Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 185 of 433
Found at i:58099915 original size:81 final size:81
Alignment explanation
Indices: 58099750--58099954 Score: 211
Period size: 81 Copynumber: 2.5 Consensus size: 81
58099740 ACCCTATAGG
* * * * * * *
58099750 GGTATTTTGGT-ATTATACAAATCGAGAGTATTTT-GATAATTTCACAAATCAGGGGTATTTTGG
1 GGTATTTTAGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGG
*
58099813 TAATTTTACAAGTCAGG
65 TAATTTTACAAGTCAGA
*
58099830 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
1 GGTATTTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
*
58099895 AATTTTAC-TGATC-GAA
66 AATTTTACAAG-TCAG-A
* ** * * *
58099911 GGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAATAATTTT
1 GGTATTTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
58099955 GTAAATCGAG
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
80 12 0.12
81 91 0.88
82 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
GGTATTTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
AATTTTACAAGTCAGA
Found at i:58099978 original size:27 final size:27
Alignment explanation
Indices: 58099956--58100226 Score: 377
Period size: 27 Copynumber: 10.0 Consensus size: 27
58099946 AATAATTTTG
* *
58099956 TAAATCGAGGATAAAACAGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTA
58099983 TAAATCGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
*
58100010 TAAATCGAGGGTAAAA-TGATAATTCTA
1 TAAATCGAGGGTAAAACAG-TAATTCTA
**
58100037 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
* *
58100064 TAAATCGAAGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
58100091 TAAATCGAGGGTAAAAC-GATAATTCTA
1 TAAATCGAGGGTAAAACAG-TAATTCTA
*
58100118 TAAATCGAGGGTAAAAC-GATAATTCTG
1 TAAATCGAGGGTAAAACAG-TAATTCTA
* *
58100145 TAAATCGAGGGTAAAACAGTAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTA
*
58100172 TAAATCTAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
**
58100199 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
58100226 T
1 T
58100227 CTTATTTCAG
Statistics
Matches: 224, Mismatches: 16, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
26 2 0.01
27 220 0.98
28 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.28
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACAGTAATTCTA
Found at i:58100269 original size:27 final size:25
Alignment explanation
Indices: 58100239--58100322 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 25
58100229 TATTTCAGTG
58100239 ATTTTACAAATCGAGGATATTTGGGTA
1 ATTTTACAAATCGAGG-TATTT-GGTA
* *
58100266 ATTTTATAAATCTGGGGTACTTTGGTA
1 ATTTTACAAATC-GAGGTA-TTTGGTA
* *
58100293 ATTTTACAAGTCGAGGTATTTCAGTA
1 ATTTTACAAATCGAGGTATTT-GGTA
58100319 ATTT
1 ATTT
58100323 GGTAAACTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 3 0.06
26 12 0.25
27 27 0.56
28 6 0.12
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (25 bp):
ATTTTACAAATCGAGGTATTTGGTA
Found at i:58103620 original size:68 final size:70
Alignment explanation
Indices: 58103548--58103743 Score: 265
Period size: 71 Copynumber: 2.8 Consensus size: 70
58103538 ACACCCTGTA
* * * *
58103548 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
58103610 ATAAAT
65 ATAAAT
*
58103616 GTAGCTAGGT-AGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAA
1 GTAGCTAGGTCA-CATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAA
58103680 GATAAAT
64 GATAAAT
* *
58103687 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTA
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTA
58103744 TGAGACAAAT
Statistics
Matches: 116, Mismatches: 6, Indels: 9
0.89 0.05 0.07
Matches are distributed among these distances:
67 1 0.01
68 22 0.19
69 3 0.03
70 1 0.01
71 89 0.77
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:58103659 original size:41 final size:41
Alignment explanation
Indices: 58103614--58103731 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58103604 TGAAAGATAA
58103614 ATGTAGCTAGGTAGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTAGCATGCGTGATTCCAAGTGAAGGACACC
* * * *
58103655 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTAGCATGCGTGATTCCAAGTGAAGGACACC
*
58103685 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTAGCATGCGTGATTCCAAGTGAAGGACACC
58103726 ATGTAG
1 ATGTAG
58103732 ACAAGAGAGC
Statistics
Matches: 55, Mismatches: 9, Indels: 26
0.61 0.10 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.16
32 1 0.02
33 3 0.05
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.05
39 1 0.02
40 10 0.18
41 14 0.25
42 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTAGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:58103669 original size:71 final size:71
Alignment explanation
Indices: 58103582--58103743 Score: 315
Period size: 71 Copynumber: 2.3 Consensus size: 71
58103572 GAGATGTATC
58103582 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTAGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTAGCATGCGTGATTCCAAGTGA
58103647 AGGACA
66 AGGACA
*
58103653 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTAGCATGCGTGATTCCAAGTGA
58103718 AGGACA
66 AGGACA
58103724 CCATGTAGACAAGAGAGCTA
1 CCATGTAGACAAGAGAGCTA
58103744 TGAGACAAAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTAGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58105101 original size:6 final size:6
Alignment explanation
Indices: 58105083--58105170 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
58105073 AAGAAACATT
* *
58105083 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
58105132 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
58105171 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 4 0.06
6 54 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:58105128 original size:31 final size:31
Alignment explanation
Indices: 58105092--58105170 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
58105082 TATCAGAACT
* *
58105092 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
58105123 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
58105154 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
58105171 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:58105630 original size:27 final size:27
Alignment explanation
Indices: 58105591--58105817 Score: 330
Period size: 27 Copynumber: 8.4 Consensus size: 27
58105581 TACCTCACAA
*
58105591 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
58105618 GGTATTTCAGTAATTATACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
58105645 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
58105672 GGTATTTCAGTAATTATACCCTACA-G
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
58105698 GGTATTTCGGTATTTCTACCTTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
58105725 GGTATTTCGGTAATTTTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
58105752 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
58105779 GGTATTGCGATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
58105806 GGTATTTCGGTA
1 GGTATTTCGGTA
58105818 TTATACAAAT
Statistics
Matches: 176, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 22 0.12
27 154 0.88
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:58105753 original size:107 final size:106
Alignment explanation
Indices: 58105574--58105819 Score: 341
Period size: 107 Copynumber: 2.3 Consensus size: 106
58105564 GGGCAAAATG
* * * * *
58105574 GTAATTTTA-CCTCACAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTATACC
1 GTAATTATACCCT-ACAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTATACC
*
58105638 CTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
65 CTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGC
* * *
58105680 AGTAATTATACCCTACAGGGTATTTCGGTATTTCTACCTTACAAGGGTATTTCGGTAATTTTACC
1 -GTAATTATACCCTACAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTATACC
*
58105745 CTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGC
65 CTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGC
* *
58105787 GATAATTCTACCCTATAGGGGTATTTCGGTATT
1 G-TAATTATACCCTACA-GGGTATTTCGGTATT
58105820 ATACAAATCG
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
106 1 0.01
107 105 0.85
108 18 0.15
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (106 bp):
GTAATTATACCCTACAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTATACCC
TACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGC
Found at i:58105837 original size:107 final size:107
Alignment explanation
Indices: 58105619--58105873 Score: 293
Period size: 107 Copynumber: 2.4 Consensus size: 107
58105609 CCCTACAGGG
* * * *
58105619 GTATTTCAGTAATTATACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTA
1 GTATTTCGGTAATTTTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCAGTA
* ** *
58105684 ATTATACCCTACAGGGTATTTCGGTATTTCTACCTTACAAGG
66 ATTATACCCTACAGGGTATTTCGGTATTTATACAATACAAGA
58105726 GTATTTCGGTAATTTTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGC-GAT
1 GTATTTCGGTAATTTTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCAG-T
* * *
58105790 AATTCTACCCTATAGGGGTATTTCGGTA-TTATACAA-ATCGAGA
65 AATTATACCCTACA-GGGTATTTCGGTATTTATACAATA-CAAGA
* * * ** *
58105833 GTATTTTGATAATTTCA-CAAATCAGGGGTATTTTGGTAATT
1 GTATTTCGGTAATTTTACCCTAT-AGGGGTATTTCGGTAATT
58105874 TTACAAGTCA
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
106 5 0.04
107 109 0.86
108 13 0.10
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (107 bp):
GTATTTCGGTAATTTTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCAGTA
ATTATACCCTACAGGGTATTTCGGTATTTATACAATACAAGA
Found at i:58105940 original size:81 final size:81
Alignment explanation
Indices: 58105833--58106010 Score: 225
Period size: 81 Copynumber: 2.2 Consensus size: 81
58105823 CAAATCGAGA
* *
58105833 GTATTTT-GATAATTTCACAAATCAGGGGTATTTTGGTAATTTTAC-AAGTCAGGGGTATTTTAG
1 GTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTAAGTCA-GGGTATTTTAG
*
58105896 TAATTTTACAAACCAGGG
64 TAATTTTACAAACCAAGG
* * * *
58105914 GTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTGATTGAGGGTATTTTGGTA
1 GTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTAAGTCAGGGTATTTTAGTA
** *
58105979 ATTTTGTAAACTAAGG
66 ATTTTACAAACCAAGG
*
58105995 GTATTTTAATAATTTT
1 GTATTTTAGTAATTTT
58106011 GTAAATCGAG
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
81 80 0.95
82 4 0.05
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (81 bp):
GTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTAAGTCAGGGTATTTTAGTA
ATTTTACAAACCAAGG
Found at i:58105956 original size:27 final size:27
Alignment explanation
Indices: 58105803--58105983 Score: 206
Period size: 27 Copynumber: 6.7 Consensus size: 27
58105793 TCTACCCTAT
* *
58105803 AGGGGTATTTCGGT-ATTATACAAATC
1 AGGGGTATTTTGGTAATTTTACAAATC
* * *
58105829 -GAGAGTATTTTGATAATTTCACAAATC
1 AG-GGGTATTTTGGTAATTTTACAAATC
*
58105856 AGGGGTATTTTGGTAATTTTACAAGTC
1 AGGGGTATTTTGGTAATTTTACAAATC
* *
58105883 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAATC
* *
58105910 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAATC
**
58105937 AGGGGTATTTTGGTAATTTTACTGAT-
1 AGGGGTATTTTGGTAATTTTACAAATC
*
58105963 TGAGGGTATTTTGGTAATTTT
1 AG-GGGTATTTTGGTAATTTT
58105984 GTAAACTAAG
Statistics
Matches: 134, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
25 1 0.01
26 10 0.07
27 122 0.91
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAATC
Found at i:58106035 original size:27 final size:27
Alignment explanation
Indices: 58106004--58106280 Score: 401
Period size: 27 Copynumber: 10.3 Consensus size: 27
58105994 GGTATTTTAA
* * *
58106004 TAATTTTGTAAATCGAGGATAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
58106031 AAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * * *
58106058 TAATTTTATAAATCGAGGGTAAAATGA
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
58106085 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * **
58106112 TAATTTTATAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
58106139 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
58106166 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
58106193 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
58106220 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
58106247 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
58106274 TAATTCT
1 TAATTCT
58106281 TTCTTATTTC
Statistics
Matches: 232, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 232 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGG
Found at i:58106325 original size:27 final size:27
Alignment explanation
Indices: 58106295--58106357 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
58106285 TATTTCAGTG
58106295 ATTTTACAAATCGCGGATA-TTTGGGTA
1 ATTTTACAAATCGCGGATACTTT-GGTA
* * *
58106322 ATTTTATAAATCGGGGGTACTTTGGTA
1 ATTTTACAAATCGCGGATACTTTGGTA
58106349 ATTTTACAA
1 ATTTTACAA
58106358 GTCGAAGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 28 0.90
28 3 0.10
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
ATTTTACAAATCGCGGATACTTTGGTA
Found at i:58106376 original size:27 final size:26
Alignment explanation
Indices: 58106285--58106379 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
58106275 AATTCTTTCT
* *
58106285 TATTTCAGTGATTTTACAAATCGCGG
1 TATTTCAGTAATTTTACAAATCGAGG
** * *
58106311 ATATTTGGGTAATTTTATAAATCGGGGG
1 -TATTTCAGTAATTTTACAAATC-GAGG
* *
58106339 TACTTT-GGTAATTTTACAAGTCGAAGG
1 TA-TTTCAGTAATTTTACAAATCG-AGG
58106366 TATTTCAGTAATTT
1 TATTTCAGTAATTT
58106380 GGTAAACTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
26 4 0.07
27 45 0.82
28 6 0.11
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.41
Consensus pattern (26 bp):
TATTTCAGTAATTTTACAAATCGAGG
Found at i:58114406 original size:40 final size:40
Alignment explanation
Indices: 58114350--58114562 Score: 232
Period size: 40 Copynumber: 5.3 Consensus size: 40
58114340 CATGAGCATT
* * * *
58114350 TGATTGATAACCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGATT-ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
58114391 TGATTATATCCGGGCTAAGACTCGAAGGCATTCGTGCGAG
1 TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
58114431 TTG-TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 -TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
58114471 TTG-TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 -TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* ** * * * * **
58114511 TTACCAAATCCGGGTTAAGACCCGAAGACAATTGTGCTTG
1 TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
58114551 TGGTTATATCCG
1 TGATTATATCCG
58114563 ACTAAATTCC
Statistics
Matches: 147, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 139 0.95
41 7 0.05
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:58127457 original size:28 final size:28
Alignment explanation
Indices: 58127396--58127493 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
58127386 TCACAAATTG
** * *
58127396 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
58127425 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
58127453 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
58127481 GCACTAAGTGTGC
1 GCACTAAGTGTGC
58127494 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:58130213 original size:20 final size:20
Alignment explanation
Indices: 58130176--58130263 Score: 72
Period size: 21 Copynumber: 4.2 Consensus size: 20
58130166 ATTTTAAGAA
* *
58130176 TTATTTTAGTATCTTTTTAT
1 TTATTTTAATATTTTTTTAT
58130196 TTATTTTAATATTTTTTTTAT
1 TTATTTTAATA-TTTTTTTAT
*
58130217 GTT-TTTAAATATATTTGATTTAT
1 -TTATTTTAATAT-TTT--TTTAT
58130240 TATATTTTTAA-ATTTTTTTAT
1 T-TA-TTTTAATATTTTTTTAT
58130261 TTA
1 TTA
58130264 ATGAAATAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
20 13 0.23
21 24 0.43
22 3 0.05
23 9 0.16
24 2 0.04
25 5 0.09
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.69
Consensus pattern (20 bp):
TTATTTTAATATTTTTTTAT
Found at i:58132203 original size:2 final size:2
Alignment explanation
Indices: 58132190--58132246 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
58132180 AAATCTCTTT
* *
58132190 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
58132232 TC TC AC TC TC TC TC T
1 TC TC TC TC TC TC TC T
58132247 TTTCTTATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.04, C:0.47, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:58134578 original size:30 final size:30
Alignment explanation
Indices: 58134520--58134578 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
58134510 ATACGTGTAC
** *
58134520 AGAAAGCTCGTGTAGCTGGACACGCTTTCT
1 AGAAAGCTCGCCTAGCTGGACACACTTTCT
58134550 AGAAAGCTCGCCTAGCTGGACGA-ACTTTC
1 AGAAAGCTCGCCTAGCTGGAC-ACACTTTC
58134579 CCTCCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (30 bp):
AGAAAGCTCGCCTAGCTGGACACACTTTCT
Found at i:58138114 original size:15 final size:15
Alignment explanation
Indices: 58138094--58138126 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
58138084 TTTTAAATGG
58138094 TTTTATTAATTTTAA
1 TTTTATTAATTTTAA
58138109 TTTTATTAATTTTAA
1 TTTTATTAATTTTAA
58138124 TTT
1 TTT
58138127 AATGTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTATTAATTTTAA
Found at i:58138411 original size:20 final size:20
Alignment explanation
Indices: 58138386--58138426 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
58138376 AGCATAAAGT
58138386 ATCACATCAACGTTGTTAAC
1 ATCACATCAACGTTGTTAAC
58138406 ATCACATCAACGTTGTTAAC
1 ATCACATCAACGTTGTTAAC
58138426 A
1 A
58138427 ATCAAAGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (20 bp):
ATCACATCAACGTTGTTAAC
Found at i:58141373 original size:6 final size:6
Alignment explanation
Indices: 58141362--58141395 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
58141352 AATAAGTCCA
58141362 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
58141396 CAAAGTCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:58141542 original size:19 final size:19
Alignment explanation
Indices: 58141518--58141615 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
58141508 AATCTTTAAG
58141518 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
58141537 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
58141556 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
58141573 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
58141592 GATATGCAATATTGAAGATAT
1 GATATGCAATCTT--AGATAT
58141613 GAT
1 GAT
58141616 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:58141548 original size:36 final size:35
Alignment explanation
Indices: 58141508--58141593 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 35
58141498 ATGGAAATAT
58141508 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATATGC
58141544 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATATGC
58141580 AATC-TTAGATATGA
1 AATCTTTAGATATGA
58141594 TATGCAATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 37 0.79
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATATGC
Found at i:58141594 original size:36 final size:36
Alignment explanation
