Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 107 of 255
Found at i:33741338 original size:40 final size:40
Alignment explanation
Indices: 33741016--33741326 Score: 482
Period size: 40 Copynumber: 7.8 Consensus size: 40
33741006 GAGAATTGAG
* *
33741016 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
33741056 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
33741096 AGTGATGTATCTGGACTAAG-CCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCC-CGAAGAGCATTCGTGCT
*
33741136 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
33741175 AGTGATGTATCCGGAATAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
33741215 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * *
33741255 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
33741295 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCA
33741327 ATCATGCTGG
Statistics
Matches: 252, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
39 38 0.15
40 214 0.85
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:33745402 original size:47 final size:47
Alignment explanation
Indices: 33745329--33745522 Score: 253
Period size: 47 Copynumber: 4.1 Consensus size: 47
33745319 TTAGGATTTT
* ** * *
33745329 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
33745376 ATGCGATGAATCTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
33745423 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
33745470 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCTGAATGGCTA
1 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
33745517 ATGTGA
1 ATGTGA
33745523 AATATGTATA
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:33745478 original size:25 final size:25
Alignment explanation
Indices: 33745403--33745478 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
33745393 ATGCATATAT
33745403 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
33745428 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
33745450 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
33745475 GTGA
1 GTGA
33745479 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:33745552 original size:48 final size:48
Alignment explanation
Indices: 33745492--33745724 Score: 360
Period size: 48 Copynumber: 4.8 Consensus size: 48
33745482 TGAACATGCA
*
33745492 TATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATAAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATG
*
33745540 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATG
* *
33745588 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATG
* *
33745636 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATA--AGATATG
* *
33745686 TATATGTGGCAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
33745725 GGCGATGTGC
Statistics
Matches: 170, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
48 129 0.76
50 40 0.24
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATG
Found at i:33745750 original size:96 final size:95
Alignment explanation
Indices: 33745492--33745743 Score: 312
Period size: 98 Copynumber: 2.6 Consensus size: 95
33745482 TGAACATGCA
* *
33745492 TATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATAAGATAT--GTATATGTGGTAAAGC
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATAT-T-GT-AAGC
*
33745555 CGAATGGCTAATGTG-AAATATGTATGAGATATG
63 CGAATGGC-AATGTGAAAATATATATGAGATATG
* * * *
33745588 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATATTGT-AAGCCG
33745653 AATGGTCAATGTGAAATATATATATGAGATATG
65 AATGG-CAATGTGAAA-ATATATATGAGATATG
* * * * *
33745686 TATATGTGGCAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGCGTATATTGT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATATTGT
33745744 GGCCGAACGA
Statistics
Matches: 135, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
96 64 0.47
97 3 0.02
98 68 0.50
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (95 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATATTGTAAGCCGA
ATGGCAATGTGAAAATATATATGAGATATG
Found at i:33745773 original size:146 final size:143
Alignment explanation
Indices: 33745493--33745764 Score: 363
Period size: 144 Copynumber: 1.9 Consensus size: 143
33745483 GAACATGCAT
* * *
33745493 ATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATAAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAGATATGTATATGTGGCAAAGCCGA
* * * *
33745558 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATA
66 ATGGCTAATGTGAAATATGTAGGAGATATGTATATGTGGT-AAGCCGAACGACCAATGTGAAATA
33745623 TGTATGAGATATGC
130 TGTATGAGATATGC
33745637 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGCAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATA--AGATATGTATATGTGGCAAAGC
* * * *
33745701 CGAATGGCTAGTGTGAAATATGTAGGCGATGTGCGTATAT-T-GT-GGCCGAACGACCAATGTGA
63 CGAATGGCTAATGTGAAATATGTAGGAGATAT--GTATATGTGGTAAGCCGAACGACCAATGTGA
33745763 AA
126 AA
33745765 GGTGTGTATT
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
143 1 0.01
144 53 0.47
146 51 0.46
147 1 0.01
148 6 0.05
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (143 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAGATATGTATATGTGGCAAAGCCGA
ATGGCTAATGTGAAATATGTAGGAGATATGTATATGTGGTAAGCCGAACGACCAATGTGAAATAT
GTATGAGATATGC
Found at i:33745917 original size:36 final size:37
Alignment explanation
Indices: 33745870--33745940 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
33745860 GGAAATATAT
*
33745870 TCCGGGTAAGA-CCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
**
33745906 TCCGGGTAAGACCCGATAACTTTGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
33745941 CGTCTGAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 11 0.35
37 20 0.65
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.30
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:33751473 original size:19 final size:19
Alignment explanation
Indices: 33751430--33751486 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
33751420 TACCCTTTTC
*
33751430 TTTATTTTATTATTTATTTA
1 TTTA-TTTATTATTTGTTTA
33751450 TTTATTTATTATTTG-TTA
1 TTTATTTATTATTTGTTTA
* *
33751468 TATTATTTTTTATCTGTTT
1 T-TTATTTATTATTTGTTT
33751487 TCTTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 4 0.12
19 22 0.69
20 6 0.19
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTATTTATTATTTGTTTA
Found at i:33751492 original size:19 final size:19
Alignment explanation
Indices: 33751447--33751497 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
33751437 TATTATTTAT
* *
33751447 TTAT-TTATTTATTATTTG
1 TTATATTATTTTTTATCTG
33751465 TTATATTATTTTTTATCTG
1 TTATATTATTTTTTATCTG
* *
33751484 TTTTCTTATTTTTT
1 TTATATTATTTTTT
33751498 TCTTCTTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (19 bp):
TTATATTATTTTTTATCTG
Found at i:33751663 original size:7 final size:6
Alignment explanation
Indices: 33751648--33751719 Score: 74
Period size: 6 Copynumber: 11.5 Consensus size: 6
33751638 TTCTTTTTCA
* *
33751648 TTTTAT TTTTATT TTTTAT TTTTA- TTTTAG CTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
33751696 TTTTAGT TGCTTTAT ATTTAT TTT
1 TTTTA-T T--TTTAT TTTTAT TTT
33751720 CTTAGACTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
5 5 0.09
6 38 0.68
7 8 0.14
8 1 0.02
9 4 0.07
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:33751669 original size:24 final size:23
Alignment explanation
Indices: 33751636--33751698 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
33751626 AGTTTATTTC
* **
33751636 TTTTCTTTTTCATTTTATTTTTATT
1 TTTTATTTTT-ATTTTAGCTTTA-T
33751661 TTTTATTTTTATTTTAGCTTTAT
1 TTTTATTTTTATTTTAGCTTTAT
33751684 TTTTATTTTTATTTT
1 TTTTATTTTTATTTT
33751699 TAGTTGCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
23 16 0.46
24 10 0.29
25 9 0.26
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTATTTTTATTTTAGCTTTAT
Found at i:33751713 original size:23 final size:23
Alignment explanation
Indices: 33751664--33751714 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
33751654 TTTTATTTTT
* *
33751664 TATTTTTATTTTAGCTTTATTTT
1 TATTTTTATTTTAGCTTGATTTA
*
33751687 TATTTTTATTTTTAG-TTGCTTTA
1 TATTTTTA-TTTTAGCTTGATTTA
33751710 TATTT
1 TATTT
33751715 ATTTTCTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.73
Consensus pattern (23 bp):
TATTTTTATTTTAGCTTGATTTA
Found at i:33753916 original size:87 final size:87
Alignment explanation
Indices: 33753767--33753959 Score: 228
Period size: 87 Copynumber: 2.2 Consensus size: 87
33753757 TGTATAAGTG
* *
33753767 AGCCTTTGTGGCTATCTCTATTATAAGGAAATCTTTGTAGTGATCATTGCTAAAAGGAAGCCTT-
1 AGCCTTTGTGGCCATCTCTATTATAAGGAAATCTTTGTAGCGATCATTGCTAAAAGGAAGCCTTG
* * *
33753831 TGTGGCAATCTCTATTAAATGGA
66 T-TGACAATATCTATTAAAAGGA
* * * * * * *
33753854 AGCCTTTGTGGCGATCTTTATTA-AATGGAAGTCTTTGTGGCGATCTTTGTTAAATGGAAGCCTT
1 AGCCTTTGTGGCCATCTCTATTATAA-GGAAATCTTTGTAGCGATCATTGCTAAAAGGAAGCCTT
*
33753918 GTTGACGATATCTATTAAAAGGA
65 GTTGACAATATCTATTAAAAGGA
*
33753941 AGCTTTTGTGGCCATCTCT
1 AGCCTTTGTGGCCATCTCT
33753960 GTAAAAAAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
86 2 0.02
87 86 0.97
88 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (87 bp):
AGCCTTTGTGGCCATCTCTATTATAAGGAAATCTTTGTAGCGATCATTGCTAAAAGGAAGCCTTG
TTGACAATATCTATTAAAAGGA
Found at i:33754035 original size:29 final size:29
Alignment explanation
Indices: 33753767--33753959 Score: 176
Period size: 29 Copynumber: 6.7 Consensus size: 29
33753757 TGTATAAGTG
*
33753767 AGCCTTTGTGGCTATCTCTATTATAA-GGA
1 AGCCTTTGTGGCGATCTCTATTA-AATGGA
** * * ** *
33753796 AATCTTTGTAGTGATCAT-TGCTAAAAGGA
1 AGCCTTTGTGGCGATC-TCTATTAAATGGA
*
33753825 AGCCTTTGTGGCAATCTCTATTAAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAATGGA
*
33753854 AGCCTTTGTGGCGATCTTTATTAAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAATGGA
* * *
33753883 AGTCTTTGTGGCGATCTTTGTTAAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAATGGA
* * *
33753912 AGCC-TTGTTGACGATATCTATTAAAAGGA
1 AGCCTTTG-TGGCGATCTCTATTAAATGGA
* *
33753941 AGCTTTTGTGGCCATCTCT
1 AGCCTTTGTGGCGATCTCT
33753960 GTAAAAAAAA
Statistics
Matches: 130, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
28 6 0.05
29 120 0.92
30 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (29 bp):
AGCCTTTGTGGCGATCTCTATTAAATGGA
Found at i:33754650 original size:21 final size:21
Alignment explanation
Indices: 33754624--33754673 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
33754614 TATAAACAAG
