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 227 of 433
Found at i:70854135 original size:40 final size:40
Alignment explanation
Indices: 70854085--70854270 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
70854075 GCTACTCGTT
* * *
70854085 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
70854125 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
70854165 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
70854205 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
70854246 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
70854271 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:70857277 original size:64 final size:64
Alignment explanation
Indices: 70857077--70857322 Score: 262
Period size: 64 Copynumber: 3.8 Consensus size: 64
70857067 CATAATTTTG
* * * * * *
70857077 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCATA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCTCGTA
* * * * * * * * *
70857140 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATTTAACTCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATCTCG
70857205 TA
63 TA
* * *
70857207 GGTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTTGTA
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCTCGTA
* *
70857271 GCTCTCTTGTCTACATGGTGTAGACATAGTATCACCCATGCGACCTAGCTAC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTAC
70857323 CTCATAATGT
Statistics
Matches: 152, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
63 18 0.12
64 84 0.55
66 23 0.15
67 27 0.18
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCTCGTA
Found at i:70860042 original size:21 final size:18
Alignment explanation
Indices: 70859985--70860041 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
70859975 TTGAGCAGTT
70859985 TTTCACTTAAGTTAAAAA
1 TTTCACTTAAGTTAAAAA
**
70860003 TTTCACTTTATTTTAAAAA
1 TTTCAC-TTAAGTTAAAAA
*
70860022 TGTTTCACTTCAGTTAAAAA
1 --TTTCACTTAAGTTAAAAA
70860042 AATATTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 6 0.19
19 10 0.32
20 9 0.29
21 6 0.19
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (18 bp):
TTTCACTTAAGTTAAAAA
Found at i:70860767 original size:16 final size:16
Alignment explanation
Indices: 70860746--70860777 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70860736 AATTAGGTTG
*
70860746 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
70860762 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
70860778 TAAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:70861240 original size:30 final size:30
Alignment explanation
Indices: 70861204--70861268 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
70861194 ACTGAAAGTA
70861204 AGAAAATTATTTCTGATTTTGTGTTTGATT
1 AGAAAATTATTTCTGATTTTGTGTTTGATT
*
70861234 AGAAAATTATTTTTGATTTTGTGTTTGATT
1 AGAAAATTATTTCTGATTTTGTGTTTGATT
*
70861264 CGAAA
1 AGAAA
70861269 TTGTTCAAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (30 bp):
AGAAAATTATTTCTGATTTTGTGTTTGATT
Found at i:70867185 original size:40 final size:39
Alignment explanation
Indices: 70867035--70867187 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
70867025 GAATGTTCGA
* *
70867035 GTGATATGCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
70867074 GTGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
70867113 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* * *
70867152 GTGATATCTGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
70867188 GGTTACCATA
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 85 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:70870632 original size:11 final size:11
Alignment explanation
Indices: 70870616--70870640 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
70870606 TAATATATGT
70870616 AATTTAAATTA
1 AATTTAAATTA
70870627 AATTTAAATTA
1 AATTTAAATTA
70870638 AAT
1 AAT
70870641 ATTATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:70884921 original size:58 final size:58
Alignment explanation
Indices: 70884853--70884971 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
70884843 CACTGAAGTG
70884853 AGTTAATCCCTTGCTTGTTTTATTGGATTAAATTTTGGTTGTTAATTGGTTGATTTTT
1 AGTTAATCCCTTGCTTGTTTTATTGGATTAAATTTTGGTTGTTAATTGGTTGATTTTT
70884911 AGTTAATCCCTTGCTTGTTTTATTGGATTAAATTTTGGTTGTTAATTGGTTGATTTTT
1 AGTTAATCCCTTGCTTGTTTTATTGGATTAAATTTTGGTTGTTAATTGGTTGATTTTT
70884969 AGT
1 AGT
70884972 CGTAAATAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.55
Consensus pattern (58 bp):
AGTTAATCCCTTGCTTGTTTTATTGGATTAAATTTTGGTTGTTAATTGGTTGATTTTT
Found at i:70893431 original size:35 final size:36
Alignment explanation
Indices: 70893391--70893463 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 36
70893381 AGCCTGTCCA
* * *
70893391 TGACGAAAAACTTTGAACCTTTATCCATTT-CCATG
1 TGACGAAAAACTCTGAACCTCTACCCATTTCCCATG
*
70893426 TGACGACAAACTCTGAACCTCTACCCATTTCCCATG
1 TGACGAAAAACTCTGAACCTCTACCCATTTCCCATG
70893462 TG
1 TG
70893464 TAGTAGTGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
35 26 0.79
36 7 0.21
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (36 bp):
TGACGAAAAACTCTGAACCTCTACCCATTTCCCATG
Found at i:70898479 original size:29 final size:29
Alignment explanation
Indices: 70898447--70898519 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 29
70898437 AACTTATAGA
70898447 TAGTTTTTATATTTTTATTTAATCAATTT
1 TAGTTTTTATATTTTTATTTAATCAATTT
70898476 TAGTTTTTATA-TTTTATTTAATCAATTT
1 TAGTTTTTATATTTTTATTTAATCAATTT
* *
70898504 TAATTTCTATATTTTT
1 TAGTTTTTATATTTTT
70898520 TAAAATTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 26 0.63
29 15 0.37
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (29 bp):
TAGTTTTTATATTTTTATTTAATCAATTT
Found at i:70898503 original size:14 final size:14
Alignment explanation
Indices: 70898459--70898505 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
70898449 GTTTTTATAT
70898459 TTTTATTTAATCAA
1 TTTTATTTAATCAA
*
70898473 TTTTAGTTT--TTATA
1 TTTTA-TTTAATCA-A
70898487 TTTTATTTAATCAA
1 TTTTATTTAATCAA
70898501 TTTTA
1 TTTTA
70898506 ATTTCTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 5 0.19
14 17 0.63
15 5 0.19
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTATTTAATCAA
Found at i:70900736 original size:68 final size:70
Alignment explanation
Indices: 70900664--70900861 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
70900654 ACACCCTGTA
* * * *
70900664 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
70900726 ATAAAT
65 ATAAAT
*
70900732 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
70900797 ATAAAT
65 ATAAAT
*
70900803 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
70900862 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:70900775 original size:41 final size:41
Alignment explanation
Indices: 70900730--70900847 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
70900720 TGAAAGATAA
70900730 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
70900771 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70900801 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70900842 ATGTAG
1 ATGTAG
70900848 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:70900787 original size:71 final size:71
Alignment explanation
Indices: 70900698--70900861 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70900688 GAGATGTATC
70900698 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70900763 AGGACA
66 AGGACA
70900769 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70900834 AGGACA
66 AGGACA
70900840 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
70900862 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:70906722 original size:68 final size:70
Alignment explanation
Indices: 70906650--70906847 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
70906640 ACACCCTGTA
* * * *
70906650 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
70906712 ATAAAT
65 ATAAAT
*
70906718 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
70906783 ATAAAT
65 ATAAAT
*
70906789 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
70906848 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:70906761 original size:41 final size:41
Alignment explanation
Indices: 70906716--70906833 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
70906706 TGAAAGATAA
70906716 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
70906757 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70906787 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70906828 ATGTAG
1 ATGTAG
70906834 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:70906773 original size:71 final size:71
Alignment explanation
Indices: 70906684--70906847 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70906674 GAGATGTATC
70906684 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70906749 AGGACA
66 AGGACA
70906755 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70906820 AGGACA
66 AGGACA
70906826 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
70906848 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:70912704 original size:68 final size:70
Alignment explanation
Indices: 70912632--70912829 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
70912622 ACACCCTGTA
* * * *
70912632 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
70912694 ATAAAT
65 ATAAAT
*
70912700 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
70912765 ATAAAT
65 ATAAAT
*
70912771 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
70912830 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:70912743 original size:41 final size:41
Alignment explanation
Indices: 70912698--70912815 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
70912688 TGAAAGATAA
70912698 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
70912739 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70912769 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70912810 ATGTAG
1 ATGTAG
70912816 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:70912755 original size:71 final size:71
Alignment explanation
