Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold23
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: 3824748
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 177433 characters in sequence are not A, C, G, or T
File 11 of 14
Found at i:2867795 original size:28 final size:29
Alignment explanation
Indices: 2867764--2867833 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 29
2867754 GTTTTTTTTG
2867764 ATATATTTTGGTAAATAAAAAAAAT-TAT
1 ATATATTTTGGTAAATAAAAAAAATGTAT
2867792 ATATATTTTGGTAAATAAAAAAAATGTAT
1 ATATATTTTGGTAAATAAAAAAAATGTAT
*
2867821 A-ACATTTTGGTAA
1 ATATATTTTGGTAA
2867834 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 36 0.90
29 4 0.10
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.39
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAATGTAT
Found at i:2881154 original size:32 final size:32
Alignment explanation
Indices: 2881118--2881184 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
2881108 AATTAGGATA
* *
2881118 TAAACTTTTATGAAAGTATTTAGATAACT-GTC
1 TAAACTTTTATGAAAATATTGAGATAA-TAGTC
2881150 TAAACTTTTATGAAAATATTGAGATAATAGTC
1 TAAACTTTTATGAAAATATTGAGATAATAGTC
2881182 TAA
1 TAA
2881185 TTAGATTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (32 bp):
TAAACTTTTATGAAAATATTGAGATAATAGTC
Found at i:2884467 original size:74 final size:73
Alignment explanation
Indices: 2884257--2884506 Score: 296
Period size: 75 Copynumber: 3.4 Consensus size: 73
2884247 TTACGTAAAT
* * ** * *
2884257 AATACAAAGTTTATTATTTAAATTGTAAAAAACTCC-TAAAATTAATAACTGAAATAACAAAAAA
1 AATACAAAGTTGACTATTTAAATTACAAAAAAC-CCATAAAATTAATAACTAAAATGA-AAAAAA
2884321 GTCATTACATA
64 -TCATTACATA
*
2884332 AATACAAAGTTGACTATTTAAATTGCGAAAAAAACCCAT-AAATTAATAACTAAAATAGAAAAAA
1 AATACAAAGTTGACTATTTAAATTAC--AAAAAACCCATAAAATTAATAACTAAAAT-GAAAAAA
2884396 ATCATTACATA
63 ATCATTACATA
* *
2884407 AATACAAAGTTGACTATTTAAATTACAAAAAACCCATAAAATTAATAACTTAAATGGAAAAAAGT
1 AATACAAAGTTGACTATTTAAATTACAAAAAACCCATAAAATTAATAACTAAAAT-GAAAAAAAT
*
2884472 CATTATATA
65 CATTACATA
*
2884481 AATATAAAG-T---TATTTAAATTACAAAA
1 AATACAAAGTTGACTATTTAAATTACAAAA
2884507 CCCTTTAAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
70 16 0.10
73 12 0.08
74 40 0.25
75 58 0.36
76 24 0.15
77 9 0.06
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (73 bp):
AATACAAAGTTGACTATTTAAATTACAAAAAACCCATAAAATTAATAACTAAAATGAAAAAAATC
ATTACATA
Found at i:2884812 original size:33 final size:33
Alignment explanation
Indices: 2884717--2884834 Score: 121
Period size: 33 Copynumber: 3.6 Consensus size: 33
2884707 CAGCCGGGAG
* *
2884717 GAGTGGAGTA-TGACTGTGGATACGGGCTAGGAA
1 GAGTGGAGTACTGA-GGTGGATACGGGCCAGGAA
* * * *
2884750 GAGTGGAGTACGGCGGTGGATATGGGCCAGAAA
1 GAGTGGAGTACTGAGGTGGATACGGGCCAGGAA
* ** *
2884783 GAGTGGAGTACTGAAGTGGATACAAGCCAGGAT
1 GAGTGGAGTACTGAGGTGGATACGGGCCAGGAA
*
2884816 GACTGGAGTACTGAGGTGG
1 GAGTGGAGTACTGAGGTGG
2884835 TAGTAGGCTG
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
33 67 0.99
34 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.42, T:0.19
Consensus pattern (33 bp):
GAGTGGAGTACTGAGGTGGATACGGGCCAGGAA
Found at i:2886852 original size:16 final size:17
Alignment explanation
Indices: 2886831--2886866 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2886821 AAATAAAAAT
2886831 AAAATTACATT-ATAAA
1 AAAATTACATTAATAAA
*
2886847 AAAATTATATTAATAAA
1 AAAATTACATTAATAAA
2886864 AAA
1 AAA
2886867 TCACAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTACATTAATAAA
Found at i:2886866 original size:19 final size:19
Alignment explanation
Indices: 2886822--2886866 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 19
2886812 AAAATTGTCA
2886822 AATAAAAATAAAATTACATT
1 AATAAAAA-AAAATTACATT
*
2886842 -AT--AAAAAAATTATATT
1 AATAAAAAAAAATTACATT
2886858 AATAAAAAA
1 AATAAAAAA
2886867 TCACAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
19 6 0.29
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAAAAAAAAATTACATT
Found at i:2887038 original size:104 final size:105
Alignment explanation
Indices: 2886847--2887041 Score: 331
Period size: 106 Copynumber: 1.9 Consensus size: 105
2886837 ACATTATAAA
*
2886847 AAAATTATATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATC
1 AAAATTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATC
2886912 ATAAATTACTAACAAAATAACTATAAAATTATTTTCTTTT
66 ATAAATTACTAACAAAATAACTATAAAATTATTTTCTTTT
* * *
2886952 AAAATTACATTACTAAAAAAATCATAAAACCCTAAACTAAACACTAACAATTTATA-AA-CTAAT
