Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 193 of 770
Found at i:57622309 original size:13 final size:13
Alignment explanation
Indices: 57622291--57622316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57622281 TCGTATAGCT
57622291 AATTCAAAGCTAA
1 AATTCAAAGCTAA
57622304 AATTCAAAGCTAA
1 AATTCAAAGCTAA
57622317 TATTAAGCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
AATTCAAAGCTAA
Found at i:57622771 original size:39 final size:39
Alignment explanation
Indices: 57622712--57622869 Score: 244
Period size: 39 Copynumber: 4.1 Consensus size: 39
57622702 TGTGAATATA
* *
57622712 TATACGCGAGAATTATATCCGGACTTCAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
57622751 TATAAGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
57622790 TATATGCGAAAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
57622829 TATATGCGAGAATTATATCCGGACTTTAAGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
57622868 TA
1 TA
57622870 CGTGCTGGAC
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:57624531 original size:24 final size:24
Alignment explanation
Indices: 57624504--57624549 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
57624494 ATACTAAAGG
57624504 ATACTCGGGTAATCTCATAAACAT
1 ATACTCGGGTAATCTCATAAACAT
57624528 ATACTCGGGTAATCTCATAAAC
1 ATACTCGGGTAATCTCATAAAC
57624550 TTAGTACCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (24 bp):
ATACTCGGGTAATCTCATAAACAT
Found at i:57624680 original size:42 final size:41
Alignment explanation
Indices: 57624557--57624686 Score: 152
Period size: 42 Copynumber: 3.1 Consensus size: 41
57624547 AACTTAGTAC
* * * **
57624557 CATACCAATGCTATATCCCAGATATAGTCTTACATGGGATCT
1 CATACCGATGCCATATCCCA-ATATGGTCTTACATGAAATCT
* *
57624599 CATATCGATGCCAATAGCCCAACTATGGTCTTACATGAAATCT
1 CATACCGATGCC-ATATCCCAA-TATGGTCTTACATGAAATCT
*
57624642 CATACCGATGCCATATCCCATATATGGTTTTACATGAAATCT
1 CATACCGATGCCATATCCCA-ATATGGTCTTACATGAAATCT
57624684 CAT
1 CAT
57624687 CTAACCCTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 39 0.52
43 36 0.48
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.31
Consensus pattern (41 bp):
CATACCGATGCCATATCCCAATATGGTCTTACATGAAATCT
Found at i:57629517 original size:15 final size:15
Alignment explanation
Indices: 57629497--57629544 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 15
57629487 GGAAATTCAC
57629497 TTATGTTTTATTTTA
1 TTATGTTTTATTTTA
57629512 TTATGTTTTCATTATTATA
1 TTATGTTTT-A-T-TT-TA
*
57629531 TTATTTTTTATTTT
1 TTATGTTTTATTTT
57629545 TTACATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 10 0.36
16 3 0.11
17 2 0.07
18 3 0.11
19 10 0.36
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (15 bp):
TTATGTTTTATTTTA
Found at i:57631305 original size:13 final size:13
Alignment explanation
Indices: 57631287--57631320 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
57631277 AATTTGGAGC
57631287 CACACGGGTAAGG
1 CACACGGGTAAGG
57631300 CACACGGGTAAGG
1 CACACGGGTAAGG
57631313 CACACGGG
1 CACACGGG
57631321 CGTCTGTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.38, T:0.06
Consensus pattern (13 bp):
CACACGGGTAAGG
Found at i:57640264 original size:40 final size:39
Alignment explanation
Indices: 57640098--57640282 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 39
57640088 TTCGAATGAT
* * *
57640098 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTACTAA
** * *
57640138 ATCCGGAATAAGATCCGATGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
57640178 ATCCGGACTAAGATCCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTACTAA
* *
57640218 ATCCGGGTTAAGTCTCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTC-CGAAGGCATTCGTGCGAGTTACT-AA
*
57640259 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGT-CCGAAGGCATT
57640283 TGAATGTGTA
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 108 0.91
41 9 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:57640276 original size:80 final size:80
Alignment explanation
Indices: 57640098--57640285 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
57640088 TTCGAATGAT
* *
57640098 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGATGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
57640163 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
57640178 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCTCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGATC-CGAAGG
* *
57640239 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
57640259 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
57640286 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 3 0.03
80 78 0.86
81 10 0.11
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:57643992 original size:29 final size:29
Alignment explanation
Indices: 57643959--57644089 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
57643949 GTGACGAGAT
57643959 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57643988 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
57644017 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
57644046 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
57644075 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
57644090 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57652006 original size:29 final size:29
Alignment explanation
Indices: 57651973--57652103 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
57651963 GTGACGAGAT
57651973 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57652002 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
57652031 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
57652060 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
57652089 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
57652104 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57663231 original size:28 final size:28
Alignment explanation
Indices: 57663199--57663297 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
57663189 GCAATAAGCC
*
57663199 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
57663227 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
57663255 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
57663284 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57663298 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:57670883 original size:28 final size:28
Alignment explanation
Indices: 57670851--57670949 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
57670841 GCAATAAGCC
*
57670851 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
57670879 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
57670907 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
57670936 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57670950 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:57676833 original size:2 final size:2
Alignment explanation
Indices: 57676826--57676853 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
57676816 TACTCTACTT
57676826 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57676854 ATTTACTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57677086 original size:21 final size:22
Alignment explanation
Indices: 57677062--57677110 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
57677052 ATTTAGTCTC
57677062 AATTCT-AAAATTCAAAAACAT
1 AATTCTAAAAATTCAAAAACAT
*
57677083 AATTATAAAAAATTCAAAAACAT
1 AATTCT-AAAAATTCAAAAACAT
57677106 -ATTCT
1 AATTCT
57677111 TATAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
23 15 0.62
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
AATTCTAAAAATTCAAAAACAT
Found at i:57677145 original size:19 final size:18
Alignment explanation
Indices: 57677114--57677152 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
57677104 ATATTCTTAT
*
57677114 AAAAATAAAAAATATATA
1 AAAAATAAAAAATACATA
*
57677132 AAAAATCAATAAATACATA
1 AAAAAT-AAAAAATACATA
57677151 AA
1 AA
57677153 TTTTCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAAATACATA
Found at i:57678677 original size:36 final size:36
Alignment explanation
Indices: 57678634--57678707 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
57678624 AGAGAATAAA
57678634 TATTTTAATATTTATTTAAAGTCTACAGGATTATAT
1 TATTTTAATATTTATTTAAAGTCTACAGGATTATAT
*
57678670 TATTTTAATATTTATTTAAAGTCTATAGGATTATAT
1 TATTTTAATATTTATTTAAAGTCTACAGGATTATAT
57678706 TA
1 TA
57678708 GGGTCGTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.51
Consensus pattern (36 bp):
TATTTTAATATTTATTTAAAGTCTACAGGATTATAT
Found at i:57684472 original size:27 final size:27
Alignment explanation
Indices: 57684429--57684507 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
57684419 AAGGGCAAAA
* *
57684429 CAGTCATTTTACCCTACAGGGGTATGT
1 CAGTCATTTTACACTACAAGGGTATGT
*
57684456 CTA-TCATTTTACACTACAAGGGTATTT
1 C-AGTCATTTTACACTACAAGGGTATGT
* *
57684483 CAGTAATTTTATACTACAAGGGTAT
1 CAGTCATTTTACACTACAAGGGTAT
57684508 TTCGATAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
26 1 0.02
27 43 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (27 bp):
CAGTCATTTTACACTACAAGGGTATGT
Found at i:57684520 original size:27 final size:27
Alignment explanation
Indices: 57684463--57684522 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
57684453 TGTCTATCAT
*
57684463 TTTACACTACAAGGGTATTTCAGTAAT
1 TTTACACTACAAGGGTATTTCAGTAAA
*
57684490 TTTATACTACAAGGGTATTTC-GATAAA
1 TTTACACTACAAGGGTATTTCAG-TAAA
57684517 TTTACA
1 TTTACA
57684523 AATTGGGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (27 bp):
TTTACACTACAAGGGTATTTCAGTAAA
Found at i:57684532 original size:27 final size:27
Alignment explanation
Indices: 57684501--57684814 Score: 248
Period size: 27 Copynumber: 11.7 Consensus size: 27
57684491 TTATACTACA
* *
57684501 AGGGTATTTCGATAAATTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
57684528 GGGGTGTTTC-AGTAGTTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
57684555 AGGGTATGTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
57684582 AGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
57684609 AAGGTGTTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
57684636 AGGGTGTTTCAATAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
** *
57684663 AGGGTATTTTAATAATTTCAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