Indices: 58141524--58141595 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
58141514 TAAGGATATG
58141524 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
58141560 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
58141596 TGCAATATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:58143221 original size:30 final size:30
Alignment explanation
Indices: 58143166--58143325 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
58143156 ATAGTGAATC
58143166 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
58143195 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
58143225 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
58143254 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
58143282 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
58143312 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58143326 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:58143258 original size:59 final size:57
Alignment explanation
Indices: 58143166--58143325 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
58143156 ATAGTGAATC
*
58143166 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
58143225 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
58143282 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
58143326 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:58151265 original size:30 final size:30
Alignment explanation
Indices: 58151210--58151369 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
58151200 ATAGTGAATC
58151210 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
58151239 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
58151269 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
58151298 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
58151326 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
58151356 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58151370 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:58151302 original size:59 final size:57
Alignment explanation
Indices: 58151210--58151369 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
58151200 ATAGTGAATC
*
58151210 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
58151269 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
58151326 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
58151370 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:58155579 original size:15 final size:14
Alignment explanation
Indices: 58155558--58155599 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
58155548 ACTTTTTCCA
58155558 CTCTTTTTC-TTTT
1 CTCTTTTTCTTTTT
*
58155571 CGTTCTTTTTATTTTT
1 C--TCTTTTTCTTTTT
58155587 CTCTTTTTCTTTT
1 CTCTTTTTCTTTT
58155600 GATCTCTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 11 0.46
15 7 0.29
16 5 0.21
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.76
Consensus pattern (14 bp):
CTCTTTTTCTTTTT
Found at i:58157626 original size:18 final size:18
Alignment explanation
Indices: 58157590--58157628 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
58157580 AACTTCACTT
*
58157590 TTTTTTTATTTTCATAAA
1 TTTTTTTATTTTCAGAAA
58157608 TTTTTTTACTTTTC-GAAA
1 TTTTTTTA-TTTTCAGAAA
58157626 TTT
1 TTT
58157629 ACACTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTTTATTTTCAGAAA
Found at i:58165905 original size:46 final size:45
Alignment explanation
Indices: 58165855--58166028 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
58165845 TGTTTGGGCA
58165855 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
58165901 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* **
58165946 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
58165994 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
58166029 AGGCGGGTTA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:58166010 original size:93 final size:93
Alignment explanation
Indices: 58165851--58166023 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
58165841 AGGATGTTTG
* **
58165851 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACATCCGAACTCGTTGAG
58165916 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
58165944 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACATCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACATCCGAACTCGTTGAG
58166009 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
58166024 CTTATAGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACATCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:58170571 original size:39 final size:40
Alignment explanation
Indices: 58170516--58170598 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
58170506 AAATGAATTG
* * *
58170516 TGCTGAGATTGCATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGAGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
* * *
58170555 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGAGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
58170595 TGCT
1 TGCT
58170599 AGTGAATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 17 0.46
40 20 0.54
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (40 bp):
TGCTGAGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:58171258 original size:2 final size:2
Alignment explanation
Indices: 58171253--58171277 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58171243 AAGTTTTTTT
58171253 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
58171278 TCATGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58173842 original size:13 final size:13
Alignment explanation
Indices: 58173824--58173849 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58173814 TGGATTTGAT
58173824 GAATAGAATTTTC
1 GAATAGAATTTTC
58173837 GAATAGAATTTTC
1 GAATAGAATTTTC
58173850 AGACAGTATC
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:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
GAATAGAATTTTC
Found at i:58183127 original size:24 final size:23
Alignment explanation
Indices: 58183067--58183193 Score: 105
Period size: 22 Copynumber: 5.4 Consensus size: 23
58183057 AGTCATGATC
* *
58183067 GGTAAGCTCTTACTGAGCTGATAA
1 GGTAAGCTC-TATTGAGCTGAAAA
*
58183091 GCAGTAAGTTCTATTGAGCTGAAAA
1 G--GTAAGCTCTATTGAGCTGAAAA
*
58183116 TGGTAAGCTCTATTGAGCTGAACA
1 -GGTAAGCTCTATTGAGCTGAAAA
* * *
58183140 -GTAAGCTCTATCGAGTTG-AAC
1 GGTAAGCTCTATTGAGCTGAAAA
* * * *
58183161 GGTAAGCTCCAATGAGTTGAAAC
1 GGTAAGCTCTATTGAGCTGAAAA
58183184 GGTAAGCTCT
1 GGTAAGCTCT
58183194 TACGAGCTGT
Statistics
Matches: 85, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.01
22 31 0.36
23 12 0.14
24 21 0.25
25 12 0.14
26 8 0.09
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (23 bp):
GGTAAGCTCTATTGAGCTGAAAA
Found at i:58189277 original size:30 final size:30
Alignment explanation
Indices: 58189243--58189303 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
58189233 ATTGCAATGC
58189243 TATGTTTGAATTGAAAATTCTATATTATTA
1 TATGTTTGAATTGAAAATTCTATATTATTA
58189273 TATGTTTGAATTGAAAATTCTATATTATTA
1 TATGTTTGAATTGAAAATTCTATATTATTA
58189303 T
1 T
58189304 TGCACGAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (30 bp):
TATGTTTGAATTGAAAATTCTATATTATTA
Found at i:58192553 original size:50 final size:50
Alignment explanation
Indices: 58192433--58192764 Score: 396
Period size: 50 Copynumber: 6.6 Consensus size: 50
58192423 GTTGTAAGAA
* * * ***
58192433 CACATGTGTAGTACTATGTGCAGGTTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG--TTAGGT
* * * * * *
58192485 CACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTGCCAAATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * * * * * ***
58192535 CGCATGTGCAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCCAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGT
* *
58192586 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTA-TAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
*
58192635 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* *
58192685 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
58192735 CACATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
58192765 TGCTTACCAT
Statistics
Matches: 236, Mismatches: 42, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
49 39 0.17
50 130 0.55
51 34 0.14
52 33 0.14
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
Found at i:58195927 original size:49 final size:49
Alignment explanation
Indices: 58195855--58196041 Score: 180
Period size: 50 Copynumber: 3.8 Consensus size: 49
58195845 GCCGAAGCTA
* *
58195855 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
58195904 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** ** * * * *
58195954 TCTAATACATGTAGTGGCCTGCACTTAGTACTACACGCGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* *
58196002 TTTTTGGGTACACATAGTAGCCTACACTTAGTACTACACA
1 --TCT-GGTACACATAGTAGCCTGCACTTAGTACTACACA
58196042 TGCAACCTCA
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 38 0.34
50 40 0.36
51 31 0.28
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:58201407 original size:51 final size:48
Alignment explanation
Indices: 58201223--58201416 Score: 219
Period size: 51 Copynumber: 3.9 Consensus size: 48
58201213 GCCGAAGCTA
** *
58201223 TCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-ACAG
* *
58201272 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CA-CAG
** *
58201322 TCTAATACACATAGTAGCCTGCACTTAGTACTACACATGTGATCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG
* * *
58201370 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