1 AAAATTACATTAAT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAAT
2887015 CATAAATTACTAACAAAATAACTATAA
65 CATAAATTACTAACAAAATAACTATAA
2887042 CACCTTTTTA
Statistics
Matches: 85, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
104 32 0.38
105 14 0.16
106 39 0.46
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.29
Consensus pattern (105 bp):
AAAATTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATC
ATAAATTACTAACAAAATAACTATAAAATTATTTTCTTTT
Found at i:2887094 original size:106 final size:106
Alignment explanation
Indices: 2886843--2887117 Score: 287
Period size: 106 Copynumber: 2.6 Consensus size: 106
2886833 AATTACATTA
* * * *
2886843 TAAAAAAATTATATTAAT-AAAAAATCACAAAA-CACTAAACTAAACACTAACAATTTATATAAC
1 TAAAAAAATTACATTACTAAAAAAATAATAAAACCA-TAAACTAAACACTAACAATTTATATAAC
*
2886906 CTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTC
65 CTAATCATAAATTACTAACAAAATAACTATAAAATCATTTTC
*** * *
2886948 TTTTAAAATTACATTACTAAAAAAATCATAAAACCCTAAACTAAACACTAACAATTTATA-AA-C
1 TAAAAAAATTACATTACTAAAAAAATAATAAAACCATAAACTAAACACTAACAATTTATATAACC
* *
2887011 TAATCATAAATTACTAACAAAATAACTATAACA-CCTTTT-
66 TAATCATAAATTACTAACAAAATAACTATAAAATCATTTTC
* *
2887050 TAAAAAAATTACATT-CATAAAAATTATTAAACTAAAACCATAAACACTAAAC-GTAAACAATTT
1 TAAAAAAATTACATTAC-TAAAAA--AAT-AA-TAAAACCAT-AA-ACTAAACACT-AACAATTT
2887113 ATATA
58 ATATA
2887118 TAATAGTTAA
Statistics
Matches: 142, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
101 1 0.01
102 18 0.13
103 4 0.03
104 35 0.25
105 16 0.11
106 45 0.32
107 4 0.03
108 18 0.13
109 1 0.01
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.29
Consensus pattern (106 bp):
TAAAAAAATTACATTACTAAAAAAATAATAAAACCATAAACTAAACACTAACAATTTATATAACC
TAATCATAAATTACTAACAAAATAACTATAAAATCATTTTC
Found at i:2888375 original size:26 final size:27
Alignment explanation
Indices: 2888325--2888380 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
2888315 ACTCTTATTA
*
2888325 ATTTAATTAATTAAAAATAAAATTATC
1 ATTTAAATAATTAAAAATAAAATTATC
*
2888352 ATTTAAATAATTAAAAA-AATATTATC
1 ATTTAAATAATTAAAAATAAAATTATC
2888378 ATT
1 ATT
2888381 ATAACTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTTAAATAATTAAAAATAAAATTATC
Found at i:2894859 original size:14 final size:15
Alignment explanation
Indices: 2894830--2894861 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2894820 AAAAACATCA
2894830 TAATTTTATCTATTT
1 TAATTTTATCTATTT
2894845 TAATTTTAT-TATTT
1 TAATTTTATCTATTT
2894859 TAA
1 TAA
2894862 CTATAACCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTATCTATTT
Found at i:2898184 original size:15 final size:15
Alignment explanation
Indices: 2898164--2898192 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2898154 ACTCCTGGTT
2898164 TACTAACCCAATTTC
1 TACTAACCCAATTTC
2898179 TACTAACCCAATTT
1 TACTAACCCAATTT
2898193 TTGGGACGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (15 bp):
TACTAACCCAATTTC
Found at i:2906528 original size:13 final size:13
Alignment explanation
Indices: 2906512--2906544 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2906502 ATATGCATAT
*
2906512 AATATATATACAC
1 AATATATACACAC
2906525 AATATATACACAC
1 AATATATACACAC
2906538 AAT-TATA
1 AATATATA
2906545 ATAATAGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
AATATATACACAC
Found at i:2906752 original size:72 final size:71
Alignment explanation
Indices: 2906630--2906762 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 71
2906620 TCATAAAATT
2906630 TCTTTATATGCACAAATACTTAAAAAAATCCATAACCACCAAATATAAAAAGAACCCCAAATTGT
1 TCTTTATATGCACAAATACTTAAAAAAATCCATAACCACCAAATATAAAAA-AACCCCAAATTGT
2906695 ATAGAAG
65 ATAGAAG
* * * * * *
2906702 TCTTTATATGCACAACTACTTAAGAAAATTCATAGCCACCATAT-TAAAAAAAATCCCAAAT
1 TCTTTATATGCACAAATACTTAAAAAAATCCATAACCACCAAATAT-AAAAAAACCCCAAAT
2906763 ATTTTAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
71 10 0.19
72 44 0.81
ACGTcount: A:0.48, C:0.20, G:0.06, T:0.26
Consensus pattern (71 bp):
TCTTTATATGCACAAATACTTAAAAAAATCCATAACCACCAAATATAAAAAAACCCCAAATTGTA
TAGAAG
Found at i:2909671 original size:37 final size:37
Alignment explanation
Indices: 2909556--2909672 Score: 94
Period size: 37 Copynumber: 3.2 Consensus size: 37
2909546 AGTTGAAGAG
** * *
2909556 GGAAGAAAGTATTAAGCTTAAAGAGTTGAAGG-AATC
1 GGAAGAAAGTAGGAAGCTTGAAGGGTTGAAGGAAATC
* * * * * * * *
2909592 GAGAATAAACTAGGAGGCTCGAAGGGCTAAAGGAATTG
1 G-GAAGAAAGTAGGAAGCTTGAAGGGTTGAAGGAAATC
2909630 GGAAGAAAGTAGGAAGCTTGAAGGGTTGAAGGAAGAT-
1 GGAAGAAAGTAGGAAGCTTGAAGGGTTGAAGGAA-ATC