*
33754624 GGTCACATGCCCGTGTAGGCA
1 GGTCACACGCCCGTGTAGGCA
*
33754645 GGTCACACGCCCGTGTGGGCA
1 GGTCACACGCCCGTGTAGGCA
33754666 GGTCACAC
1 GGTCACAC
33754674 ATGTCTGTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.32, G:0.34, T:0.16
Consensus pattern (21 bp):
GGTCACACGCCCGTGTAGGCA
Found at i:33760845 original size:20 final size:19
Alignment explanation
Indices: 33760801--33760845 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
33760791 AGCACATGTA
*
33760801 TTCATAAAATTTTAGAATT
1 TTCATAAAATTTTACAATT
*
33760820 TCTCATCAAATTTTACAACTT
1 T-TCATAAAATTTTACAA-TT
33760841 TTCAT
1 TTCAT
33760846 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.47
Consensus pattern (19 bp):
TTCATAAAATTTTACAATT
Found at i:33771051 original size:40 final size:40
Alignment explanation
Indices: 33771021--33771228 Score: 292
Period size: 40 Copynumber: 5.2 Consensus size: 40
33771011 GGACTAAGAT
* * * *
33771021 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
33771061 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
33771101 CCGAAGGCATTCGTGCGAGTTATTAAATCTGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
33771141 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
33771181 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
33771220 CCGAAGGCA
1 CCGAAGGCA
33771229 CTTGAACGAG
Statistics
Matches: 153, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 32 0.21
40 121 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:33779105 original size:39 final size:40
Alignment explanation
Indices: 33778901--33779121 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 40
33778891 TTGAATGCTG
* * * * * *
33778901 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
33778941 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
33778981 TCCGGGTTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
33779021 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
33779061 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
33779100 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
33779122 CTTGAACGAG
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 33 0.21
40 117 0.74
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:33779143 original size:79 final size:80
Alignment explanation
Indices: 33778976--33779158 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 80
33778966 GTGCGAGATA
* ** * *
33778976 CTAAATCCGGGTTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
33779041 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
33779056 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
33779120 CACTT-GAACGAGGAG
66 CA-TTCGAACGAGGAG
* * *
33779135 CTATATCC-GGTTAAATTCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
33779159 TACGTGAATT
Statistics
Matches: 84, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 13 0.15
79 43 0.51
80 28 0.33
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:33782345 original size:22 final size:22
Alignment explanation
Indices: 33782292--33782349 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
33782282 CTTGCGCTGA
* **
33782292 TGAACAGTAAGCTCTTTTGAGC
1 TGAACAGTAAGCTCATACGAGC
*
33782314 TAAAACAGTAAGCTCATACGAGC
1 T-GAACAGTAAGCTCATACGAGC
33782337 TGAACAGTAAGCT
1 TGAACAGTAAGCT
33782350 TTTACAAGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCATACGAGC
Found at i:33782359 original size:22 final size:22
Alignment explanation
Indices: 33782317--33782361 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
33782307 TTTGAGCTAA
*
33782317 AACAGTAAGCTCATACGAGCTG
1 AACAGTAAGCTCATACAAGCTG
**
33782339 AACAGTAAGCTTTTACAAGCTG
1 AACAGTAAGCTCATACAAGCTG
33782361 A
1 A
33782362 TATATTTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (22 bp):
AACAGTAAGCTCATACAAGCTG
Found at i:33790184 original size:20 final size:20
Alignment explanation
Indices: 33790133--33790175 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
33790123 AGCACATGTA
* *
33790133 TTCATAAAACTTCAGCATTT
1 TTCATAAAATTTCAACATTT
33790153 TTCATAAAATTTCAACATTT
1 TTCATAAAATTTCAACATTT
33790173 TTC
1 TTC
33790176 GTCAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (20 bp):
TTCATAAAATTTCAACATTT
Found at i:33790564 original size:35 final size:35
Alignment explanation
Indices: 33790519--33790588 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
33790509 TATCATCTTT
33790519 TTAATTAATATATTTCCACGGATGAATCACCAAGA
1 TTAATTAATATATTTCCACGGATGAATCACCAAGA
*
33790554 TTAATTAATATATTTCCATGGATGAATCACCAAGA
1 TTAATTAATATATTTCCACGGATGAATCACCAAGA
33790589 AAAATCTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (35 bp):
TTAATTAATATATTTCCACGGATGAATCACCAAGA
Found at i:33796057 original size:17 final size:18
Alignment explanation
Indices: 33796023--33796063 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
33796013 TCTTTCGTTC
* *
33796023 TCTTTTTCTTTTTGAA-T
1 TCTTTTTCTTTCTCAATT
33796040 TCTTTTTCTTTCTCAATT
1 TCTTTTTCTTTCTCAATT
33796058 TCTTTT
1 TCTTTT
33796064 AAAATTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (18 bp):
TCTTTTTCTTTCTCAATT
Found at i:33797032 original size:18 final size:19
Alignment explanation
Indices: 33797011--33797056 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
33797001 CTTAGTATAC
33797011 TTTTTTTT-AATTCTCG-AT
1 TTTTTTTTAAATT-TCGTAT
33797029 TTTTTTTTAAATTTCGTAT
1 TTTTTTTTAAATTTCGTAT
33797048 TTCTTTTTT
1 TT-TTTTTT
33797057 TTTCACTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.44
19 8 0.32
20 6 0.24
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.72
Consensus pattern (19 bp):
TTTTTTTTAAATTTCGTAT
Found at i:33797033 original size:19 final size:19
Alignment explanation
Indices: 33796991--33797057 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
33796981 AACACTTCAC
* * *
33796991 TTTTTTTTAACTTAGTATAC
1 TTTTTTTTAATTTCGTAT-T
33797011 TTTTTTTTAATTCTCG-ATT
1 TTTTTTTTAATT-TCGTATT
*
33797030 TTTTTTTAAATTTCGTATT
1 TTTTTTTTAATTTCGTATT
33797049 TCTTTTTTT
1 T-TTTTTTT
33797058 TTCACTAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 3 0.08
19 15 0.38
20 19 0.49
21 2 0.05
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTTTTTTAATTTCGTATT
Found at i:33797124 original size:15 final size:15
Alignment explanation
Indices: 33797104--33797134 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33797094 AATACAAAAT
*
33797104 AACTTTTTTTTTCGA
1 AACTTTTTTTTACGA
33797119 AACTTTTTTTTACGA
1 AACTTTTTTTTACGA
33797134 A
1 A
33797135 CCTATTTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (15 bp):
AACTTTTTTTTACGA
Found at i:33800641 original size:26 final size:26
Alignment explanation
Indices: 33800602--33800671 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
33800592 GTATAAGTGA
* * *
33800602 GCCTTTTTAGCTATCTTTGAATCGAT
1 GCCTTTATGGCTATCTCTGAATCGAT
*
33800628 G-CTTTAGTGGCTATCTCTGAATGGAT
1 GCCTTTA-TGGCTATCTCTGAATCGAT
*
33800654 GCCTTTATGGATATCTCT
1 GCCTTTATGGCTATCTCT
33800672 ATTGTAAGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 4 0.11
26 28 0.76
27 5 0.14
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (26 bp):
GCCTTTATGGCTATCTCTGAATCGAT
Found at i:33800829 original size:29 final size:29
Alignment explanation
Indices: 33800763--33800830 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
33800753 ATCTTTGTAG
33800763 AAAATGATGCTTTTGTGGCTATATCAGTT
1 AAAATGATGCTTTTGTGGCTATATCAGTT
*
33800792 -AAATGGATG-TCTTTGTGGCTATCTCTA-TT
1 AAAAT-GATGCT-TTTGTGGCTATATC-AGTT
33800821 AAAATGATGC
1 AAAATGATGC
33800831 CCTCATGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
28 5 0.15
29 23 0.70
30 5 0.15
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (29 bp):
AAAATGATGCTTTTGTGGCTATATCAGTT
Found at i:33803283 original size:27 final size:26
Alignment explanation
Indices: 33803266--33803335 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
33803256 ATATTAAGTC
33803266 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
33803293 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
33803321 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
33803336 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:33803329 original size:28 final size:28
Alignment explanation
Indices: 33803266--33803363 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
33803256 ATATTAAGTC
*
33803266 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
33803293 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33803321 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33803350 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33803364 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33803827 original size:12 final size:12
Alignment explanation
Indices: 33803810--33803835 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33803800 TGGGCATACT
33803810 TATGTATATATA
1 TATGTATATATA
33803822 TATGTATATATA
1 TATGTATATATA
33803834 TA
1 TA
33803836 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:33804962 original size:11 final size:12
Alignment explanation
Indices: 33804941--33804969 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
33804931 TTAATACAAC
33804941 ATCCTAGTTCGT
1 ATCCTAGTTCGT
33804953 ATCC-AGTTCGT
1 ATCCTAGTTCGT
33804964 ATCCTA
1 ATCCTA
33804970 ATGTTTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.38
Consensus pattern (12 bp):
ATCCTAGTTCGT
Found at i:33805303 original size:30 final size:30
Alignment explanation
Indices: 33805262--33805319 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
33805252 AAATTCACGT
33805262 CTTTCATAAAATGACCATTTTGCCCCTAGA
1 CTTTCATAAAATGACCATTTTGCCCCTAGA
* *
33805292 CTTTGATAAAATGACCATTTTGTCCCTA
1 CTTTCATAAAATGACCATTTTGCCCCTA
33805320 TGCTTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.36
Consensus pattern (30 bp):
CTTTCATAAAATGACCATTTTGCCCCTAGA
Found at i:33817419 original size:17 final size:17
Alignment explanation
Indices: 33817394--33817431 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
33817384 CTAGACATAA
*
33817394 TATTTTAAT-ATTATATT
1 TATTCTAATAATT-TATT
33817411 TATTCTAATAATTTATT
1 TATTCTAATAATTTATT
33817428 TATT
1 TATT
33817432 GGTATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTCTAATAATTTATT
Found at i:33821418 original size:47 final size:47
Alignment explanation
Indices: 33821345--33821563 Score: 189
Period size: 47 Copynumber: 4.7 Consensus size: 47
33821335 TGATTTGTGC