57684689 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * **
57684716 GGGGTATTTCAATAA-TTTACAGTAAGAG
1 AGGGTATTTCGATAATTTTACA--AATCG
* * *
57684744 GGGGTACGTT-GGTAATTTTACAAATCG
1 AGGGTA-TTTCGATAATTTTACAAATCG
* *
57684771 GGGGTACTTC-AGTAATTTTACAAA-CTG
1 AGGGTATTTCGA-TAATTTTACAAATC-G
*
57684798 A-GGTATTTCGGTAATTT
1 AGGGTATTTCGATAATTT
57684815 CTCTTTATTA
Statistics
Matches: 236, Mismatches: 38, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
26 46 0.19
27 169 0.72
28 13 0.06
29 8 0.03
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:57684538 original size:54 final size:54
Alignment explanation
Indices: 57684474--57684713 Score: 197
Period size: 54 Copynumber: 4.5 Consensus size: 54
57684464 TTACACTACA
* * * * *
57684474 AGGGTATTTCAGTAATTTTA-TACTACAAGGGTATTTCGATAAATTTACAAATTG
1 AGGGTGTTTCAGTAATTTTACAAAT-CAAGGGTATGTCGATAAATTTACAAATCG
* * * * *
57684528 GGGGTGTTTCAGTAGTTTTACAAATCGAGGGTATGTCGGTAATTTTACAAATCG
1 AGGGTGTTTCAGTAATTTTACAAATCAAGGGTATGTCGATAAATTTACAAATCG
** *
57684582 AGGGTGTTTTGGTAATTTTACAAATCGAAGGTGT-T-TC-AGTAATTTTACAAATCG
1 AGGGTGTTTCAGTAATTTTACAAATC-AAGG-GTATGTCGA-TAAATTTACAAATCG
* * * * **
57684636 AGGGTGTTTCAATAATTTCACAAATCGAGGGTATTTTAAT-AATTT-CACAATCG
1 AGGGTGTTTCAGTAATTTTACAAATCAAGGGTATGTCGATAAATTTACA-AATCG
*
57684689 AGGGTATTTC-GATAATTTTACAAAT
1 AGGGTGTTTCAG-TAATTTTACAAAT
57684714 TGGGGGTATT
Statistics
Matches: 151, Mismatches: 26, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
52 4 0.03
53 34 0.23
54 104 0.69
55 7 0.05
56 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (54 bp):
AGGGTGTTTCAGTAATTTTACAAATCAAGGGTATGTCGATAAATTTACAAATCG
Found at i:57684559 original size:81 final size:81
Alignment explanation
Indices: 57684474--57684733 Score: 249
Period size: 81 Copynumber: 3.2 Consensus size: 81
57684464 TTACACTACA
* * * **
57684474 AGGGTATTTCAGTAATTTTA-TACTACAAGGGTATTTCGATAAATTTACAAATTGGGGGTGTTTC
1 AGGGTATTTCAGTAATTTTACAAAT-CAAGGGTATTTCGATAAATTTACAAATCGAAGGTGTTTC
*
57684538 AGTAGTTTTACAAATCG
65 AGTAATTTTACAAATCG
* * * * * * *
57684555 AGGGTATGTCGGTAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCGAAGGTGTTTCA
1 AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAAATTTACAAATCGAAGGTGTTTCA
57684620 GTAATTTTACAAATCG
66 GTAATTTTACAAATCG
* * * * ** * *
57684636 AGGGTGTTTCAATAATTTCACAAATCGAGGGTATTTTAAT-AATTT-CACAATCGAGGGTATTTC
1 AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAAATTTACA-AATCGAAGGTGTTTC
*
57684699 -GATAATTTTACAAATTG
65 AG-TAATTTTACAAATCG
* *
57684716 GGGGTATTTCAATAATTT
1 AGGGTATTTCAGTAATTT
57684734 ACAGTAAGAG
Statistics
Matches: 149, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
79 3 0.02
80 47 0.32
81 97 0.65
82 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (81 bp):
AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAAATTTACAAATCGAAGGTGTTTCA
GTAATTTTACAAATCG
Found at i:57685173 original size:28 final size:28
Alignment explanation
Indices: 57685114--57685222 Score: 155
Period size: 28 Copynumber: 3.9 Consensus size: 28
57685104 ATCCATACTT
* * * *
57685114 ATTCATTTGGCCCCTTTGGGCCCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
* *
57685143 ATTCACATGGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
57685171 ATTCATATGGCCCATTAGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
57685199 ATTCATATGGCCCATTAGGCCCAA
1 ATTCATATGGCCCATTAGGCCCAA
57685223 CTACTTCCCA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 64 0.89
29 8 0.11
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.26
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:57690804 original size:2 final size:2
Alignment explanation
Indices: 57690797--57690822 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57690787 ATTGAAAGGG
57690797 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
57690823 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57706871 original size:43 final size:43
Alignment explanation
Indices: 57706787--57706871 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
57706777 AAATCCTACA
* ** *
57706787 ATGCCAACATCCCAGACATGGTCTTACATGTAGCCATATATCG
1 ATGCCAACATCCCAGACAGGGTCTTACATGTAAACACATATCG
57706830 ATGCC-ACTATCCCAGACAGGGTCTTAC-TCGTAAACACATATC
1 ATGCCAAC-ATCCCAGACAGGGTCTTACAT-GTAAACACATATC
57706872 AGAATCACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCAACATCCCAGACAGGGTCTTACATGTAAACACATATCG
Found at i:57708843 original size:49 final size:50
Alignment explanation
Indices: 57708730--57708853 Score: 164
Period size: 49 Copynumber: 2.5 Consensus size: 50
57708720 CGGCCACGAG
*
57708730 AGACCATGTCTGGGACATGGCATCGGCACGGATATATGAGAGCTAGTGTA
1 AGACCATGTCTGGGACATGGCATCGGCACGAATATATGAGAGCTAGTGTA
* * * *
57708780 AGACCATGTTTGGGACATGGCATCGGC-CTTAAT-TTTGATAG-TCAGTGTA
1 AGACCATGTCTGGGACATGGCATCGGCAC-GAATATATGAGAGCT-AGTGTA
57708829 AGACCATGTCTGGGACATGGCATCG
1 AGACCATGTCTGGGACATGGCATCG
57708854 ATATTATACC
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 1 0.02
49 37 0.56
50 28 0.42
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (50 bp):
AGACCATGTCTGGGACATGGCATCGGCACGAATATATGAGAGCTAGTGTA
Found at i:57713762 original size:40 final size:40
Alignment explanation
Indices: 57713713--57713884 Score: 186
Period size: 40 Copynumber: 4.3 Consensus size: 40
57713703 TCTTCGGAAT
* *
57713713 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
57713752 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
57713792 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
57713832 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
57713872 TTAGCCCGGATAT
1 TTAGCCCGGATAT
57713885 GATTCAAATG
Statistics
Matches: 108, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 5 0.05
40 101 0.94
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:57718147 original size:46 final size:49
Alignment explanation
Indices: 57718041--57718362 Score: 249
Period size: 46 Copynumber: 6.8 Consensus size: 49
57718031 AGGTTATTGT
* * * * *
57718041 GAGCAAGTGTAAGACCATGTCTGGGACATGGCACCAGCATTGAGATG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
* * * *
57718089 GTGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGTCCTCGAGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
** *
57718136 -AGCCAGTGTAAGA-CATGTCTAAGACAT-GCATCGGCCACGAGATGT-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
* * * *
57718181 --GTCAATGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGTGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-A
* * * **
57718229 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTCG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GTA
* * * ** * * *
57718278 TAGTCAGTGTAAGACCATGTTTGGGACATGGCATC-AACT--TGTTGGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
57718324 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
57718363 ATTATACCCT
Statistics
Matches: 219, Mismatches: 42, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
44 10 0.05
45 13 0.06
46 67 0.31
47 47 0.21
48 14 0.06
49 32 0.15
50 35 0.16
51 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
Found at i:57718297 original size:99 final size:96
Alignment explanation
Indices: 57718181--57718356 Score: 248
Period size: 96 Copynumber: 1.8 Consensus size: 96
57718171 CACGAGATGT
* *
57718181 GTCAATGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGTGA-GAGCTAGTGTAAGAC
1 GTCAATGTAAGACCATGTCTGGGACATGGCATC--AACTAG-T-TG-GATGAGCCAGTGTAAGAC
57718244 CATGTCTGGGACATGGCGTCAGCCTCGATTTCGATA
61 CATGTCTGGGACATGGCGTCAGCCTCGATTTCGATA
* * *
57718280 GTCAGTGTAAGACCATGTTTGGGACATGGCATCAACTTGTTGGATGAGCCAGTGTAAGACCATGT
1 GTCAATGTAAGACCATGTCTGGGACATGGCATCAACTAGTTGGATGAGCCAGTGTAAGACCATGT
57718345 CTGGGACATGGC
66 CTGGGACATGGC
57718357 ATCGGCATTA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
95 2 0.03
96 33 0.47
97 3 0.04
98 1 0.01
99 31 0.44
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (96 bp):
GTCAATGTAAGACCATGTCTGGGACATGGCATCAACTAGTTGGATGAGCCAGTGTAAGACCATGT
CTGGGACATGGCGTCAGCCTCGATTTCGATA
Found at i:57718350 original size:47 final size:48
Alignment explanation
Indices: 57718186--57718359 Score: 185
Period size: 49 Copynumber: 3.6 Consensus size: 48
57718176 GATGTGTCAA
* *
57718186 TGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGTGA-GAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATC--AACTAGAT-TG-GATGAGCCAG
* * * * *
57718236 TGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTCGAT-AGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCA-ACTAGA-TTGGATGAGCCAG
* *
57718285 TGTAAGACCATGTTTGGGACATGGCATCAACTTG-TTGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAACTAGATTGGATGAGCCAG
57718332 TGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
57718360 GGCATTATAC
Statistics
Matches: 105, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
46 5 0.05
47 32 0.30
48 3 0.03
49 34 0.32
50 30 0.29
51 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCAACTAGATTGGATGAGCCAG
Found at i:57727018 original size:26 final size:26
Alignment explanation
Indices: 57726998--57727050 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
57726988 GCATATATAG
57726998 CAACCTTTCCAATATAACATAGCAAA
1 CAACCTTTCCAATATAACATAGCAAA
57727024 CAACCTTTCCAATATAACATAGCAAA
1 CAACCTTTCCAATATAACATAGCAAA
57727050 C
1 C
57727051 TATCCATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.28, G:0.04, T:0.23
Consensus pattern (26 bp):
CAACCTTTCCAATATAACATAGCAAA
Found at i:57732277 original size:8 final size:8
Alignment explanation
Indices: 57732266--57732322 Score: 87
Period size: 8 Copynumber: 6.9 Consensus size: 8
57732256 ATTTAAGTAA
57732266 ATATTATT
1 ATATTATT
57732274 ATATTATT
1 ATATTATT
57732282 ATATTATT
1 ATATTATT
57732290 ATATTATT
1 ATATTATT
57732298 ATATTTTATT
1 ATA--TTATT
*
57732308 ATACTATT
1 ATATTATT
57732316 ATATTAT
1 ATATTAT
57732323 ATTACTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 37 0.82
10 8 0.18
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTATT
Found at i:57732288 original size:13 final size:13
Alignment explanation
Indices: 57732278--57732326 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
57732268 ATTATTATAT
57732278 TATTATATTATTA
1 TATTATATTATTA
*
57732291 TATTAT-TATATTT
1 TATTATAT-TATTA
*