2909667 GGAAGA
1 GGAAGA
2909673 TGGAAGATGA
Statistics
Matches: 59, Mismatches: 19, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
36 1 0.02
37 54 0.92
38 4 0.07
ACGTcount: A:0.42, C:0.06, G:0.35, T:0.17
Consensus pattern (37 bp):
GGAAGAAAGTAGGAAGCTTGAAGGGTTGAAGGAAATC
Found at i:2909818 original size:24 final size:24
Alignment explanation
Indices: 2909791--2909840 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
2909781 TGAAGAAAAA
2909791 TGGAAGACTATAGGAAGCTTCAAG
1 TGGAAGACTATAGGAAGCTTCAAG
* * * *
2909815 TGGAAGATTGTAGGGAGCTTGAAG
1 TGGAAGACTATAGGAAGCTTCAAG
2909839 TG
1 TG
2909841 TTGCAAGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.08, G:0.36, T:0.24
Consensus pattern (24 bp):
TGGAAGACTATAGGAAGCTTCAAG
Found at i:2911527 original size:30 final size:30
Alignment explanation
Indices: 2911484--2911638 Score: 242
Period size: 30 Copynumber: 5.2 Consensus size: 30
2911474 GGCAATATAT
2911484 ATGTATA--CATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
2911512 ATGTATATCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
2911542 GTGTATATCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
2911572 ATGTATATCCATATACAAATAAATTTGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
2911602 ATGTATATCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
2911632 ATATATA
1 ATGTATA
2911639 AAACATATAC
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
28 7 0.06
30 108 0.94
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (30 bp):
ATGTATATCCATATACAAATCAATTCGGCA
Found at i:2913709 original size:80 final size:80
Alignment explanation
Indices: 2913510--2913739 Score: 329
Period size: 80 Copynumber: 2.9 Consensus size: 80
2913500 GGGTATAACA
* *
2913510 GTCATTTTACCCTATAGGAGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACC
2913575 CTATGGGGGTATTTCG
65 CTATGGGGGTATTTCG
* * * * *
2913591 GTCGTTTTACCCTATGGGGGTATTTTGTTCATTCTACCCTATGGGGATATTTCGATCACTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGG-TATTTCGATCATTTTACC
2913656 CTAT-GGGGTATTTCG
65 CTATGGGGGTATTTCG
* *
2913671 GTCATTCTACCCTATGGGGGTATTACGGTCATTTTACCCTATTGGGGTATTTC-AGTCATTTTAC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTA-TGGGGTATTTCGA-TCATTTTAC
2913735 CCTAT
64 CCTAT
2913740 TTTGAGGTCT
Statistics
Matches: 132, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
79 1 0.01
80 69 0.52
81 62 0.47
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (80 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCGATCATTTTACCC
TATGGGGGTATTTCG
Found at i:2913740 original size:27 final size:27
Alignment explanation
Indices: 2913510--2913739 Score: 327
Period size: 27 Copynumber: 8.6 Consensus size: 27
2913500 GGGTATAACA
* *
2913510 GTCATTTTACCCTATAGGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
2913537 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
2913564 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
2913591 GTCGTTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
2913618 TTCATTCTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
2913645 ATCACTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
2913671 GTCATTCTACCCTATGGGGGTATTACG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
2913698 GTCATTTTACCCTATTGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
2913725 GTCATTTTACCCTAT
1 GTCATTTTACCCTAT
2913740 TTTGAGGTCT
Statistics
Matches: 179, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 22 0.12
27 157 0.88
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:2916909 original size:6 final size:6
Alignment explanation
Indices: 2916898--2916935 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
2916888 AACTACAAAC
* *
2916898 AAAAAG AAAAAG AAAACG AAAACG AAAAAG -AAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
2916936 TAAAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2916924 original size:18 final size:18
Alignment explanation
Indices: 2916894--2916935 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2916884 AAGTAACTAC
2916894 AAAC-AAAAAGAAAAAGA
1 AAACGAAAAAGAAAAAGA
*
2916911 AAACGAAAACGAAAAAGA
1 AAACGAAAAAGAAAAAGA
2916929 AAA-GAAA
1 AAACGAAA
2916936 TAAAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (18 bp):
AAACGAAAAAGAAAAAGA
Found at i:2918553 original size:6 final size:6
Alignment explanation
Indices: 2918542--2918579 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
2918532 AACTACAAAC
* *