* * *
33821345 GCCAGTGTAAGACGTGTCTGGGACATGCTTCGGCCACAG-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGA
* * *
33821391 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAGAGATGAGA
* * * *
33821439 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-GACAAAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGA-GATGAGA
* * * * * * * * *
33821486 GCCAGAGTAAGACGTTTCTTGGACACGCATCGGCTA-AAAG-T-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGA
*
33821530 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
33821564 ACGCGTATAT
Statistics
Matches: 135, Mismatches: 32, Indels: 14
0.75 0.18 0.08
Matches are distributed among these distances:
44 28 0.21
46 19 0.14
47 67 0.50
48 21 0.16
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGA
Found at i:33821510 original size:94 final size:91
Alignment explanation
Indices: 33821345--33821563 Score: 235
Period size: 94 Copynumber: 2.4 Consensus size: 91
33821335 TGATTTGTGC
* * ** * *
33821345 GCCAGTGTAAGACGTGTCTGGGACATGCTTCGGCCACAGTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACAAAGAGAGCCAGAGTAAGACCATGTC
* *
33821410 TGGGACATGGCATCGAC-ATAGAGATGAGT
66 TGGGACA-CGCATCGACTA-AAAG-T-AGT
* * * *
33821439 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAAAGATAGCCAGAGTAAGA-CGTTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACAAAGAGAGCCAGAGTAAGACCATGT
* * *
33821503 CTTGGACACGCATCGGCTAAAAGTTGT
65 CTGGGACACGCATCGACTAAAAGTAGT
*
33821530 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
33821564 ACGCGTATAT
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
91 35 0.33
92 1 0.01
93 10 0.09
94 45 0.42
95 16 0.15
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (91 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACAAAGAGAGCCAGAGTAAGACCATGTC
TGGGACACGCATCGACTAAAAGTAGT
Found at i:33825793 original size:40 final size:40
Alignment explanation
Indices: 33825749--33825887 Score: 224
Period size: 40 Copynumber: 3.5 Consensus size: 40
33825739 GCTACTAGCT
*
33825749 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
33825789 CAAATGCCTTCGGGACTTCGCCCGGTGATAGGAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
33825829 CAAATACCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
33825869 CAAATGCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
33825888 TTCACTAGCA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:33837904 original size:12 final size:12
Alignment explanation
Indices: 33837887--33837912 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33837877 AGCTTGTGAA
33837887 AATACTAATAAT
1 AATACTAATAAT
33837899 AATACTAATAAT
1 AATACTAATAAT
33837911 AA
1 AA
33837913 ATAAAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AATACTAATAAT
Found at i:33838301 original size:12 final size:13
Alignment explanation
Indices: 33838286--33838314 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
33838276 GGTTTAAATG
33838286 TTTATTTTT-ATT
1 TTTATTTTTAATT
33838298 TTTATTTTTAATT
1 TTTATTTTTAATT
33838311 TTTA
1 TTTA
33838315 ATTGATTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTTTAATT
Found at i:33841392 original size:20 final size:20
Alignment explanation
Indices: 33841331--33841394 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
33841321 TCAAAATATC
* * **
33841331 AAAATCTTAGAAATATAGGC
1 AAAATTTTAGAAATATTGAT
*
33841351 AAAATTCTT-GAATATTTTGAT
1 AAAATT-TTAGAA-ATATTGAT
33841372 AAAATTTTAGAAATATTGAT
1 AAAATTTTAGAAATATTGAT
33841392 AAA
1 AAA
33841395 TCTTTAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 20 0.57
21 15 0.43
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (20 bp):
AAAATTTTAGAAATATTGAT
Found at i:33842447 original size:18 final size:20
Alignment explanation
Indices: 33842426--33842468 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
33842416 TTCAACAATT
33842426 TAAAAAAAAT-AT-GAAATA
1 TAAAAAAAATCATAGAAATA
*
33842444 TAAAAAAAATCATAGAAATT
1 TAAAAAAAATCATAGAAATA
33842464 TAAAA
1 TAAAA
33842469 CATGACATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (20 bp):
TAAAAAAAATCATAGAAATA
Found at i:33846713 original size:40 final size:40
Alignment explanation
Indices: 33846577--33846795 Score: 257
Period size: 40 Copynumber: 5.5 Consensus size: 40
33846567 TGGATGATAA
* **
33846577 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACAT
*
33846618 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA-T
* *
33846659 CCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
33846699 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
33846739 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
33846778 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33846796 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 63 0.39
41 63 0.39
42 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:33846721 original size:81 final size:80
Alignment explanation
Indices: 33846577--33846761 Score: 255
Period size: 81 Copynumber: 2.3 Consensus size: 80
33846567 TGGATGATAA
**
33846577 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTTGCGC-AGTGACTACATCCGGGCTAAGTCCCGAAGGCATTT
*
33846642 GTGCGAGTTATTACATT
65 GTGCGAGTTACTACA-T
* * *
33846659 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-ATTTATTACATCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTT
* *
33846723 GTGTGAGTTACTATAT
65 GTGCGAGTTACTACAT
*
33846739 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
33846762 GAGCGAGTAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
80 23 0.25
81 42 0.45
82 24 0.26
83 4 0.04
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTTGCGCAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTACAT
Found at i:33850729 original size:43 final size:42
Alignment explanation
Indices: 33850619--33850729 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
33850609 GAGATGCGAT
* *
33850619 TACATGTAAGACCATGTTTGGGACATTGGCATTGTATTCTGAA
1 TACATGTAAGACCATGTATGGGACATTGGCATCGTATTC-GAA
* * *
33850662 TACGTGTAAGAACATGTATAGGACATTGGCATCGTTATTC-AA
1 TACATGTAAGACCATGTATGGGACATTGGCATCG-TATTCGAA
* * *
33850704 TTTCATGTAAGACCCTGTCTGGGACA
1 -TACATGTAAGACCATGTATGGGACA
33850730 GAGGCATTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
42 2 0.04
43 48 0.87
44 5 0.09
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (42 bp):
TACATGTAAGACCATGTATGGGACATTGGCATCGTATTCGAA
Found at i:33853125 original size:16 final size:16
Alignment explanation
Indices: 33853104--33853135 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33853094 TAATGGGTTA
33853104 AATGAATATATAAAGC
1 AATGAATATATAAAGC
33853120 AATGAATATATAAAGC
1 AATGAATATATAAAGC
33853136 TATCTTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
AATGAATATATAAAGC
Found at i:33858297 original size:43 final size:43
Alignment explanation
Indices: 33858209--33858330 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
33858199 ACATTAGATT
* * * * **
33858209 ATCGAGATGTGATTACTTGTAAGACCATGCCTGGGACATCGGC
1 ATCGATATGTGATAACATGTAAGACCATGTCTGGGACAGAGGC
* ** * *
33858252 ATCGTTAT-TCGATTTCATGTAAGACCCTGTCTGGGACAGATGC
1 ATCGATATGT-GATAACATGTAAGACCATGTCTGGGACAGAGGC
*
33858295 ATCGATATGTGATAACATGTAAGACCATATCTGGGA
1 ATCGATATGTGATAACATGTAAGACCATGTCTGGGA
33858331 TATGGCATTG
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 1 0.02
43 61 0.97
44 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
ATCGATATGTGATAACATGTAAGACCATGTCTGGGACAGAGGC
Found at i:33860449 original size:47 final size:47
Alignment explanation
Indices: 33860378--33860827 Score: 801
Period size: 47 Copynumber: 9.6 Consensus size: 47
33860368 CCCTTCGGGA
* * * * * *
33860378 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
33860425 CCTATCACATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33860472 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33860519 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33860566 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33860613 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33860660 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33860707 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33860754 CTTATCACATATATACACTTTCACATTCAGCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33860801 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
33860828 TATTCAAATA
Statistics
Matches: 392, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 392 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33860456 original size:25 final size:25
Alignment explanation
Indices: 33860428--33860506 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
33860418 ACTCGGCCCT
33860428 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
* * *
33860453 ATCACAT-TGGT-CA--TTCGGCCTT-
1 ATCACATAT-ATACACTTTC-ACATTC
33860475 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
33860500 ATCACAT
1 ATCACAT
33860507 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:33873960 original size:39 final size:39
Alignment explanation
Indices: 33873917--33873996 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
33873907 CTATTGCATG
*
33873917 AATAATATATAAATGAACAAATAATCAACTAAGAATGCT
1 AATAATATATAAATGAACAAACAATCAACTAAGAATGCT
33873956 AATAATATATAAATGAACAAACAATCAACTAAGAATGCT
1 AATAATATATAAATGAACAAACAATCAACTAAGAATGCT
33873995 AA
1 AA
33873997 GGCAAAGACA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.24
Consensus pattern (39 bp):
AATAATATATAAATGAACAAACAATCAACTAAGAATGCT
Found at i:33875034 original size:17 final size:17
Alignment explanation
Indices: 33875012--33875045 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33875002 CTAAAATGCA
33875012 ACAAAATATACCTAAGT
1 ACAAAATATACCTAAGT
33875029 ACAAAATATACCTAAGT
1 ACAAAATATACCTAAGT
33875046 TATTACTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
ACAAAATATACCTAAGT
Found at i:33881595 original size:42 final size:42
Alignment explanation
Indices: 33881500--33881595 Score: 106
Period size: 46 Copynumber: 2.2 Consensus size: 42
33881490 TTTTATCATC
33881500 TTTTAATTAATTAATTATTTCAATTTCCAATTTAGACCCTACTATT
1 TTTTAATTAATTAATTATTTCAATTTCCAATTT--A--CTACTATT
* *
33881546 TTCTAATTAATTAATTATTTTAATTTCCAATTT-CTAACT-TT
1 TTTTAATTAATTAATTATTTCAATTTCCAATTTACT-ACTATT
33881587 TCTTTAATT
1 T-TTTAATT
33881596 GTCTAATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
41 5 0.11
42 9 0.20
46 31 0.69
ACGTcount: A:0.31, C:0.14, G:0.01, T:0.54