Indices: 70912666--70912829 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70912656 GAGATGTATC
70912666 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70912731 AGGACA
66 AGGACA
70912737 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70912802 AGGACA
66 AGGACA
70912808 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
70912830 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:70918725 original size:52 final size:52
Alignment explanation
Indices: 70918668--70918864 Score: 142
Period size: 52 Copynumber: 3.9 Consensus size: 52
70918658 ATAATCATTG
* *
70918668 GCTCAAAGCCTACTAAATAATCA-CTGGCTCAAAGCTTGCTAGATAAACTCTA
1 GCTCAAAGCCTACTAAATAATCATC-GACTCAAAGCCTGCTAGATAAACTCTA
* * * * *
70918720 GCTCAATGCCTGCTAAATAATCATCGATTCAAAGCCTGCTAGATAAACAC-C
1 GCTCAAAGCCTACTAAATAATCATCGACTCAAAGCCTGCTAGATAAACTCTA
* * * * * * *
70918771 GACTCAAGGCATGCTAAATAATTATCGACTC-AA-----CTAGATAGACACCA
1 G-CTCAAAGCCTACTAAATAATCATCGACTCAAAGCCTGCTAGATAAACTCTA
* * * *
70918818 GCTCAAGGCCTACTAAATAATCA-CTGGCTCAAAGCCTACTAAATAAA
1 GCTCAAAGCCTACTAAATAATCATC-GACTCAAAGCCTGCTAGATAAA
70918865 GTACATCTTG
Statistics
Matches: 116, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
45 1 0.01
46 34 0.29
47 3 0.03
51 3 0.03
52 74 0.64
53 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (52 bp):
GCTCAAAGCCTACTAAATAATCATCGACTCAAAGCCTGCTAGATAAACTCTA
Found at i:70918799 original size:26 final size:26
Alignment explanation
Indices: 70918650--70918803 Score: 132
Period size: 26 Copynumber: 5.9 Consensus size: 26
70918640 GTACATAGTA
* *
70918650 CCTGCTAAATAATCATTGGCTCAAAG
1 CCTGCTAAATAATCATCGACTCAAAG
* *
70918676 CCTACTAAATAATCA-CTGGCTCAAAG
1 CCTGCTAAATAATCATC-GACTCAAAG
* * * * *
70918702 CTTGCTAGATAAAC-TCTAGCTCAATG
1 CCTGCTAAATAATCATCGA-CTCAAAG
*
70918728 CCTGCTAAATAATCATCGATTCAAAG
1 CCTGCTAAATAATCATCGACTCAAAG
* * * *
70918754 CCTGCTAGATAAACACCGACTCAAGG
1 CCTGCTAAATAATCATCGACTCAAAG
* *
70918780 CATGCTAAATAATTATCGACTCAA
1 CCTGCTAAATAATCATCGACTCAA
70918804 CTAGATAGAC
Statistics
Matches: 99, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
26 96 0.97
27 3 0.03
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (26 bp):
CCTGCTAAATAATCATCGACTCAAAG
Found at i:70920978 original size:66 final size:66
Alignment explanation
Indices: 70920855--70920980 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 66
70920845 GTTCACTAGG
* ** *** *
70920855 TCCAAACTAACGATTGCAATTAGCCAAGCCTACTGGCAACCCCGGTTCGTTAGGCCTACTAGCAA
1 TCCAAACCAACGATTGCAATTAGCCAAGCCTACTGGCAACCCCAATTCACCAAGCCTACTAGCAA
70920920 A
66 A
* * *
70920921 TCCAAACCAACGATTGCAATTCA-TCAAGCCTACTGGCGACCCTAATTCACCAAGCCTACT
1 TCCAAACCAACGATTGCAATT-AGCCAAGCCTACTGGCAACCCCAATTCACCAAGCCTACT
70920981 GGTGAATCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
66 48 0.98
67 1 0.02
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (66 bp):
TCCAAACCAACGATTGCAATTAGCCAAGCCTACTGGCAACCCCAATTCACCAAGCCTACTAGCAA
A
Found at i:70934019 original size:58 final size:58
Alignment explanation
Indices: 70933950--70934089 Score: 226
Period size: 58 Copynumber: 2.4 Consensus size: 58
70933940 GACGTATCAT
* *
70933950 AGGATTACCAGTCTAGGCTAAATCCTAAATGTAACATATACTCGAGAGATATCGTATC
1 AGGATTACCAGTCCAGGCTAAATCCTAAATATAACATATACTCGAGAGATATCGTATC
70934008 AGGATTACCAGTCCAGGCTAAATCCTAAATATAACATATACTCGAGAGATATCGTATC
1 AGGATTACCAGTCCAGGCTAAATCCTAAATATAACATATACTCGAGAGATATCGTATC
** * *
70934066 AACATTACCCGTCCGGGCTAAATC
1 AGGATTACCAGTCCAGGCTAAATC
70934090 TTTCCTATAA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 76 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (58 bp):
AGGATTACCAGTCCAGGCTAAATCCTAAATATAACATATACTCGAGAGATATCGTATC
Found at i:70937027 original size:43 final size:43
Alignment explanation
Indices: 70936979--70937224 Score: 264
Period size: 43 Copynumber: 5.7 Consensus size: 43
70936969 TATATTACAA
* *
70936979 TATTATCCGATGATGCACTATGTGTGCCAGTATTTTACTTCGG
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
** * *
70937022 TATTATCTAATAATGCA-T-TGTGCATGCCAATATGTTGCTTCGG
1 TATTATCCGATGATGCACTATGTG--TGCCAGTATGTTGCTTCGG
* * * * *
70937065 TATTATCCGATGATACATTGTGTATGCCAGTATGTTGCTTTGG
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
* * * *
70937108 TTTTATCCAATGAAGCACTATGTGTGGCCA-TATGTTGCTTCGA
1 TATTATCCGATGATGCACTATGTGT-GCCAGTATGTTGCTTCGG
* * *
70937151 TTTTATCCGATGATGCACTATGTGTGCCAATATGTTGCTTCAG
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
* *
70937194 TATTATCTGATGATGCACTGTGTGTGCCAGT
1 TATTATCCGATGATGCACTATGTGTGCCAGT
70937225 TTAATTGTAC
Statistics
Matches: 167, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
41 4 0.02
42 5 0.03
43 150 0.90
44 5 0.03
45 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (43 bp):
TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
Found at i:70937216 original size:129 final size:128
Alignment explanation
Indices: 70936981--70937224 Score: 312
Period size: 129 Copynumber: 1.9 Consensus size: 128
70936971 TATTACAATA
* * * * *
70936981 TTATCCGATGATGCACTATGTGTGCCAGTATTTTACTTCGGTATTATCTAATAATGCATTGTGCA
1 TTATCCAATGAAGCACTATGTGTGCCAGTATGTTACTTCGATATTATCCAATAATGCATTGTG-A
* *
70937046 TGCCAATATGTTGCTTCGGTATTATCCGATGATACATTGTGTATGCCAGTATGTTGCTTTGGTT
65 TGCCAATATGTTGCTTCAGTATTATCCGATGATACACTGTGTATGCCAGTATGTTGCTTTGGTT
* * * *
70937110 TTATCCAATGAAGCACTATGTGTGGCCA-TATGTTGCTTCGATTTTATCCGATGATGCACTATGT
1 TTATCCAATGAAGCACTATGTGT-GCCAGTATGTTACTTCGATATTATCCAATAATGCA-T-TGT
* * *
70937174 G-TGCCAATATGTTGCTTCAGTATTATCTGATGATGCACTGTGTGTGCCAGT
63 GATGCCAATATGTTGCTTCAGTATTATCCGATGATACACTGTGTATGCCAGT
70937225 TTAATTGTAC
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
129 89 0.91
130 5 0.05
131 4 0.04
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (128 bp):
TTATCCAATGAAGCACTATGTGTGCCAGTATGTTACTTCGATATTATCCAATAATGCATTGTGAT
GCCAATATGTTGCTTCAGTATTATCCGATGATACACTGTGTATGCCAGTATGTTGCTTTGGTT
Found at i:70940450 original size:40 final size:40
Alignment explanation
Indices: 70940397--70940585 Score: 181
Period size: 40 Copynumber: 4.8 Consensus size: 40
70940387 GGATATAACG
* *
70940397 ACTCGCTCAAATGCCTTCGGGACAAAGCCC-GATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGGATT-TAGTA
* *
70940437 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAAGCCCGGATTTAGTA
* *
70940477 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGGATTTAGTA
* * * * * *
70940516 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTAAGCCCGGATTTAGTA
* *
70940556 ACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 AC-TCGCACAAATGCCTTCGGGACTAAGCCC
70940586 AGACATCATT
Statistics
Matches: 125, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 4 0.03
39 28 0.22
40 78 0.62
41 15 0.12
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTAAGCCCGGATTTAGTA
Found at i:70940518 original size:79 final size:80
Alignment explanation
Indices: 70940371--70940585 Score: 226
Period size: 79 Copynumber: 2.7 Consensus size: 80
70940361 GAATCACGTA
*** * **
70940371 CCTTCGGAAT-TTAA-CCGGATATAACGACTCGCTCAAATGCCTTCGGGACAAAGCCCGATTATA
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATA
*
70940434 GTAACTCGCACGAATG
65 GTAACTCGCACGAACG
* *
70940450 CCTTCGGGA-CTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-T
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-GATTAT
*
70940512 ATTAACTCGCACGAACG
64 AGTAACTCGCACGAACG
** * *
70940529 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
70940586 AGACATCATT
Statistics
Matches: 113, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.03
79 61 0.54
80 49 0.43
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAG
TAACTCGCACGAACG
Found at i:70947140 original size:19 final size:19
Alignment explanation
Indices: 70947116--70947153 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
70947106 TAGGCCTCGA
70947116 TGGGCCGAAATGGGC-CGTG
1 TGGGCC-AAATGGGCTCGTG
*
70947135 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
70947154 GGCCCCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:70947907 original size:27 final size:27
Alignment explanation
Indices: 70947860--70947911 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
70947850 CATCTGATAT
* *
70947860 TGATTCTGTATTTGGCTTAGGCCCACC
1 TGATTCTGTAATGGGCTTAGGCCCACC
70947887 TGATTCTGTTAATGGGC-TAGGCCCA
1 TGATTCTG-TAATGGGCTTAGGCCCA
70947912 ACTGTTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (27 bp):
TGATTCTGTAATGGGCTTAGGCCCACC
Found at i:70950624 original size:6 final size:6
Alignment explanation
Indices: 70950606--70950730 Score: 89
Period size: 6 Copynumber: 20.3 Consensus size: 6
70950596 AAGAAACATT
* *
70950606 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
70950655 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAAA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
70950704 ATCAGGTA A-CAGA ATCA-A AGTCAGA AT
1 ATCA-G-A ATCAGA ATCAGA A-TCAGA AT
70950731 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
5 8 0.08
6 74 0.77
7 11 0.11
8 3 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:70950657 original size:31 final size:31
Alignment explanation
Indices: 70950620--70950730 Score: 161
Period size: 31 Copynumber: 3.6 Consensus size: 31
70950610 GAACTAGAAT
* * *
70950620 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGTATCAGGTAA
70950651 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGTATCAGGTAA
* *
70950682 CAGAATCAAAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGTATCAGGTAA
70950713 CAGAATCA-AAGTCAGAAT
1 CAGAATCAGAA-TCAGAAT
70950731 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
30 2 0.03
31 71 0.97
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGTATCAGGTAA
Found at i:70951162 original size:27 final size:27
Alignment explanation
Indices: 70951132--70951423 Score: 237
Period size: 27 Copynumber: 10.3 Consensus size: 27
70951122 GGGGTAAAAT
* * *
70951132 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
70951159 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* * *
70951186 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
70951213 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