2918542 AAAAAG AAAAAG AAAACG AAAACG AAAAAG -AAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
2918580 TAAAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2918568 original size:18 final size:18
Alignment explanation
Indices: 2918538--2918579 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2918528 AAGTAACTAC
2918538 AAAC-AAAAAGAAAAAGA
1 AAACGAAAAAGAAAAAGA
*
2918555 AAACGAAAACGAAAAAGA
1 AAACGAAAAAGAAAAAGA
2918573 AAA-GAAA
1 AAACGAAA
2918580 TAAAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (18 bp):
AAACGAAAAAGAAAAAGA
Found at i:2918784 original size:19 final size:19
Alignment explanation
Indices: 2918697--2918791 Score: 59
Period size: 19 Copynumber: 4.8 Consensus size: 19
2918687 GTATAAGGGT
2918697 AATAAAATTATAATAAAAATAA
1 AATAAAA-TA-AAT-AAAATAA
* * * *
2918719 AATAAAATATAT-TAGTAC
1 AATAAAATAAATAAAATAA
* *
2918737 AATAAAAATATATAATATAA
1 AAT-AAAATAAATAAAATAA
*
2918757 CAA-ATAATAAATAAAATAA
1 -AATAAAATAAATAAAATAA
*
2918776 AATAAAATAAAGAAAA
1 AATAAAATAAATAAAA
2918792 GGGTAAAAGG
Statistics
Matches: 56, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
18 8 0.14
19 33 0.59
20 4 0.07
21 4 0.07
22 7 0.12
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AATAAAATAAATAAAATAA
Found at i:2919499 original size:15 final size:15
Alignment explanation
Indices: 2919479--2919529 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
2919469 GGACATGCCC
2919479 CCGTGTGTGTCCAGG
1 CCGTGTGTGTCCAGG
* *
2919494 CCGTGTGTGCCACACG
1 CCGTGTGTGTC-CAGG
*
2919510 CC-CGTGTGTCCAGG
1 CCGTGTGTGTCCAGG
2919524 CCGTGT
1 CCGTGT
2919530 AGGTCAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 5 0.18
15 18 0.64
16 5 0.18
ACGTcount: A:0.08, C:0.33, G:0.35, T:0.24
Consensus pattern (15 bp):
CCGTGTGTGTCCAGG
Found at i:2920415 original size:13 final size:13
Alignment explanation
Indices: 2920397--2920423 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2920387 TTTATGGTCT
2920397 ATGATTTCACAAA
1 ATGATTTCACAAA
2920410 ATGATTTCACAAA
1 ATGATTTCACAAA
2920423 A
1 A
2920424 ATTTCGTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (13 bp):
ATGATTTCACAAA
Found at i:2926266 original size:37 final size:37
Alignment explanation
Indices: 2926169--2926277 Score: 121
Period size: 37 Copynumber: 2.9 Consensus size: 37
2926159 AGAGGGAAAA
* * *
2926169 GGGAAGAAAGTA-TGAAGCTTAAAGAGTTAAAGGAATC
1 GGGAAGAAAGTAGT-AAGCTTGAAGGGTTGAAGGAATC
* * * * *
2926206 AGGAATAAACTAGGAAGTTTGAAGGGTTGAAGGAATC
1 GGGAAGAAAGTAGTAAGCTTGAAGGGTTGAAGGAATC
*
2926243 GGGAAGAAAGTAGTAAGCATGAAGGGTTGAAGGAA
1 GGGAAGAAAGTAGTAAGCTTGAAGGGTTGAAGGAA
2926278 GAGGGACCAA
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.43, C:0.05, G:0.34, T:0.18
Consensus pattern (37 bp):
GGGAAGAAAGTAGTAAGCTTGAAGGGTTGAAGGAATC
Found at i:2926434 original size:111 final size:111
Alignment explanation
Indices: 2926319--2926539 Score: 237
Period size: 111 Copynumber: 2.0 Consensus size: 111
2926309 AAGCAAGATG
* * * * * *
2926319 GAAGAACACAAGGATCTTCAACG-ATTGAATGAATTGGGAAGAAAGTAGGGAGGTTCAATGGTTG
1 GAAGAACACAAGGAGCTTCAA-GTATTGAATGAATTGGGAAGAAAATAGAGAGCTTAAAGGGTTG
* * *** *
2926383 AAGAAAAATGGAAGATTGTAGGGAGCTTCAAGGGTTGAAGGAAAGCA
65 AAGAAAAAGGGAAAAACATAGGGAGCTTAAAGGGTTGAAGGAAAGCA
** * * * *
2926430 GAAGATTATAGGGAGCTTGAAGTGTTGAATGAATTGGGAAGAAAATAGAGAGCTTAAAGGGTTGA
1 GAAGAACACAAGGAGCTTCAAGTATTGAATGAATTGGGAAGAAAATAGAGAGCTTAAAGGGTTGA
** *
2926495 AGAAGGAGGGAAAAACATAGGGAGCTTAAAGGGTTGAAGTAAAGC
66 AGAAAAAGGGAAAAACATAGGGAGCTTAAAGGGTTGAAGGAAAGC
2926540 GTACAATTTT
Statistics
Matches: 88, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
110 1 0.01
111 87 0.99
ACGTcount: A:0.40, C:0.06, G:0.33, T:0.20
Consensus pattern (111 bp):
GAAGAACACAAGGAGCTTCAAGTATTGAATGAATTGGGAAGAAAATAGAGAGCTTAAAGGGTTGA
AGAAAAAGGGAAAAACATAGGGAGCTTAAAGGGTTGAAGGAAAGCA
Found at i:2926471 original size:37 final size:37
Alignment explanation
Indices: 2926364--2926540 Score: 126
Period size: 37 Copynumber: 4.8 Consensus size: 37
2926354 GGGAAGAAAG
* * * * ** *
2926364 TAGGGAGGTTCAATGGTTGAAGAAAAATGGAAGATTG
1 TAGGGAGCTTAAAGGGTTGAAGGAAAGCGGAAGATTA
* *
2926401 TAGGGAGCTTCAAGGGTTGAAGGAAAGCAGAAGATTA
1 TAGGGAGCTTAAAGGGTTGAAGGAAAGCGGAAGATTA
* * * * **
2926438 TAGGGAGCTTGAAGTGTTGAATGAATTG-GGAAGAAAA
1 TAGGGAGCTTAAAGGGTTGAAGGAA-AGCGGAAGATTA
* * **
2926475 TAGAGAGCTTAAAGGGTTGAA-GAAGGAG-GGAAAAACA
1 TAGGGAGCTTAAAGGGTTGAAGGAA--AGCGGAAGATTA
*
2926512 TAGGGAGCTTAAAGGGTTGAAGTAAAGCG
1 TAGGGAGCTTAAAGGGTTGAAGGAAAGCG
2926541 TACAATTTTT
Statistics