Consensus pattern (42 bp):
TTTTAATTAATTAATTATTTCAATTTCCAATTTACTACTATT
Found at i:33885893 original size:19 final size:19
Alignment explanation
Indices: 33885866--33885916 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
33885856 GTTTAAGACT
*
33885866 GACACGCCCGTGTACTTGG
1 GACATGCCCGTGTACTTGG
*
33885885 GACATGCCCGTGTGCTTGG
1 GACATGCCCGTGTACTTGG
33885904 GACATGCCCGTGT
1 GACATGCCCGTGT
33885917 CCCTTACCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.14, C:0.29, G:0.33, T:0.24
Consensus pattern (19 bp):
GACATGCCCGTGTACTTGG
Found at i:33890553 original size:43 final size:43
Alignment explanation
Indices: 33890487--33890610 Score: 126
Period size: 45 Copynumber: 2.8 Consensus size: 43
33890477 TTTTCTCAAA
* *
33890487 TCACCGGCATT-TCGCCTGCTAGGCTCGAGGCTCGATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAGGCTCGATAGT-ATC
* *
33890529 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCG-AGGCTCG-ATAGTATC
* * * *
33890574 TCACTGGCATTATAGTCTGCTAAGCTCAAAGGCTCGA
1 TCACCGGCATTATAGCCTGCTAGGCTC-GAGGCTCGA
33890611 ATAATCAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 11 0.16
43 15 0.22
44 6 0.09
45 34 0.51
46 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAGGCTCGATAGTATC
Found at i:33896615 original size:443 final size:443
Alignment explanation
Indices: 33895788--33896739 Score: 1640
Period size: 443 Copynumber: 2.1 Consensus size: 443
33895778 GCATTTTGCG
* *
33895788 TGCTAGGCTCGAGGCCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAAG-CTCAAA
1 TGCTAGGCTCGAGGCCCAATATCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCT-GAA
* *
33895852 TAGTATCTCACTGGCATTATAGTCTGCTAAGCTCAAAGGCTCGAATAATCAAATCAATAAGTGCC
65 TAGTATCTCACTGGCATTATAGTCTACTAAGCTCAAAGGCTCGAATAATCAAATCAACAAGTGCC
33895917 ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATGTAATTATACATCTCAAA
130 ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATGTAATTATACATCTCAAA
33895982 CACTTTTCTTTCATCTCATTTTCACACTTAGCATTTGATAGCTTAGGCATAACATTTCACTCACA
195 CACTTTTCTTTCATCTCATTTTCACACTTAGCATTTGATAGCTTAGGCATAACATTTCACTCACA
* * *
33896047 TTCATTTCAAACTTATCGTTTGATTATAAAAGCACATTGCATATTTACCAACATGTTATACTTGC
260 TTCATTCCAAACTTATCGTTCGATTATAAAAGAACATTGCATATTTACCAACATGTTATACTTGC
* *
33896112 CATTAGGCCATATAAGCATGATAGAATACACTATCATTTCATCTTTAACATTCGGCTAAACCCTT
325 CATTAGGCCATATAAGCATGATACAATACACTATCATTTCATCTTTAACATTCAGCTAAACCCTT
* *
33896177 ATCTTACAAGGAACACTGAATTCACGTAACATATCATTTCACCGGCATTACGCC
390 ATCTTACAAGGAACACCGAATTCACGTAACATATCATTTCACCGACATTACGCC
33896231 TGCTAGGCTCGAGGCCCAATATCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCTGAAT
1 TGCTAGGCTCGAGGCCCAATATCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCTGAAT
*
33896296 AGTATCTCACTGGCATTATAGTCTACTAAGCTCAAAGGCTCGAATAATCAAATCAACAAGTTCCA
66 AGTATCTCACTGGCATTATAGTCTACTAAGCTCAAAGGCTCGAATAATCAAATCAACAAGTGCCA
33896361 TATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATGTAATTATACATCTCAAAC
131 TATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATGTAATTATACATCTCAAAC
*
33896426 ACTTTTCTTTCATCTCATTTTCACACTTAGCATTTGATAGCTTATGCATAACATTTCACTCACAT
196 ACTTTTCTTTCATCTCATTTTCACACTTAGCATTTGATAGCTTAGGCATAACATTTCACTCACAT
* * *
33896491 TCATTCCAAACTTATCGTTCGATTATAAAAGAACATTGTATATTTATCAACATGTTATACTTGTC
261 TCATTCCAAACTTATCGTTCGATTATAAAAGAACATTGCATATTTACCAACATGTTATACTTGCC
33896556 ATTAGGCCATATAAGCATGATACAATACACTATCATTTCATCTTTAACATTCAGCTAAACCCTTA
326 ATTAGGCCATATAAGCATGATACAATACACTATCATTTCATCTTTAACATTCAGCTAAACCCTTA
33896621 TCTTACAAGGAACACCGAATTCACGTAACATATCATTTCACCGACATTACGCC
391 TCTTACAAGGAACACCGAATTCACGTAACATATCATTTCACCGACATTACGCC
* ** ** * * *
33896674 TGCTAGGCACGAAGGCCCGAATA-CACATCACCGGCACGA-AGCCTGCTAGGCACGAAGGCCCGA
1 TGCTAGGCTCG-AGGCCC-AATATCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCTGA
33896737 ATA
64 ATA
33896740 TAATACCAGC
Statistics
Matches: 482, Mismatches: 24, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
443 458 0.95
444 20 0.04
445 4 0.01
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.31
Consensus pattern (443 bp):
TGCTAGGCTCGAGGCCCAATATCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCTGAAT
AGTATCTCACTGGCATTATAGTCTACTAAGCTCAAAGGCTCGAATAATCAAATCAACAAGTGCCA
TATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATGTAATTATACATCTCAAAC
ACTTTTCTTTCATCTCATTTTCACACTTAGCATTTGATAGCTTAGGCATAACATTTCACTCACAT
TCATTCCAAACTTATCGTTCGATTATAAAAGAACATTGCATATTTACCAACATGTTATACTTGCC
ATTAGGCCATATAAGCATGATACAATACACTATCATTTCATCTTTAACATTCAGCTAAACCCTTA
TCTTACAAGGAACACCGAATTCACGTAACATATCATTTCACCGACATTACGCC
Found at i:33896797 original size:38 final size:38
Alignment explanation
Indices: 33896732--33896811 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
33896722 GGCACGAAGG
* * * * *
33896732 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
33896770 CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
33896808 CCCG
1 CCCG
33896812 GATACACATC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:33897920 original size:10 final size:10
Alignment explanation
Indices: 33897905--33897929 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33897895 AAGTGCCGTT
33897905 AATTTTCAAA
1 AATTTTCAAA
33897915 AATTTTCAAA
1 AATTTTCAAA
33897925 AATTT
1 AATTT
33897930 GCCTATAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
AATTTTCAAA
Found at i:33898966 original size:42 final size:42
Alignment explanation
Indices: 33898899--33899021 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
33898889 GACTTTTGTT
* * *
33898899 TTACGTGTAAGACCATATCTGGGACATTGGCATCGTATCTGA
1 TTACGTGTAAGACCCTGTCTGGGACATTGGCATTGTATCTGA
* * * * *
33898941 TTTCGTGTAAGACCCTGTCTAGGACAGTGGCATTGATGTTTGA
1 TTACGTGTAAGACCCTGTCTGGGACATTGGCATTG-TATCTGA
*
33898984 TTACATGTAAGACCAC-GTCTGGGACATTGGCATTGTAT
1 TTACGTGTAAGACC-CTGTCTGGGACATTGGCATTGTAT
33899022 ATGCTTTCTG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
42 31 0.47
43 34 0.52
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TTACGTGTAAGACCCTGTCTGGGACATTGGCATTGTATCTGA
Found at i:33928523 original size:40 final size:39
Alignment explanation
Indices: 33928403--33928595 Score: 158
Period size: 40 Copynumber: 4.8 Consensus size: 39
33928393 AATGATGTCT
** *
33928403 GGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGT-CCGAAGAGCATTCATGCT-AGTGA-TATATCC
* ** * * *
33928443 GGACTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAG-TCCGAAGAGCATTCATGCTAGTGA-TATATCC
*
33928483 GGGCTAAGTCGCGAAGAGCATTCATGCTAGTGATGTATCC
1 GGGCTAAGTC-CGAAGAGCATTCATGCTAGTGATATATCC
*
33928523 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
1 GGGCTAAG-TCCGAAGAGCATTCATGCTAGTGATATATCC
* * * *
33928563 GTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 GGGCTAAGT-CCGAAGAGCATTCATGCTAGTGA
33928596 CATGTATTCG
Statistics
Matches: 127, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 3 0.02
40 103 0.81
41 21 0.17
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
GGGCTAAGTCCGAAGAGCATTCATGCTAGTGATATATCC
Found at i:33928536 original size:80 final size:80
Alignment explanation
Indices: 33928438--33928595 Score: 201
Period size: 80 Copynumber: 2.0 Consensus size: 80
33928428 TAAGTGACCA
* * * *
33928438 TATCCGGACTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCGCGAAGAGC
1 TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGA-TAAATCCGGGCTAAATCCCGAAGAGC
*
33928502 ATTCATGCTAGTGATG
65 AATCATGCTAGTGATG
* * * * *
33928518 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCA
1 TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGATAAATCCGGGCTAAATCCCGAAGAGCA
*
33928583 ATCATGCTGGTGA
66 ATCATGCTAGTGA
33928596 CATGTATTCG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 53 0.80
81 13 0.20
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGATAAATCCGGGCTAAATCCCGAAGAGCA
ATCATGCTAGTGATG
Found at i:33932397 original size:47 final size:47
Alignment explanation
Indices: 33932286--33932703 Score: 590
Period size: 47 Copynumber: 9.1 Consensus size: 47
33932276 GAAATGATAG
33932286 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT-TGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
33932332 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATTTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
33932378 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
33932425 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
33932471 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA-GCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG-TGA
* *
33932518 T---G--TGAATAGG--AATG-GATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCT-AAT-GGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
33932559 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
33932606 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
33932653 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
33932700 TAAG
1 TAAG
33932704 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 21, Indels: 29
0.87 0.05 0.08
Matches are distributed among these distances:
41 24 0.07
42 5 0.01
43 3 0.01
44 5 0.01
45 34 0.10
46 75 0.22
47 190 0.57
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:33932594 original size:181 final size:182
Alignment explanation
Indices: 33932286--33932688 Score: 582
Period size: 181 Copynumber: 2.2 Consensus size: 182
33932276 GAAATGATAG
**
33932286 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATTGATAAGGCCTAATGCCGATGT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACCGAT-AGG-C-AATG-CGATGT
* *
33932351 GATGAATGTGAAAGTGTATATATTTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
62 GATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
33932416 TATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
127 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
33932471 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAGCCGAT-GTG-AATAG-GAATG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-CCGATAG-GCAAT-GCG-ATGT
33932532 GATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
62 GATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
33932597 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
127 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
33932653 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
33932689 CATAAATGTG
Statistics
Matches: 199, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
