AGGCCATTTC
25862311 TGGGCTATGTGGGCCACA
1 TGGGCTATGTGGGCCACA
*
25862329 CGGGCT-TGTGGGCCTACA
1 TGGGCTATGTGGGCC-ACA
25862347 TGGGC
1 TGGGC
25862352 CCACAGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.12, C:0.24, G:0.41, T:0.22
Consensus pattern (18 bp):
TGGGCTATGTGGGCCACA
Found at i:25866211 original size:54 final size:54
Alignment explanation
Indices: 25866024--25866274 Score: 326
Period size: 54 Copynumber: 4.6 Consensus size: 54
25866014 AACTTACCAT
* *
25866024 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCAACAA
1 TGCCATGTCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * ** *
25866077 TGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCGTCAA
1 TGCCATGTCTTGGCATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAA
* * * * *
25866132 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTACAGAACTTATCGA
1 TGCCATGTCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * *
25866186 TGCCATGTATTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
*
25866240 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGTCTTGGCATGGTCTTACATGATATCCTT
25866275 ATCTTACCAA
Statistics
Matches: 170, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
52 2 0.01
53 34 0.20
54 90 0.53
55 42 0.25
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCCATGTCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:25866311 original size:47 final size:47
Alignment explanation
Indices: 25866254--25866364 Score: 186
Period size: 47 Copynumber: 2.4 Consensus size: 47
25866244 ATGCCTTGGC
25866254 ATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAAA
1 ATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAAA
* * * *
25866301 ATGGTTTTACATGGTATCCTTTTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAAA
25866348 ATGGTCTTACATGATAT
1 ATGGTCTTACATGATAT
25866365 ATTTGTCTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (47 bp):
ATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAAA
Found at i:25871541 original size:46 final size:45
Alignment explanation
Indices: 25871469--25871644 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
25871459 TGTAACCCAC
* *
25871469 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTT-ACAT
*
25871515 CCATGAGTGAACTCAGACTCAACTCAACGAGTTCGGATACCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG--A-C--GTTACAT
* * * *
25871565 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGAC-GTTACAT
*
25871608 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
25871645 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 3 0.03
46 62 0.55
47 28 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTACAT
Done.