58201417 TCACAATAGA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
47 2 0.02
48 2 0.02
49 37 0.30
50 40 0.33
51 41 0.34
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG
Found at i:58201408 original size:101 final size:99
Alignment explanation
Indices: 58201232--58201420 Score: 281
Period size: 101 Copynumber: 1.9 Consensus size: 99
58201222 ATCTGGTATG
* *
58201232 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCGGGTACACATAGTAGCCTGCACT
*
58201297 TAGTACTACACACGTGACCTCACCATCTAATACA
66 TAGTACTACACACGCGACCTCACCATCTAATACA
* * *
58201331 CATAGTAGCCTGCACTTAGTACTACACATGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG---TCGGGTACACATAGTAGCCTGC
*
58201395 ACTTAGTACTACACATGCGACCTCAC
63 ACTTAGTACTACACACGCGACCTCAC
58201421 AATAGATCAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.05
99 33 0.41
101 43 0.54
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (99 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCGGGTACACATAGTAGCCTGCACT
TAGTACTACACACGCGACCTCACCATCTAATACA
Found at i:58208257 original size:28 final size:28
Alignment explanation
Indices: 58208211--58208279 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
58208201 TTTAAAACCC
* *
58208211 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGATAATTTTACTCTT
*
58208238 TAGGGGTAATTTCGATAATTTTGCTCTT
1 TAGGGGTAATTTCGATAATTTTACTCTT
*
58208266 TAAGGGTAATTTCG
1 TAGGGGTAATTTCG
58208280 TGATCTACGC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 7 0.19
28 30 0.81
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGATAATTTTACTCTT
Found at i:58210111 original size:19 final size:18
Alignment explanation
Indices: 58210074--58210117 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
58210064 ATACATACAG
58210074 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
58210091 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
58210110 TACTAATT
1 TAATAATT
58210118 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:58212904 original size:32 final size:32
Alignment explanation
Indices: 58212868--58212935 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
58212858 ACAGTCTCAA
* * *
58212868 TTGGGCCTAGCATATCTCAGAATCAATATCAG
1 TTGGGCCTAGCACATATCAGAACCAATATCAG
* *
58212900 TTGGGCCTAGCCCATATCAGAACCAGTATCAG
1 TTGGGCCTAGCACATATCAGAACCAATATCAG
58212932 TTGG
1 TTGG
58212936 AACTAGCCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (32 bp):
TTGGGCCTAGCACATATCAGAACCAATATCAG
Found at i:58212942 original size:32 final size:32
Alignment explanation
Indices: 58212884--58212946 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
58212874 CTAGCATATC
* **
58212884 TCAGAATCAATATCAGTTGGGCCTAGCCCATA
1 TCAGAACCAATATCAGTTGGAACTAGCCCATA
*
58212916 TCAGAACCAGTATCAGTTGGAACTAGCCCAT
1 TCAGAACCAATATCAGTTGGAACTAGCCCAT
58212947 TTCAATATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (32 bp):
TCAGAACCAATATCAGTTGGAACTAGCCCATA
Found at i:58221461 original size:71 final size:71
Alignment explanation
Indices: 58221331--58221465 Score: 171
Period size: 71 Copynumber: 1.9 Consensus size: 71
58221321 TAAAATTTTG
* * * * * * * *
58221331 TTTTGGATAGTATGTTAACCATAATTAAACAACATTTTGCAGTCAATTTGGATAGCAATCTAACA
1 TTTTGGACACTATATTAACCACAATCAAACAACATTTTGAAGTCAATTTGGACAACAATCTAACA
58221396 ATAACT
66 ATAACT
* * *
58221402 TTTTGGACACTATATTAACCACAATCGAACAATATTTTGAAGTCAATTTGGGCAACAATCTAAC
1 TTTTGGACACTATATTAACCACAATCAAACAACATTTTGAAGTCAATTTGGACAACAATCTAAC
58221466 CACGATTTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (71 bp):
TTTTGGACACTATATTAACCACAATCAAACAACATTTTGAAGTCAATTTGGACAACAATCTAACA
ATAACT
Found at i:58223582 original size:42 final size:42
Alignment explanation
Indices: 58223504--58223655 Score: 125
Period size: 42 Copynumber: 3.7 Consensus size: 42
58223494 TAAGATGCCA
* * * * *
58223504 ACGCCATGTCCTAGACATGGTCTTACATGGGA-TCTCACATCG
1 ACGCCATATCCCAGATATGGTCTTACA-CGAATTCTCACATCG
* * * **
58223546 ATGCCATATCCGAGATATGGTCTTATACGAATTCTCATTTCG
1 ACGCCATATCCCAGATATGGTCTTACACGAATTCTCACATCG
* * * *
58223588 ACGCCATGTCCCAGACATGGTCTTACACG-A---TCATATCA
1 ACGCCATATCCCAGATATGGTCTTACACGAATTCTCACATCG
*
58223626 ACGCCATATCCCAGATACGGTCTTACACGA
1 ACGCCATATCCCAGATATGGTCTTACACGA
58223656 TAACTTATAC
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
38 32 0.36
41 3 0.03
42 54 0.61
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (42 bp):
ACGCCATATCCCAGATATGGTCTTACACGAATTCTCACATCG
Found at i:58228229 original size:15 final size:15
Alignment explanation
Indices: 58228197--58228225 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58228187 ATTTCCTATG
58228197 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
58228212 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
58228226 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:58228544 original size:9 final size:10
Alignment explanation
Indices: 58228525--58228549 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
58228515 GGCCAAAACT
58228525 AAAGAAAAAA
1 AAAGAAAAAA
58228535 AAAGAAAAAA
1 AAAGAAAAAA
58228545 AAAGA
1 AAAGA
58228550 GTTTAAGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:58229401 original size:43 final size:42
Alignment explanation
Indices: 58229353--58229521 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 42
58229343 TAGGGTTTTT
*
58229353 GATATGTGTTCTCATGTAAGACCATGTCTGGGACGTTGGCATC
1 GATATGTGATC-CATGTAAGACCATGTCTGGGACGTTGGCATC
* * * * * **
58229396 GATATGTGATTACGTGGAAAACCATGTCTGGGACATCCGCATC
1 GATATGTGA-TCCATGTAAGACCATGTCTGGGACGTTGGCATC
* * * *
58229439 G-TATTTGATCCGTGTAAGACCCTGTCTGGGATAG-TGGCATC
1 GATATGTGATCCATGTAAGACCATGTCTGGGA-CGTTGGCATC
* * * * *
58229480 GATATGAGATAGCATGTAAGACCACGTTTAGGACGTTGGCAT
1 GATATGTGAT-CCATGTAAGACCATGTCTGGGACGTTGGCAT
58229522 TGTACGATAT
Statistics
Matches: 95, Mismatches: 26, Indels: 10
0.73 0.20 0.08
Matches are distributed among these distances:
41 25 0.26
42 13 0.14
43 56 0.59
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
GATATGTGATCCATGTAAGACCATGTCTGGGACGTTGGCATC
Found at i:58231165 original size:8 final size:8
Alignment explanation
Indices: 58231149--58231192 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
58231139 GTAAAACGTC
58231149 AAAAGGCTG
1 AAAA-GCTG
58231158 AAAAGCTG
1 AAAAGCTG
58231166 AAAAG-TCG
1 AAAAGCT-G
*
58231174 AAAAGGTG
1 AAAAGCTG
58231182 AAAAGCTG
1 AAAAGCTG
58231190 AAA
1 AAA
58231193 TGTGGGTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
7 1 0.03
8 26 0.81
9 5 0.16
ACGTcount: A:0.52, C:0.09, G:0.27, T:0.11
Consensus pattern (8 bp):
AAAAGCTG
Found at i:58231188 original size:24 final size:25
Alignment explanation
Indices: 58231141--58231192 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
58231131 TTTTAGATGT
58231141 AAAACGTCAAAAGGCTGAAAAGCTG
1 AAAACGTCAAAAGGCTGAAAAGCTG
58231166 AAAA-GTCGAAAAGG-TGAAAAGCTG
1 AAAACGTC-AAAAGGCTGAAAAGCTG
58231190 AAA
1 AAA
58231193 TGTGGGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.52, C:0.12, G:0.25, T:0.12
Consensus pattern (25 bp):
AAAACGTCAAAAGGCTGAAAAGCTG
Found at i:58243871 original size:27 final size:27
Alignment explanation
Indices: 58243841--58243899 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
58243831 TACCCTCTAG
*
58243841 GGGTAAATCGATAGTCCTACCCTACAA
1 GGGTAAATCGATAATCCTACCCTACAA
** * *
58243868 GGGTATTTCGATAATTCTACCTTACAA
1 GGGTAAATCGATAATCCTACCCTACAA
58243895 GGGTA
1 GGGTA
58243900 TTTCTGTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (27 bp):
GGGTAAATCGATAATCCTACCCTACAA
Found at i:58243910 original size:27 final size:27
Alignment explanation
Indices: 58243848--58243903 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
58243838 TAGGGGTAAA
* *
58243848 TCGATAGTCCTACCCTACAAGGGTATT
1 TCGATAATTCTACCCTACAAGGGTATT
*
58243875 TCGATAATTCTACCTTACAAGGGTATT
1 TCGATAATTCTACCCTACAAGGGTATT
58243902 TC
1 TC
58243904 TGTAATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (27 bp):
TCGATAATTCTACCCTACAAGGGTATT
Found at i:58255974 original size:70 final size:70
Alignment explanation
Indices: 58255887--58256029 Score: 207
Period size: 70 Copynumber: 2.0 Consensus size: 70
58255877 TCATTTCAAC
* ***
58255887 ATTTACAGATTAGTAATGGTT-AGGTGTGGGCGGTGTGGTTTCCAAGGGAGTGATCCAAGGAAGT
1 ATTTACAGATTAGTAATGGTTCA-GTGTAGGCGGTACAGTTTCCAAGGGAGTGATCCAAGGAAGT
58255951 CTGGTT
65 CTGGTT
* * *
58255957 ATTTACATATTAGTAATGGTTCAGTGTAGGCGGTACAGTTTCCAATGGAGTGATCTAAGGAAGTC
1 ATTTACAGATTAGTAATGGTTCAGTGTAGGCGGTACAGTTTCCAAGGGAGTGATCCAAGGAAGTC
58256022 TGGTT
66 TGGTT
58256027 ATT
1 ATT
58256030 CTTCGTAGGT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 64 0.98
71 1 0.02
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.34
Consensus pattern (70 bp):
ATTTACAGATTAGTAATGGTTCAGTGTAGGCGGTACAGTTTCCAAGGGAGTGATCCAAGGAAGTC
TGGTT
Found at i:58257735 original size:41 final size:41
Alignment explanation
Indices: 58257678--58257762 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
58257668 TTGAGGTCTG
58257678 GCAACATCGTGTAGCTATGTTCTGACCCACACCGCGTGTGA
1 GCAACATCGTGTAGCTATGTTCTGACCCACACCGCGTGTGA
58257719 GCAACATCGTGTAGCTATGTTCTGACCCACACCGCGTGTGA
1 GCAACATCGTGTAGCTATGTTCTGACCCACACCGCGTGTGA
58257760 GCA
1 GCA
58257763 GGCCCATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (41 bp):
GCAACATCGTGTAGCTATGTTCTGACCCACACCGCGTGTGA
Found at i:58258378 original size:45 final size:45
Alignment explanation
Indices: 58258267--58258379 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
58258257 AGTGCCATGG
* * * *
58258267 TGTCTTTCAACTATTGTCTTACTTATTCTAGTCTTGATGCCATAA