70951240 GATAATTCTACCCTAC-AGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
70951266 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
70951293 GGTATTTTGATATTTCTACCCTACAGGGGTATTTT
1 GG-----T-A-A-TTCTACCCTACAAGGGTATTTC
* *
70951328 GGTATTTCAGTATTTCTACCCTACAGGGGTATTTA
1 GG----T-A--A-TTCTACCCTACAAGGGTATTTC
*
70951363 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
70951390 GACATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
70951417 GGTAATT
1 GGTAATT
70951424 TAGTAAATCG
Statistics
Matches: 220, Mismatches: 33, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
26 26 0.12
27 134 0.61
28 2 0.01
30 1 0.00
31 1 0.00
32 1 0.00
33 1 0.00
34 5 0.02
35 49 0.22
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:70951310 original size:35 final size:35
Alignment explanation
Indices: 70951258--70951369 Score: 172
Period size: 35 Copynumber: 3.2 Consensus size: 35
70951248 TACCCTACAG
* *
70951258 GGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
1 GGTATTTTAGTATTTCTACCCTACAGGGGTATTTA
*
70951293 GGTATTTT-GATATTTCTACCCTACAGGGGTATTTT
1 GGTATTTTAG-TATTTCTACCCTACAGGGGTATTTA
*
70951328 GGTATTTCAGTATTTCTACCCTACAGGGGTATTTA
1 GGTATTTTAGTATTTCTACCCTACAGGGGTATTTA
70951363 GGTATTT
1 GGTATTT
70951370 CTACCCTACA
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
34 1 0.01
35 69 0.97
36 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (35 bp):
GGTATTTTAGTATTTCTACCCTACAGGGGTATTTA
Found at i:70951437 original size:27 final size:26
Alignment explanation
Indices: 70951407--70951669 Score: 165
Period size: 27 Copynumber: 9.8 Consensus size: 26
70951397 CTACCCTACA
70951407 AGGGTATTTCGGTAATTTAGTA-AATCG
1 AGGGTATTTCGGTAATTT--TACAATCG
*** *
70951434 AGGGTAAAACGGTAATTCTGTA-AATCA
1 AGGGTATTTCGGTAATT-T-TACAATCG
70951461 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGGTAATTTTACAA-TCG
** *
70951488 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTCGGTAATTTTACA-ATCG
*
70951515 AGGGTATTTCAGTAATTTTACAAATC-
1 AGGGTATTTCGGTAATTTTAC-AATCG
* * * *
70951541 AGGGGTTTTTTGGTAATTTTACAAACT
1 A-GGGTATTTCGGTAATTTTACAATCG
* * * *
70951568 AGGGGTATTTTGATAATTTTACAAACC
1 A-GGGTATTTCGGTAATTTTACAATCG
* * *
70951595 AGGGGTATTTTGGTAATTTTACAAACCA
1 A-GGGTATTTCGGTAATTTTAC-AATCG
* * *
70951623 AGGGTATTTTGGTAATTTTACAAACC
1 AGGGTATTTCGGTAATTTTACAATCG
* *
70951649 AGGGGTATTTTGGTGATTTTA
1 A-GGGTATTTCGGTAATTTTA
70951670 TAAACCAAGG
Statistics
Matches: 199, Mismatches: 26, Indels: 22
0.81 0.11 0.09
Matches are distributed among these distances:
25 2 0.01
26 14 0.07
27 177 0.89
28 6 0.03
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTTTACAATCG
Found at i:70951530 original size:81 final size:81
Alignment explanation
Indices: 70951455--70951721 Score: 270
Period size: 81 Copynumber: 3.3 Consensus size: 81
70951445 GTAATTCTGT
* * ***
70951455 AAATCAAGGGTACTTTGGTAATTTTACAAGTCGA-GGGTATTTCAATAATTTTACAGGTC-GAGG
1 AAATCAAGGGTATTTTGGTAATTTTACAA-ACGAGGGGTATTTCAATAATTTTACAAACCAG-GG
70951518 GTATTTCAGTAATTTTAC
64 GTATTTCAGTAATTTTAC
* * * **
70951536 AAATCAGGGGTTTTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGT
1 AAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTCAATAATTTTACAAACCAGGGGT
**
70951601 ATTTTGGTAATTTTAC
66 ATTTCAGTAATTTTAC
* * *** * * * *
70951617 AAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGAT
1 AAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTCAATAATTTTACAAACCAGGGGT
* *
70951682 ATTTTAGCAATTTTAC
66 ATTTCAGTAATTTTAC
*
70951698 AAA-CTAGGGATATTTTGGTAATTT
1 AAATCAAGGG-TATTTTGGTAATTT
70951722 GGTAAACTAA
Statistics
Matches: 159, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
80 7 0.04
81 151 0.95
82 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
AAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTCAATAATTTTACAAACCAGGGGT
ATTTCAGTAATTTTAC
Found at i:70951730 original size:27 final size:27
Alignment explanation
Indices: 70951516--70951721 Score: 277
Period size: 27 Copynumber: 7.6 Consensus size: 27
70951506 TACAGGTCGA
** *
70951516 GGGTATTTCAGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
70951543 GGGTTTTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
70951570 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
70951597 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
70951624 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
70951651 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
70951678 GGATATTTTAGCAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
70951705 GGATATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
70951722 GGTAAACTAA
Statistics
Matches: 156, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:70954149 original size:26 final size:26
Alignment explanation
Indices: 70954120--70954172 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
70954110 CCAAACATGC
70954120 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
70954146 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
70954172 A
1 A
70954173 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:70955453 original size:24 final size:23
Alignment explanation
Indices: 70955420--70955523 Score: 109
Period size: 24 Copynumber: 4.3 Consensus size: 23
70955410 GCCAGCCAAC
*
70955420 TCCTGCTCCTTGATCAGCTTCTAAA
1 TCCT-CTCCTT-ATCAGCTCCTAAA
* * **
70955445 TCTTCTCCTTTATCAGATTGTAAA
1 TCCTCTCC-TTATCAGCTCCTAAA
70955469 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCT-CCTTATCAGCTCCTAAA
70955493 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCT-CCTTATCAGCTCCTAAA
*
70955517 TCTTCTC
1 TCCTCTC
70955524 TTGACAGCCT
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.01
24 61 0.88
25 7 0.10
ACGTcount: A:0.20, C:0.35, G:0.07, T:0.38
Consensus pattern (23 bp):
TCCTCTCCTTATCAGCTCCTAAA
Found at i:70955517 original size:48 final size:49
Alignment explanation
Indices: 70955427--70955523 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 49
70955417 AACTCCTGCT
* * * **
70955427 CCTTGATCAGCTTCTAAATCTTCTCCTTTATCAGATTGTAAATCCTCTC
1 CCTTGATCAGCTCCTAAATCCTCTCCCTTATCAGATCCTAAATCCTCTC
* *
70955476 CCTT-ATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCTTCTC
1 CCTTGATCAGCTCCTAAATCCTCTCCCTTATCAGATCCTAAATCCTCTC
70955524 TTGACAGCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 37 0.90
49 4 0.10
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (49 bp):
CCTTGATCAGCTCCTAAATCCTCTCCCTTATCAGATCCTAAATCCTCTC
Found at i:70962267 original size:2 final size:2
Alignment explanation
Indices: 70962260--70962288 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
70962250 CTAATATCCT
70962260 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 T
70962289 GGTTTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:70967652 original size:26 final size:26
Alignment explanation
Indices: 70967616--70967673 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
70967606 AGTCATGTGA
70967616 ATGGGCCTATGTCGGCTAATGACGTT
1 ATGGGCCTATGTCGGCTAATGACGTT
*
70967642 ATGGGCCTATGTCGGCTAATGATGTT
1 ATGGGCCTATGTCGGCTAATGACGTT
70967668 ATGGGC
1 ATGGGC
70967674 TTATATGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (26 bp):
ATGGGCCTATGTCGGCTAATGACGTT
Found at i:70969537 original size:48 final size:48
Alignment explanation
Indices: 70969476--70969661 Score: 221
Period size: 48 Copynumber: 3.9 Consensus size: 48
70969466 ACTCAGGAGT
** * *
70969476 CTCGCACATGAAGTGCCAATATCATGGCCCGAAGCCAACTCAAAATAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTAA
* * * * *
70969524 CGCGCACCCGAAGTGCTAATATCATGTCTCAAAGCC-AATCAAAGTAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTAA
*** * * *
70969571 CTCGCACCCGAAGTGCTGGTATCATGGCCCGAAGTCAAATCAATGTAT
1 CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTAA
*
70969619 CTCGCACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAA
70969662 TGTATCCCCT
Statistics
Matches: 116, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
47 38 0.33
48 78 0.67
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.18
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTAA
Found at i:70971901 original size:40 final size:40
Alignment explanation
Indices: 70971857--70972074 Score: 276
Period size: 40 Copynumber: 5.5 Consensus size: 40
70971847 ACTCGATTGT
* * * * * *
70971857 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
70971897 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
*
70971937 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACGAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
70971977 CTTCGGGACTTAA-CCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * * * * *
70972016 CTTCGGGAATTGACCCGGATTTAGTCACTTAGAACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTGGTAAC-TCGCACAAATGC
*
70972057 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
70972075 ATACCATTCG
Statistics
Matches: 157, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 36 0.23
40 97 0.62
41 24 0.15
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:70980116 original size:41 final size:40
Alignment explanation
Indices: 70979949--70980121 Score: 220
Period size: 40 Copynumber: 4.3 Consensus size: 40
70979939 ACTCGATTGT
* * * * * *
70979949 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
70979989 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
70980029 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * * * *
70980069 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTGGTAAC-TCGCACAAATGC
70980110 CTTCGGGACTTA
1 CTTCGGGACTTA
70980122 GCCTGGATAC
Statistics
Matches: 117, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 97 0.83
41 20 0.17
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:70987323 original size:16 final size:16
Alignment explanation
Indices: 70987304--70987335 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70987294 AATTGTTTTA
70987304 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
70987320 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
70987336 ATTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:70989154 original size:40 final size:40
Alignment explanation