57732304 TATTATACTATTA
1 TATTATATTATTA
57732317 TATTATATTA
1 TATTATATTA
57732327 CTAAAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 1 0.03
13 29 0.97
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:57749237 original size:40 final size:40
Alignment explanation
Indices: 57749178--57749263 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
57749168 TGGAATACAA
*
57749178 CCGGATATAACCACATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
* * *
57749218 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
*
57749258 CTGGAT
1 CCGGAT
57749264 GTAGTCACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (40 bp):
CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
Found at i:57750605 original size:18 final size:18
Alignment explanation
Indices: 57750584--57750621 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
57750574 ACTTTTCTTC
* *
57750584 CTTTCTTTTTTTTTTTTT
1 CTTTCTTTGTTTTTGTTT
57750602 CTTTCTTTGTTTTTGTTT
1 CTTTCTTTGTTTTTGTTT
57750620 CT
1 CT
57750622 CTCATGTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (18 bp):
CTTTCTTTGTTTTTGTTT
Found at i:57756842 original size:39 final size:38
Alignment explanation
Indices: 57756797--57756963 Score: 230
Period size: 39 Copynumber: 4.3 Consensus size: 38
57756787 ACGACTAGCT
*
57756797 CAAATGCCTTCGGGAC-AAACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAACCCGGTT-TAGTAACTCGCA
* *
57756836 CGAATGCCTTCGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAACCC-GGTTTAGTAACTCGCA
57756875 CAAATGCCTTCGGGCTTAACCCGGTTTA-TAACTCGCA
1 CAAATGCCTTCGGGCTTAACCCGGTTTAGTAACTCGCA
*
57756912 CAAATGCCTTCGGGCTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGCTTAACCCGG-TTTAGTAACTCGCA
* *
57756951 CGAACGCCTTCGG
1 CAAATGCCTTCGG
57756964 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
37 33 0.28
38 11 0.09
39 69 0.59
40 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGGCTTAACCCGGTTTAGTAACTCGCA
Found at i:57756930 original size:76 final size:78
Alignment explanation
Indices: 57756797--57756963 Score: 241
Period size: 76 Copynumber: 2.2 Consensus size: 78
57756787 ACGACTAGCT
* *
57756797 CAAATGCCTTCGGGACAAACCCGGTTATAGTAACTCGCACGAATGCCTTCGGACTTAACCCGGGT
1 CAAATGCCTTCGGGACAAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAT
57756862 TTAGTAACTCGCA
66 TTAGTAACTCGCA
* *
57756875 CAAATGCCTTCGGG-CTTAACCCGGTT-TA-TAACTCGCACAAATGCCTTCGGGCTTAACCCGGA
1 CAAATGCCTTCGGGAC-AAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
*
57756937 TTTATTAACTCGCA
65 TTTAGTAACTCGCA
* *
57756951 CGAACGCCTTCGG
1 CAAATGCCTTCGG
57756964 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
76 55 0.68
77 3 0.04
78 23 0.28
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACAAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAT
TTAGTAACTCGCA
Found at i:57764886 original size:40 final size:40
Alignment explanation
Indices: 57764838--57765008 Score: 195
Period size: 39 Copynumber: 4.3 Consensus size: 40
57764828 ACGACTAGCT
* * *
57764838 CAAATGCCTTCGGGAC-AAACCCCGGCTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATTTAGTAACTCGCA
* * * *
57764878 CGAATGCCTTCAGGACTTAACCTGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
57764918 CAAATGCCTTC-GGCCTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
57764957 CAAATGCCTTCGGG-CTTAACCCAGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
57764996 CGAACGCCTTCGG
1 CAAATGCCTTCGG
57765009 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 70 0.61
40 43 0.37
41 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:57777429 original size:40 final size:40
Alignment explanation
Indices: 57777384--57777595 Score: 223
Period size: 40 Copynumber: 5.3 Consensus size: 40
57777374 TAATTATTAT
*
57777384 CTGAATGCACATACGTG-CCCTAGTTTGTACTTTGGTACCC
1 CTGAATGCACATACGTGCCCCTA-TTTATACTTTGGTACCC
* ****
57777424 CTGAATGCACATATGTGCCCCTATTTATACTACAATACCC
1 CTGAATGCACATACGTGCCCCTATTTATACTTTGGTACCC
* * * *
57777464 CTAAATGCACATATGTGCCCCTATTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTATTTATACTTTGGTACCC
* * *
57777504 C-GAAATGCACATACATGCCCCTGTTTTTACTTTGGTACCC
1 CTG-AATGCACATACGTGCCCCTATTTATACTTTGGTACCC
* * * * *
57777544 TTGAATACACATACATGCCCCTATTTATACTTTTGTAACC
1 CTGAATGCACATACGTGCCCCTATTTATACTTTGGTACCC
57777584 CTGAAT-CACATA
1 CTGAATGCACATA
57777596 GTATGTGAAC
Statistics
Matches: 145, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 6 0.04
40 133 0.92
41 6 0.04
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCCTATTTATACTTTGGTACCC
Found at i:57787967 original size:32 final size:32
Alignment explanation
Indices: 57787931--57787995 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
57787921 ATGGCGATTT
57787931 AGGCTATAACTTTGAAGTAATGTTGCTGACAG
1 AGGCTATAACTTTGAAGTAATGTTGCTGACAG
*
57787963 AGGCTATAACTTTGTAGTAATGTTGCTGACAG
1 AGGCTATAACTTTGAAGTAATGTTGCTGACAG
57787995 A
1 A
57787996 TACTAAGGGT
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:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (32 bp):
AGGCTATAACTTTGAAGTAATGTTGCTGACAG
Found at i:57791274 original size:19 final size:19
Alignment explanation
Indices: 57791228--57791285 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
57791218 TGTAATTGAA
*
57791228 AAAACAAAGAAG-AAAAAGG
1 AAAACAAA-AAGAAAAAAAG
*
57791247 AGAAGCAAAAAGAAAAAAAG
1 A-AAACAAAAAGAAAAAAAG
*
57791267 AAAACAAAATCGAAAAAAA
1 AAAACAAAA-AGAAAAAAA
57791286 AGTGTTGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 11 0.34
20 21 0.66
ACGTcount: A:0.76, C:0.07, G:0.16, T:0.02
Consensus pattern (19 bp):
AAAACAAAAAGAAAAAAAG
Found at i:57792164 original size:14 final size:14
Alignment explanation
Indices: 57792142--57792194 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 14
57792132 ACCTCTTGTA
*
57792142 AAAAGAAAACGA-G
1 AAAAGAAAAAGATG
57792155 AAAAGAAAAAGATG
1 AAAAGAAAAAGATG
*
57792169 AAAAGCAAAAAGCTATC
1 AAAAG-AAAAAG--ATG
57792186 AAAAGAAAA
1 AAAAGAAAA
57792195 GAGAGGCAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 11 0.32
14 6 0.18
15 6 0.18
16 4 0.12
17 7 0.21
ACGTcount: A:0.70, C:0.08, G:0.17, T:0.06
Consensus pattern (14 bp):
AAAAGAAAAAGATG
Found at i:57794182 original size:68 final size:68
Alignment explanation
Indices: 57794110--57794281 Score: 244
Period size: 68 Copynumber: 2.5 Consensus size: 68
57794100 CATCATGTGT
* *
57794110 ACAAGAAG-GCTAC-GAGATACTATATAGTAGCTAGGTCACATGTGTGATACAGGATGTATCCCA
1 ACAAGAAGAGCTACGGAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACAGGATGTATCCCA
57794173 TGTAG
64 TGTAG
*
57794178 ACAAG-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAAGAGCTACG-GAGAGATAAATGTAGCTAGGTCACATGTGTGATACAGGATGTATCCCAT
57794242 GTAG
65 GTAG
*
57794246 ACAAG-AGAGCTACATGAGAGATAAATGTAGCTAGGT
1 ACAAGAAGAGCTAC-GGAGAGATAAATGTAGCTAGGT
57794282 TGCATGAGTG
Statistics
Matches: 96, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
67 2 0.02
68 85 0.89
69 4 0.04
70 5 0.05
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (68 bp):
ACAAGAAGAGCTACGGAGAGATAAATGTAGCTAGGTCACATGTGTGATACAGGATGTATCCCATG
TAG
Found at i:57794293 original size:68 final size:68
Alignment explanation
Indices: 57794136--57794330 Score: 275
Period size: 68 Copynumber: 2.8 Consensus size: 68
57794126 ATACTATATA
*
57794136 GTAGCTAGGTCACATGTGTGATACAGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACAGGATGTATCCCATGTAGACAAGAGAGCTACATGAGAGATA
57794201 AAT
66 AAT
*
57794204 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACATGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACAGGATGTATCCCATGTAGACAAGAGAGCTACATGAGAGATA
57794269 AAT
66 AAT
** * * * *
57794272 GTAGCTAGGTTGCATGAGTGATTCCAAGTGAAGGA-CACCATGTAGACAAGAGAGCTACA
1 GTAGCTAGGTCACATGTGTGA-TAC-AG-GATGTATC-CCATGTAGACAAGAGAGCTACA
57794331 AGATAAATCG
Statistics
Matches: 114, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
68 84 0.74
69 2 0.02
70 2 0.02
71 26 0.23
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGATACAGGATGTATCCCATGTAGACAAGAGAGCTACATGAGAGATA
AAT
Found at i:57799986 original size:22 final size:21
Alignment explanation
Indices: 57799960--57800000 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
57799950 CTATGCAGAC
*
57799960 ATCTCAACCCAAAAATTTATAG
1 ATCTC-ACCCAAAAAGTTATAG
*
57799982 ATCTCATCCAAAAAGTTAT
1 ATCTCACCCAAAAAGTTAT
57800001 CACAATTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (21 bp):
ATCTCACCCAAAAAGTTATAG
Found at i:57801587 original size:96 final size:96
Alignment explanation
Indices: 57801418--57801607 Score: 301
Period size: 96 Copynumber: 2.0 Consensus size: 96
57801408 TACTTTCTTT
*
57801418 TCTACTTAGATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACATT
1 TCTACTTAGATATTTAATTGCACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACATT
***
57801483 GTGCAAAAGGTGATAGCTCAATTATATTCTC
66 ACACAAAAGGTGATAGCTCAATTATATTCTC
* *
57801514 TCTATTTAGATATTTAATTGCACATTTGAAACCCTTATGATCTTTTGAACTACACCAATAAC-TC
1 TCTACTTAGATATTTAATTGCACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACAT-
*
57801578 TACACAAAAGGTGATAGCTCAATTGTATTC
65 TACACAAAAGGTGATAGCTCAATTATATTC
57801608 CTCCTTTCAT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 1 0.01
96 85 0.99
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (96 bp):
TCTACTTAGATATTTAATTGCACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACATT
ACACAAAAGGTGATAGCTCAATTATATTCTC
Found at i:57802119 original size:17 final size:17
Alignment explanation
Indices: 57802080--57802113 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
57802070 ATGAGGTAAG
57802080 AATTAATCTTTTATGTC
1 AATTAATCTTTTATGTC
57802097 AATTAATCTTTTATGTC
1 AATTAATCTTTTATGTC
57802114 TTTTAAAAGT
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:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
AATTAATCTTTTATGTC
Found at i:57804382 original size:26 final size:27
Alignment explanation
Indices: 57804333--57804396 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
57804323 ATTCACTAAA
*
57804333 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAGGTATGAAAATTACCATT
*
57804360 ATACCCCTAGGTGT-AAAATTACCATT
1 ATACCCCTAGGTATGAAAATTACCATT
*
57804386 ATACCCTTAGG
1 ATACCCCTAGG
57804397 GTTGATTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (27 bp):