Matches: 113, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
36 5 0.04
37 105 0.93
38 3 0.03
ACGTcount: A:0.39, C:0.05, G:0.36, T:0.20
Consensus pattern (37 bp):
TAGGGAGCTTAAAGGGTTGAAGGAAAGCGGAAGATTA
Found at i:2928779 original size:37 final size:36
Alignment explanation
Indices: 2928738--2928867 Score: 120
Period size: 37 Copynumber: 3.6 Consensus size: 36
2928728 GATGAGGAGG
*
2928738 GTTGAAGCAAGAGGGAAGAAAGTATGGAGCTTAAAGA
1 GTTGAAGGAAGAGGGAAGAAAGTA-GGAGCTTAAAGA
** * *
2928775 GTTGAAGGAATTGGG-ATAAACTAGGAAGCTTGAAAG-
1 GTTGAAGGAAGAGGGAAGAAAGTAGG-AGCTT-AAAGA
** *
2928811 GTTGAAGGAAGAGGGAAGAAAGTAGGGAATTTGAAGA
1 GTTGAAGGAAGAGGGAAGAAAGTA-GGAGCTTAAAGA
* *
2928848 GTTAAAGTAAGAGGGAAGAA
1 GTTGAAGGAAGAGGGAAGAA
2928868 CATTGGGGTA
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
35 2 0.03
36 27 0.36
37 43 0.58
38 2 0.03
ACGTcount: A:0.43, C:0.03, G:0.36, T:0.18
Consensus pattern (36 bp):
GTTGAAGGAAGAGGGAAGAAAGTAGGAGCTTAAAGA
Found at i:2930053 original size:37 final size:37
Alignment explanation
Indices: 2930012--2930394 Score: 263
Period size: 37 Copynumber: 10.4 Consensus size: 37
2930002 TGGGATGAGG
* *
2930012 AGGGTTGAAGGAAGAGGTAAGAAAGCAGGGAGCTTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTGA
* * * * * * *
2930049 AGGGTTAAAGGAATCA-GGAATAAACTAGGAAGATCGA
1 AGGGTTGAAGGAA-GAGGGAAGAAAGTAGGGAGCTTGA
* *
2930086 AGGGTTGAAGGAAGAGGGAA-AAAATAGGGAGTTTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTGA
* * * *
2930122 AGGGTTGAAGCAAGAGGGAAGAACGTAGGGATCTTTA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTGA
* ** * *
2930159 AGGGTTGAATGAATTGGGAAGAAAGTAAGGAGCTTCA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTGA
* * * * ** **
2930196 AGGATTGAAGGAAAATGAAAGATTGTAGGGAGCTCAA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTGA
* * * * **
2930233 AGGGTTTAAAAGAACA-GAAAGATTGTAGGGAGCTTGA
1 AGGG-TTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTGA
* * * *
2930270 AGGGTTGAAGGAAAAGGAAAGATTA-TAGGGAGCTCGA
1 AGGGTTGAAGGAAGAGGGAAGA-AAGTAGGGAGCTTGA
* *** * *
2930307 AGTGTTGAAGGACTCGAGAAGAAAGTAGGGTGCTTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTGA
* * *
2930344 AGGGTTAAAAGAAGAGGGGAA-AATGTAGGGAGCTTGA
1 AGGGTTGAAGGAAGA-GGGAAGAAAGTAGGGAGCTTGA
*
2930381 AGTGTTGAAGGAAG
1 AGGGTTGAAGGAAG
2930395 GCGTGCAATT
Statistics
Matches: 266, Mismatches: 72, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
36 41 0.15
37 211 0.79
38 14 0.05
ACGTcount: A:0.39, C:0.05, G:0.37, T:0.18
Consensus pattern (37 bp):
AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTGA
Found at i:2931278 original size:37 final size:37
Alignment explanation
Indices: 2931230--2931502 Score: 201
Period size: 37 Copynumber: 7.4 Consensus size: 37
2931220 TGGGATGATG
* * *
2931230 AGGGTTAAAGGAAAAGGGAAGAAAATAGGAAGATTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAATAGGAAGCTTGA
* ** * * **
2931267 AGAGTTGAAGGAATCGGGAATAAACTAGGAAGCTCAA
1 AGGGTTGAAGGAAGAGGGAAGAAAATAGGAAGCTTGA
* *** *
2931304 AGGGTTGATGGATTTGGGAAGAAAGTAGGAAGCTTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAATAGGAAGCTTGA
* * * *
2931341 AGGGTTTAAAGAAGAGGGAAGAAAGTA-GAGAGTTTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAATAGGA-AGCTTGA
* * * *
2931378 AGGGTTGAAGCAAGAGGGAAGAATATA-GAGATCTTCA
1 AGGGTTGAAGGAAGAGGGAAGAAAATAGGA-AGCTTGA
* * ** * *
2931415 AAGGTTGAATGAATTGGGAAGAAATTAGGGAGCTTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAATAGGAAGCTTGA
* **
2931452 AGGGTTGAAGGAAGAGGGCAGAACGTAAGG-AGCTTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAAT-AGGAAGCTTGA
*
2931489 GGGGTTGAAGGAAG
1 AGGGTTGAAGGAAG
2931503 GAATTCAATT
Statistics
Matches: 183, Mismatches: 50, Indels: 6
0.77 0.21 0.03
Matches are distributed among these distances:
36 2 0.01
37 177 0.97
38 4 0.02
ACGTcount: A:0.40, C:0.04, G:0.37, T:0.18
Consensus pattern (37 bp):
AGGGTTGAAGGAAGAGGGAAGAAAATAGGAAGCTTGA
Found at i:2931385 original size:111 final size:111
Alignment explanation
Indices: 2931230--2931502 Score: 272
Period size: 111 Copynumber: 2.5 Consensus size: 111
2931220 TGGGATGATG
* * * ** *
2931230 AGGG-TTAAAGGAAAAGGGAAGAAAATAG-GAAGATTGAAGAGTTGAAGGAATCGGGAATAA-AC
1 AGGGTTTAAA-GAAGAGGGAAGAAAGTAGAG-AGATTGAAGGGTTGAAGGAAGAGGGAAGAATA-
*
2931292 TAG-GAAGC-TCAAAGGGTTG-ATGGATTTGGGAAGAAAGTAGGAAGCTTGA
63 TAGAG-AGCTTCAAA-GGTTGAAT-GAATTGGGAAGAAAGTAGGAAGCTTGA
* *
2931341 AGGGTTTAAAGAAGAGGGAAGAAAGTAGAGAGTTTGAAGGGTTGAAGCAAGAGGGAAGAATATAG
1 AGGGTTTAAAGAAGAGGGAAGAAAGTAGAGAGATTGAAGGGTTGAAGGAAGAGGGAAGAATATAG