Indices: 70989108--70989265 Score: 173
Period size: 40 Copynumber: 4.0 Consensus size: 40
70989098 ATATCCACGT
*
70989108 TAAGACCCGAAGGCAATTGTGCTAGTGACTT-TATCCGGGC
1 TAAGACCCGAAGGCAATTGTGCAAGTG-CTTATATCCGGGC
70989148 TAAGACCCGAAGGC-ATTCGTGCAAGTTG-TTATATCCGGGC
1 TAAGACCCGAAGGCAATT-GTGCAAG-TGCTTATATCCGGGC
* * *
70989188 TAATACCCGAAGGCATTTGTGCGAGT-CGTTATATCCGGGC
1 TAAGACCCGAAGGCAATTGTGCAAGTGC-TTATATCCGGGC
** *
70989228 TAAGACCCGAAGGC-ATTCGTGCGTGTGGTTATATCCGG
1 TAAGACCCGAAGGCAATT-GTGCAAGTGCTTATATCCGG
70989266 TTGTATTCCG
Statistics
Matches: 102, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
39 8 0.08
40 90 0.88
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TAAGACCCGAAGGCAATTGTGCAAGTGCTTATATCCGGGC
Found at i:70989231 original size:80 final size:79
Alignment explanation
Indices: 70989112--70989265 Score: 229
Period size: 80 Copynumber: 1.9 Consensus size: 79
70989102 CCACGTTAAG
* *
70989112 ACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGT
1 ACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGT
70989177 TATATCCGGGCTAAT
65 TATATCCGGGCTAAT
* **
70989192 ACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTGTGG
1 ACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGG
70989256 TTATATCCGG
64 TTATATCCGG
70989266 TTGTATTCCG
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
79 2 0.03
80 64 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
ACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTT
ATATCCGGGCTAAT
Found at i:70990805 original size:50 final size:50
Alignment explanation
Indices: 70990751--70991133 Score: 367
Period size: 50 Copynumber: 7.6 Consensus size: 50
70990741 CTAGTATGCA
* * *
70990751 TAGTAGCCTGCACTTAGTACTACACATGCGACCTGTCAATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * * *
70990801 TAGTAGCCTGCACTTAGTGCTATACATGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* ** * * ***
70990851 TAGTAGCCTGCACTTAGTACTACACAGGTGATCAAAGTTAA-CGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACACG
* **
70990902 TAGTAGCCTGCACTAAGTACTACACATACGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * * * *
70990952 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATGCATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * ** * * * *
70991002 TAGTAGCCTACA-TTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACACG
70991052 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * *
70991102 TAGTAGCCTGTACTTAGTAATACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC
70991134 TCACAACGAA
Statistics
Matches: 260, Mismatches: 66, Indels: 14
0.76 0.19 0.04
Matches are distributed among these distances:
49 24 0.09
50 183 0.70
51 52 0.20
52 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
Found at i:70990952 original size:101 final size:101
Alignment explanation
Indices: 70990801--70990982 Score: 274
Period size: 101 Copynumber: 1.8 Consensus size: 101
70990791 CTAGTACACG
* * * ** * *
70990801 TAGTAGCCTGCACTTAGTGCTATACATGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTAAGTACTACACATACGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
*
70990866 AGTACTACACAGGTGATCAAAGTTAACGGGTACGTA
66 AGTACTACACACGTGATCAAAGTTAACGGGTACGTA
* *
70990902 TAGTAGCCTGCACTAAGTACTACACATACGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTAAGTACTACACATACGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
70990967 AGTACTACACACGTGA
66 AGTACTACACACGTGA
70990983 CTTAACCATC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTAAGTACTACACATACGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCAAAGTTAACGGGTACGTA
Found at i:70991085 original size:150 final size:151
Alignment explanation
Indices: 70990748--70991134 Score: 623
Period size: 150 Copynumber: 2.6 Consensus size: 151
70990738 TCTCTAGTAT
* *
70990748 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTGTCAATCTAGTACACGTAGTAGCCTGCA
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCA
* * * * *
70990813 CTTAGTGCTATACATGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACAG
66 CTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACAC
70990878 GTGATCAAAGTTAACGGGTAC
131 GTGATCAAAGTTAACGGGTAC
* * *
70990899 GTATAGTAGCCTGCACTAAGTACTACACATACGACCTATCAATCTGGTACACGTAGTAGCCTGCA
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCA
* *
70990964 CTTAGTACTACACACGTGACTTAACCATCTGATGCATGTAGTAGCCTACA-TTAGTACTACACAC
66 CTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACAC
*
70991028 GTGATCGAAGTTAACGGGTAC
131 GTGATCAAAGTTAACGGGTAC
* *
70991049 GCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTGTA
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCA
*
70991114 CTTAGTAATACACACGTGACT
66 CTTAGTACTACACACGTGACT
70991135 CACAACGAAT
Statistics
Matches: 217, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
150 113 0.52
151 104 0.48
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (151 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCA
CTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACAC
GTGATCAAAGTTAACGGGTAC
Found at i:70991509 original size:19 final size:20
Alignment explanation
Indices: 70991481--70991527 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
70991471 AAGAACAGGT
70991481 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
70991502 TA-ATATCAAATTACTCACA
1 TATATATCAAAATAATCACA
70991521 TATATAT
1 TATATAT
70991528 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:70996005 original size:25 final size:25
Alignment explanation
Indices: 70995976--70996023 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
70995966 TTATAACATG
* * *
70995976 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
70996001 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
70996024 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:70996104 original size:11 final size:11
Alignment explanation
Indices: 70996090--70996126 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
70996080 ACATGACATG
70996090 TATGATATGCA
1 TATGATATGCA
70996101 TATGATATG--
1 TATGATATGCA
70996110 TATGATATGCA
1 TATGATATGCA
*
70996121 CATGAT
1 TATGAT
70996127 GTATTCATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (11 bp):
TATGATATGCA
Found at i:70996126 original size:20 final size:20
Alignment explanation
Indices: 70996060--70996126 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
70996050 ATTTTGATAA
* *
70996060 ACATGGTATGTATGATACGC
1 ACATGATATGTATGATATGC
*
70996080 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
70996100 ATATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
70996120 ACATGAT
1 ACATGAT
70996127 GTATTCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:70996285 original size:23 final size:24
Alignment explanation
Indices: 70996176--70996367 Score: 282
Period size: 24 Copynumber: 8.0 Consensus size: 24
70996166 GAGGAAGTGC
*
70996176 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
70996200 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
70996224 AAAAAAGGGCTTATGCCCTAGTTATC
1 --AAAAGGGCTTATGCCCCAGTTATT
70996250 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
70996274 AAAA-GGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
70996297 AAAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
70996320 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
70996344 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
70996368 ATGATAAAGC
Statistics
Matches: 154, Mismatches: 8, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
23 45 0.29
24 76 0.49
25 11 0.07
26 22 0.14
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:70996301 original size:47 final size:48
Alignment explanation
Indices: 70996176--70996367 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 48
70996166 GAGGAAGTGC
70996176 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
70996224 AAAAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
70996274 AAAA-GGCTTATGCCCCAGTTATTAAAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* * *
70996320 AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-CCAGTTAT
70996368 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
46 14 0.11
47 56 0.42
48 8 0.06
49 8 0.06
50 47 0.35
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:71005364 original size:48 final size:48
Alignment explanation
Indices: 71005198--71005418 Score: 202
Period size: 48 Copynumber: 4.6 Consensus size: 48
71005188 ACTAAATGCC
* **
71005198 AATATCATGGCCCAAAGCCAACTCAAACTAACTCGTACCCGAAGTGCT
1 AATATCATGGCCCAAAGCCAAATCAATGTAACTCGTACCCGAAGTGCT
* * * *
71005246 AATATCATGGCCTGAAA-CC-AATCAAAGTAACTCGCACCCGAAGTGCC
1 AATATCATGGCC-CAAAGCCAAATCAATGTAACTCGTACCCGAAGTGCT
** * *
71005293 GGTATCATGGCTCAAAGCGAAATCAATGTATA-TCGTACCCGAAGTGCT
1 AATATCATGGCCCAAAGCCAAATCAATGTA-ACTCGTACCCGAAGTGCT
** *
71005341 AATATCATGGCCCAAAGCCAAATC--TGTAAAGCTCACACCTGAAGTG-T
1 AATATCATGGCCCAAAGCCAAATCAATGT-AA-CTCGTACCCGAAGTGCT
* * *
71005388 CGATATCATGACCCGAAGCCAAATCAATGTA
1 -AATATCATGGCCCAAAGCCAAATCAATGTA
71005419 TCCCCTAATG
Statistics
Matches: 140, Mismatches: 23, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
46 7 0.05
47 36 0.26
48 89 0.64
49 5 0.04
50 3 0.02
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (48 bp):
AATATCATGGCCCAAAGCCAAATCAATGTAACTCGTACCCGAAGTGCT
Found at i:71011353 original size:45 final size:44
Alignment explanation
Indices: 71011289--71011502 Score: 233
Period size: 45 Copynumber: 4.9 Consensus size: 44
71011279 ATCGTACGAC
* *
71011289 ACTATTC-GGCCTTTGAGCCTACCAGGCTATAATGCCGATGAGAT
1 ACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCG-TGAGAT
71011333 ACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCC-GTGAGAT
* * *
71011378 ACTATTCAGGCCTTTGAGCCTAGCAGGCTACAATGCCTGTGAGAT
1 ACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCC-GTGAGAT
* * *
71011423 ACTATTCGGG-TTTTCAAGCCTAGTAGGCTATAATGCCGGTGAAAT
1 ACTATTCGGGCCTTT-AAGCCTAGCAGGCTATAATGCC-GTGAGAT
** *
71011468 GA-TA-TCGGGCC-TCGAGCCTAGCAGGCGA-AATGCCG
1 -ACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCG
71011503 GTGAATGAAT
Statistics