ATACCCCTAGGTATGAAAATTACCATT
Found at i:57804567 original size:27 final size:26
Alignment explanation
Indices: 57804500--57804610 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
57804490 GGAAAAGTTT
*
57804500 TGGTGGCTCTGCCACAAATATCTATTTC
1 TGGTGGCTCTGCCAC-AATATCT-GTTC
57804528 TGGTGGCTCTGCCACAAATATCTGTTC
1 TGGTGGCTCTGCCAC-AATATCTGTTC
*
57804555 TGGTGGCTTTGCCACAATATCTGTATC
1 TGGTGGCTCTGCCACAATATCTGT-TC
* * *
57804582 TAGTGACTCTGTCACAATATCTGTTC
1 TGGTGGCTCTGCCACAATATCTGTTC
57804608 TGG
1 TGG
57804611 CGGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.17
27 39 0.52
28 23 0.31
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACAATATCTGTTC
Found at i:57809117 original size:15 final size:15
Alignment explanation
Indices: 57809076--57809127 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
57809066 AAACAAATCA
57809076 AACAGAATAGAACAG
1 AACAGAATAGAACAG
* **
57809091 AGCAGAGCAGAACAG
1 AACAGAATAGAACAG
* *
57809106 AACAAAATAGAATAG
1 AACAGAATAGAACAG
*
57809121 AGCAGAA
1 AACAGAA
57809128 CTAAGCTAAA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.23, T:0.06
Consensus pattern (15 bp):
AACAGAATAGAACAG
Found at i:57810432 original size:16 final size:18
Alignment explanation
Indices: 57810402--57810439 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
57810392 TTATGTGACA
57810402 AATATATTAAGTTATAAT
1 AATATATTAAGTTATAAT
*
57810420 AATAT-TTAA-TTATATT
1 AATATATTAAGTTATAAT
57810436 AATA
1 AATA
57810440 ATAAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AATATATTAAGTTATAAT
Found at i:57813680 original size:63 final size:64
Alignment explanation
Indices: 57813601--57813721 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 64
57813591 AAATTTAAAA
* * *
57813601 AAAAAAAAGTAATTAAG-CCCTTCTTCTTTTTGCACTCAATTGTGCACTTGAACTTTCACTTCTT
1 AAAAAAAAGCAATTAAGCCCCTCCTT-TTTTTGCACTCAATTGGGCACTTGAACTTTCACTTCTT
* ** *
57813665 AAAAAAAA-CAATTAAGCCCCTCCTTTTTTTTCGTTCAATTGGGTACTTGAACTTTCA
1 AAAAAAAAGCAATTAAGCCCCTCCTTTTTTTGCACTCAATTGGGCACTTGAACTTTCA
57813722 AAATGCATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 34 0.69
64 15 0.31
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (64 bp):
AAAAAAAAGCAATTAAGCCCCTCCTTTTTTTGCACTCAATTGGGCACTTGAACTTTCACTTCTT
Found at i:57813851 original size:10 final size:9
Alignment explanation
Indices: 57813839--57813881 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
57813829 GAAAATTATT
57813839 AAATTTTAATA
1 AAATTTT-A-A
57813850 AAATTTTAA
1 AAATTTTAA
57813859 AAA-TTTAA
1 AAATTTTAA
57813867 AAATTATTAA
1 AAATT-TTAA
57813877 AAATT
1 AAATT
57813882 GGAAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.27
9 5 0.17
10 10 0.33
11 7 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAATTTTAA
Found at i:57813878 original size:18 final size:20
Alignment explanation
Indices: 57813830--57813881 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
57813820 TAAATTCTAG
*
57813830 AAAATTATT-AAATTTTAAT
1 AAAATTATTAAAAATTTAAT
57813849 AAAATT-TTAAAAATTT-A-
1 AAAATTATTAAAAATTTAAT
57813866 AAAATTATTAAAAATT
1 AAAATTATTAAAAATT
57813882 GGAAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.20
18 12 0.40
19 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTATTAAAAATTTAAT
Found at i:57814221 original size:47 final size:45
Alignment explanation
Indices: 57814103--57814229 Score: 123
Period size: 47 Copynumber: 2.7 Consensus size: 45
57814093 TTTTACAAAA
*
57814103 TTTATAT-TTCTTTACATTTTGTATAATTTTCTTACGACTTTATAATTT
1 TTTATATATT-TTTACA-TTT-TATAATTTT-TTACGACTTTACAATTT
* *
57814151 TTTTTATATTTCTATATC-TTTTATAATTTTTTACGATTTTACAATTT
1 TTTATATATTT-T-TA-CATTTTATAATTTTTTACGACTTTACAATTT
*
57814198 TTTATATATTTTTACCATGTTTATATTTTTTT
1 TTTATATATTTTTA-CAT-TTTATAATTTTTT
57814230 CAATTTTTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
45 3 0.04
46 2 0.03
47 37 0.55
48 16 0.24
49 6 0.09
50 2 0.03
51 1 0.01
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.64
Consensus pattern (45 bp):
TTTATATATTTTTACATTTTATAATTTTTTACGACTTTACAATTT
Found at i:57814225 original size:28 final size:27
Alignment explanation
Indices: 57814141--57814237 Score: 74
Period size: 28 Copynumber: 3.4 Consensus size: 27
57814131 TTCTTACGAC
* *
57814141 TTTATAATTTTTTTTA-TATTTCTATATCT
1 TTTATAA--TTTTTTACCATTT-TATATTT
* *
57814170 TTTATAATTTTTTACGATTTTACAATTT
1 TTTATAATTTTTTACCATTTTA-TATTT
57814198 TTTAT-ATATTTTTACCATGTTTATATTT
1 TTTATAAT-TTTTTACCAT-TTTATATTT
57814226 TTT-TCAATTTTT
1 TTTAT-AATTTTT
57814238 AATATTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
27 12 0.21
28 32 0.56
29 13 0.23
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (27 bp):
TTTATAATTTTTTACCATTTTATATTT
Found at i:57814248 original size:19 final size:18
Alignment explanation
Indices: 57814091--57814247 Score: 77
Period size: 18 Copynumber: 8.3 Consensus size: 18
57814081 TTTATAATTT
**
57814091 TTTTTTACAAAATTTATA
1 TTTTTTACAATTTTTATA
57814109 TTTCTTTAC-ATTTTGTATAA
1 TTT-TTTACAATTTT-TAT-A
* * *
57814129 TTTTCTTACGACTTTATAATT
1 TTTT-TTAC-AATTT-TTATA
* *
57814150 TTTTTTA-TATTTCTATA
1 TTTTTTACAATTTTTATA
* *
57814167 TCTTTTATAATTTTT-TA
1 TTTTTTACAATTTTTATA
**
57814184 CGATTTTACAATTTTTTATA
1 -TTTTTTACAA-TTTTTATA
* *
57814204 TATTTTTACCATGTTTATA
1 T-TTTTTACAATTTTTATA
*
57814223 TTTTTTTCAATTTTTAATA
1 TTTTTTACAATTTTT-ATA
57814242 TTTTTT
1 TTTTTT
57814248 TAATATTTGA
Statistics
Matches: 103, Mismatches: 23, Indels: 25
0.68 0.15 0.17
Matches are distributed among these distances:
17 10 0.10
18 32 0.31
19 31 0.30
20 20 0.19
21 4 0.04
22 5 0.05
23 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTTTACAATTTTTATA
Found at i:57824467 original size:15 final size:15
Alignment explanation
Indices: 57824419--57824468 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
57824409 GTATTTAGTC
57824419 TTATTTTTATTA--T
1 TTATTTTTATTATTT
*
57824432 TTATTTAT-TTATTT
1 TTATTTTTATTATTT
57824446 TTATTTTTATTATTT
1 TTATTTTTATTATTT
57824461 TTATTTTT
1 TTATTTTT
57824469 GGAAAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 3 0.09
13 7 0.22
14 8 0.25
15 14 0.44
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTATTTTTATTATTT
Found at i:57824526 original size:17 final size:17
Alignment explanation
Indices: 57824504--57824542 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
57824494 CACATTCTCC
*
57824504 TTTTCCC-TTATCTTTTT
1 TTTTCCCATT-TCTTTCT
57824521 TTTTCCCATTTCTTTCT
1 TTTTCCCATTTCTTTCT
57824538 TTTTC
1 TTTTC
57824543 TTTTCTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTCCCATTTCTTTCT
Found at i:57825328 original size:21 final size:19
Alignment explanation
Indices: 57825302--57825347 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
57825292 TTACCCCAAG
*
57825302 GAAGCCGATTGATCCGTCTCA
1 GAAGCCGA--GATCCATCTCA
57825323 GAAGCC-AGATCCATCTCA
1 GAAGCCGAGATCCATCTCA
57825341 GAAGCCG
1 GAAGCCG
57825348 GATTCATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 16 0.70
20 1 0.04
21 6 0.26
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.17
Consensus pattern (19 bp):
GAAGCCGAGATCCATCTCA
Found at i:57825355 original size:18 final size:18
Alignment explanation
Indices: 57825312--57825346 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57825302 GAAGCCGATT
*
57825312 GATCCGTCTCAGAAGCCA
1 GATCCATCTCAGAAGCCA
57825330 GATCCATCTCAGAAGCC
1 GATCCATCTCAGAAGCC
57825347 GGATTCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (18 bp):
GATCCATCTCAGAAGCCA
Found at i:57834360 original size:43 final size:43
Alignment explanation
Indices: 57834306--57834428 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 43
57834296 GTCGAGATCA
* * *
57834306 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTA-TAT
* *
57834349 GATTACGTGTAAGACCATGTCTAGGACATTGACATCGTTATAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATAT
* * *
57834392 GATTTCGTGTAAGACTATGTCTGGGACATGGGCATCG
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG
57834429 GTATGACATA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
43 67 0.97
44 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATAT
Found at i:57834446 original size:43 final size:43
Alignment explanation
Indices: 57834305--57834452 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
57834295 TGTCGAGATC
*
57834305 AGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTG
1 AGATTACATGTAAGACCATGTCTGGGACATTGGCATCGGTA-TG
* * * * *
57834348 TGATTACGTGTAAGACCATGTCTAGGACATTGACATCGTTAT-
1 AGATTACATGTAAGACCATGTCTGGGACATTGGCATCGGTATG
* * * *
57834390 ATGATTTCGTGTAAGACTATGTCTGGGACATGGGCATCGGTATG
1 A-GATTACATGTAAGACCATGTCTGGGACATTGGCATCGGTATG
* *
57834434 ACATAACATGTAAGACCAT
1 AGATTACATGTAAGACCAT
57834453 ATCTAGGATA
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
43 81 0.96
44 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
AGATTACATGTAAGACCATGTCTGGGACATTGGCATCGGTATG
Found at i:57835676 original size:46 final size:46
Alignment explanation
Indices: 57835509--57835820 Score: 203
Period size: 46 Copynumber: 6.7 Consensus size: 46
57835499 GGTATAATGT
** * *
57835509 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATTAAGT--
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACAT--A-TCAGTGC
* * * *
57835556 TGATGCCATGTCCCAGACATGGTCTTACACTAACTATTGAAAACAAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAAC-A--CATATC-AGTGC
* * * **
57835605 TGATGCCATGTCCCAGACATAGTCTTACGCTCTCACATATCAGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATATCAGTGC
* * * *
57835651 CGATGGCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACA-C-ATATCA-GTGC
* *
57835699 CGATGCCATGTCCTAGACATGGTCTTACACTAACACATCTC-GTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATATCAGT-GC
* ** * *
57835745 CGATG-TATGTCCCAGACAT-GTCTTACACTGGCTTACATCTTGAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAAC--ACAT-ATCAGTGC
*
57835791 CGATG-CATGTCTCAGACAT-GTCTTACACTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA
57835821 GCTCTCGTCT
Statistics
Matches: 211, Mismatches: 38, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
44 11 0.05
45 16 0.08
46 75 0.36
47 35 0.17
48 43 0.20
49 30 0.14
50 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACACATATCAGTGC
Found at i:57835726 original size:94 final size:93