* * *
2931406 AGATCTTCAAAGGTTGAATGAATTGGGAAGAAATTAGGGAGCTTGA
66 AGAGCTTCAAAGGTTGAATGAATTGGGAAGAAAGTAGGAAGCTTGA
* * * * * *
2931452 AGGGTTGAAGGAAGAGGGCAGAACGTA-AGGAGCTTGAGGGGTTGAAGGAAG
1 AGGGTTTAAAGAAGAGGGAAGAAAGTAGA-GAGATTGAAGGGTTGAAGGAAG
2931503 GAATTCAATT
Statistics
Matches: 136, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
110 1 0.01
111 120 0.88
112 15 0.11
ACGTcount: A:0.40, C:0.04, G:0.37, T:0.18
Consensus pattern (111 bp):
AGGGTTTAAAGAAGAGGGAAGAAAGTAGAGAGATTGAAGGGTTGAAGGAAGAGGGAAGAATATAG
AGAGCTTCAAAGGTTGAATGAATTGGGAAGAAAGTAGGAAGCTTGA
Found at i:2932612 original size:37 final size:37
Alignment explanation
Indices: 2932571--2932704 Score: 108
Period size: 37 Copynumber: 3.6 Consensus size: 37
2932561 GAAATAAGGT
* *
2932571 AGCTTAAAAAGTTGAAAGAATCGAGAACAAACTAGGA
1 AGCTTAAAAGGTTGAAAGAATCGAGAACAAACTAAGA
* * * * * *
2932608 AGCTTAAAGGGTTGAAGGAATTGGGAAGAAAGTAAGA
1 AGCTTAAAAGGTTGAAAGAATCGAGAACAAACTAAGA
* * * * * *
2932645 AGCTTGAAAGGTTGAAAAAAT-TATGGAGAAACTATGA
1 AGCTTAAAAGGTTGAAAGAATCGA-GAACAAACTAAGA
* *
2932682 AGCTTGAAAGGTTGAAGGAATCG
1 AGCTTAAAAGGTTGAAAGAATCG
2932705 GGGATAAGTA
Statistics
Matches: 75, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.20
Consensus pattern (37 bp):
AGCTTAAAAGGTTGAAAGAATCGAGAACAAACTAAGA
Found at i:2932638 original size:74 final size:74
Alignment explanation
Indices: 2932558--2932702 Score: 170
Period size: 74 Copynumber: 2.0 Consensus size: 74
2932548 AAAGAAGAGT
* *
2932558 GAAGAAA-TAAGGTAGCTTAAAAAGTTGAAAGAATCGA-GAACAAACTAGGAAGCTT-AAAGGGT
1 GAAGAAAGTAA-GAAGCTTAAAAAGTTGAAAAAAT-GATGAACAAACTAGGAAGCTTGAAA-GGT
2932620 TGAAGGAATTGG
63 TGAAGGAATTGG
* * * * * *
2932632 GAAGAAAGTAAGAAGCTTGAAAGGTTGAAAAAATTATGGAGAAACTATGAAGCTTGAAAGGTTGA
1 GAAGAAAGTAAGAAGCTTAAAAAGTTGAAAAAATGATGAACAAACTAGGAAGCTTGAAAGGTTGA
2932697 AGGAAT
66 AGGAAT
2932703 CGGGGATAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
73 1 0.02
74 53 0.88
75 6 0.10
ACGTcount: A:0.46, C:0.06, G:0.28, T:0.20
Consensus pattern (74 bp):
GAAGAAAGTAAGAAGCTTAAAAAGTTGAAAAAATGATGAACAAACTAGGAAGCTTGAAAGGTTGA
AGGAATTGG
Found at i:2932787 original size:73 final size:74
Alignment explanation
Indices: 2932599--2932795 Score: 215
Period size: 73 Copynumber: 2.7 Consensus size: 74
2932589 AATCGAGAAC
* *
2932599 AAACTAGGAAGCTTAAAGGGTTGAAGGAATTGGGAAGAAAGTAAGAAGCTTGAAAGGTTGAAAAA
1 AAACTAGGAAGCTTAAAGGGTTGAAGGAATTGGGAATAAAGTAAGGAGCTTGAAAGGTTGAAAAA
*
2932664 ATTATGGAG
66 ATTAAGGAG
* * * * **
2932673 AAACTATGAAGCTTGAAA-GGTTGAAGGAATCGGGGAT-AAGTAAGGAGTTTGAAAGGTTGAATC
1 AAACTAGGAAGCTT-AAAGGGTTGAAGGAATTGGGAATAAAGTAAGGAGCTTGAAAGGTTGAAAA
2932736 AA-TAAGGA-
65 AATTAAGGAG
* * * *
2932744 AGAACATAGGAATCTTCAAGGGTT-AAAGAATTGGGAATAAAGTAGGGAGCTT
1 A-AAC-TAGGAAGCTTAAAGGGTTGAAGGAATTGGGAATAAAGTAAGGAGCTT
2932796 CAAGTGTTAA
Statistics
Matches: 101, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
71 1 0.01
72 21 0.21
73 47 0.47
74 29 0.29
75 3 0.03
ACGTcount: A:0.42, C:0.06, G:0.30, T:0.22
Consensus pattern (74 bp):
AAACTAGGAAGCTTAAAGGGTTGAAGGAATTGGGAATAAAGTAAGGAGCTTGAAAGGTTGAAAAA
ATTAAGGAG
Found at i:2935371 original size:37 final size:37
Alignment explanation
Indices: 2935330--2935410 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
2935320 GTGTTTGAAA
* * * *
2935330 GGTTGGACCAAAAGGGAAGAACATAGGGATCTTCAAG
1 GGTTGAACCAAAAGAGAAGAAAATAGGGAGCTTCAAG
** **
2935367 GGTTGAATGAATCGAGAAGAAAATAGGGAGCTTCAAG
1 GGTTGAACCAAAAGAGAAGAAAATAGGGAGCTTCAAG
2935404 GGTTGAA
1 GGTTGAA
2935411 GGAAAAAGGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.33, T:0.19
Consensus pattern (37 bp):
GGTTGAACCAAAAGAGAAGAAAATAGGGAGCTTCAAG
Found at i:2935394 original size:74 final size:74
Alignment explanation
Indices: 2935308--2935526 Score: 233
Period size: 74 Copynumber: 3.0 Consensus size: 74
2935298 AAGGAAGAGG
* * * * ** * * *
2935308 GAAGAAAGTAGGGTGTTTGAAAGGTTGGACCAAAAGGGAAGAACATAGGGATCTTCAAGGGTTGA
1 GAAGAAAATAGGGAGTTTGAAGGGTTGAAGGAAAAAGGAAGAATATAGGGATCTTGAAGGGTTGA
2935373 ATGAATCGA
66 ATGAATCGA
* * * * * * *
2935382 GAAGAAAATAGGGAGCTTCAAGGGTTGAAGGAAAAAGGAATATTGTAAGGAGCTTGAAGGGTTG-
1 GAAGAAAATAGGGAGTTTGAAGGGTTGAAGGAAAAAGGAAGAATATAGGGATCTTGAAGGGTTGA
*
2935446 ATGGAATCTA
66 AT-GAATCGA
** *
2935456 GAAGAAAATAGGGAGTTTGAAGGGTTGAAGGAAAATTGAAGAATATAGAGATCTTGAAGGGTTGA
1 GAAGAAAATAGGGAGTTTGAAGGGTTGAAGGAAAAAGGAAGAATATAGGGATCTTGAAGGGTTGA
*
2935521 AGGAAT
66 ATGAAT
2935527 GTGTACAATT
Statistics
Matches: 115, Mismatches: 28, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