Matches: 147, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 6 0.04
43 12 0.08
44 16 0.11
45 110 0.75
46 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (44 bp):
ACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCGTGAGAT
Found at i:71011451 original size:90 final size:87
Alignment explanation
Indices: 71011289--71011549 Score: 286
Period size: 90 Copynumber: 3.0 Consensus size: 87
71011279 ATCGTACGAC
* *
71011289 ACTATTCGGCCTTTGAGCCTACCAGGCTATAATGCCGATGAGATACTATTCGGGCCTTTAAGCCT
1 ACTATTCGGCCTTTGAGCCTAGCAGGCTA-AATGCCG-TGAGATACTATTCGGG-TTTTAAGCCT
*
71011354 AGCAGGCTATAATGCCGGTGAGAT-
63 AGCAGGCTATAATGCCGGTGAAATG
71011378 ACTATTCAGGCCTTTGAGCCTAGCAGGCTACAATGCCTGTGAGATACTATTCGGGTTTTCAAGCC
1 ACTATTC-GGCCTTTGAGCCTAGCAGGCTA-AATGCC-GTGAGATACTATTCGGGTTTT-AAGCC
*
71011443 TAGTAGGCTATAATGCCGGTGAAATG
62 TAGCAGGCTATAATGCCGGTGAAATG
* * * *
71011469 A-TA-TCGGGCC-TCGAGCCTAGCAGGCGAAATGCCGGTGA-ATGA--ATTCAGGTTTTTAAAAC
1 ACTATTC-GGCCTTTGAGCCTAGCAGGCTAAATGCC-GTGAGAT-ACTATTC-GGGTTTT-AAGC
71011528 CTAGCAGGCTA-AATGCCGGTGA
61 CTAGCAGGCTATAATGCCGGTGA
71011550 TTTGATGAAA
Statistics
Matches: 153, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
85 15 0.10
86 21 0.14
87 11 0.07
88 15 0.10
89 16 0.10
90 73 0.48
91 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (87 bp):
ACTATTCGGCCTTTGAGCCTAGCAGGCTAAATGCCGTGAGATACTATTCGGGTTTTAAGCCTAGC
AGGCTATAATGCCGGTGAAATG
Found at i:71015038 original size:28 final size:28
Alignment explanation
Indices: 71014998--71015067 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
71014988 ATGAAAATTT
* *
71014998 CACTAAGCATGCGAGTTTGGTTAAT-GAG
1 CACTAAGTATGCGAGTTTGATT-ATCGAG
*
71015026 CACTAAGTGTGCGAGTTTGATTATCGAG
1 CACTAAGTATGCGAGTTTGATTATCGAG
71015054 CACTAAGTATGCGA
1 CACTAAGTATGCGA
71015068 AGAAAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.05
28 35 0.95
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
CACTAAGTATGCGAGTTTGATTATCGAG
Found at i:71020669 original size:43 final size:43
Alignment explanation
Indices: 71020579--71020745 Score: 144
Period size: 43 Copynumber: 3.9 Consensus size: 43
71020569 ATCGAGATGT
* * *
71020579 GATTACATGTAATACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATATTTGGGACATTGGCATTGTAATGA
* *
71020622 GATTACATATAAGACCATATTTGGGACATTGGCATCAT-TAAT-C
1 GATTACATGTAAGACCATATTTGGGACATTGGCAT--TGTAATGA
* * * * * * *
71020665 GATTACATGTAAGACCCTGTCTAGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATATTTGGGACATTGGCATTGTA-ATGA
* * *
71020708 GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 GATTACATGTAAGACCATATTTGGGACATTGGCATTGTA
71020746 CGAGCTATAT
Statistics
Matches: 99, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 85 0.86
44 3 0.03
45 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATATTTGGGACATTGGCATTGTAATGA
Found at i:71020724 original size:86 final size:85
Alignment explanation
Indices: 71020579--71020741 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 85
71020569 ATCGAGATGT
* * * * * * *
71020579 GATTACATGTAATACCATGTTTGGGACATTGGCATTGTATTGAGATTACATATAAGACCATATTT
1 GATTACATGTAAGACCATGTCTAGGACAGTGGCATCGTATTGAGATAACATATAAGACCATATCT
71020644 GGGACATTGGCATCATTAATC
66 GGGACA-TGGCATCATTAATC
* * *
71020665 GATTACATGTAAGACCCTGTCTAGGACAGTGGCATCG-ATATGTGATAACATGTAAGACCATATC
1 GATTACATGTAAGACCATGTCTAGGACAGTGGCATCGTAT-TGAGATAACATATAAGACCATATC
*
71020729 TGGGATATGGCAT
65 TGGGACATGGCAT
71020742 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 8 0.12
86 57 0.88
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTCTAGGACAGTGGCATCGTATTGAGATAACATATAAGACCATATCT
GGGACATGGCATCATTAATC
Found at i:71021776 original size:13 final size:13
Alignment explanation
Indices: 71021760--71021784 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71021750 CGGTCATATT
71021760 ATACGGCCTAGAC
1 ATACGGCCTAGAC
71021773 ATACGGCCTAGA
1 ATACGGCCTAGA
71021785 TACACGGGCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (13 bp):
ATACGGCCTAGAC
Found at i:71023944 original size:20 final size:19
Alignment explanation
Indices: 71023898--71023944 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
71023888 GTAATTCATG
71023898 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
71023917 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
71023938 TTTAATT
1 TTTAATT
71023945 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:71027823 original size:24 final size:20
Alignment explanation
Indices: 71027796--71027846 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
71027786 TTTGTACCCA
71027796 AATTCAAGACATCAGAAACATACC
1 AATTCAAG-CAT--GAAACA-ACC
*
71027820 AATTCATGCATGAAACAACC
1 AATTCAAGCATGAAACAACC
71027840 AATTCAA
1 AATTCAA
71027847 TAGTCCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 9 0.36
21 6 0.24
23 3 0.12
24 7 0.28
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.20
Consensus pattern (20 bp):
AATTCAAGCATGAAACAACC
Found at i:71030963 original size:9 final size:9
Alignment explanation
Indices: 71030949--71030980 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
71030939 TACGCATTGG
71030949 TTGTTGCTA
1 TTGTTGCTA
71030958 TTGTTGCTA
1 TTGTTGCTA
71030967 TTGTTGCTA
1 TTGTTGCTA
71030976 TTGTT
1 TTGTT
71030981 CTCGATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.09, C:0.09, G:0.22, T:0.59
Consensus pattern (9 bp):
TTGTTGCTA
Found at i:71032909 original size:14 final size:14
Alignment explanation
Indices: 71032851--71032909 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
71032841 ACCTAAACCG
*
71032851 ACCAATTCGTTCAT
1 ACCATTTCGTTCAT
*
71032865 ATCC-CTTCGTTCAT
1 A-CCATTTCGTTCAT
* *
71032879 ACCATTTCATTCCT
1 ACCATTTCGTTCAT
*
71032893 ACCATTTCGTTCGT
1 ACCATTTCGTTCAT
71032907 ACC
1 ACC
71032910 CCTCTTTCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 2 0.05
14 33 0.89
15 2 0.05
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (14 bp):
ACCATTTCGTTCAT
Found at i:71034130 original size:26 final size:26
Alignment explanation
Indices: 71034099--71034201 Score: 163
Period size: 26 Copynumber: 4.0 Consensus size: 26
71034089 CAAATTGATA
71034099 AGGTTAGGTAAATG-TTCAATGATAAT
1 AGGTTAGGTAAATGTTTC-ATGATAAT
*
71034125 AGGTTAGGTAAATGTTCCATGATAAT
1 AGGTTAGGTAAATGTTTCATGATAAT
*
71034151 GGGTTAGGTAAATGTTTCATGATAAT
1 AGGTTAGGTAAATGTTTCATGATAAT
*
71034177 GGGTTAGGTAAATGTTTCATGATAA
1 AGGTTAGGTAAATGTTTCATGATAA
71034202 GAATTTCATG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
26 71 0.97
27 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
AGGTTAGGTAAATGTTTCATGATAAT
Found at i:71035861 original size:27 final size:27
Alignment explanation
Indices: 71035820--71035932 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
71035810 GAGGAAGCGT
*
71035820 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
71035847 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
71035874 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
71035902 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
71035928 TCTGG
1 TCTGG
71035933 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:71035925 original size:54 final size:54
Alignment explanation
Indices: 71035818--71035932 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
71035808 TGGAGGAAGC
*
71035818 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
71035872 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
71035926 GTTCTGG
1 GTTCTGG
71035933 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:71036027 original size:21 final size:20
Alignment explanation
Indices: 71035994--71036032 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
71035984 CTCCCCACAC
71035994 GGTGTAAGGTTGG-TATGGG
1 GGTGTAAGGTTGGATATGGG
71036013 GGTGTATACGGTTGGATATG
1 GGTGTA-A-GGTTGGATATG
71036033 TTTGGGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 6 0.35
22 4 0.24
ACGTcount: A:0.18, C:0.03, G:0.46, T:0.33
Consensus pattern (20 bp):
GGTGTAAGGTTGGATATGGG
Found at i:71038102 original size:29 final size:29
Alignment explanation
Indices: 71038070--71038201 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
71038060 ATAGTGAATC
71038070 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
71038099 CGCACACTTAGTGCTATATAATTTTTAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
71038129 CACACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
71038158 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71038187 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71038202 GTACAATTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 70 0.72
30 27 0.28
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:71038211 original size:59 final size:59
Alignment explanation
Indices: 71038070--71038201 Score: 230
Period size: 59 Copynumber: 2.3 Consensus size: 59
71038060 ATAGTGAATC
*
71038070 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTTAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* *
71038129 CACACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
71038187 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71038202 GTACAATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
58 22 0.32
59 47 0.68
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:71042522 original size:40 final size:39
Alignment explanation
Indices: 71042478--71042672 Score: 118
Period size: 40 Copynumber: 5.1 Consensus size: 39
71042468 GGTTTATTTG
* *
71042478 ACTAGTGCAGGGCACACATTTGATATCATCTATTTATCTA
1 ACTAGTGCAGGGCACACATTTGATAT-GTCAATTTATCTA
** * * ** **
71042518 ACTAGTGTTGGGCA-A-A-CTCAT-TGTCGGTTTATCCG
1 ACTAGTGCAGGGCACACATTTGATATGTCAATTTATCTA
71042553 ACTAGTGCAGGGCACACATTTGATATTGTCAATTTATCTA
1 ACTAGTGCAGGGCACACATTTGATA-TGTCAATTTATCTA
** * * * **
71042593 ACTAGTGTTGGGCA-A-A-CTCAT-TGTCAGTTTATCCG
1 ACTAGTGCAGGGCACACATTTGATATGTCAATTTATCTA
** * *
71042628 ACTAGTGGTGGGCACACATTTGATATCGTCAGTTTATCTG
1 ACTAGTGCAGGGCACACATTTGATAT-GTCAATTTATCTA
71042668 ACTAG
1 ACTAG
71042673 CACTTGGTGA
Statistics
Matches: 117, Mismatches: 28, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
35 44 0.38
36 3 0.03
37 8 0.07
38 8 0.07
39 3 0.03
40 51 0.44