Alignment explanation
Indices: 57835505--57835774 Score: 264
Period size: 94 Copynumber: 2.9 Consensus size: 93
57835495 ATAGGGTATA
* * *
57835505 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATTAAGT--TGATGCCATGTC
1 ATGTCGATGCCATGTCCCAGACATGGTCTTACACT--CTCA--CATTCAGTGCCGATGGCATGTC
* * *
57835568 CCAGACATGGTCTTACACTAACTATTGAAAAC
62 CCAGACATGGTCTTACACTGACTACTCAAAAC
* * * *
57835600 AAGGCTGATGCCATGTCCCAGACATAGTCTTACGCTCTCACATATCAGTGCCGATGGCATGTCCC
1 ATGTC-GATGCCATGTCCCAGACATGGTCTTACACTCTCACAT-TCAGTGCCGATGGCATGTCCC
* *
57835665 AGACATGGTCTTACACTGAC-ACCTCTATAC
64 AGACATGGTCTTACACTGACTA-CTCAAAAC
* * ** *
57835695 GTGTCGATGCCATGTCCTAGACATGGTCTTACACTAACACATCTC-GTAGCCGAT-GTATGTCCC
1 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTCTCACAT-TCAGT-GCCGATGGCATGTCCC
57835758 AGACAT-GTCTTACACTG
64 AGACATGGTCTTACACTG
57835775 GCTTACATCT
Statistics
Matches: 147, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
92 14 0.10
93 20 0.14
94 45 0.31
95 40 0.27
96 28 0.19
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (93 bp):
ATGTCGATGCCATGTCCCAGACATGGTCTTACACTCTCACATTCAGTGCCGATGGCATGTCCCAG
ACATGGTCTTACACTGACTACTCAAAAC
Found at i:57835840 original size:46 final size:46
Alignment explanation
Indices: 57835699--57835857 Score: 123
Period size: 46 Copynumber: 3.4 Consensus size: 46
57835689 CTATACGTGT
* *
57835699 CGATGCCATGTC-CTAGACATGGTCTTACACTAAC--ACATCTCGTAG-C
1 CGATG-CATGTCTC-AGACAT-GTCTTACACTAGCTTACATCTC-AAGAC
* * * ** *
57835745 CGATGTATGTCCCAGACATGTCTTACACTGGCTTACATCTTGAGGC
1 CGATGCATGTCTCAGACATGTCTTACACTAGCTTACATCTCAAGAC
* *
57835791 CGATGCATGTCTCAGACATGTCTTACACTAGCTCT-CGTCTCAATAC
1 CGATGCATGTCTCAGACATGTCTTACACTAGCT-TACATCTCAAGAC
57835837 CGATGCCATGT-TCTAGACATG
1 CGATG-CATGTCTC-AGACATG
57835858 GTCTGACATT
Statistics
Matches: 93, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.12
45 13 0.14
46 56 0.60
47 13 0.14
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCTCAGACATGTCTTACACTAGCTTACATCTCAAGAC
Found at i:57836608 original size:13 final size:13
Alignment explanation
Indices: 57836590--57836614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57836580 TACAAAAAGC
57836590 TCATGTTACAAGT
1 TCATGTTACAAGT
57836603 TCATGTTACAAG
1 TCATGTTACAAG
57836615 GGGTCCAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TCATGTTACAAGT
Found at i:57842141 original size:20 final size:21
Alignment explanation
Indices: 57842116--57842154 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57842106 CTCTTGAAAC
57842116 AGGGC-ACACGCCCGTGTGAA
1 AGGGCAACACGCCCGTGTGAA
*
57842136 AGGGCAACATGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
57842155 GTCATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.36, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGAA
Found at i:57843548 original size:46 final size:46
Alignment explanation
Indices: 57843266--57843666 Score: 212
Period size: 46 Copynumber: 8.5 Consensus size: 46
57843256 ATGCTAAAGC
* * **
57843266 CATGTCCCAGACATGGTCTTACGCTGACTCATCCAT-T-AA-GTTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTC-T-CATATCAAGGCCGATG
* * * *
57843312 CCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCAAGGCCGACG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTC-ATATCAAGGCCGATG
** * **
57843361 CCATACCCCAGACATGGTCTTACACTAGCTCTCACATATTC-TTGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCT--CATA-TCAAGGCCGATG
* * * * * *
57843411 CCATGCCCCAAACATGGTCTTACAATGACACCTC-TAT-ACGTGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGC-TCTCATATCAAG-GCCGATG
* * *
57843459 CCATGTCCCAGACATGGTCTTACACT-G-ACACATATCGTA-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATC-AAGGCCGATG
*
57843505 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATATCAAGGCCGATG
* * * * * * *
57843551 CATGTCCTAAACATGTCTTACACTAGCTCTCGTCTTAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATATCAAGGCCGATG
* ** *
57843597 CCATGTACCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATCAAGGCCGATG
*
57843645 CATGTTCCAGACATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
57843667 ATAGCACATA
Statistics
Matches: 281, Mismatches: 52, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
44 10 0.04
45 19 0.07
46 70 0.25
47 55 0.20
48 57 0.20
49 33 0.12
50 32 0.11
51 5 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATATCAAGGCCGATG
Found at i:57843628 original size:48 final size:48
Alignment explanation
Indices: 57843264--57843631 Score: 271
Period size: 48 Copynumber: 7.8 Consensus size: 48
57843254 TAATGCTAAA
* **
57843264 GCCATGTCCCAGACATGGTCTTACGCTGA--CTCATCCATTAA-GTTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCAT-C-TTAATGCCGAT
* ** * * *
57843311 GCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCAAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTC-ATCTTAATGCCGAT
** * **
57843360 GCCATACCCCAGACATGGTCTTACACT-AGCTCTCACATATTCTTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTCT--CATCTTAATGCCGAT
* * * * *
57843410 GCCATGCCCCAAACATGGTCTTACAATGACAC-C-TCTATACGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATCT-TA-ATGCCGAT
* *
57843458 GCCATGTCCCAGACATGGTCTTACACTGACACAT-ATCGT-A-GCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTC-TCATCTTAATGCCGAT
* * *
57843504 G-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCAAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCT-CATCTTAATGCCGAT
* * *
57843550 G-CATGTCCTAAACAT-GTCTTACACT-AGCTCTCGTCTTAATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATCTTAATGCCGAT
* *
57843596 GCCATGTACCAGACATGGTCTTACACTGGCTCTCAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCAT
57843632 AATGTGGCCA
Statistics
Matches: 255, Mismatches: 44, Indels: 43
0.75 0.13 0.13
Matches are distributed among these distances:
42 1 0.00
44 15 0.06
45 15 0.06
46 53 0.21
47 42 0.16
48 56 0.22
49 34 0.13
50 37 0.15
51 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCTCATCTTAATGCCGAT
Found at i:57843646 original size:94 final size:92
Alignment explanation
Indices: 57843498--57843671 Score: 219
Period size: 94 Copynumber: 1.9 Consensus size: 92
57843488 ACATATCGTA
* * *
57843498 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGCCGATGCATG-TCCTAAA
1 GCCGATGCATGTACCAGACATGTCTTACACTGGCTTACATATCAAGGCCAATGCATGTTCC-AAA
*
57843562 CATGTCTTACACTAGCTCTCGTCTTAAT
65 CATGTCTTACAATAGCTCTCGTCTTAAT
**
57843590 GCCGATGCCATGTACCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCAATGCATGTTCC
1 GCCGATG-CATGTACCAGACAT-GTCTTACACTGGCT-TACAT-ATCAAGGCCAATGCATGTTCC
*
57843653 AGACATGTCTTACAATAGC
62 AAACATGTCTTACAATAGC
57843672 ACATATATCA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
92 7 0.10
93 13 0.19
94 45 0.64
95 5 0.07
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTACCAGACATGTCTTACACTGGCTTACATATCAAGGCCAATGCATGTTCCAAAC
ATGTCTTACAATAGCTCTCGTCTTAAT
Found at i:57845832 original size:40 final size:40
Alignment explanation
Indices: 57845787--57845952 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
57845777 CGGAATATAA
57845787 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57845827 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57845867 CCGGATATAGCCACTAGCAC-ATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57845906 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57845945 CCGGATAT
1 CCGGATAT
57845953 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 45 0.42
40 61 0.58
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57853813 original size:40 final size:40
Alignment explanation
Indices: 57853768--57853934 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
57853758 CGGAATATAA
57853768 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57853808 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57853848 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57853888 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57853927 CCGGATAT
1 CCGGATAT
57853935 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57857925 original size:27 final size:27
Alignment explanation
Indices: 57857585--57857923 Score: 416
Period size: 27 Copynumber: 12.6 Consensus size: 27
57857575 AAAGTACTCC
57857585 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57857612 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
57857639 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57857666 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
57857693 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
57857720 CGATTTATAGAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
57857746 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
57857773 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57857800 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57857827 CGATTTACAGAATTGCCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
57857854 CGATTTATAGAATTACTGTTTAACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57857881 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57857908 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
57857924 TGAAATACCC
Statistics
Matches: 274, Mismatches: 32, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 25 0.09
27 247 0.90
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:57858054 original size:27 final size:27
Alignment explanation
Indices: 57857993--57858062 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
57857983 TACCCCTATT
** *
57857993 AGGTAAAAAGACCATAAAGCCCCTGTA
1 AGGTAAAGTGACCGTAAAGCCCCTGTA
*
57858020 GGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAGTGACCGTAAAGCCCCTGTA
57858047 AGGTAAAGTGACCGTA
1 AGGTAAAGTGACCGTA
57858063 CTACCCTGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (27 bp):
AGGTAAAGTGACCGTAAAGCCCCTGTA
Found at i:57858077 original size:26 final size:26
Alignment explanation
Indices: 57857984--57858084 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 26
57857974 TGACTAAAAT
* * ** *
57857984 ACCCCTATTAGGTAAAAAGACCATAA
1 ACCCCTGTAAGGTAAAGTGACCGTAA
*
57858010 AGCCCCTGTAGGGTAAAGTGACCGTAA
1 A-CCCCTGTAAGGTAAAGTGACCGTAA
*
57858037 AGCCCCTGTAAGGTAAAGTGACCGTACT
1 A-CCCCTGTAAGGTAAAGTGACCGTA-A
* *
57858065 A-CCCTGTATGGTAAAATGAC
1 ACCCCTGTAAGGTAAAGTGAC