1 TGTCTTTCAACCATGGTCTTATTTATTCTAGTATTGATGCCATAA
*
58258312 TATCTTTCAACCATGGTCTTATTTATTCTAGTATTGATGCCATAA
1 TGTCTTTCAACCATGGTCTTATTTATTCTAGTATTGATGCCATAA
*
58258357 TGTCTTTCAACCGTGGTCTTATT
1 TGTCTTTCAACCATGGTCTTATT
58258380 CATTTTCCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.46
Consensus pattern (45 bp):
TGTCTTTCAACCATGGTCTTATTTATTCTAGTATTGATGCCATAA
Found at i:58258462 original size:45 final size:45
Alignment explanation
Indices: 58258434--58258650 Score: 254
Period size: 45 Copynumber: 4.8 Consensus size: 45
58258424 TTTCTTTGAT
* * *
58258434 TCTTGATCCCATAACGTCTTTCAGCTATGTTCTTACTCGATAGAA
1 TCTTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCAATAGAA
* *
58258479 TCATGATGCCATAACATCTTTCAGCTATGGTCTTACTCAATAGAA
1 TCTTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCAATAGAA
* * * * * * * *
58258524 TCGTGATGCCATAATGCCTTTTAGCTATGGTTTTAGTCGATATAA
1 TCTTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCAATAGAA
* * *
58258569 TTTTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGAGAGAA
1 TCTTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCAATAGAA
* * * *
58258614 TTTTGATGTCATAATGTCTTTCAGCTATAGTCTTACT
1 TCTTGATGCCATAACGTCTTTCAGCTATGGTCTTACT
58258651 TATTTCTGGT
Statistics
Matches: 146, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 146 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
TCTTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCAATAGAA
Found at i:58263972 original size:40 final size:39
Alignment explanation
Indices: 58263927--58264134 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
58263917 CGGAATACAA
*
58263927 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58263967 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58264007 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
58264047 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
58264087 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
58264127 CCGGATAT
1 CCGGATAT
58264135 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:58264067 original size:80 final size:80
Alignment explanation
Indices: 58263927--58264133 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
58263917 CGGAATACAA
* * *
58263927 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
58263991 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
58264007 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
58264071 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
58264087 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
58264134 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:58266586 original size:40 final size:40
Alignment explanation
Indices: 58266531--58266747 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
58266521 CGGATGATAA
* * *
58266531 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
58266571 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
58266611 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
**
58266651 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
58266691 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
58266731 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
58266748 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 16 0.10
40 149 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:58274598 original size:40 final size:40
Alignment explanation
Indices: 58274543--58274759 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
58274533 CGGATGATAA
* *
58274543 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
58274583 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
58274623 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
**
58274663 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
58274703 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
58274743 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
58274760 TACTTGGTTT
Statistics
Matches: 167, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 16 0.10
40 150 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:58276271 original size:19 final size:19
Alignment explanation
Indices: 58276247--58276287 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
58276237 TGGATAGGCC
**
58276247 GTGTGGCTTTCACACGCCT
1 GTGTGGCTGGCACACGCCT
*
58276266 GTGTGGCTGGGACACGCCT
1 GTGTGGCTGGCACACGCCT
58276285 GTG
1 GTG
58276288 CCCTCAACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.27, G:0.37, T:0.27
Consensus pattern (19 bp):
GTGTGGCTGGCACACGCCT
Found at i:58283069 original size:47 final size:46
Alignment explanation
Indices: 58282965--58283128 Score: 199
Period size: 47 Copynumber: 3.5 Consensus size: 46
58282955 TGACCTAGGT
* *
58282965 TAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGAC-TAGAGATGATAGC-AGTG
*
58283013 TAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACTA-GAGATGATAG-CAGTG
* *
58283059 TAAGACCATGTCTGGGGCATGGCATTGACTAGAGAT-ATGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACTAGAGATGAT-AG-CAGTG
*
58283106 TAAGACCATGTATGGGACATGGC
1 TAAGACCATGTCTGGGACATGGC
58283129 GTCAGTACCT
Statistics
Matches: 102, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
45 1 0.01
46 27 0.26
47 61 0.60
48 13 0.13
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (46 bp):
TAAGACCATGTCTGGGACATGGCATCGACTAGAGATGATAGCAGTG
Found at i:58300249 original size:48 final size:48
Alignment explanation
Indices: 58300122--58300376 Score: 219
Period size: 48 Copynumber: 5.3 Consensus size: 48
58300112 AATTACCATT
** * * * * * *
58300122 CCATGTCTTAGACATGGTCTTACACTAGCTCACATTTCGAGGCCAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAATGCCGATG
* * *
58300170 CCATGTCCTAGACATGGTCTTACACTAGCTCTTGTCTCAATGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAATGCCGATG
* * * *
58300218 CCATGTCCCAGACATGGTCTTACTCTAGCTCTCGTAACATTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAATGCCGATG
* * * *
58300266 CCATGTTCCAAACATGGTCTTACACTGGCTCTC--AT-AATGTGGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAA--T-GCCGATG
* * * * * * *
58300314 CCATGTCGCAGACATAGTCTTACACTGGCTCTCATAACATTGCCAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAATGCCGATG
*
58300362 CCATGTCCCAAACAT
1 CCATGTCCCAGACAT
58300377 TGTAACACCC
Statistics
Matches: 168, Mismatches: 33, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 1 0.01
48 162 0.96
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAATGCCGATG
Found at i:58300286 original size:96 final size:95
Alignment explanation
Indices: 58300122--58300376 Score: 250
Period size: 96 Copynumber: 2.7 Consensus size: 95
58300112 AATTACCATT
** * * ** * *
58300122 CCATGTCTTAGACATGGTCTTACACTAGCTCACATTTCGA-GGCCAATGCCATG-TCCTAGACAT
1 CCATGTCCCAGACATAGTCTTACACTAGCTCTCATAAC-ATTGCCAATGCCATGTTCC-AAACAT
58300185 GGTCTTACACTAGCTCTTGTC-TCAA-T-GCCGATG
64 GGTCTTACACTAGCTC---TCAT-AAGTGGCCGATG
* * * * *
58300218 CCATGTCCCAGACATGGTCTTACTCTAGCTCTCGTAACATTGTCGATGCCATGTTCCAAACATGG
1 CCATGTCCCAGACATAGTCTTACACTAGCTCTCATAACATTGCCAATGCCATGTTCCAAACATGG
* *
58300283 TCTTACACTGGCTCTCATAATGTGGCTGATG
66 TCTTACACTAGCTCTCATAA-GTGGCCGATG
* * *
58300314 CCATGTCGCAGACATAGTCTTACACTGGCTCTCATAACATTGCCAATGCCATGTCCCAAACAT
1 CCATGTCCCAGACATAGTCTTACACTAGCTCTCATAACATTGCCAATGCCATGTTCCAAACAT
58300377 TGTAACACCC
Statistics
Matches: 132, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
93 4 0.03
94 1 0.01
95 2 0.02
96 122 0.92
97 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (95 bp):
CCATGTCCCAGACATAGTCTTACACTAGCTCTCATAACATTGCCAATGCCATGTTCCAAACATGG
TCTTACACTAGCTCTCATAAGTGGCCGATG
Found at i:58301749 original size:40 final size:40
Alignment explanation
Indices: 58301694--58301857 Score: 231
Period size: 40 Copynumber: 4.1 Consensus size: 40
58301684 CGCACAAATG
58301694 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
*
58301734 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
* * *
58301774 CCGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
* * * * *
58301814 CCAGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAAC
58301854 CCGG
1 CCGG
58301858 TTATCATCCG
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 110 0.99
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
Found at i:58309915 original size:39 final size:40
Alignment explanation
Indices: 58309728--58309983 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
58309718 AAGCCAAGTA
* * * *
58309728 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
58309767 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58309807 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58309847 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58309887 CCTTCGGGACTTA-CCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** *
58309926 CCTTCGGGACTTAGCCC-GA-ACTAGTCACTAACGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
58309965 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58309984 TTATCATCCG
Statistics
Matches: 200, Mismatches: 12, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
38 1 0.00
39 83 0.41
40 116 0.58
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58315216 original size:45 final size:45
Alignment explanation
Indices: 58315122--58315240 Score: 132
Period size: 45 Copynumber: 2.6 Consensus size: 45
58315112 TCAAAGAGTG
* * * * * *
58315122 CCATGGTGTCTTTCAACCATGGTGTTATTTATTCTCGTCTTAATG
1 CCATAGTGTCTTTCAACCATGGTCTTATTCATTCTCATCGTAATC
**
58315167 CCATAGTGTCTTTCAACCATGGTCTTATTCATT-TCCATCGTGTTC
1 CCATAGTGTCTTTCAACCATGGTCTTATTCATTCT-CATCGTAATC