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (39 bp):
ACTAGTGCAGGGCACACATTTGATATGTCAATTTATCTA
Found at i:71042547 original size:75 final size:75
Alignment explanation
Indices: 71042434--71042795 Score: 390
Period size: 75 Copynumber: 4.8 Consensus size: 75
71042424 TATTTGTCAG
* * * * **
71042434 TTTATCTGACTAGCGCTGGACACAACTCATTGTTGGTTTATTTGACTAGTGCAGGGCACACATTT
1 TTTATCTAACTAGCGTTGGGCA-AACTCATTGTCGGTTTATCCGACTAGTGCAGGGCACACATTT
71042499 GATATCATCTA
65 GATATCATCTA
*
71042510 TTTATCTAACTAGTGTTGGGCAAACTCATTGTCGGTTTATCCGACTAGTGCAGGGCACACATTTG
1 TTTATCTAACTAGCGTTGGGCAAACTCATTGTCGGTTTATCCGACTAGTGCAGGGCACACATTTG
** *
71042575 ATATTGTCAA
66 ATATCATCTA
* * **
71042585 TTTATCTAACTAGTGTTGGGCAAACTCATTGTCAGTTTATCCGACTAGTGGTGGGCACACATTTG
1 TTTATCTAACTAGCGTTGGGCAAACTCATTGTCGGTTTATCCGACTAGTGCAGGGCACACATTTG
*
71042650 ATATCGTC-A
66 ATATCATCTA
* * * * **
71042659 GTTTATCTGACTAGCACTTGGTG-AAAAT-ATTGTCGGTTTATTCGACTAGTGGTGGGCACACAT
1 -TTTATCTAACTAGC-GTTGG-GCAAACTCATTGTCGGTTTATCCGACTAGTGCAGGGCACACAT
*
71042722 TTGATATCAT-TGG
63 TTGATATCATCT-A
* * ** * *
71042735 TTTATCCAACTAGCGCTGGGCACAAAACATTGTCGGTTTATCTGACTAGTGCAGAGCACAC
1 TTTATCTAACTAGCGTTGGGCA-AACTCATTGTCGGTTTATCCGACTAGTGCAGGGCACAC
71042796 CTATTATCGG
Statistics
Matches: 246, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
73 1 0.00
74 5 0.02
75 185 0.75
76 54 0.22
77 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (75 bp):
TTTATCTAACTAGCGTTGGGCAAACTCATTGTCGGTTTATCCGACTAGTGCAGGGCACACATTTG
ATATCATCTA
Found at i:71042557 original size:35 final size:35
Alignment explanation
Indices: 71042518--71042641 Score: 122
Period size: 35 Copynumber: 3.4 Consensus size: 35
71042508 TATTTATCTA
*
71042518 ACTAGTGTTGGGCAAACTCATTGTCGGTTTATCCG
1 ACTAGTGTTGGGCAAACTCATTGTCAGTTTATCCG
** * * * **
71042553 ACTAGTGCAGGGCACACATTTGATATTGTCAATTTATCTA
1 ACTAGTGTTGGGCA-A-A-CT--CATTGTCAGTTTATCCG
71042593 ACTAGTGTTGGGCAAACTCATTGTCAGTTTATCCG
1 ACTAGTGTTGGGCAAACTCATTGTCAGTTTATCCG
*
71042628 ACTAGTGGTGGGCA
1 ACTAGTGTTGGGCA
71042642 CACATTTGAT
Statistics
Matches: 68, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
35 38 0.56
36 1 0.01
37 2 0.03
38 2 0.03
39 1 0.01
40 24 0.35
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (35 bp):
ACTAGTGTTGGGCAAACTCATTGTCAGTTTATCCG
Found at i:71042783 original size:36 final size:36
Alignment explanation
Indices: 71042733--71042838 Score: 108
Period size: 35 Copynumber: 3.0 Consensus size: 36
71042723 TGATATCATT
*
71042733 GGTTTATCCAACTAGCGCTGGGCACAAAACATTGTC
1 GGTTTATCCGACTAGCGCTGGGCACAAAACATTGTC
* * * * * *
71042769 GGTTTATCTGACTAGTGCAGAGCAC--ACCTATTATC
1 GGTTTATCCGACTAGCGCTGGGCACAAAAC-ATTGTC
* *
71042804 GGTTTATCCGACTAGCGCTGGGCAAAAAACTTTGT
1 GGTTTATCCGACTAGCGCTGGGCACAAAACATTGT
71042839 TATGGTTTAT
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
34 2 0.04
35 25 0.48
36 23 0.44
37 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (36 bp):
GGTTTATCCGACTAGCGCTGGGCACAAAACATTGTC
Found at i:71042940 original size:24 final size:24
Alignment explanation
Indices: 71042913--71042958 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
71042903 GATCCATTGA
* *
71042913 AAAAGGTTGAAAATGATATAAATG
1 AAAAGGTTAAAAAGGATATAAATG
71042937 AAAAGGTTAAAAAGGATATAAA
1 AAAAGGTTAAAAAGGATATAAA
71042959 CAAAAATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (24 bp):
AAAAGGTTAAAAAGGATATAAATG
Found at i:71042964 original size:24 final size:24
Alignment explanation
Indices: 71042912--71042969 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
71042902 TGATCCATTG
* * *
71042912 AAAAAGGTTGAAAATGATATAAAT
1 AAAAAGGTTAAAAAGGATATAAAC
*
71042936 GAAAAGGTTAAAAAGGATATAAAC
1 AAAAAGGTTAAAAAGGATATAAAC
*
71042960 AAAAATGTTA
1 AAAAAGGTTA
71042970 GTATCTCATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.59, C:0.02, G:0.17, T:0.22
Consensus pattern (24 bp):
AAAAAGGTTAAAAAGGATATAAAC
Found at i:71045078 original size:43 final size:44
Alignment explanation
Indices: 71045025--71045138 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 44
71045015 ATATCCGAGA
* *
71045025 TATGGTCTTACACATTATCACATATCGATGCCAATAG-CCCAG-C
1 TATGGTCTTACACATAATCACATAACGATGCCAAT-GTCCCAGAC
* * *
71045068 TATGGTCTTACACAAAATCAAATAACAATGCCAATGTCCCAGAC
1 TATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
*
71045112 -ATGGT-TTACACGTAATCACATAACGAT
1 TATGGTCTTACACATAATCACATAACGAT
71045139 AATCCTAATG
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 19 0.32
43 40 0.67
44 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (44 bp):
TATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
Found at i:71045135 original size:42 final size:43
Alignment explanation
Indices: 71045009--71045135 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
71044999 TAGCTCATAT
* * * * *
71045009 AATGCC-ATATCCGAGATATGGTCTTACACATTATCACATATC
1 AATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAAC
* * *
71045051 GATGCCAATAG-CCCAG-CTATGGTCTTACACAAAATCAAATAAC
1 AATGCCAAT-GTCCCAGAC-ATGGTCTTACACATAATCACATAAC
*
71045094 AATGCCAATGTCCCAGACATGGT-TTACACGTAATCACATAAC
1 AATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAAC
71045136 GATAATCCTA
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
42 22 0.32
43 45 0.66
44 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAAC
Found at i:71053386 original size:33 final size:38
Alignment explanation
Indices: 71053344--71053425 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 38
71053334 GTAAAAACAC
71053344 AATAGTAATAATAATGA-AA-A-GGTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
*
71053377 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAG-GGTATTAGTAATAAT
*
71053416 AATAATAATA
1 AATAGTAATA
71053426 GAAAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 1 0.02
37 7 0.17
38 4 0.10
39 11 0.27
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.34
Consensus pattern (38 bp):
AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
Found at i:71053434 original size:19 final size:18
Alignment explanation
Indices: 71053410--71053451 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
71053400 TGGTATTAGT
*
71053410 AATAATAATAATAATAGAA
1 AATAATAACAATAATA-AA
*
71053429 AATAATAACAATATTAAA
1 AATAATAACAATAATAAA
71053447 AATAA
1 AATAA
71053452 CACTCTCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAATAACAATAATAAA
Found at i:71053854 original size:13 final size:13
Alignment explanation
Indices: 71053836--71053898 Score: 89
Period size: 13 Copynumber: 5.2 Consensus size: 13
71053826 AGTGGTTGGG
71053836 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
*
71053849 GTGGTTTAGTGTA
1 GTGGTTTAGTGGA
71053862 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
71053875 GTGG--T--TGGA
1 GTGGTTTAGTGGA
71053884 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
71053897 GT
1 GT
71053899 AAAGATATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 8 0.18
11 2 0.05
13 34 0.77
ACGTcount: A:0.14, C:0.00, G:0.46, T:0.40
Consensus pattern (13 bp):
GTGGTTTAGTGGA
Found at i:71053865 original size:26 final size:22
Alignment explanation
Indices: 71053821--71053898 Score: 102
Period size: 22 Copynumber: 3.4 Consensus size: 22
71053811 TTTGTAGGCA
* *
71053821 AGTGAAGTGGTTGGGGTGGTTT
1 AGTGGAGTGGTTGGAGTGGTTT
71053843 AGTGGAGTGGTTTAGTGTAGTGGTTT
1 AGTGGAGTGG-TT-G-G-AGTGGTTT
71053869 AGTGGAGTGGTTGGAGTGGTTT
1 AGTGGAGTGGTTGGAGTGGTTT
71053891 AGTGGAGT
1 AGTGGAGT
71053899 AAAGATATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
22 25 0.50
23 3 0.06
24 2 0.04
25 3 0.06
26 17 0.34
ACGTcount: A:0.15, C:0.00, G:0.47, T:0.37
Consensus pattern (22 bp):
AGTGGAGTGGTTGGAGTGGTTT
Found at i:71056428 original size:47 final size:47
Alignment explanation
Indices: 71056377--71056620 Score: 326
Period size: 47 Copynumber: 5.1 Consensus size: 47
71056367 TTAGGATTTT
*
71056377 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** * *
71056424 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
71056477 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
71056524 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
71056571 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
71056618 ATG
1 ATG
71056621 CGAAATGTGT
Statistics
Matches: 174, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
47 131 0.75
48 1 0.01
52 1 0.01
53 41 0.24
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:71056730 original size:46 final size:46
Alignment explanation
Indices: 71056594--71056730 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
71056584 GAACATGTAT
* *
71056594 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
71056640 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
71056686 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
71056731 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:71056987 original size:37 final size:37
Alignment explanation
Indices: 71056879--71056987 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
71056869 GGAAATATAT
*
71056879 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
71056916 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
71056953 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
71056988 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:71058565 original size:40 final size:40
Alignment explanation
Indices: 71058202--71058553 Score: 515
Period size: 40 Copynumber: 8.8 Consensus size: 40
71058192 GTTCATTGAG
* * *
71058202 AGTGATATACCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
71058242 AGTGATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
71058282 AGTGATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
71058322 AGTGATGTATCCGGGATAAGTCCCGAAGATCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
71058362 AGTGATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
71058402 AGTGATGTATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
71058442 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
71058482 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
71058522 GGTGTTATATCCAGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