181 84 0.42
182 68 0.34
183 1 0.01
184 1 0.01
185 42 0.21
186 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (182 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACCGATAGGCAATGCGATGTGATG
AATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:33932878 original size:37 final size:37
Alignment explanation
Indices: 33932822--33932900 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
33932812 CCGAGCTCTA
* *
33932822 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
33932859 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33932896 AAGAC
1 AAGAC
33932901 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33940081 original size:15 final size:15
Alignment explanation
Indices: 33940061--33940091 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33940051 AAACCTATAA
*
33940061 AAATTAAATTAAACT
1 AAATTAAATAAAACT
33940076 AAATTAAATAAAACT
1 AAATTAAATAAAACT
33940091 A
1 A
33940092 CTAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAACT
Found at i:33943326 original size:14 final size:14
Alignment explanation
Indices: 33943309--33943336 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33943299 TCGGCGGAGA
33943309 TTCAAGTATAGTGT
1 TTCAAGTATAGTGT
33943323 TTCAAGTATAGTGT
1 TTCAAGTATAGTGT
33943337 CTACGATTGT
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:0.21, T:0.43
Consensus pattern (14 bp):
TTCAAGTATAGTGT
Found at i:33945305 original size:33 final size:33
Alignment explanation
Indices: 33945258--33945329 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
33945248 TTCTTTTTAC
* *
33945258 TATTCAAATGATCATAGTTTCAATCATCAAATA
1 TATTTAAATGATCATAATTTCAATCATCAAATA
33945291 TATTTAAATGATCATAATTTCAATCATCAAATA
1 TATTTAAATGATCATAATTTCAATCATCAAATA
33945324 TATTTA
1 TATTTA
33945330 CACAAGAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.40
Consensus pattern (33 bp):
TATTTAAATGATCATAATTTCAATCATCAAATA
Found at i:33945319 original size:15 final size:15
Alignment explanation
Indices: 33945268--33945319 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
33945258 TATTCAAATG
*
33945268 ATCATAGTTTCAATC
1 ATCATAATTTCAATC
* *
33945283 ATCAAATATATTTAAATG
1 ATC--ATA-ATTTCAATC
33945301 ATCATAATTTCAATC
1 ATCATAATTTCAATC
33945316 ATCA
1 ATCA
33945320 AATATATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 14 0.48
16 3 0.10
17 3 0.10
18 9 0.31
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (15 bp):
ATCATAATTTCAATC
Found at i:33947008 original size:56 final size:56
Alignment explanation
Indices: 33946917--33947039 Score: 187
Period size: 56 Copynumber: 2.2 Consensus size: 56
33946907 TCTTACATGT
* *
33946917 AATCACATAACGATGCCACTATCTAATACAAGGTCTTACTCGTACACATATATCGG
1 AATCACATATCGATGCCACTATCTAATACAAGGTCTTACTCGCACACATATATCGG
*
33946973 AATCACATATCGATGCCAACGTAT-TAA-ACATGGTCTTACTCGCACACATATATCGG
1 AATCACATATCGATGCC-AC-TATCTAATACAAGGTCTTACTCGCACACATATATCGG
33947029 AATCACATATC
1 AATCACATATC
33947040 ACAAGTTGGA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
56 54 0.87
57 5 0.08
58 3 0.05
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (56 bp):
AATCACATATCGATGCCACTATCTAATACAAGGTCTTACTCGCACACATATATCGG
Found at i:33948760 original size:48 final size:47
Alignment explanation
Indices: 33948542--33948909 Score: 283
Period size: 48 Copynumber: 7.8 Consensus size: 47
33948532 ATAGGGTATA
* * * * *
33948542 ATGCCGACGCCATGTCCCAGACATGGTTTTACACTGGCTCATCCATC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATC
* * * * *
33948589 AAGTCAATGCCATGTCCCAGACATGGTCTTACATTGAC-CATCAAAATC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--TATC
* * * * *
33948637 GAGGCCGACGTCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATTC
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATC-TA-TC
* * *
33948688 GTGCCGATGCCATGTCCCAGACATGGTTTTACACTGACACCTCTATAC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-C
*
33948736 ATGCCGATGCCATGTCCCAGACATGGTTTTACACTGACACATC--TC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATC
* * *
33948781 GTAGCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC--TC
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTATC
* * * *
33948827 GAGGCCGATG-CATGTCCCAAACAT-GTCTTACACT-AGC-CCTCGTCTC
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACATC-TATC
33948873 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
33948910 GCTCTCATAA
Statistics
Matches: 262, Mismatches: 39, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
43 3 0.01
44 11 0.04
45 16 0.06
46 58 0.22
47 45 0.17
48 59 0.23
49 31 0.12
50 33 0.13
51 4 0.02
52 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATC
Found at i:33948840 original size:46 final size:48
Alignment explanation
Indices: 33948544--33948912 Score: 266
Period size: 46 Copynumber: 7.8 Consensus size: 48
33948534 AGGGTATAAT
* * *
33948544 GCCGACGCCATGTCCCAGACATGGTTTTACACTGGC-T-CATCCATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAT-C-TCGAG
* * * * * **
33948591 GTCAATGCCATGTCCCAGACATGGTCTTACATTGAC-CATCAAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATCTCGAG
* * * * *
33948640 GCCGACGTCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ACAT-CTCGAG
* * * *
33948690 GCCGATGCCATGTCCCAGACATGGTTTTACACTGAC--ACCTCTATAC-AT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATC--T-CGAG
* *
33948738 GCCGATGCCATGTCCCAGACATGGTTTTACACTGAC--ACATCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCG-AG
*
33948784 GCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
* * * * * *
33948830 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCCCT-CGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTTACATCTCGAG
33948876 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
33948913 CTCATAATGT
Statistics
Matches: 260, Mismatches: 42, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
44 11 0.04
45 16 0.06
46 60 0.23
47 50 0.19
48 54 0.21
49 31 0.12
50 33 0.13
51 4 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
Found at i:33948936 original size:94 final size:95
Alignment explanation
Indices: 33948552--33948954 Score: 341
Period size: 94 Copynumber: 4.3 Consensus size: 95
33948542 ATGCCGACGC
* * * ** *
33948552 CATGTCCCAGACATGGTTTTACACTGGCTCATCCATCAAGT--CAATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCCCA--CATCTCGTGCCGATGCCATGTCCCAGACATGG
* * *
33948615 TCTTACATTGAC-CATCAAAATCGAGGCCGACG
64 TCTTACACTGACTC-TCATAATCGAGGCCGATG
*
33948647 TCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCGTGCCGATGCCATGTCCCAGACAT
1 -CATGTCCCAGACATGGTCTTACACTAGC-C-CACAT-CTCGTGCCGATGCCATGTCCCAGACAT
* * *
33948712 GGTTTTACACTGACACCTC-T-ATAC-ATGCCGATG
62 GGTCTTACACTGAC-TCTCATAAT-CGAGGCCGATG
* * *
33948745 CCATGTCCCAGACATGGTTTTACACT-G-ACACATCTCGTAGCCAATG-CATGTCCCAGACAT-G
1 -CATGTCCCAGACATGGTCTTACACTAGCCCACATCTCGT-GCCGATGCCATGTCCCAGACATGG
* *
33948806 TCTTACACTGGCT-TACAT-CTCGAGGCCGATG
64 TCTTACACTGACTCT-CATAATCGAGGCCGATG
* * * *
33948837 CATGTCCCAAACAT-GTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCCCACATCTC-GTGCCGATGCCATGTCCCAGACATGGT
* * *
33948901 CTTACACTGGCTCTCATAAT-GTGGCCAATG
65 CTTACACTGACTCTCATAATCGAGGCCGATG
* *
33948931 TATGTCCTAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
33948955 GGCACACAAA
Statistics
Matches: 253, Mismatches: 35, Indels: 40
0.77 0.11 0.12
Matches are distributed among these distances:
90 10 0.04
91 16 0.06
92 33 0.13
93 33 0.13
94 57 0.23
95 2 0.01
96 29 0.11
97 3 0.01
98 35 0.14
99 32 0.13
100 2 0.01
101 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
CATGTCCCAGACATGGTCTTACACTAGCCCACATCTCGTGCCGATGCCATGTCCCAGACATGGTC
TTACACTGACTCTCATAATCGAGGCCGATG
Found at i:33955063 original size:15 final size:14
Alignment explanation
Indices: 33955027--33955064 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
33955017 ATACATAACC
33955027 TTTAATATATATTT
1 TTTAATATATATTT
33955041 TTTAAATATATATATT
1 TTT-AATATATAT-TT
33955057 TTTAATAT
1 TTTAATAT
33955065 TTTACTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 14 0.64
16 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTAATATATATTT
Found at i:33956065 original size:21 final size:21
Alignment explanation
Indices: 33956041--33956080 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33956031 TCTAAACACT
33956041 TAAAGACATCATATTAAAATG
1 TAAAGACATCATATTAAAATG
*
33956062 TAAATACATCATATTAAAA
1 TAAAGACATCATATTAAAA
33956081 ATACTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAGACATCATATTAAAATG
Found at i:33956234 original size:22 final size:22
Alignment explanation
Indices: 33956206--33956250 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
33956196 AATATTTATA
33956206 ATAAAATTAAAATGTATAAATT
1 ATAAAATTAAAATGTATAAATT
33956228 ATAAAATTAAAATGTATAAATT
1 ATAAAATTAAAATGTATAAATT
33956250 A
1 A
33956251 CACTAGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
ATAAAATTAAAATGTATAAATT
Found at i:33958789 original size:29 final size:27
Alignment explanation
Indices: 33958761--33958819 Score: 86
Period size: 25 Copynumber: 2.2 Consensus size: 27
33958751 TTATATTTTA
*
33958761 CTTACTTTTCATATTTTTTATTCTA-T
1 CTTACTTTTCATAATTTTTATTCTATT
33958787 -TTACTTTTCATAATTTTTATTCTATCT
1 CTTACTTTTCATAATTTTTATTCTAT-T
33958814 CTTACT
1 CTTACT
33958820 ATGCAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 23 0.79
27 1 0.03
28 5 0.17
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (27 bp):
CTTACTTTTCATAATTTTTATTCTATT
Found at i:33958790 original size:25 final size:25
Alignment explanation
Indices: 33958762--33958811 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
33958752 TATATTTTAC
*
33958762 TTACTTTTCATATTTTTTATTCTAT
1 TTACTTTTCATAATTTTTATTCTAT
33958787 TTACTTTTCATAATTTTTATTCTAT
1 TTACTTTTCATAATTTTTATTCTAT
33958812 CTCTTACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (25 bp):
TTACTTTTCATAATTTTTATTCTAT
Found at i:33960307 original size:42 final size:42
Alignment explanation
Indices: 33960249--33960335 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
33960239 CAACTAAAAC
*
33960249 AAACTCATCCCTATCATCTCCATTGTATCAAGGGCAAGGTCA
1 AAACTCATCCCTATCATCTCCATTGCATCAAGGGCAAGGTCA
33960291 AAACTCATCCCTATCATCTCCATTGCATCAAGGGCAAGGTCA
1 AAACTCATCCCTATCATCTCCATTGCATCAAGGGCAAGGTCA
33960333 AAA
1 AAA
33960336 AGTTGTTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (42 bp):
AAACTCATCCCTATCATCTCCATTGCATCAAGGGCAAGGTCA