73 2 0.02
74 112 0.97
75 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.34, T:0.21
Consensus pattern (74 bp):
GAAGAAAATAGGGAGTTTGAAGGGTTGAAGGAAAAAGGAAGAATATAGGGATCTTGAAGGGTTGA
ATGAATCGA
Found at i:2935476 original size:37 final size:37
Alignment explanation
Indices: 2935345--2935526 Score: 136
Period size: 37 Copynumber: 4.9 Consensus size: 37
2935335 GACCAAAAGG
* * * **
2935345 GAAGAACATAGGGA-TCTTCAAGGGTTGAATGAATCGA
1 GAAGAAAATAGGGAGT-TTGAAGGGTTGAAGGAATATA
* * *
2935382 GAAGAAAATAGGGAGCTTCAAGGGTTGAAGGAA-AAA
1 GAAGAAAATAGGGAGTTTGAAGGGTTGAAGGAATATA
* *** * * * *
2935418 GGAATATTGTAAGGAGCTTGAAGGGTTGATGGAATCTA
1 -GAAGAAAATAGGGAGTTTGAAGGGTTGAAGGAATATA
* *
2935456 GAAGAAAATAGGGAGTTTGAAGGGTTGAAGGAAAATT
1 GAAGAAAATAGGGAGTTTGAAGGGTTGAAGGAATATA
* *
2935493 GAAGAATATAGAGA-TCTTGAAGGGTTGAAGGAAT
1 GAAGAAAATAGGGAGT-TTGAAGGGTTGAAGGAAT
2935527 GTGTACAATT
Statistics
Matches: 114, Mismatches: 27, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
36 2 0.02
37 111 0.97
38 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.22
Consensus pattern (37 bp):
GAAGAAAATAGGGAGTTTGAAGGGTTGAAGGAATATA
Found at i:2938934 original size:111 final size:110
Alignment explanation
Indices: 2938815--2939047 Score: 238
Period size: 111 Copynumber: 2.1 Consensus size: 110
2938805 AACTTGATGT
* * * *
2938815 GTTT-AAGGAAGATGGAAGAAAGTAGGGAGTTTGAAGGGT-TGAAGCAAGATGGAAGAAAATA-G
1 GTTTGAAGGAAGAGGGAAGAAAGTAAGGAGCTTGAAGGGTATG-AG-AAGATAGAAGAAAATATG
* * * * *
2938877 GGATCTTTAAGGGTTGAATGAATCGGGAAGAAAGTAAGGAGCTTCAAG
64 GAAT-TTAAAGGATTGAAGGAATAGGGAAGAAAGTAAGGAGCTTCAAG
* * *** **
2938925 GTTTGAAGGAAAAGGGAATATTTTAAGGAGCTTGAAGGGTAGTGAGAATCTAGAAGAAAATATGG
1 GTTTGAAGGAAGAGGGAAGAAAGTAAGGAGCTTGAAGGGTA-TGAGAAGATAGAAGAAAATATGG
* *
2938990 AATTTAAAGGATTGAAGGAATAGGGAAGAACGTAAGGAGCTTGAAG
65 AATTTAAAGGATTGAAGGAATAGGGAAGAAAGTAAGGAGCTTCAAG
*
2939036 GGTTGAAGGAAG
1 GTTTGAAGGAAG
2939048 GCATACGATT
Statistics
Matches: 99, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
110 4 0.04
111 87 0.88
112 6 0.06
113 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.35, T:0.21
Consensus pattern (110 bp):
GTTTGAAGGAAGAGGGAAGAAAGTAAGGAGCTTGAAGGGTATGAGAAGATAGAAGAAAATATGGA
ATTTAAAGGATTGAAGGAATAGGGAAGAAAGTAAGGAGCTTCAAG
Found at i:2939042 original size:37 final size:37
Alignment explanation
Indices: 2938792--2939046 Score: 156
Period size: 37 Copynumber: 6.9 Consensus size: 37
2938782 ATGGAGTCAA
* * * * * *
2938792 GAAGAAAGT-AGGAAACTTGATGTGTTTAAGGAAGATG
1 GAAGAAAGTAAGG-AGCTTGAAGGGTTGAAGGAATAGG
* * * * *
2938829 GAAGAAAGTAGGGAGTTTGAAGGGTTGAAGCAAGATG
1 GAAGAAAGTAAGGAGCTTGAAGGGTTGAAGGAATAGG
* * * * * *
2938866 GAAGAAAATAGGGATCTTTAAGGGTTGAATGAATCGG
1 GAAGAAAGTAAGGAGCTTGAAGGGTTGAAGGAATAGG
* * *
2938903 GAAGAAAGTAAGGAGCTTCAAGGTTTGAAGGAAAAGG
1 GAAGAAAGTAAGGAGCTTGAAGGGTTGAAGGAATAGG
* *** ***
2938940 GAATATTTTAAGGAGCTTGAAGGGTAGTG-A-GAATCTA
1 GAAGAAAGTAAGGAGCTTGAAGGGT--TGAAGGAATAGG
* * ** * *
2938977 GAAGAAAATATGGAATTTAAAGGATTGAAGGAATAGG
1 GAAGAAAGTAAGGAGCTTGAAGGGTTGAAGGAATAGG
*
2939014 GAAGAACGTAAGGAGCTTGAAGGGTTGAAGGAA
1 GAAGAAAGTAAGGAGCTTGAAGGGTTGAAGGAA
2939047 GGCATACGAT
Statistics
Matches: 160, Mismatches: 53, Indels: 10
0.72 0.24 0.04
Matches are distributed among these distances:
35 2 0.01
36 1 0.01
37 152 0.95
38 3 0.02
39 2 0.01
ACGTcount: A:0.40, C:0.04, G:0.34, T:0.22
Consensus pattern (37 bp):
GAAGAAAGTAAGGAGCTTGAAGGGTTGAAGGAATAGG
Found at i:2941094 original size:37 final size:37
Alignment explanation
Indices: 2941053--2941154 Score: 98
Period size: 37 Copynumber: 2.8 Consensus size: 37
2941043 AATTCAGAGA
* * * *
2941053 TTGAAGAGTTGAAGGAATTAAGAATAAAATTGGAAGC
1 TTGAAGAGTTGAAGGAATCAAGAAGAAAATAGGAAAC
* *
2941090 TTGAAGTGTT-AATGGAATCAAGAAGAAAGTAGGAAAC
1 TTGAAGAGTTGAA-GGAATCAAGAAGAAAATAGGAAAC
* * **
2941127 TTGAAGCGTTGAATGAATCGGGAAGAAA
1 TTGAAGAGTTGAAGGAATCAAGAAGAAA
2941155 GTAAGGAGCT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
36 2 0.04
37 49 0.92
38 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.28, T:0.23
Consensus pattern (37 bp):
TTGAAGAGTTGAAGGAATCAAGAAGAAAATAGGAAAC
Found at i:2941187 original size:37 final size:37
Alignment explanation
Indices: 2941126--2941287 Score: 112
Period size: 37 Copynumber: 4.4 Consensus size: 37
2941116 AAGTAGGAAA
* * **
2941126 CTTGAAGCGTTGAATGAATCGGGAAGA-AAGTAAGGAG
1 CTTGAAGGGTTGAAGGAAAAGGGAAGATAA-TAAGGAG
* * * *
2941163 CTTTATGGGTTGAAGGAAAAGGGAATATTATAAGGAG