* *
58315212 CCATAGTGGCTTTCAACTATGGTCTTATT
1 CCATAGTGTCTTTCAACCATGGTCTTATT
58315241 TCTTTGATTC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 1 0.02
45 62 0.98
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (45 bp):
CCATAGTGTCTTTCAACCATGGTCTTATTCATTCTCATCGTAATC
Found at i:58315261 original size:45 final size:45
Alignment explanation
Indices: 58315120--58315261 Score: 128
Period size: 45 Copynumber: 3.2 Consensus size: 45
58315110 GATCAAAGAG
* * * * * * *
58315120 TGCCATGGTGTCTTTCAACCATGGTGTTATTTA-TTCTCGTCTTAA
1 TGCCATAGTGGCTTTCAACCATGGTCTTATTCATTTC-CATCGTGA
* *
58315165 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTCCATCGTGT
1 TGCCATAGTGGCTTTCAACCATGGTCTTATTCATTTCCATCGTGA
* * *
58315210 TCCCATAGTGGCTTTCAACTATGGTCTTATTTC-TTT-GATTCGTGA
1 TGCCATAGTGGCTTTCAACCATGGTCTTA-TTCATTTCCA-TCGTGA
58315255 TGCCATA
1 TGCCATA
58315262 ACATCTTTCA
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
44 1 0.01
45 74 0.91
46 6 0.07
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (45 bp):
TGCCATAGTGGCTTTCAACCATGGTCTTATTCATTTCCATCGTGA
Found at i:58315270 original size:45 final size:45
Alignment explanation
Indices: 58315221--58315419 Score: 125
Period size: 45 Copynumber: 4.4 Consensus size: 45
58315211 CCCATAGTGG
* *** *
58315221 CTTTCAACTATGGTCTTATTTCTTTGATTCGTGATGCCATAACAT
1 CTTTCAACTATGGTCTTACTTCACAGAATCGTGATGCCATAACAT
* * *
58315266 CTTTCAGCTATGGTCTTACTTGACAGAATCGTGATGCCATAACGT
1 CTTTCAACTATGGTCTTACTTCACAGAATCGTGATGCCATAACAT
* * * * * ** **
58315311 CTTTCAGCTGT-GTCTTA-GTCGATATAATTTTGATGCCATAATTT
1 CTTTCAACTATGGTCTTACTTC-ACAGAATCGTGATGCCATAACAT
* * ** * **
58315355 CTTTCAGCTATGGTCTTAC-TCGATAGAATTTTGATGTCATAATGT
1 CTTTCAACTATGGTCTTACTTC-ACAGAATCGTGATGCCATAACAT
* *
58315400 CTTTCAGCTATAGTCTTACT
1 CTTTCAACTATGGTCTTACT
58315420 CGTTTATTGT
Statistics
Matches: 128, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 33 0.26
45 94 0.73
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (45 bp):
CTTTCAACTATGGTCTTACTTCACAGAATCGTGATGCCATAACAT
Found at i:58315362 original size:89 final size:90
Alignment explanation
Indices: 58315252--58315417 Score: 244
Period size: 89 Copynumber: 1.9 Consensus size: 90
58315242 CTTTGATTCG
*
58315252 TGATGCCATAACATCTTTCAGCTATGGTCTTACTTGACAGAATCGTGATGCCATAACGTCTTTCA
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGACAGAATCGTGATGCCATAACGTCTTTCA
*
58315317 GCTGT-GTCTTAGTCGATATAATTT
66 GCTATAGTCTTAGTCGATATAATTT
** * ** * *
58315341 TGATGCCATAATTTCTTTCAGCTATGGTCTTACTCGATAGAATTTTGATGTCATAATGTCTTTCA
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGACAGAATCGTGATGCCATAACGTCTTTCA
58315406 GCTATAGTCTTA
66 GCTATAGTCTTA
58315418 CTCGTTTATT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 61 0.91
90 6 0.09
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (90 bp):
TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGACAGAATCGTGATGCCATAACGTCTTTCA
GCTATAGTCTTAGTCGATATAATTT
Found at i:58315420 original size:45 final size:45
Alignment explanation
Indices: 58315252--58315421 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 45
58315242 CTTTGATTCG
** * * **
58315252 TGATGCCATAACATCTTTCAGCTATGGTCTTACTTGACAGAATCG
1 TGATGCCATAATGTCTTTCAGCTATGGTCTTACTCGATAGAATTT
* * * *
58315297 TGATGCCATAACGTCTTTCAGCTGT-GTCTTAGTCGATATAATTT
1 TGATGCCATAATGTCTTTCAGCTATGGTCTTACTCGATAGAATTT
*
58315341 TGATGCCATAATTTCTTTCAGCTATGGTCTTACTCGATAGAATTT
1 TGATGCCATAATGTCTTTCAGCTATGGTCTTACTCGATAGAATTT
* *
58315386 TGATGTCATAATGTCTTTCAGCTATAGTCTTACTCG
1 TGATGCCATAATGTCTTTCAGCTATGGTCTTACTCG
58315422 TTTATTGTAT
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
44 35 0.32
45 73 0.68
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.39
Consensus pattern (45 bp):
TGATGCCATAATGTCTTTCAGCTATGGTCTTACTCGATAGAATTT
Found at i:58325301 original size:40 final size:40
Alignment explanation
Indices: 58325257--58325444 Score: 290
Period size: 40 Copynumber: 4.7 Consensus size: 40
58325247 GGTACTAGCT
58325257 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
58325297 CAAATGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
**
58325337 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* ** *
58325377 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGCCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
58325416 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
58325445 CAATCCGAAT
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.24
40 101 0.75
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:58326644 original size:14 final size:14
Alignment explanation
Indices: 58326625--58326651 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58326615 AACATGAGAG
58326625 CTTTTTCTTTCTTT
1 CTTTTTCTTTCTTT
58326639 CTTTTTCTTTCTT
1 CTTTTTCTTTCTT
58326652 CTATTCGGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTTTTCTTTCTTT
Found at i:58326655 original size:53 final size:51
Alignment explanation
Indices: 58326572--58326699 Score: 211
Period size: 53 Copynumber: 2.5 Consensus size: 51
58326562 ATTTCCTCAA
* *
58326572 AGCTCTTTTTCCTTCTTTTTCTTTCTTCTATTCGACCAAGAACAACATGAG
1 AGCTTTTTTTCTTTCTTTTTCTTTCTTCTATTCGACCAAGAACAACATGAG
*
58326623 AGCTTTTTCTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAG
1 AGC-TTTT-TTTCTTTCTTTTTCTTTCTTCTATTCGACCAAGAACAACATGAG
58326676 AGCTTTTTTTCTTTCTTTTTCTTT
1 AGCTTTTTTTCTTTCTTTTTCTTT
58326700 TTTCATCATC
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
51 20 0.28
52 7 0.10
53 45 0.62
ACGTcount: A:0.17, C:0.23, G:0.09, T:0.51
Consensus pattern (51 bp):
AGCTTTTTTTCTTTCTTTTTCTTTCTTCTATTCGACCAAGAACAACATGAG
Found at i:58328311 original size:43 final size:43
Alignment explanation
Indices: 58328243--58328328 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
58328233 ATCACATGTA
58328243 TCGCATCCATAATGAACTCGAACCTCTCAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTCGAACCTCTCAACGAGCTTGGATGC
* *
58328286 TCGCATCCATAATGAAGTCGGACCTCTCAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTCGAACCTCTCAACGAGCTTGGATGC
58328329 CATATATATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGAACCTCTCAACGAGCTTGGATGC
Found at i:58338175 original size:43 final size:43
Alignment explanation
Indices: 58338114--58338199 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
58338104 ATCACATGTA
58338114 TCGCATCCATAATGAACTCGAACCTCTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTCGAACCTCTCAACAAGCTCGGATGC
* * * *
58338157 TCGCATCCATAATGAACTCGGACCTCTTAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTCGAACCTCTCAACAAGCTCGGATGC
58338200 CACATATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGAACCTCTCAACAAGCTCGGATGC
Found at i:58340466 original size:17 final size:17
Alignment explanation
Indices: 58340444--58340478 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
58340434 GGAAAAATAA
58340444 GTCATTTTGGTCATTTG
1 GTCATTTTGGTCATTTG
58340461 GTCATTTTGGTCATTTG
1 GTCATTTTGGTCATTTG
58340478 G
1 G
58340479 CCTTGTACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.26, T:0.51
Consensus pattern (17 bp):
GTCATTTTGGTCATTTG
Found at i:58340478 original size:8 final size:9
Alignment explanation
Indices: 58340444--58340476 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
58340434 GGAAAAATAA
58340444 GTCATTTTG
1 GTCATTTTG
58340453 GTCA-TTTG
1 GTCATTTTG
58340461 GTCATTTTG
1 GTCATTTTG
58340470 GTCATTT
1 GTCATTT
58340477 GGCCTTGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.55
Consensus pattern (9 bp):
GTCATTTTG
Found at i:58343746 original size:40 final size:40
Alignment explanation
Indices: 58343691--58343858 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
58343681 TGAATGATAC
* * *
58343691 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
58343731 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
58343771 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
58343811 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
58343851 CC-GGCTAA
1 CCGGGCTAA
58343859 ATTCTGAAGA
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.04
40 107 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:58351903 original size:40 final size:40
Alignment explanation
Indices: 58351848--58352028 Score: 220
Period size: 40 Copynumber: 4.5 Consensus size: 40
58351838 TGAATGATAC
* * *
58351848 CCGGGCTAAGTCCCGAAGGCATTTATTCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TTATAT
* *
58351888 CCGGGCTAAGACCCGATGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* ** *
58351928 CTGGGCTAAGACCCGAAGGCATTCGTGTGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * * *
58351968 CCAGGCTAAGACCCGCAGGCATTTATGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
*
58352008 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
58352029 ATTGTGCTTG
Statistics
Matches: 120, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 118 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
Found at i:58352045 original size:80 final size:80
Alignment explanation
Indices: 58351844--58352048 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
58351834 CATTTGAATG
* * * * * *
58351844 ATACCCGGGCTAAGTCCCGAAGGCATTTATTCTAGTGATTATATCCGGGCTAAGACCCGATGGCA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCAGGCTAAGACCCGATGGCA
* *
58351909 TTTGTGCGAGTTGTT
66 TTTATGCGAGTTGCT
* * *
58351924 ATATCTGGGCTAAGACCCGAAGGC-ATTCGTG-TGAGTTGTTATATCCAGGCTAAGACCCGCA-G
1 ATACCCGGGCTAAGACCCGAAGGCAATT-GTGCT-AGTGGTTATATCCAGGCTAAGACCCG-ATG