Found at i:33967999 original size:24 final size:24
Alignment explanation
Indices: 33967907--33967999 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
33967897 GGAAACTCAT
* *
33967907 AAGAGCCATAATCAAGAAGTTCACA
1 AAGAGCCATAA-CAGGAAGCTCACA
* *
33967932 AAGAACCATATCAGGAAGCTCACA
1 AAGAGCCATAACAGGAAGCTCACA
* *** *
33967956 AATAGCC-TATTGGGAAGCTCAAA
1 AAGAGCCATAACAGGAAGCTCACA
*
33967979 AAGAGCCATAACGGGAAGCTC
1 AAGAGCCATAACAGGAAGCTC
33968000 CGGATAGCCA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
23 19 0.35
24 27 0.49
25 9 0.16
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.15
Consensus pattern (24 bp):
AAGAGCCATAACAGGAAGCTCACA
Found at i:33987610 original size:17 final size:17
Alignment explanation
Indices: 33987584--33987625 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
33987574 TGTTGATAGA
*
33987584 GTTAGTTTAGAAAAATC
1 GTTAGCTTAGAAAAATC
33987601 GTTAGCTTAGAAAAATC
1 GTTAGCTTAGAAAAATC
*
33987618 GTTGGCTT
1 GTTAGCTT
33987626 GTCACTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (17 bp):
GTTAGCTTAGAAAAATC
Found at i:33998198 original size:16 final size:16
Alignment explanation
Indices: 33998177--33998209 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33998167 AAGTCTACAA
33998177 GTTCCCATACAAAGTT
1 GTTCCCATACAAAGTT
33998193 GTTCCCATACAAAGTT
1 GTTCCCATACAAAGTT
33998209 G
1 G
33998210 GAATACATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (16 bp):
GTTCCCATACAAAGTT
Found at i:33999827 original size:20 final size:20
Alignment explanation
Indices: 33999759--33999831 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
33999749 ATCACTTTAA
*
33999759 TATTAAATTAATA--AAATAC
1 TATTAAAATAATATTAAAT-C
*
33999778 TATTAAGATAAATATTAAA-C
1 TATTAAAAT-AATATTAAATC
**
33999798 --TTAATTTAATATTAAATC
1 TATTAAAATAATATTAAATC
33999816 TATTAAAATAATATTA
1 TATTAAAATAATATTA
33999832 TTTTTGGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
17 9 0.21
18 6 0.14
19 7 0.17
20 17 0.40
22 3 0.07
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (20 bp):
TATTAAAATAATATTAAATC
Found at i:34010267 original size:40 final size:40
Alignment explanation
Indices: 34010205--34010423 Score: 249
Period size: 40 Copynumber: 5.5 Consensus size: 40
34010195 TATTCGAATG
*
34010205 ATATCCGGGCTAAG-TCCTGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCTAGTGACT
*
34010245 ATATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCT-AG-TGACT
* *
34010285 ATATCC-GGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
34010324 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTAACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
34010364 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
34010403 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGAT-CCGAAG
34010424 ATACTTGGGT
Statistics
Matches: 155, Mismatches: 13, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
37 1 0.01
38 7 0.05
39 63 0.41
40 79 0.51
41 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:34010406 original size:79 final size:79
Alignment explanation
Indices: 34010205--34010423 Score: 268
Period size: 79 Copynumber: 2.8 Consensus size: 79
34010195 TATTCGAATG
* * *
34010205 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACC-GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAG-TCCCGAAGGC
* **
34010269 ATTTGTGTGAGTTGCT
64 ATTTATGTGAGTAACT
*
34010285 ATATCC-GGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
34010349 TTTATGCT-AGTAACT
65 TTTATG-TGAGTAACT
* * *
34010364 ATATCCGGGCTAAGACCGAAGGCATTTGTGCGAGTTG-TTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAG
34010424 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
78 15 0.12
79 90 0.73
80 18 0.15
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGTGAGTAACT
Found at i:34010690 original size:22 final size:22
Alignment explanation
Indices: 34010650--34010691 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34010640 GAATGTGCAT
*
34010650 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
34010672 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
34010692 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:34015533 original size:474 final size:474
Alignment explanation
Indices: 34014646--34015594 Score: 1763
Period size: 474 Copynumber: 2.0 Consensus size: 474
34014636 GCCTCTCTCT
34014646 TTGCTTGCTTTCTTTCATTATTGAACTCCTCGGCCATCTTGGCCCGATCAGCTAATGCGGCGAAC
1 TTGCTTGCTTTCTTTCATTATTGAACTCCTCGGCCATCTTGGCCCGATCAGCTAATGCGGCGAAC
34014711 TCCCGTATCTCAAGAATCCCAATCAACAGCTTGATTTCCTCCTTTAGACATTCCTCAAAATGTTT
66 TCCCGTATCTCAAGAATCCCAATCAACAGCTTGATTTCCTCCTTTAGACATTCCTCAAAATGTTT
34014776 GCACATTTCTGACTCAGTTTGAACCCATTAGTGGCATACTGACTTAGCCTTACAAACTCCTTTCA
131 GCACATTTCTGACTCAGTTTGAACCCATTAGTGGCATACTGACTTAGCCTTACAAACTCCTTTCA
34014841 TATTCTGCTACAGTCTTATTTCCTTGCTTGAGTTGCAGGAACTCCTTCCATTTCGAGTCTAAGAA
196 TATTCTGCTACAGTCTTATTTCCTTGCTTGAGTTGCAGGAACTCCTTCCATTTCGAGTCTAAGAA
*
34014906 CCTTTGACTAATGTATTTCTTTTTAAACTCTGCTTGAAAGAATTCCCAATTGATGTTTTCCTTTG
261 CCTTTGACTAATGTATTTCTTTTTAAACTCTACTTGAAAGAATTCCCAATTGATGTTTTCCTTTG
*
34014971 GCATCACGAAAGATACAATATTCCACCAGTGGTATGTAGTATCCTTCAGGAGAGACACGACACAC
326 GCATCACGAAAGATACAATATTCCACCAGTGGTATGCAGTATCCTTCAGGAGAGACACGACACAC
* *
34015036 TTTAAGCACTCCTCATGTGTGTACGATAATTCATCTAATACTCGAGTATTATTCTCGAGCCAGAA
391 TTTAAGCACTCCTCATGTGTGTACGATAATTCATCTAATACCCGAGTAGTATTCTCGAGCCAGAA
34015101 CTCAGCTTTTTCAGCATAG
456 CTCAGCTTTTTCAGCATAG
* * *
34015120 TTGCTTGCTTTCTTTCATTATTGAACTCGTCGGCCTTCTTGGCTCGATCAGCTAATGCGGCGAAC
1 TTGCTTGCTTTCTTTCATTATTGAACTCCTCGGCCATCTTGGCCCGATCAGCTAATGCGGCGAAC
*
34015185 TCCCGTATCTCAAGAATCCCAATGAACAGCTTGATTTCCTCCTTTAGACATTCCTCAAAATGTTT
66 TCCCGTATCTCAAGAATCCCAATCAACAGCTTGATTTCCTCCTTTAGACATTCCTCAAAATGTTT
* *
34015250 GCACATTTTTGACTCAGTTTGAACCCATTAGTGGCATACTGACTTAGCCTTACAAACTCCTTTCG
131 GCACATTTCTGACTCAGTTTGAACCCATTAGTGGCATACTGACTTAGCCTTACAAACTCCTTTCA
*
34015315 TATTCTGCTACAGTCTTATTTCCTTGCTTGAGTTGCAGGAACTCCTTCCATTTTGAGTCTAAGAA
196 TATTCTGCTACAGTCTTATTTCCTTGCTTGAGTTGCAGGAACTCCTTCCATTTCGAGTCTAAGAA
*
34015380 CCTTTGACTAATGTATTTCTTTTTAAACTCTACTTGGAAGAATTCCCAATTGATGTTTTCCTTTG
261 CCTTTGACTAATGTATTTCTTTTTAAACTCTACTTGAAAGAATTCCCAATTGATGTTTTCCTTTG
* **
34015445 GCATCACGAAAGATACACTATTCCACCAGTGGTATGCAGTATCCTTCAGGAGAGACACGGTACAC
326 GCATCACGAAAGATACAATATTCCACCAGTGGTATGCAGTATCCTTCAGGAGAGACACGACACAC
34015510 TTTAAGCACTCCTCATGTGTGTACGATAATTCATCTAATACCCGAGTAGTATTCTCGAGCCAGAA
391 TTTAAGCACTCCTCATGTGTGTACGATAATTCATCTAATACCCGAGTAGTATTCTCGAGCCAGAA
34015575 CTCAGCTTTTTCAGCATAG
456 CTCAGCTTTTTCAGCATAG
34015594 T
1 T
34015595 CGTCAATCTT
Statistics
Matches: 460, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
474 460 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (474 bp):
TTGCTTGCTTTCTTTCATTATTGAACTCCTCGGCCATCTTGGCCCGATCAGCTAATGCGGCGAAC
TCCCGTATCTCAAGAATCCCAATCAACAGCTTGATTTCCTCCTTTAGACATTCCTCAAAATGTTT
GCACATTTCTGACTCAGTTTGAACCCATTAGTGGCATACTGACTTAGCCTTACAAACTCCTTTCA
TATTCTGCTACAGTCTTATTTCCTTGCTTGAGTTGCAGGAACTCCTTCCATTTCGAGTCTAAGAA
CCTTTGACTAATGTATTTCTTTTTAAACTCTACTTGAAAGAATTCCCAATTGATGTTTTCCTTTG
GCATCACGAAAGATACAATATTCCACCAGTGGTATGCAGTATCCTTCAGGAGAGACACGACACAC
TTTAAGCACTCCTCATGTGTGTACGATAATTCATCTAATACCCGAGTAGTATTCTCGAGCCAGAA
CTCAGCTTTTTCAGCATAG
Found at i:34016652 original size:21 final size:21
Alignment explanation
Indices: 34016628--34016667 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34016618 TATATTTTAT
34016628 AGCATA-AGTAATAAAATAAAG
1 AGCATAGA-TAATAAAATAAAG
*
34016649 AGCATGGATAATAAAATAA
1 AGCATAGATAATAAAATAA
34016668 TAGTGGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (21 bp):
AGCATAGATAATAAAATAAAG
Found at i:34018606 original size:40 final size:39
Alignment explanation
Indices: 34018551--34018697 Score: 179
Period size: 39 Copynumber: 3.7 Consensus size: 39
34018541 TATTCGAATG
* *
34018551 ATATCCGGATTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGG-CTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
34018591 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTATTTACT
1 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
34018631 ATATCCGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-CT
1 ATATCCGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
34018670 ATATCCGGCTAAATCCCGAAGGTATTTG
1 ATATCCGGCTAAGTCCCGAAGGCATTTG
34018698 GGTTTGGAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
39 51 0.56
40 38 0.42
41 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (39 bp):
ATATCCGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:34025230 original size:20 final size:21
Alignment explanation
Indices: 34025205--34025243 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34025195 TATATTTTAT
34025205 AGCATA-ATAATAAAATAAAG
1 AGCATAGATAATAAAATAAAG
34025225 AGCATAGATAATAAAATAA
1 AGCATAGATAATAAAATAA
34025244 TAGTGGTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (21 bp):
AGCATAGATAATAAAATAAAG
Found at i:34040419 original size:39 final size:40
Alignment explanation
Indices: 34040349--34040489 Score: 180
Period size: 39 Copynumber: 3.6 Consensus size: 40
34040339 TGTTCAAATG
* *
34040349 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
34040389 ATATCCGGGCTAAGT-CCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
34040428 ATATCCGGGCTAAGACCCGACGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
34040468 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
34040490 TACTTGGGTT
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
39 48 0.55
40 37 0.43
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:34045097 original size:46 final size:45
Alignment explanation
Indices: 34045044--34045218 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
34045034 TATTTGGGCA
34045044 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAA-G
*** *
34045090 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGT-A-T-GCGAAG
* *
34045137 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAA-G
* *
34045183 -CCCAAGCTCGTTGAGTTGAGTCTGAGTTCACTTATG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATG
34045219 GGCGGGTTAC
Statistics
Matches: 108, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 62 0.57
47 33 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAAG
Found at i:34045199 original size:93 final size:93
Alignment explanation