71058554 ATCATGCTGG
Statistics
Matches: 284, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 284 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:71059088 original size:13 final size:13
Alignment explanation
Indices: 71059070--71059103 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
71059060 TAAGTGATAC
71059070 AGGTATGTACGGA
1 AGGTATGTACGGA
71059083 AGGTATGTACGGA
1 AGGTATGTACGGA
71059096 AGGTATGT
1 AGGTATGT
71059104 GAAAATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.06, G:0.38, T:0.26
Consensus pattern (13 bp):
AGGTATGTACGGA
Found at i:71062440 original size:25 final size:25
Alignment explanation
Indices: 71062410--71062487 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
71062400 TAGGATTTTA
71062410 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * * *
71062435 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
71062457 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
71062482 TGTGAT
1 TGTGAT
71062488 AAGGCCGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 14 0.37
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:71062460 original size:47 final size:47
Alignment explanation
Indices: 71062409--71062699 Score: 402
Period size: 47 Copynumber: 6.1 Consensus size: 47
71062399 TTAGGATTTT
*
71062409 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
71062456 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** * *
71062503 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
71062556 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
71062603 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
71062650 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
71062697 ATG
1 ATG
71062700 CGAAATGTGT
Statistics
Matches: 219, Mismatches: 19, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
47 177 0.81
48 1 0.00
52 1 0.00
53 40 0.18
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:71062558 original size:100 final size:95
Alignment explanation
Indices: 71062409--71062691 Score: 399
Period size: 100 Copynumber: 2.9 Consensus size: 95
71062399 TTAGGATTTT
* * *
71062409 ATGTGATGAATGTGAACATGCGTATGT-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATACATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
71062473 ATGCGTATGTGTGATAAGGCCGAATAGCCA
66 ATGCGTATGTGTGATAAGGCCGAATAGCCA
* *
71062503 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCAAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAA-C---ATACATATATG-GTGATAAGGCCGAATGGCCAATGTGATGAATG
*
71062568 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
61 TGAACATGCGTATGTGTGATAAGGCCGAATAGCCA
* *
71062603 ATGTGATGAATGTGAACATGCATATAT-GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATACATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
** * *
71062667 ATGTATATATGTGGTAAGGCCGAAT
66 ATGCGTATGTGTGATAAGGCCGAAT
71062692 GGCTAATGCG
Statistics
Matches: 169, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
94 72 0.43
95 1 0.01
96 8 0.05
98 6 0.04
99 1 0.01
100 81 0.48
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (95 bp):
ATGTGATGAATGTGAACATACATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
ATGCGTATGTGTGATAAGGCCGAATAGCCA
Found at i:71062573 original size:147 final size:147
Alignment explanation
Indices: 71062409--71062676 Score: 491
Period size: 147 Copynumber: 1.8 Consensus size: 147
71062399 TTAGGATTTT
71062409 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * * *
71062474 TGCGTATGTGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTG
66 TGCATATATGAGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGTATATATATATGCGTG
71062539 ATAAGGCCAAATGGCCA
131 ATAAGGCCAAATGGCCA
71062556 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
71062621 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATAT
66 TGCATATATGAGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGTATATAT
71062677 GTGGTAAGGC
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
147 116 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (147 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGAGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGTATATATATATGCGTG
ATAAGGCCAAATGGCCA
Found at i:71062809 original size:46 final size:46
Alignment explanation
Indices: 71062673--71062809 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
71062663 GAACATGTAT
* *
71062673 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
71062719 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
71062765 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
71062810 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:71063066 original size:37 final size:37
Alignment explanation
Indices: 71062958--71063066 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
71062948 GGAAATATAT
*
71062958 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
71062995 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * **
71063032 TCCGGGTAAGACCTGATAACTTTGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
71063067 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:71068317 original size:6 final size:6
Alignment explanation
Indices: 71068299--71068407 Score: 64
Period size: 6 Copynumber: 17.7 Consensus size: 6
71068289 AAGAAACATT
* * *
71068299 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
71068348 ATCAGA ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAAGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATC-AG-A
71068399 A-CAGA ATCA
1 ATCAGA ATCA
71068408 AAAATTAGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
5 6 0.08
6 61 0.78
7 8 0.10
8 3 0.04
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:71068344 original size:31 final size:31
Alignment explanation
Indices: 71068308--71068410 Score: 143
Period size: 31 Copynumber: 3.3 Consensus size: 31
71068298 TATCAGAACT
* * * *
71068308 AGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
*
71068339 AGAATCAGAATCAGAATCAGTATTAGGTAAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
* *
71068370 AGAATCAAAATCAGAATCAGTATCAAGTAAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
71068401 AGAATCAAAA
1 AGAATCAAAA
71068411 ATTAGAATGT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATTAGGTAAC
Found at i:71068597 original size:27 final size:26
Alignment explanation
Indices: 71068556--71068656 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
71068546 CTTAGTTATT
* * *
71068556 AGATACTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
71068583 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
71068609 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATA-TTGTGGCAGAGCCACCAG-AAC
* *
71068637 AGATAATGTGGCAAAGCCAC
1 AGATATTGTGGCAGAGCCAC
71068657 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:71068851 original size:22 final size:22
Alignment explanation
Indices: 71068817--71068879 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
71068807 AAATACGTTC
71068817 GGCACACAA-CCATAATCAGGTT
1 GGCACA-AAGCCATAATCAGGTT
* *
71068839 GGCACAGAGCCAT-ATGTAGGTT
1 GGCACAAAGCCATAAT-CAGGTT
*
71068861 GACACAAAGCCATAATCAG
1 GGCACAAAGCCATAATCAG
71068880 AAGGCTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTT
Found at i:71069776 original size:27 final size:27
Alignment explanation
Indices: 71069368--71069768 Score: 486
Period size: 27 Copynumber: 14.9 Consensus size: 27
71069358 TAGTGTTTTA
* * *
71069368 GTAATTCTACCCTACAGAGGTCTTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
71069395 ATAATTCTATCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
71069422 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
71069449 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
71069476 GTAATTCTACCCTACAGGGTTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
71069503 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
71069530 GTAATTCTACCCTACA-GGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
71069556 GTAATTCTACCCTATA-GGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
71069582 ATAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
71069609 GTAATTCTACCGTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
71069636 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
71069663 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* ** * *
71069690 GTAATTTTA-CAAACTAGAGGTATTTTG
1 GTAATTCTACCCTAC-AGGGGTATTTCG
* ** **
71069717 GTAATTTTA-CAAACTAGGGGTATTTTA
1 GTAATTCTACCCTAC-AGGGGTATTTCG
* *
71069744 GTAATTCTATCCTACAAGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
71069769 TAGTAATTTC
Statistics
Matches: 333, Mismatches: 38, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
26 52 0.16
27 278 0.83
28 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:71069820 original size:27 final size:27
Alignment explanation
Indices: 71069781--71069875 Score: 136
Period size: 27 Copynumber: 3.5 Consensus size: 27
71069771 GTAATTTCAC
*
71069781 AATCGAGGATAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
71069808 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
71069835 AATCAAGGGTAAAACGGTAACTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
71069862 AATCGAGGGTAAAA
1 AATCGAGGGTAAAA
71069876 TGTAATTCTA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:71069862 original size:54 final size:53
Alignment explanation
Indices: 71069781--71069882 Score: 150
Period size: 54 Copynumber: 1.9 Consensus size: 53
71069771 GTAATTTCAC
* * * *
71069781 AATCGAGGATAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTA
1 AATCAAGGATAAAACGGTAACTCTGTAAATCGAGGGTAAAAT-GTAATTTTGTA
*
71069835 AATCAAGGGTAAAACGGTAACTCTGTAAATCGAGGGTAAAATGTAATT
1 AATCAAGGATAAAACGGTAACTCTGTAAATCGAGGGTAAAATGTAATT
71069883 CTATAATTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 6 0.14
54 37 0.86
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (53 bp):
AATCAAGGATAAAACGGTAACTCTGTAAATCGAGGGTAAAATGTAATTTTGTA
Found at i:71069917 original size:27 final size:27
Alignment explanation
Indices: 71069886--71069944 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
71069876 TGTAATTCTA
*