57858085 GAATATGCCC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 18 0.29
27 44 0.70
28 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (26 bp):
ACCCCTGTAAGGTAAAGTGACCGTAA
Found at i:57859451 original size:24 final size:23
Alignment explanation
Indices: 57859395--57859561 Score: 210
Period size: 24 Copynumber: 7.0 Consensus size: 23
57859385 GAGGAAGTGA
*
57859395 AAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
57859418 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
57859441 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
57859465 CAAAAGGGCTTACGCCCCATTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
57859489 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
57859512 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
57859537 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
57859561 A
1 A
57859562 TGATAAAGCA
Statistics
Matches: 127, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
23 41 0.32
24 75 0.59
25 11 0.09
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:57859464 original size:47 final size:47
Alignment explanation
Indices: 57859395--57859561 Score: 212
Period size: 47 Copynumber: 3.5 Consensus size: 47
57859385 GAGGAAGTGA
* *
57859395 AAAAGGGCTTATGCCCTAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
57859441 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCATTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
57859489 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
57859537 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
57859562 TGATAAAGCA
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
47 63 0.60
48 30 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:57859511 original size:71 final size:71
Alignment explanation
Indices: 57859395--57859560 Score: 244
Period size: 71 Copynumber: 2.3 Consensus size: 71
57859385 GAGGAAGTGA
* * *
57859395 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
57859460 GTTATC
66 GTTATC
* *
57859466 AAAAGGGCTTACGCCCCATTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
57859531 GTTATT
66 GTTATC
*
57859537 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
57859561 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 75 0.88
72 10 0.12
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:57859787 original size:31 final size:31
Alignment explanation
Indices: 57859752--57859815 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
57859742 CGTTTACAGT
*
57859752 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
57859783 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
57859814 AA
1 AA
57859816 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:57861926 original size:25 final size:25
Alignment explanation
Indices: 57861898--57861974 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
57861888 ATATTTTGAT
57861898 TATGAATTAATGATTTAATTTAGCA
1 TATGAATTAATGATTTAATTTAGCA
** ** *
57861923 TATGAGCT-ATG-TGAATATTTTG-A
1 TATGAATTAATGATTTA-ATTTAGCA
57861946 TTATGAATTAATGATTTAATTTAGCA
1 -TATGAATTAATGATTTAATTTAGCA
57861972 TAT
1 TAT
57861975 AAGTAAATGG
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
23 3 0.08
24 14 0.38
25 17 0.46
26 3 0.08
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.45
Consensus pattern (25 bp):
TATGAATTAATGATTTAATTTAGCA
Found at i:57861932 original size:49 final size:49
Alignment explanation
Indices: 57861879--57861974 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
57861869 GTTTATGATT
57861879 GCTATGTGAATATTTTGATTATGAATTAATGATTTAATTTAGCATATGA
1 GCTATGTGAATATTTTGATTATGAATTAATGATTTAATTTAGCATATGA
57861928 GCTATGTGAATATTTTGATTATGAATTAATGATTTAATTTAGCATAT
1 GCTATGTGAATATTTTGATTATGAATTAATGATTTAATTTAGCATAT
57861975 AAGTAAATGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (49 bp):
GCTATGTGAATATTTTGATTATGAATTAATGATTTAATTTAGCATATGA
Found at i:57866084 original size:49 final size:48
Alignment explanation
Indices: 57866012--57866237 Score: 254
Period size: 49 Copynumber: 4.6 Consensus size: 48
57866002 CTGGTACGCA
* * *
57866012 TAGTAGCCTACACTTAATACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCC-GTACACG
* * ** * *
57866061 TAGTAGCCTGCACTTAGTACTACACGCGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCG-TACACG
* * * *
57866111 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGCGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATC-CGTACACG
* *
57866162 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTGCACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCC-GTACACG
57866211 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
57866238 ATGGCCTCAC
Statistics
Matches: 147, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 64 0.44
50 45 0.31
51 36 0.24
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGTACACG
Found at i:57866185 original size:101 final size:98
Alignment explanation
Indices: 57866012--57866237 Score: 265
Period size: 100 Copynumber: 2.3 Consensus size: 98
57866002 CTGGTACGCA
* * * * *
57866012 TAGTAGCCTACACTTAATACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCCAGTACACATAGTAGCCTGCACTTA
* * * *
57866077 GTACTACACGCGTGACCTAACCATCTGATACATG
66 GTACTACACACGCGACC-AACCATCCGATACACG
* *
57866111 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGC-GTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CAAA-TTATC-CAGTACACATAGTAGCCTGCAC
* ** * *
57866175 TTAGTACTACACATGCGACCAATTATCCGGTGCACG
63 TTAGTACTACACACGCGACCAACCATCCGATACACG
57866211 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
57866238 ATGGCCTCAC
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 27 0.25
100 40 0.37
101 40 0.37
102 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCCAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCGATACACG
Found at i:57871144 original size:40 final size:40
Alignment explanation
Indices: 57871061--57871268 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
57871051 CGAGATTTAA
* * * * * *
57871061 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
57871101 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
57871141 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
57871181 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
57871221 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
57871261 CCGGATAT
1 CCGGATAT
57871269 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:57871181 original size:80 final size:80
Alignment explanation
Indices: 57871087--57871268 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
57871077 GCTCGATTGT
* * *** * * * **
57871087 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
57871152 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
57871167 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
57871232 TACTAGCATAATTGC
66 AACTAGCACAAATGC
57871247 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
57871269 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:57873687 original size:49 final size:49
Alignment explanation
Indices: 57873626--57873857 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 49
57873616 CTGGTACGCA
* * *
57873626 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGACACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
* ** *
57873675 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGATACACG
* * * * * * *
57873725 TAGTAGCCTGCACTTAGTATTACACACGTGATCAAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGATACACG
* *
57873776 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
*
57873825 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
57873858 TCACAATAGA
Statistics
Matches: 156, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 72 0.46
50 47 0.30
51 37 0.24
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
Found at i:57873850 original size:100 final size:99
Alignment explanation
Indices: 57873626--57873856 Score: 293
Period size: 100 Copynumber: 2.3 Consensus size: 99
57873616 CTGGTACGCA
* * * * *
57873626 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGACACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCGACACACATAGTAGCCTGCACTTA
* *
57873691 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCCGATACACG
* * ** *
57873725 TAGTAGCCTGCACTTAGTATTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCCGACACACATAGTAGCCTGCACT
* ** *
57873790 TAGTACTACACATGCGACC-AATTATCCGGTACACG
64 TAGTACTACACACGCGACCTAACCATCCGATACACG
57873825 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
57873857 CTCACAATAG
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 28 0.25
100 45 0.40
101 40 0.35
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCGACACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCCGATACACG
Found at i:57875093 original size:29 final size:29
Alignment explanation
Indices: 57875061--57875119 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
57875051 AAGCCCAAAA
57875061 TCAGGATGTTACAAGTATTAAGATAGAAT
1 TCAGGATGTTACAAGTATTAAGATAGAAT
57875090 TCAGGATGTTACAAGTATTAAGATAGAAT
1 TCAGGATGTTACAAGTATTAAGATAGAAT
57875119 T
1 T
57875120 GTATGAGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (29 bp):
TCAGGATGTTACAAGTATTAAGATAGAAT
Found at i:57875599 original size:19 final size:19
Alignment explanation
Indices: 57875575--57875616 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
57875565 ATTGAAACTT
57875575 TGAGAAATT-TGAGGCTATG
1 TGAGAAATTATGAGGCTA-G
57875594 TGAGAAATTGATGAGGCTAG
1 TGAGAAATT-ATGAGGCTAG
57875614 TGA
1 TGA
57875617 AAGCAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.33, C:0.05, G:0.33, T:0.29
Consensus pattern (19 bp):
TGAGAAATTATGAGGCTAG
Found at i:57878563 original size:25 final size:25
Alignment explanation
Indices: 57878535--57878613 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
57878525 ACTCGGCCCT
57878535 ATCACATATATACACTTTCACACTC
1 ATCACATATATACACTTTCACACTC
*** ** *
57878560 ATCACAT-TGGCCA-TTTGGC-CTT
1 ATCACATATATACACTTTCACACTC
* *
57878582 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACTTTCACACTC
57878607 ATCACAT
1 ATCACAT
57878614 TGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 9 0.24
23 7 0.19
24 6 0.16
25 15 0.41
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACACTC
Found at i:57878659 original size:49 final size:49
Alignment explanation
Indices: 57878485--57878789 Score: 433
Period size: 47 Copynumber: 6.3 Consensus size: 49
57878475 CCCTTCGGGA
* * * * * * *
57878485 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
57878532 CCTATCACATATAT--ACACTTTCACACTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
57878579 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
57878626 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
57878675 CTTATCACACATATATACACACTTTCACATTCATCTCATCGGCCATTAGGC
1 CTTAT--CACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
57878726 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
57878775 CTTATCACATATATA
1 CTTATCACATATATA
57878790 TATCTCATAC
Statistics
Matches: 237, Mismatches: 13, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
47 93 0.39
48 3 0.01
49 93 0.39
51 48 0.20
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57878741 original size:100 final size:98
Alignment explanation
Indices: 57878490--57878791 Score: 425
Period size: 100 Copynumber: 3.1 Consensus size: 98
57878480 CGGGACTTAT
* * * * * * *
57878490 CACATTTATACA-CTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATAT--ACACTT
1 CACATATATACACCTT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTT
* * *
57878552 TCACACTCATCACATTGGCCATTTGGCCTTAT--
65 TCACATTCATCACATCGGCCATTAGGCCTTATCA
*
57878584 CACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACACTTT
1 CACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTT
57878649 CACATTCATCACATCGGCCATTAGGCCTTATCA
66 CACATTCATCACATCGGCCATTAGGCCTTATCA
*
57878682 CACATATATACACACTTTCACATTCATCTCATCGGCCATTAGGCCTTATCACATATATACACACT
1 CACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
57878747 TTCACATTCATCACATCGGCCATTAGGCCTTATCA
64 TTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
57878782 CATATATATA
1 CACATATATA
57878792 TCTCATACAT
Statistics
Matches: 189, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
94 46 0.24
95 3 0.02
96 35 0.19
98 13 0.07
99 1 0.01
100 91 0.48
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (98 bp):
CACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTT
CACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:57884292 original size:43 final size:44
Alignment explanation
Indices: 57884245--57884405 Score: 204
Period size: 43 Copynumber: 3.8 Consensus size: 44
57884235 TGAGATTATA
*
57884245 TGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGTGATTACG
* * *
57884288 TGTAAGACCATGTCTGGGACAGTGGCATCGT-TATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGTGATTACG
* * *
57884331 TGTAAGACCATGTCTGGGACATTGGCATCG-ATATGAGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGTGATTACG
* * *
57884374 TGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT
57884406 GAGTTTTATG
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 8 0.08
43 94 0.92
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATATGTGATTACG
Found at i:57888341 original size:12 final size:12
Alignment explanation
Indices: 57888324--57888349 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57888314 AGTATTTGTC
57888324 TTATTTTATTAT
1 TTATTTTATTAT
57888336 TTATTTTATTAT
1 TTATTTTATTAT
57888348 TT
1 TT
57888350 TTTATTTTTG
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:57894277 original size:13 final size:13
Alignment explanation
Indices: 57894259--57894284 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57894249 GGATTTTCGA
57894259 AGTTCATCTCTTT
1 AGTTCATCTCTTT
57894272 AGTTCATCTCTTT
1 AGTTCATCTCTTT
57894285 GTTTCCTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.08, T:0.54
Consensus pattern (13 bp):
AGTTCATCTCTTT
Found at i:57896982 original size:34 final size:34
Alignment explanation
Indices: 57896939--57897025 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 34
57896929 CTAATTTGAT
* *
57896939 ATGACATTCTGATCTGATATATGTTTCTGGAAAG
1 ATGACATTCTGATATGATAAATGTTTCTGGAAAG
* * * * *
57896973 ATGACATTCTAATTTGATAAATGTTTTTGGTAAT
1 ATGACATTCTGATATGATAAATGTTTCTGGAAAG
*
57897007 ATGACATTTTGATATGATA
1 ATGACATTCTGATATGATA
57897026 GTTGTATATG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (34 bp):
ATGACATTCTGATATGATAAATGTTTCTGGAAAG
Found at i:57899220 original size:28 final size:28
Alignment explanation
Indices: 57899180--57899286 Score: 142
Period size: 28 Copynumber: 3.8 Consensus size: 28
57899170 GCAATTAAAT
* *
57899180 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
57899208 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
57899236 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * * *
57899264 ATGACACTTCGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
57899287 CGAATGATTC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:57899463 original size:44 final size:43
Alignment explanation
Indices: 57899415--57899509 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
57899405 CGGGCTTTGA
* *
57899415 GCCTAGCAAGCTTTAA-GCTAGTGAATAAT-ATTATCAGGCTTCGG
1 GCCTAGCAAGCTATAATGCTAGTG-A-AATGA-TATCAGGCTTCAG
* * *
57899459 GCCTAGCAGGCTATAATGCTGGTGAAATGATATCGGGCTTCAG
1 GCCTAGCAAGCTATAATGCTAGTGAAATGATATCAGGCTTCAG
57899502 GCCTAGCA
1 GCCTAGCA
57899510 GGCGAAATGT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
43 22 0.50
44 16 0.36
45 6 0.14
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
GCCTAGCAAGCTATAATGCTAGTGAAATGATATCAGGCTTCAG
Found at i:57902232 original size:93 final size:93
Alignment explanation
Indices: 57902104--57902274 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
57902094 GCCCCTAAGT
* * * *
57902104 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
57902169 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
57902197 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
57902262 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57902275 TCAACCGTCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:57902264 original size:46 final size:46
Alignment explanation
Indices: 57902099--57902271 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
57902089 AACCCGCCCC
* * * *
57902099 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
57902145 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
57902193 TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
57902238 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57902272 TGCTCAACCG
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:57902726 original size:30 final size:30
Alignment explanation
Indices: 57902692--57902752 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
57902682 ATTTAATACG
57902692 AACTTTGGAAAAATTAAACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
* * * *
57902722 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
57902752 A
1 A
57902753 GCTCGGGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (30 bp):
AACTTTGGAAAAATTAAACTTTTGCCCCTA
Found at i:57908840 original size:28 final size:28
Alignment explanation
Indices: 57908748--57908834 Score: 140
Period size: 28 Copynumber: 3.1 Consensus size: 28
57908738 GCAATCAAAT
*
57908748 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
57908776 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
57908804 ATGGCACTTAGTGTGC-AAGATATTGAGA
1 ATGGCACTTAGTGTACGAA-ATATTGAGA
57908832 ATG
1 ATG
57908835 AAACTTCGTG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 2 0.04
28 54 0.96
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:57908854 original size:28 final size:28
Alignment explanation
Indices: 57908748--57908854 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
57908738 GCAATCAAAT
* * *
57908748 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCAAAATATTGAGA
* *
57908776 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCAAAATATTGAGA
*
57908804 ATGGCACTTAGTGTGCAAGATATTGAGA
1 ATGGCACTTAGTGTGCAAAATATTGAGA
** *
57908832 ATGAAACTTCGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCAAAATAT
57908855 CAAATGATTC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCAAAATATTGAGA
Found at i:57909174 original size:40 final size:40
Alignment explanation
Indices: 57909071--57909175 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
57909061 GGGCTTCAAG
* * *
57909071 CCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* ** * **
57909112 TCTAGCAGGCTTCATGCCGGTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
*
57909152 CCTAGCAGGCTAAATGCTGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
57909176 TTGATAAAAC
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
40 33 0.65
41 18 0.35
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:57912309 original size:38 final size:38
Alignment explanation
Indices: 57912226--57912374 Score: 174
Period size: 38 Copynumber: 3.9 Consensus size: 38
57912216 GAATCTAGTC
* * * * *
57912226 ACCAGCACAAAGCCTACGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACTAAGCCTGCGGGAC-TTAA-CCCGGATATATT
* *
57912266 ACCAGCACTAAGCTTGCGGGATTTAACCCGGATATATT
1 ACCAGCACTAAGCCTGCGGGACTTAACCCGGATATATT
* *
57912304 ACCAGCACGAAGCCTGAGGGACTTAACCCGGATATATT
1 ACCAGCACTAAGCCTGCGGGACTTAACCCGGATATATT
*
57912342 ACCAGCA-TGAGGCCTGCGGGACTTAACCCGGAT
1 ACCAGCACT-AAGCCTGCGGGACTTAACCCGGAT
57912375 GTATATCGAG
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 72 0.77
39 4 0.04
40 18 0.19
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (38 bp):
ACCAGCACTAAGCCTGCGGGACTTAACCCGGATATATT
Found at i:57915932 original size:33 final size:33
Alignment explanation
Indices: 57915890--57915955 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
57915880 ACAACTCGAC
57915890 CTTCTTGCATCAATACACAACCCAACCCATTTA
1 CTTCTTGCATCAATACACAACCCAACCCATTTA
57915923 CTTCTTGCATCAATACACAACCCAACCCATTTA
1 CTTCTTGCATCAATACACAACCCAACCCATTTA
57915956 AGGATGCATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.27
Consensus pattern (33 bp):
CTTCTTGCATCAATACACAACCCAACCCATTTA
Found at i:57919799 original size:38 final size:38
Alignment explanation
Indices: 57919718--57919870 Score: 182
Period size: 38 Copynumber: 4.0 Consensus size: 38
57919708 GAATCCAGTC
* * *
57919718 ACCAGCA-GAAAGCCTACGGGACTTTAAGCTCGGATATAAT
1 ACCAGCACG-AAGCCTGCGGGA-TTTAA-CCCGGATATATT
*
57919758 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* *