Indices: 34045040--34045211 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
34045030 AGGATATTTG
* * *
34045040 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
34045105 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
34045133 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGA
*
34045197 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
34045212 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:34048012 original size:15 final size:15
Alignment explanation
Indices: 34047964--34048047 Score: 82
Period size: 15 Copynumber: 5.7 Consensus size: 15
34047954 TATCGTACCT
*
34047964 TGGGTTTCTTTATCC
1 TGGGTTTCTTTATTC
* *
34047979 TGGATCTCTTTATTC
1 TGGGTTTCTTTATTC
34047994 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
*
34048009 TGGGTTTCTCTA-TC
1 TGGGTTTCTTTATTC
* *
34048023 TTGGATTTTTTTATTC
1 -TGGGTTTCTTTATTC
*
34048039 -GGTTTTCTT
1 TGGGTTTCTT
34048048 ATTATCTTTG
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.80
16 2 0.04
ACGTcount: A:0.08, C:0.15, G:0.18, T:0.58
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:34050490 original size:46 final size:45
Alignment explanation
Indices: 34050431--34050606 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
34050421 TATTTGGGCA
*
34050431 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
34050477 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
34050524 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
34050570 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34050607 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:34050586 original size:93 final size:93
Alignment explanation
Indices: 34050427--34050598 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
34050417 AGGATATTTG
* * * *
34050427 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
34050492 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
34050520 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
34050585 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
34050599 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:34060007 original size:47 final size:47
Alignment explanation
Indices: 34059956--34060197 Score: 340
Period size: 47 Copynumber: 5.1 Consensus size: 47
34059946 TTAGGATTTT
*
34059956 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** * *
34060003 ATGTGATGAATGTGAACCTCTATATATATGCGTGATAAAGCCGAATGGCCA
1 ATGTGATGAATGTGAA---C-ATGCATATGTGTGATAAGGCCGAATGGCCA
*
34060054 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
34060101 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
34060148 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
34060195 ATG
1 ATG
34060198 CGAAATGTGT
Statistics
Matches: 174, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
47 131 0.75
48 1 0.01
50 1 0.01
51 41 0.24
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:34060066 original size:98 final size:94
Alignment explanation
Indices: 34059956--34060197 Score: 360
Period size: 98 Copynumber: 2.5 Consensus size: 94
34059946 TTAGGATTTT
*
34059956 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
34060021 T-CTATATATATGCGTGATAAAGCCGAATGGCCA
66 TGC---ATATAT--GAGATAAAGCCGAATGGCCA
34060054 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
34060119 TGCATATATGAGATAAGGCCGAATGGCCA
66 TGCATATATGAGATAAAGCCGAATGGCCA
** * * *
34060148 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
34060198 CGAAATGTGT
Statistics
Matches: 135, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
94 63 0.47
96 6 0.04
98 65 0.48
99 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGAGATAAAGCCGAATGGCCA
Found at i:34060307 original size:46 final size:46
Alignment explanation
Indices: 34060171--34060307 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
34060161 GAACATGTAT
* *
34060171 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
34060217 ATATGAGGTAAAGCTGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
34060263 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
34060308 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:34070420 original size:44 final size:44
Alignment explanation
Indices: 34070359--34070444 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
34070349 CATGTGCGAG
* *
34070359 GCATCCGAGCTCATTGAGTTGGTCCGAGTTTATTATGGATGCAA
1 GCATCCGAGCTCATTGAGTTGGTCCAAGTTCATTATGGATGCAA
* * *
34070403 GCATCTGAGCTCGTTGAGTTGGTCTAAGTTCATTATGGATGC
1 GCATCCGAGCTCATTGAGTTGGTCCAAGTTCATTATGGATGC
34070445 GATACATGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (44 bp):
GCATCCGAGCTCATTGAGTTGGTCCAAGTTCATTATGGATGCAA
Found at i:34087001 original size:47 final size:47
Alignment explanation
Indices: 34086930--34087426 Score: 859
Period size: 47 Copynumber: 10.6 Consensus size: 47
34086920 CCCTTCGGGA
* * * * * *
34086930 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
34086977 CCTATCACTTATATACACTTTCACATTCATCACATTGACCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34087024 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34087071 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34087118 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34087165 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34087212 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34087259 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34087306 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34087353 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34087400 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
34087427 TATTCAAATA
Statistics
Matches: 433, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 433 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34121014 original size:43 final size:43
Alignment explanation
Indices: 34120961--34121102 Score: 212
Period size: 43 Copynumber: 3.3 Consensus size: 43
34120951 AGTGAATAAC
*
34120961 AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAGAT
1 AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT
*
34121004 AATATAGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT
1 AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT
* * * *
34121047 AATATCGAGCTTAGAGCCTAGCAGGCTATAATGCCGGTGAAAT
1 AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT
* *
34121090 GATATCAGGCTTC
1 AATATCGGGCTTC
34121103 AAACCTAGCA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT
Found at i:34121110 original size:43 final size:42
Alignment explanation
Indices: 34120977--34121209 Score: 155
Period size: 43 Copynumber: 5.6 Consensus size: 42
34120967 GGGCTTCGGG
* * * ***
34120977 CCTAGCAGGCTATAATGCTGGTGAGATAATAT-AGGGCTTCGGG
1 CCTAGCAGGCTATAATGCCGGTGAAATGATATCA-GGCTT-AAA
* * *
34121020 CCTAGCAGGCTATAATGCCGGTGAGATAATATC-GAGCTTAGAG
1 CCTAGCAGGCTATAATGCCGGTGAAATGATATCAG-GCTTA-AA
34121063 CCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGCTTCAAA
1 CCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGCTT-AAA
* *
34121106 CCTAGCAGG-TGA-AATGCCGATG-AATGAGT-TCAGACTTAAA
1 CCTAGCAGGCT-ATAATGCCGGTGAAATGA-TATCAGGCTTAAA
* ** * *
34121146 GTCTAGCAGGCT-TCGTGCTGGTG--ATGA-ATTCAGGTTTAAAA
1 -CCTAGCAGGCTATAATGCCGGTGAAATGATA-TCAGGCTT-AAA
34121187 CCTAGCAGGCTA-AATGCCGGTGA
1 CCTAGCAGGCTATAATGCCGGTGA
34121210 TTTGATAAAA
Statistics
Matches: 156, Mismatches: 19, Indels: 32
0.75 0.09 0.15
Matches are distributed among these distances:
40 30 0.19
41 29 0.19
42 13 0.08
43 82 0.53
44 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (42 bp):
CCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGCTTAAA
Found at i:34121110 original size:86 final size:84
Alignment explanation
Indices: 34120961--34121209 Score: 226
Period size: 86 Copynumber: 3.0 Consensus size: 84
34120951 AGTGAATAAC
* * * * ***
34120961 AATATCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAGATAATAT-AGGGCTTCGGGCCTAG
1 AATATCGAGCTTAGAGCCTAGCAGGCTATAATGCTGGTGA-ATGATATCA-GGCTTCAAACCTAG
34121025 CAGGCTATAATGCCGGTGAGAT-
64 CAGGCTA-AATGCCGGTGA-ATG
*
34121047 AATATCGAGCTTAGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGCTTCAAACCTAGC
1 AATATCGAGCTTAGAGCCTAGCAGGCTATAATGCTGGTG-AATGATATCAGGCTTCAAACCTAGC
*
34121112 AGG-TGAAATGCCGATGAATG
65 AGGCT-AAATGCCGGTGAATG
* * * ** * *
34121132 AGT-TC-AGACTTAAAGTCTAGCAGGCT-TCGTGCTGGTG-ATGA-ATTCAGGTTTAAAACCTAG
1 AATATCGAG-CTTAGAGCCTAGCAGGCTATAATGCTGGTGAATGATA-TCAGGCTTCAAACCTAG
34121192 CAGGCTAAATGCCGGTGA
64 CAGGCTAAATGCCGGTGA
34121210 TTTGATAAAA
Statistics
Matches: 138, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
80 1 0.01
81 34 0.25
82 1 0.01
83 10 0.07
84 20 0.14
85 13 0.09
86 57 0.41
87 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (84 bp):
AATATCGAGCTTAGAGCCTAGCAGGCTATAATGCTGGTGAATGATATCAGGCTTCAAACCTAGCA
GGCTAAATGCCGGTGAATG
Found at i:34124858 original size:47 final size:47
Alignment explanation
Indices: 34124800--34124933 Score: 139
Period size: 47 Copynumber: 2.9 Consensus size: 47
34124790 GGGTAAGGTC
* *
34124800 CCGATGCCATGTCCCAGACACAGTCTTACACTGGCTCAT-ATCTC-AAG
1 CCGAAGCCATGTCCCAGACA-AGTCTTACACTGGCT-ATCACCTCGAAG
* * *
34124847 TCGAAGCCATGTCCCAGACATGGTCTTACACTGACTATCACCTCGAAG
1 CCGAAGCCATGTCCCAGACA-AGTCTTACACTGGCTATCACCTCGAAG
* * * *
34124895 CCGACG-CATGTCCCAGACATGTCTTACATTGGCTTTCAC
1 CCGAAGCCATGTCCCAGACAAGTCTTACACTGGCTATCAC
34124934 AAGTGACCCA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 18 0.25
47 48 0.66
48 7 0.10
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (47 bp):
CCGAAGCCATGTCCCAGACAAGTCTTACACTGGCTATCACCTCGAAG
Found at i:34135662 original size:47 final size:48
Alignment explanation
Indices: 34135590--34135716 Score: 163
Period size: 47 Copynumber: 2.7 Consensus size: 48
34135580 GTAAAGTGCT
* * *
34135590 GATGCCATGTCCCAGACACGATCTTACACTGGCTCAT-ATCTC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATCTCGAAGCC
* *
34135637 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGAAGCC
*
34135685 GATG-CATGTCCTAGACAT-GTCTTACACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
34135717 TTCACAAGTG
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 15 0.21
47 49 0.69
48 7 0.10
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGAAGCC
Found at i:34137462 original size:14 final size:14
Alignment explanation
Indices: 34137439--34137470 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
34137429 AGTCCAGACC
34137439 ACATAATTTTCATA