71069886 TAATTCTACCCTATAGGGATA-TTCTGG
1 TAATTCTACCCTACAGGGATATTTC-GG
*
71069913 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGATATTTCGG
71069940 TAATT
1 TAATT
71069945 TTACAAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGATATTTCGG
Found at i:71069957 original size:27 final size:27
Alignment explanation
Indices: 71069926--71070053 Score: 184
Period size: 27 Copynumber: 4.7 Consensus size: 27
71069916 TTCTACCCTA
*
71069926 CAGGGGTATTTCGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* *
71069953 TAGGGGTATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
71069980 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
71070007 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
71070034 CAAGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
71070054 GGTAAACTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:71069969 original size:54 final size:54
Alignment explanation
Indices: 71069899--71070053 Score: 168
Period size: 54 Copynumber: 2.9 Consensus size: 54
71069889 TTCTACCCTA
* * **
71069899 TAGGGATATTCTGGTAATTCTACCCTA-CAGGGGTATTTCGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTCTA-CAAACCAGGGGTATTTCGGTAATTTTACAAAC
* * * *
71069953 TAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTATAAAC
1 TAGGGGTATTTTGGTAATTCTACAAACCAGGGGTATTTCGGTAATTTTACAAAC
* * * * * *
71070007 AAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTT
1 TAGGGGTATTTTGGTAATTCTACAAACCAGGGGTATTTCGGTAATTT
71070054 GGTAAACTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 86 0.99
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (54 bp):
TAGGGGTATTTTGGTAATTCTACAAACCAGGGGTATTTCGGTAATTTTACAAAC
Found at i:71072014 original size:6 final size:6
Alignment explanation
Indices: 71071990--71072115 Score: 89
Period size: 6 Copynumber: 20.3 Consensus size: 6
71071980 AAGAAACATT
* * *
71071990 ATCAGA A-CTAGA GTCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
71072039 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
*
71072088 ATCAGGTA A-CAGA ATCAAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATC-AGA ATCAGA AT
71072116 GTGAATGCAA
Statistics
Matches: 94, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
5 6 0.06
6 71 0.76
7 14 0.15
8 3 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:71072041 original size:31 final size:31
Alignment explanation
Indices: 71072007--71072115 Score: 119
Period size: 31 Copynumber: 3.3 Consensus size: 31
71071997 CTAGAGTCAG
* *
71072007 AATCAGAATCAGAATTAGGTGACAGAATCAG
1 AATCAGAATCAGAATTAGGTAACAGAATCAA
71072038 AATCAGAATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAG-A--A-T-T-AGGTAACAGAATCAA
* *
71072075 AATCAGAATCAGTATCAGGTAACAGAATCAAA
1 AATCAGAATCAGAATTAGGTAACAGAATC-AA
71072107 AATCAGAAT
1 AATCAGAAT
71072116 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
31 25 0.37
32 12 0.18
33 1 0.01
34 2 0.03
35 1 0.01
36 1 0.01
37 25 0.37
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATTAGGTAACAGAATCAA
Found at i:71072044 original size:37 final size:37
Alignment explanation
Indices: 71072003--71072115 Score: 139
Period size: 37 Copynumber: 3.2 Consensus size: 37
71071993 AGAACTAGAG
* * *
71072003 TCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAA
1 TCAGAATCAGAATCAGAATCAGGTAACAGAATCAAAA
*
71072040 TCAGAATCAGAATCAGTATCAGGTAACAGAATCAAAA
1 TCAGAATCAGAATCAGAATCAGGTAACAGAATCAAAA
71072077 TCAGAATCAG--T----ATCAGGTAACAGAATCAAAAA
1 TCAGAATCAGAATCAGAATCAGGTAACAGAATC-AAAA
71072109 TCAGAAT
1 TCAGAAT
71072116 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
31 16 0.23
32 11 0.15
35 1 0.01
37 43 0.61
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (37 bp):
TCAGAATCAGAATCAGAATCAGGTAACAGAATCAAAA
Found at i:71072282 original size:27 final size:26
Alignment explanation
Indices: 71072252--71072353 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
71072242 GCTCAGTTAT
* *
71072252 CAGATATTGTGACAGAGTCACCAAATA
1 CAGATATTGTGGCAGAGCCACCAAA-A
*
71072279 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAAAA
*
71072305 CAGATAATTGTGGCATAGCCACCAGAAA
1 CAGAT-ATTGTGGCAGAGCCACCA-AAA
* *
71072333 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
71072354 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.09
27 53 0.80
28 7 0.11
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAAAA
Found at i:71072549 original size:22 final size:22
Alignment explanation
Indices: 71072521--71072577 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
71072511 TTCGGTACAT
* * *
71072521 AGCCATAATCAGGTTGGCACAG
1 AGCCATAATCAGATTGACACAA
*
71072543 AGCCAT-ATGTAGATTGACACAA
1 AGCCATAAT-CAGATTGACACAA
71072565 AGCCATAATCAGA
1 AGCCATAATCAGA
71072578 AGGCTTTAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 2 0.07
22 24 0.86
23 2 0.07
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (22 bp):
AGCCATAATCAGATTGACACAA
Found at i:71074265 original size:68 final size:67
Alignment explanation
Indices: 71074193--71074340 Score: 176
Period size: 67 Copynumber: 2.2 Consensus size: 67
71074183 CATCATGTGT
* * * *
71074193 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC-AG-CA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
71074255 ATGTAG
62 ATGTAG
* * *
71074261 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
71074326 AG
66 AG
71074328 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
71074341 GAGATAAACT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:71076600 original size:27 final size:27
Alignment explanation
Indices: 71076543--71076872 Score: 430
Period size: 27 Copynumber: 12.3 Consensus size: 27
71076533 GGGGCAAAAT
* * * *
71076543 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71076569 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71076596 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71076623 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71076650 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71076677 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71076704 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71076731 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71076758 GGTAATTCTACACTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71076785 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
71076812 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* *
71076839 GGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71076866 AGTAATT
1 GGTAATT
71076873 TCACAATCGA
Statistics
Matches: 263, Mismatches: 38, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
26 17 0.06
27 243 0.92
28 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:71076932 original size:27 final size:27
Alignment explanation
Indices: 71076894--71076952 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
71076884 GGTAGAACGA
71076894 TAATTTTGTAAACT-AAGAGTAAAATGG
1 TAATTTTGTAAACTGAAG-GTAAAATGG
* *
71076921 TAATTTTGTAAATTGATGGTAAAATGG
1 TAATTTTGTAAACTGAAGGTAAAATGG
71076948 TAATT
1 TAATT
71076953 CTATAATTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.39
Consensus pattern (27 bp):
TAATTTTGTAAACTGAAGGTAAAATGG
Found at i:71076976 original size:27 final size:28
Alignment explanation
Indices: 71076946--71077003 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
71076936 ATGGTAAAAT
*
71076946 GGTAATT-CTATAATTCTACCCTACAGG
1 GGTAATTCCGATAATTCTACCCTACAGG
* *
71076973 GGT-ATTCCGGTAATTCTACCCTATAGG
1 GGTAATTCCGATAATTCTACCCTACAGG
71077000 GGTA
1 GGTA
71077004 TTTTGATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (28 bp):
GGTAATTCCGATAATTCTACCCTACAGG
Found at i:71077013 original size:27 final size:27
Alignment explanation
Indices: 71076955--71077014 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
71076945 TGGTAATTCT
71076955 ATAATTCTACCCTACAGGGGTATTCCG
1 ATAATTCTACCCTACAGGGGTATTCCG
* * **
71076982 GTAATTCTACCCTATAGGGGTATTTTG
1 ATAATTCTACCCTACAGGGGTATTCCG
71077009 ATAATT
1 ATAATT
71077015 TTACAAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
ATAATTCTACCCTACAGGGGTATTCCG
Found at i:71077027 original size:27 final size:27
Alignment explanation
Indices: 71076997--71077123 Score: 175
Period size: 27 Copynumber: 4.7 Consensus size: 27
71076987 TCTACCCTAT
*
71076997 AGGGGTATTTTGATAATTTTACAAACA
1 AGGGGTATTTTGGTAATTTTACAAACA
* *
71077024 AGGGGTATTTTGGTAATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACA
*
71077051 AGGGGTATTTTGGTAATTTTATAAACA
1 AGGGGTATTTTGGTAATTTTACAAACA
* * *
71077078 AAGGATATTTTTGTAATTTTACAAACCA
1 AGGGGTATTTTGGTAATTTTACAAA-CA
71077106 A-GGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
71077124 GGTAAACTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 86 0.97
28 3 0.03
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACA
Found at i:71078619 original size:45 final size:45
Alignment explanation
Indices: 71078555--71078732 Score: 188
Period size: 45 Copynumber: 4.0 Consensus size: 45
71078545 TAGGATTCCA
71078555 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
** * *
71078600 ATATGTGTTTTCGTGTAAGACCACATCTGGGATGTTGGCATTGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * * * * *
71078645 ATATGTGGTTACATGGAAGACCATGTCTGGGACATCGGCATCG-T
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* *
71078689 AT-T-TG-ATTCGTGTAAGACCCA-GTTTGGGACAG-TGGCATCGAT
1 ATATGTGTTTTCGTGTAAGA-CCATGTCTGGGAC-GTTGGCATCGAT
71078731 AT
1 AT
71078733 GAGATGACAT
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
41 23 0.21
42 8 0.07
43 1 0.01
44 3 0.03
45 74 0.68
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
Found at i:71089898 original size:37 final size:37
Alignment explanation
Indices: 71089842--71089981 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
71089832 CGAATAGTCC
* *
71089842 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
71089879 CCACACGTAGTCATTGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
71089916 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
71089953 TCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
71089982 ATATATTTCC
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Done.