57919796 ACCAGCACGAAGCCTGCAGGATTTAACCCGAATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* * * *
57919834 ACTAGCACGAAGCCTGCGAGACTTAACTCGGATATAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
57919871 ATCGAGTGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
38 76 0.77
39 5 0.05
40 18 0.18
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:57928378 original size:24 final size:24
Alignment explanation
Indices: 57928245--57928376 Score: 194
Period size: 24 Copynumber: 5.5 Consensus size: 24
57928235 CTGTCAGGAG
57928245 AGGATTTAGGAGTCGATAAGGGAT
1 AGGATTTAGGAGTCGATAAGGGAT
* *
57928269 AGAATTTAGAAGTCGATAAGGGAT
1 AGGATTTAGGAGTCGATAAGGGAT
57928293 AGGATTTAGGAGTCGATAAGGGAT
1 AGGATTTAGGAGTCGATAAGGGAT
*
57928317 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTCGATAAGGGAT
* * *
57928341 AGGATTTAAGAG-CTAATAAGGGAG
1 AGGATTTAGGAGTC-GATAAGGGAT
57928365 AGGATTTAGGAG
1 AGGATTTAGGAG
57928377 CTGATTAGAG
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
24 97 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTCGATAAGGGAT
Found at i:57930000 original size:26 final size:27
Alignment explanation
Indices: 57929971--57930078 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
57929961 AGGAAGCGTC
* *
57929971 CTGGTGGCTATGCCACATTTAT-TGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
57929997 CTGGT-GCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
57930023 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* * *
57930050 CTGGTGTCTCTGTCACA-TTATCTATT
1 CTGGTGGCTCTGCCACATTTATCTGTT
57930076 CTG
1 CTG
57930079 ACAGCAATGC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
25 14 0.19
26 24 0.33
27 34 0.47
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:57936040 original size:29 final size:29
Alignment explanation
Indices: 57935948--57936050 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
57935938 TACTCGATCA
* ** *
57935948 CGCACACTTAATGCCATGTGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ACATTTCAAGCT
* * * * *
57935977 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACATTTCAAGCT
*
57936006 CACACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAGCT
*
57936035 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
57936051 ATCTCGTCAC
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
28 2 0.04
29 55 0.96
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAGCT
Found at i:57937387 original size:17 final size:19
Alignment explanation
Indices: 57937353--57937390 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
57937343 AGCATCCACA
57937353 TTTTTTTTCATCATTTTCTT
1 TTTTTTTTCA-CATTTTCTT
57937373 TTTTTTTTC-CA-TTTCTT
1 TTTTTTTTCACATTTTCTT
57937390 T
1 T
57937391 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
20 9 0.50
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCACATTTTCTT
Found at i:57943330 original size:27 final size:28
Alignment explanation
Indices: 57943273--57943342 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
57943263 AAATTTGTAC
**
57943273 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
57943301 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
57943328 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
57943343 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:57943351 original size:27 final size:27
Alignment explanation
Indices: 57943273--57943354 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
57943263 AAATTTGTAC
* *
57943273 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
57943301 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
57943328 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
57943355 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:57952137 original size:40 final size:41
Alignment explanation
Indices: 57952028--57952195 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 41
57952018 TCTTCGGAAA
* * * *
57952028 TTAG-CCGGATATAA-CCACAAGCACAATTGCCTTTGGGTC
1 TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
* * ** *
57952067 TTAACCCGGATTTGGT-AACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
* * *
57952107 TTAGCCTGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
* *
57952147 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
57952187 TTAGCCCGG
1 TTAGCCCGG
57952196 GTATCATTCA
Statistics
Matches: 104, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
Found at i:57952155 original size:80 final size:79
Alignment explanation
Indices: 57952019--57952192 Score: 197
Period size: 80 Copynumber: 2.2 Consensus size: 79
57952009 AACTGAGTCT
* * * * * **
57952019 CTTCGGAAATTAGCCGGATATAACCACAAGCACAATTGCCTTTGGGTCTTAACCCGGATTTGGTA
1 CTTCGGGACTTAGCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATA
*
57952084 ACTTGCACAAATGC
66 ACTAGCACAAATGC
* ** *
57952098 CTTCGGGTCTTAGCCTGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCC-GGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAA
* *
57952162 TCACTAGCATAAATGC
64 TAACTAGCACAAATGC
57952178 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
57952193 CGGGTATCAT
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 12 0.15
80 64 0.82
81 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATA
ACTAGCACAAATGC
Found at i:57954498 original size:46 final size:47
Alignment explanation
Indices: 57954445--57954601 Score: 128
Period size: 46 Copynumber: 3.4 Consensus size: 47
57954435 AGCGGACTTG
57954445 GACTCAACTCAACGAGCTCGAG-CGTTCGCATCCATAAGTGAACTCA
1 GACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTCA
* * * * *
57954491 GACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT-C-TCA-CGAACTCA
1 GACTCAACTCAACGAGCTC-GA-GAC--GTTCGCATCCATAAGTGAACTCA
* * * * *
57954538 GACTCAACTCTACGAACTC-AGACATTCGAATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTCA
* *
57954584 GACTCAACTAAATGAGCT
1 GACTCAACTCAACGAGCT
57954602 TGGATGCCCA
Statistics
Matches: 84, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 3 0.04
45 3 0.04
46 38 0.45
47 25 0.30
48 3 0.04
49 2 0.02
50 3 0.04
51 3 0.04
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (47 bp):
GACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTCA
Found at i:57958091 original size:24 final size:24
Alignment explanation
Indices: 57957800--57958089 Score: 537
Period size: 24 Copynumber: 12.1 Consensus size: 24
57957790 GCAAAGACCA
57957800 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
57957823 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57957847 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57957871 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
57957895 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
57957919 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57957943 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57957967 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57957991 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57958015 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
57958039 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
57958063 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
57958087 TAT
1 TAT
57958090 AGTCACATTC
Statistics
Matches: 262, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
23 19 0.07
24 243 0.93
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:57966145 original size:24 final size:24
Alignment explanation
Indices: 57965854--57966143 Score: 528
Period size: 24 Copynumber: 12.1 Consensus size: 24
57965844 GCAAAGACCA
*
57965854 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
57965878 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57965902 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57965926 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
57965950 TATGGCACTATGTGTGCGA-TCAC
1 TATGGCACTATGTGTGCGATTTAC
57965973 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57965997 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57966021 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57966045 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57966069 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
57966093 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
57966117 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
57966141 TAT
1 TAT
57966144 AGTCACATTC
Statistics
Matches: 260, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
23 22 0.08
24 238 0.92
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:57972992 original size:46 final size:46
Alignment explanation
Indices: 57972925--57973095 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 46
57972915 TAACCCGTCT
* * *
57972925 ATAAGTGGACTCAGACTCAACTCAACGAGCTCGAGCGTTTGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTTGCATCC
* * *
57972971 ATAAGTGAACTCGGACTCAACTCAACGAACTCGGATGCCTAGTTACAT-C
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-G-C-ATTTGCATCC
* * * * *
57973020 -TCA-CGAACTCGGACTCAACTCAATGAGCTTG-GACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGAG-CATTTGCATCC
* *
57973064 ATAAGTGAACTCGGACTCAACTAAATGAGCTC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC
57973096 AGATGCCCAA
Statistics
Matches: 99, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 2 0.02
46 54 0.55
47 25 0.25
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTTGCATCC
Found at i:57973101 original size:93 final size:93
Alignment explanation
Indices: 57972933--57973102 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
57972923 CTATAAGTGG
* * *
57972933 ACTCAGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCAGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTAAACG
*
57972998 AACTCGGATGCCTAGTTACATCTCACGA
66 AACTCAGATGCCTAGTTACATCTCACGA
* * * *
57973026 ACTCGGACTCAACTCAATGAGCTTG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTAAAT
1 ACTCAGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTAAAC
*
57973090 GAGCTCAGATGCC
65 GAACTCAGATGCC
57973103 CAAATATCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
92 1 0.01
93 66 0.99
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
ACTCAGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTAAACG
AACTCAGATGCCTAGTTACATCTCACGA
Done.