1 ACATAATTTTCATA
*
34137453 ACATATTTTTCATA
1 ACATAATTTTCATA
34137467 ACAT
1 ACAT
34137471 GCCCCTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.44
Consensus pattern (14 bp):
ACATAATTTTCATA
Found at i:34137664 original size:12 final size:12
Alignment explanation
Indices: 34137647--34137674 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34137637 TTAAAATATA
34137647 TCAAAGTAAGCT
1 TCAAAGTAAGCT
34137659 TCAAAGTAAGCT
1 TCAAAGTAAGCT
34137671 TCAA
1 TCAA
34137675 TAACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (12 bp):
TCAAAGTAAGCT
Found at i:34139758 original size:21 final size:22
Alignment explanation
Indices: 34139706--34139758 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
34139696 AAATAAAATC
*
34139706 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
34139727 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
34139749 CATGTATCAT
1 CATGTATCAT
34139759 CATTTACTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:34142439 original size:47 final size:47
Alignment explanation
Indices: 34142369--34142584 Score: 180
Period size: 47 Copynumber: 4.6 Consensus size: 47
34142359 GTAAGGTACC
* * *
34142369 GATGCCTTATCCCAGACACGGTCTTACACTAGCTCATATCTCATG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCATGCT
*
34142415 CGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCGTAGCT
1 -GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCAT-ATCTCAT-GCT
** * * *
34142464 GATG-CATGTCCCAGACA-CATCTTACACTAGCACTTGTCTCGATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTC-ATGCT
* * *
34142510 GATGTCATGTCCCAGACATGGTCTTACACTGGGTCTCATAATGTC--GCT
1 GATGCCATGTCCCAGACATGGTCTTACACT-AG-CTCAT-ATCTCATGCT
*
34142558 GATG-CATGTCCCAAACAT-GTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
34142585 AAGCCCACAA
Statistics
Matches: 139, Mismatches: 18, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
46 33 0.24
47 77 0.55
48 21 0.15
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCATGCT
Found at i:34142539 original size:94 final size:93
Alignment explanation
Indices: 34142378--34142584 Score: 256
Period size: 94 Copynumber: 2.2 Consensus size: 93
34142368 CGATGCCTTA
*
34142378 TCCCAGACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAGACATGGTCTTAC
1 TCCCAGACAC-GTCTTACACTAGCACATATCTCATGTCGATGCCATGTCCCAGACATGGTCTTAC
*
34142443 ACTGACTATCAT-CTCGTAGCTGATGCATG
65 ACTGACTATCATAAT-GTAGCTGATGCATG
* * * *
34142472 TCCCAGACACATCTTACACTAGCACTTGTCTCGATG-CTGATGTCATGTCCCAGACATGGTCTTA
1 TCCCAGACACGTCTTACACTAGCACATATCTC-ATGTC-GATGCCATGTCCCAGACATGGTCTTA
** * *
34142536 CACTGGGTCTCATAATGTCGCTGATGCATG
64 CACTGACTATCATAATGTAGCTGATGCATG
* *
34142566 TCCCAAACATGTCTTACAC
1 TCCCAGACACGTCTTACAC
34142585 AAGCCCACAA
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
93 19 0.20
94 77 0.79
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
TCCCAGACACGTCTTACACTAGCACATATCTCATGTCGATGCCATGTCCCAGACATGGTCTTACA
CTGACTATCATAATGTAGCTGATGCATG
Found at i:34145227 original size:24 final size:24
Alignment explanation
Indices: 34145200--34145323 Score: 169
Period size: 24 Copynumber: 5.0 Consensus size: 24
34145190 CGGCATTGTG
34145200 CTAAGTGAAATAA-TACCATGGCAT
1 CTAAGTGAAATAAGT-CCATGGCAT
*
34145224 CTAAGTGAAATAAGTCTATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
34145251 GCTAAGTGAAATAAGTCCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
34145276 CTAAGTGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
**
34145300 CTAAACGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
34145324 GGTGCTAAGT
Statistics
Matches: 91, Mismatches: 4, Indels: 10
0.87 0.04 0.10
Matches are distributed among these distances:
24 65 0.71
25 3 0.03
27 2 0.02
28 21 0.23
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:34145261 original size:52 final size:52
Alignment explanation
Indices: 34145191--34145323 Score: 186
Period size: 52 Copynumber: 2.6 Consensus size: 52
34145181 TCTAGGATAC
* *
34145191 GGCATTGTGCTAAGTGAAATAA-TACCATGGCATCTAAGTGAAATAAGTCTAT
1 GGCAATGTGCTAAGTGAAATAAGT-CCATGGCATCTAAGTGAAATAAGTCCAT
34145243 GGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCAT
1 GGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCAT
**
34145295 GGC-A--T-CTAAACGAAATAAGTCCATGGCAT
1 GGCAATGTGCTAAGTGAAATAAGTCCATGGCAT
34145324 GGTGCTAAGT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
48 22 0.29
49 1 0.01
51 1 0.01
52 51 0.67
53 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (52 bp):
GGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCAT
Found at i:34145414 original size:51 final size:51
Alignment explanation
Indices: 34145359--34145506 Score: 251
Period size: 51 Copynumber: 2.9 Consensus size: 51
34145349 TGAACCTTAG
* *
34145359 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTCAATGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
34145410 GAATATAATATCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
34145461 GAATAAAATAGCTTTGGACACGAGTGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC
34145507 CGTGTATCAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 90 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:34148208 original size:32 final size:32
Alignment explanation
Indices: 34148169--34148233 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
34148159 AAAATCACTA
34148169 AAAAAACTCAAAAATTAAGGTATGGCTTAGCT
1 AAAAAACTCAAAAATTAAGGTATGGCTTAGCT
*
34148201 AAAAAACTCAAAACTTAAGGTATGGCTTAGCT
1 AAAAAACTCAAAAATTAAGGTATGGCTTAGCT
34148233 A
1 A
34148234 GTACTCAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (32 bp):
AAAAAACTCAAAAATTAAGGTATGGCTTAGCT
Found at i:34158892 original size:27 final size:27
Alignment explanation
Indices: 34158862--34159039 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
34158852 ATATTGAGTC
* * *
34158862 CGCACACTCAGTGCTATATAATTAACT
1 CGCACACTTAGTGCTACATAATAAACT
*
34158889 CGCACACTTAGTGCTACGTAATCAAA-T
1 CGCACACTTAGTGCTACATAAT-AAACT
*
34158916 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAAT-AAACT
** ** * *
34158944 CGCACACTTAGTGCCGCATGGTTAATT
1 CGCACACTTAGTGCTACATAATAAACT
* * **
34158971 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATAAACT
* *
34158998 CGCACACTTAGTGCAACATAGTCAAA-T
1 CGCACACTTAGTGCTACATAAT-AAACT
34159025 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34159040 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATAAACT
Found at i:34159001 original size:82 final size:81
Alignment explanation
Indices: 34158883--34159038 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34158873 TGCTATATAA
* *
34158883 TTAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TTAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34158948 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34158965 TTAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TTAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34159029 CACTTAGTGC
65 CACTTAGTGC
34159039 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (81 bp):
TTAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34159051 original size:82 final size:83
Alignment explanation
Indices: 34158862--34159051 Score: 221
Period size: 82 Copynumber: 2.3 Consensus size: 83
34158852 ATATTGAGTC
* * * * *
34158862 CGCACACTCAGTGCTATATAA-TTAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTTAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
34158926 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
34158944 CGCACACTTAGTGCCG--C-ATGGTTAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TTAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
34159005 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
34159025 CGCACACTTAGTGCTGTACAATTTAAT
1 CGCACACTTAGTGCTGTACAATTTAAT
34159052 CCCGCGCACT
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 69 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTTAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:34167250 original size:93 final size:93
Alignment explanation
Indices: 34167124--34167292 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
34167114 CCATAAGCGG
* *
34167124 ACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
34167189 AGTTCGGATGCCTAGTTACATATCATGA
66 AGTTCGGATGCCTAGTTACATATCATGA
* * *
34167217 ACTCGTACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
34167282 AGTTCGGATGC
66 AGTTCGGATGC
34167293 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
ACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATATCATGA
Found at i:34167289 original size:46 final size:46
Alignment explanation
Indices: 34167114--34167289 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
34167104 TGTAACCCGC
* * * * * *
34167114 CCATAAGCGGACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34167160 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
34167210 --ATCA-TGAACTCGTACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34167253 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34167290 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34174928 original size:93 final size:93
Alignment explanation
Indices: 34174814--34174986 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
34174804 CCGCCCATAA
* *
34174814 ACGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 ACGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
34174879 AACAAGTTCGGATGCCTAGTTACATCTC
66 AACAAGTTCGGATGCCTAGTTACATCTC
* * *
34174907 ACGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 ACGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
34174972 AACGAGTTCGGATGC
66 AACAAGTTCGGATGC
34174987 TCAACCATCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
ACGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
AACAAGTTCGGATGCCTAGTTACATCTC
Found at i:34174983 original size:46 final size:46
Alignment explanation
Indices: 34174816--34174983 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
34174806 GCCCATAAAC
* * * * *
34174816 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGT
* * * * *
34174862 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAGT
34174909 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGT
34174955 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
34174984 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 54 0.54
47 28 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGT
Done.