58351986 GCATTTATGCGAGTTGCT
63 GCATTTATGCGAGTTGCT
* *
58352004 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATC
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATC
58352049 TGGCTAAATT
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
79 3 0.03
80 96 0.92
81 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (80 bp):
ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCAGGCTAAGACCCGATGGCA
TTTATGCGAGTTGCT
Found at i:58353760 original size:29 final size:29
Alignment explanation
Indices: 58353727--58353828 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
58353717 TGACGAGATC
58353727 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
*
58353756 GGCACGAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
58353785 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
58353814 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
58353829 AGCTCGGAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.16, G:0.34, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:58362525 original size:2 final size:2
Alignment explanation
Indices: 58362518--58362548 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58362508 CATTTTAACT
58362518 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58362549 CACAAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58369965 original size:2 final size:2
Alignment explanation
Indices: 58369958--58369982 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58369948 CATTTTAACT
58369958 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
58369983 CACAAATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58376049 original size:13 final size:13
Alignment explanation
Indices: 58376031--58376056 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58376021 AAATCAAAAA
58376031 TTCTGCGAAAGCC
1 TTCTGCGAAAGCC
58376044 TTCTGCGAAAGCC
1 TTCTGCGAAAGCC
58376057 GGAGCTTGAA
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:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
TTCTGCGAAAGCC
Found at i:58393723 original size:10 final size:10
Alignment explanation
Indices: 58393710--58393757 Score: 78
Period size: 10 Copynumber: 4.8 Consensus size: 10
58393700 TGCAAATCTG
58393710 TCAAAATTAA
1 TCAAAATTAA
58393720 TCAAAATTAA
1 TCAAAATTAA
58393730 TCAAAATTAA
1 TCAAAATTAA
*
58393740 TTAAAATTAA
1 TCAAAATTAA
*
58393750 TTAAAATT
1 TCAAAATT
58393758 CACTATGTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (10 bp):
TCAAAATTAA
Found at i:58399735 original size:14 final size:14
Alignment explanation
Indices: 58399716--58399744 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
58399706 TTGGTTGCGT
58399716 ATACTCCTGAGATG
1 ATACTCCTGAGATG
58399730 ATACTCCTGAGATG
1 ATACTCCTGAGATG
58399744 A
1 A
58399745 CAAGTCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (14 bp):
ATACTCCTGAGATG
Found at i:58404436 original size:79 final size:82
Alignment explanation
Indices: 58404296--58404480 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
58404286 TCGAATGATG
* * *
58404296 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
58404360 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
58404376 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
58404438 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
58404456 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58404481 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:58404488 original size:40 final size:40
Alignment explanation
Indices: 58404297--58404488 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
58404287 CGAATGATGT
* * * * *
58404297 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
58404337 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
58404377 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
58404416 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
58404456 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
58404489 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:58404511 original size:79 final size:79
Alignment explanation
Indices: 58404296--58404513 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
58404286 TCGAATGATG
* * * * ** *
58404296 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
58404359 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
58404376 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
58404441 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
58404456 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
58404514 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:58413030 original size:40 final size:40
Alignment explanation
Indices: 58412975--58413230 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
58412965 CGGATGATAA
* * *
58412975 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
58413015 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58413055 CCGGGTTAAGTCCCGAAGGCATTTGTGC-AGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
58413094 CCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58413133 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
58413173 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
58413213 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58413231 TACTTGGCTT
Statistics
Matches: 201, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
38 22 0.11
39 48 0.24
40 131 0.65
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58413189 original size:118 final size:119
Alignment explanation
Indices: 58412975--58413230 Score: 374
Period size: 118 Copynumber: 2.2 Consensus size: 119
58412965 CGGATGATAA
* *
58412975 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGG-TAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* * *
58413040 TGCGAGTTACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGC-AGTTA-CTATAT
65 TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
* *
58413094 CCGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTGG
*
58413158 TGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
65 TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
* *
58413213 CCGGTTAAATCCCGAAGG
1 CCGGGTAAGTCCCGAAGG
58413231 TACTTGGCTT
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
117 1 0.01
118 94 0.76
119 29 0.23
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (119 bp):
CCGGGTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
Found at i:58421097 original size:40 final size:40
Alignment explanation
Indices: 58420998--58421213 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
58420988 CGGATGATAA
*
58420998 CCGGGCTAAGTCCCGAAGGCATTTGTGCGGGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
58421038 CC-GG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
58421076 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58421116 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
58421156 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
58421196 CC-GGTTAACTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58421214 TACTTGGCTT
Statistics
Matches: 165, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
38 35 0.21
39 19 0.12
40 111 0.67
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58425794 original size:32 final size:31
Alignment explanation
Indices: 58425758--58425820 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
58425748 AATTATTAAC
*
58425758 ATAATGAATTTTAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATGAATTTTAATT-ATTTT
* *
58425790 ATAATAAATTTTGATTAATTTTAATTATTTT
1 ATAATAAATTTTAATGAATTTTAATTATTTT
58425821 CGACAGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (31 bp):
ATAATAAATTTTAATGAATTTTAATTATTTT
Found at i:58425799 original size:22 final size:22
Alignment explanation
Indices: 58425769--58425812 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
58425759 TAATGAATTT
*
58425769 TAATGAATTTTAATTAATTTTA
1 TAATAAATTTTAATTAATTTTA
*
58425791 TAATAAATTTTGATTAATTTTA
1 TAATAAATTTTAATTAATTTTA
58425813 ATTATTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
TAATAAATTTTAATTAATTTTA
Found at i:58425816 original size:10 final size:10
Alignment explanation
Indices: 58425759--58425820 Score: 63
Period size: 10 Copynumber: 6.1 Consensus size: 10
58425749 ATTATTAACA
*
58425759 TAATGAATTT
1 TAATTAATTT
*
58425769 TAATGAATTT
1 TAATTAATTT
58425779 TAATTAATTTT
1 TAATTAA-TTT
*
58425790 ATAATAAATTT
1 -TAATTAATTT
*
58425801 TGATTAATTT
1 TAATTAATTT
58425811 TAATT-ATTT
1 TAATTAATTT
58425820 T
1 T
58425821 CGACAGATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
9 5 0.11
10 28 0.62
11 6 0.13
12 6 0.13
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (10 bp):
TAATTAATTT
Found at i:58431121 original size:27 final size:27
Alignment explanation
Indices: 58431054--58431121 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
58431044 TGTTACTGAG
* * ** *
58431054 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATAATGTA
* *
58431080 ATGGGCTGTGACCCAAATGATAATGTA
1 ATGGGCTTTGGCCCAAATGATAATGTA
58431107 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
58431122 CTTATGCTCT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATAATGTA
Found at i:58434799 original size:12 final size:12
Alignment explanation
Indices: 58434778--58434810 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
58434768 TATTTGGGCT
58434778 TATT-TGGGCCG
1 TATTATGGGCCG
58434789 TATTATGGGCCG
1 TATTATGGGCCG
58434801 TATTATGGGC
1 TATTATGGGC
58434811 TTGGGCCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.36
Consensus pattern (12 bp):
TATTATGGGCCG
Found at i:58437120 original size:7 final size:7
Alignment explanation
Indices: 58437108--58437204 Score: 97
Period size: 7 Copynumber: 13.6 Consensus size: 7
58437098 ATTTTAAGTG
58437108 AGGGTTT
1 AGGGTTT
58437115 AGGGTTT
1 AGGGTTT
58437122 AGGGTTT
1 AGGGTTT
58437129 A-GGTTT
1 AGGGTTT
58437135 AGGGTTTT
1 AGGG-TTT
*
58437143 AGTGTTT
1 AGGGTTT
58437150 AGGGTTT
1 AGGGTTT
**
58437157 AAGTTTTT
1 -AGGGTTT
*
58437165 AGGGCTT
1 AGGGTTT
*
58437172 AGGTTTT
1 AGGGTTT
*
58437179 AAGGTTT
1 AGGGTTT
58437186 AGGGTTTT
1 AGGG-TTT
*
58437194 AAGGTTT
1 AGGGTTT
58437201 AGGG
1 AGGG
58437205 ACAGAAGTAC
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
6 6 0.08
7 49 0.68
8 17 0.24
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (7 bp):
AGGGTTT
Found at i:58437164 original size:22 final size:22
Alignment explanation
Indices: 58437109--58437204 Score: 63
Period size: 22 Copynumber: 4.5 Consensus size: 22
58437099 TTTTAAGTGA
*
58437109 GGGTTTAGGGTTT-AGGGTTTA
1 GGGTTTAGGGTTTAAGGTTTTA
*
58437130 -GGTTTAGGGTTTTA-GTGTTTA
1 GGGTTTAGGGTTTAAGGT-TTTA
* * * **
58437151 GGGTTTAAGTTTTTAGGGCTTA
1 GGGTTTAGGGTTTAAGGTTTTA
* * *
58437173 GGTTTTAAGGTTTAGGGTTTTA
1 GGGTTTAGGGTTTAAGGTTTTA
*
58437195 AGGTTTAGGG
1 GGGTTTAGGG
58437205 ACAGAAGTAC
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
20 13 0.23
21 5 0.09
22 38 0.67
23 1 0.02
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (22 bp):
GGGTTTAGGGTTTAAGGTTTTA
Found at i:58437191 original size:15 final size:14
Alignment explanation
Indices: 58437108--58437204 Score: 97
Period size: 15 Copynumber: 6.8 Consensus size: 14
58437098 ATTTTAAGTG
58437108 AGGGTTTAGGGTTT
1 AGGGTTTAGGGTTT
58437122 AGGGTTTA-GGTTT
1 AGGGTTTAGGGTTT
*
58437135 AGGGTTTTAGTGTTT
1 AGGG-TTTAGGGTTT
**
58437150 AGGGTTTAAGTTTTT
1 AGGGTTT-AGGGTTT
* *
58437165 AGGGCTTAGGTTTT
1 AGGGTTTAGGGTTT
*
58437179 AAGGTTTAGGGTTTT
1 AGGGTTTAGGG-TTT
*
58437194 AAGGTTTAGGG
1 AGGGTTTAGGG
58437205 ACAGAAGTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.12
14 29 0.40
15 34 0.47
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (14 bp):
AGGGTTTAGGGTTT
Found at i:58440072 original size:16 final size:18
Alignment explanation
Indices: 58440037--58440073 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
58440027 AGTAATCCCC
*
58440037 ATGCAATTTCTAATCTAA
1 ATGCAATTTCTAACCTAA
58440055 ATGCAATTT-T-ACCTAA
1 ATGCAATTTCTAACCTAA
58440071 ATG
1 ATG
58440074 TATGAATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (18 bp):
ATGCAATTTCTAACCTAA
Found at i:58442057 original size:29 final size:29
Alignment explanation
Indices: 58442024--58442097 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
58442014 GTGACGAGAT
58442024 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
58442053 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
58442082 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58442098 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:58442113 original size:29 final size:29
Alignment explanation
Indices: 58442081--58442156 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
58442071 CTGGAAATAT
* *
58442081 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
58442110 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
58442139 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
58442157 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:58442124 original size:58 final size:58
Alignment explanation
Indices: 58442024--58442156 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
58442014 GTGACGAGAT
* * * * * *
58442024 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
58442082 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
58442140 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
58442157 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:58449933 original size:29 final size:29
Alignment explanation
Indices: 58449900--58449973 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
58449890 GTGACGAGAT
58449900 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
58449929 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
58449958 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58449974 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:58449989 original size:29 final size:29
Alignment explanation
Indices: 58449957--58450032 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
58449947 CTGGAAATAT
* *
58449957 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
58449986 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
58450015 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
58450033 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:58450000 original size:58 final size:58
Alignment explanation
Indices: 58449900--58450032 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
58449890 GTGACGAGAT
* * * * * *
58449900 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
58449958 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
58450016 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
58450033 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:58457812 original size:29 final size:29
Alignment explanation
Indices: 58457779--58457852 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
58457769 GTGACGAGAT
58457779 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
58457808 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
58457837 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58457853 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:58457868 original size:29 final size:29
Alignment explanation
Indices: 58457836--58457911 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
58457826 CTGGAAATAT
* *
58457836 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
58457865 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
58457894 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
58457912 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:58457879 original size:58 final size:58
Alignment explanation
Indices: 58457779--58457911 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
58457769 GTGACGAGAT
* * * * * *
58457779 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
58457837 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
58457895 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
58457912 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:58473062 original size:40 final size:40
Alignment explanation
Indices: 58473003--58473144 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
58472993 AAATTGAATG
* * *
58473003 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
58473043 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
58473083 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
58473123 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
58473145 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:58473145 original size:40 final size:39
Alignment explanation
Indices: 58473042--58473170 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
58473032 TGCTGGAAAT
* * *
58473042 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
58473082 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
58473122 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
58473162 TATATCCGG
1 TATATCCGG
58473171 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:58475520 original size:27 final size:28
Alignment explanation
Indices: 58475436--58475647 Score: 167
Period size: 27 Copynumber: 7.9 Consensus size: 28
58475426 TTACCCTACA
* *
58475436 GGGGTATTTCG-GTAATTTTACAAATTC-
1 GGGGTATTTTGAGTAATTTTACAAA-CCG
* **
58475463 -GGGTA-TTCGA-TAATTTTACAAACTA
1 GGGGTATTTTGAGTAATTTTACAAACCG
* **
58475488 GAGGTATTTTGA-TAATTTTTTAAACCG
1 GGGGTATTTTGAGTAATTTTACAAACCG
* *
58475515 GGGGTA-TTTCAGTAATTTTACAAATCG
1 GGGGTATTTTGAGTAATTTTACAAACCG
* * *
58475542 GGGGTGTTTCG-GTAGTTTTACAAACCG
1 GGGGTATTTTGAGTAATTTTACAAACCG
**
58475569 GGGGTATTTT-AGTAATTTTACAAACTA
1 GGGGTATTTTGAGTAATTTTACAAACCG
*
58475596 GGGGTA-TTTCAGTAATTTTACAAACCG
1 GGGGTATTTTGAGTAATTTTACAAACCG
* *
58475623 AGAGGTATTTCGA-TAATTTTACAAA
1 -GGGGTATTTTGAGTAATTTTACAAA
58475648 TCGAGGGTCT
Statistics
Matches: 147, Mismatches: 28, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
25 16 0.11
26 16 0.11
27 93 0.63
28 19 0.13
29 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (28 bp):
GGGGTATTTTGAGTAATTTTACAAACCG
Found at i:58475535 original size:54 final size:54
Alignment explanation
Indices: 58475435--58475647 Score: 197
Period size: 54 Copynumber: 4.0 Consensus size: 54
58475425 TTTACCCTAC
* * *
58475435 AGGGGTATTTCGGTAATTTTACAAATTC--GGGTA-TTC-GATAATTTTACAAACT
1 AGGGGTATTTTGATAATTTTACAAA-CCGGGGGTATTTCAG-TAATTTTACAAACT
* **
58475487 AGAGGTATTTTGATAATTTTTTAAACCGGGGGTATTTCAGTAATTTTACAAA-T
1 AGGGGTATTTTGATAATTTTACAAACCGGGGGTATTTCAGTAATTTTACAAACT
* * * * * *
58475540 CGGGGGTGTTTCGGTAGTTTTACAAACCGGGGGTATTTTAGTAATTTTACAAACT
1 -AGGGGTATTTTGATAATTTTACAAACCGGGGGTATTTCAGTAATTTTACAAACT
* *
58475595 AGGGGTA-TTTCAGTAATTTTACAAACCGAGAGGTATTTC-GATAATTTTACAAA
1 AGGGGTATTTTGA-TAATTTTACAAACCG-GGGGTATTTCAG-TAATTTTACAAA
58475648 TCGAGGGTCT
Statistics
Matches: 129, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
51 1 0.01
52 20 0.16
53 8 0.06
54 78 0.60
55 22 0.17
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
AGGGGTATTTTGATAATTTTACAAACCGGGGGTATTTCAGTAATTTTACAAACT
Done.