1 CTTGAAGGGTTGAAGGAAAAGGGAAGATAATAAGGAG
**** * * *
2941200 CTTGAAGGGTTGAAGGAATCTAGAAGAAAATATGAAG
1 CTTGAAGGGTTGAAGGAAAAGGGAAGATAATAAGGAG
* * * * *
2941237 TTTGAAGGGTTAAAGGAAGAGGGAAGA-AGGTATGGAG
1 CTTGAAGGGTTGAAGGAAAAGGGAAGATA-ATAAGGAG
2941274 CTTGAAGGGTTGAA
1 CTTGAAGGGTTGAA
2941288 AAAAGGTGTA
Statistics
Matches: 94, Mismatches: 29, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
36 1 0.01
37 92 0.98
38 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.35, T:0.22
Consensus pattern (37 bp):
CTTGAAGGGTTGAAGGAAAAGGGAAGATAATAAGGAG
Found at i:2941189 original size:111 final size:111
Alignment explanation
Indices: 2941053--2941287 Score: 235
Period size: 111 Copynumber: 2.1 Consensus size: 111
2941043 AATTCAGAGA
* * *
2941053 TTGAAGAGTTGAAGGAATTAA--GAATAAAAT-TGGAAGCTTGAAGTGTT-AATGGAATCAAGAA
1 TTGAAGGGTTGAAGGAA--AAGGGAATAAAATAAGG-AGCTTGAAGGGTTGAA-GGAATCAAGAA
* * * **
2941114 GAAAGTAGGAAACTTGAAGCGTTGAATGAATCGGGAAGAAAGTAAGGAGC
62 GAAAATAGGAAACTTGAAGCGTTAAAGGAAGAGGGAAGAAAGTAAGGAGC
* * ** *
2941164 TTTATGGGTTGAAGGAAAAGGGAATATTATAAGGAGCTTGAAGGGTTGAAGGAATCTAGAAGAAA
1 TTGAAGGGTTGAAGGAAAAGGGAATAAAATAAGGAGCTTGAAGGGTTGAAGGAATCAAGAAGAAA
* ** * * *
2941229 ATATGAAGTTTGAAGGGTTAAAGGAAGAGGGAAGAAGGTATGGAGC
66 ATAGGAAACTTGAAGCGTTAAAGGAAGAGGGAAGAAAGTAAGGAGC
2941275 TTGAAGGGTTGAA
1 TTGAAGGGTTGAA
2941288 AAAAGGTGTA
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
109 2 0.02
111 93 0.94
112 4 0.04
ACGTcount: A:0.41, C:0.04, G:0.33, T:0.23
Consensus pattern (111 bp):
TTGAAGGGTTGAAGGAAAAGGGAATAAAATAAGGAGCTTGAAGGGTTGAAGGAATCAAGAAGAAA
ATAGGAAACTTGAAGCGTTAAAGGAAGAGGGAAGAAAGTAAGGAGC
Found at i:2945010 original size:22 final size:22
Alignment explanation
Indices: 2944980--2945029 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
2944970 ATGAATTCAC
2944980 AAATATAGGAGCA-CATAAATGCT
1 AAAT-TAGGAGCACCA-AAATGCT
*
2945003 AAATTAGGAGCACCAAAGTGCT
1 AAATTAGGAGCACCAAAATGCT
2945025 AAATT
1 AAATT
2945030 CAGAAGCCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (22 bp):
AAATTAGGAGCACCAAAATGCT
Found at i:2945045 original size:23 final size:23
Alignment explanation
Indices: 2944999--2945077 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
2944989 AGCACATAAA
*
2944999 TGCTAAATT-AGGAGCACCAAAG
1 TGCTAAATTCAGAAGCACCAAAG
*
2945021 TGCTAAATTCAGAAGCCCCAAAG
1 TGCTAAATTCAGAAGCACCAAAG
* ** *
2945044 TGTTAGTTTCAAGAA-CACCAGAG
1 TGCTAAATTC-AGAAGCACCAAAG
2945067 TGCTAAATTCA
1 TGCTAAATTCA
2945078 CGAGCACACG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
22 10 0.22
23 31 0.69
24 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (23 bp):
TGCTAAATTCAGAAGCACCAAAG
Found at i:2947429 original size:419 final size:419
Alignment explanation
Indices: 2946651--2947493 Score: 1659
Period size: 419 Copynumber: 2.0 Consensus size: 419
2946641 TTCTAGTAAA
* *
2946651 AATTATGATTTTTTTTTACTATAAGCCTAGATTCTCTTTAAACTTTCATCTCTTTTTTCTTTTCC
1 AATTATGATTTTTTTTTACTATAAACCTAAATTCTCTTTAAACTTTCATCTCTTTTTTCTTTTCC
2946716 CAATATCAAGCCCCACTGTCGTCAACTTCTTCTCCGGCGCCGATCACTTCTTCGACAAGAATGGC
66 CAATATCAAGCCCCACTGTCGTCAACTTCTTCTCCGGCGCCGATCACTTCTTCGACAAGAATGGC
2946781 ACGAGTTTAAGATCTTCTCACCCTATTTCACTTTATCAACCCAAATTCGCCGAGAAATGCCCCAA
131 ACGAGTTTAAGATCTTCTCACCCTATTTCACTTTATCAACCCAAATTCGCCGAGAAATGCCCCAA
2946846 AATCCCTGAAACTAAAGCCCACTTTCGAACTCTTCTTTCGCCAGATCTCTGTCAGCAACCGTTAA
196 AATCCCTGAAACTAAAGCCCACTTTCGAACTCTTCTTTCGCCAGATCTCTGTCAGCAACCGTTAA
2946911 ACCGTCTTGGTTTTTTTGTAATGTGATTCTTCTTATCAGTGGCTACCTTTTGCTTGTTCAAATCT
261 ACCGTCTTGGTTTTTTTGTAATGTGATTCTTCTTATCAGTGGCTACCTTTTGCTTGTTCAAATCT
2946976 CCAAACAAAGATTGGAAATCCTAAGTCGTAAGATAAATCCTCTTTTCCTTTTTCTTTATTTGTTG
326 CCAAACAAAGATTGGAAATCCTAAGTCGTAAGATAAATCCTCTTTTCCTTTTTCTTTATTTGTTG
2947041 AGATCTTCAGGTCTTCATATGGCTGCGAC
391 AGATCTTCAGGTCTTCATATGGCTGCGAC
*
2947070 AATTATGATTTTTTTTTACTTTAAACCTAAATTCTCTTTAAACTTTCATCTCTTTTTTCTTTTCC
1 AATTATGATTTTTTTTTACTATAAACCTAAATTCTCTTTAAACTTTCATCTCTTTTTTCTTTTCC
2947135 CAATATCAAGCCCCACTGTCGTCAACTTCTTCTCCGGCGCCGATCACTTCTTCGACAAGAATGGC
66 CAATATCAAGCCCCACTGTCGTCAACTTCTTCTCCGGCGCCGATCACTTCTTCGACAAGAATGGC
2947200 ACGAGTTTAAGATCTTCTCACCCTATTTCACTTTATCAACCCAAATTCGCCGAGAAATGCCCCAA
131 ACGAGTTTAAGATCTTCTCACCCTATTTCACTTTATCAACCCAAATTCGCCGAGAAATGCCCCAA
2947265 AATCCCTGAAACTAAAGCCCACTTTCGAACTCTTCTTTCGCCAGATCTCTGTCAGCAACCGTTAA
196 AATCCCTGAAACTAAAGCCCACTTTCGAACTCTTCTTTCGCCAGATCTCTGTCAGCAACCGTTAA
2947330 ACCGTCTTGGTTTTTTTGTAATGTGATTCTTCTTATCAGTGGCTACCTTTTGCTTGTTCAAATCT
261 ACCGTCTTGGTTTTTTTGTAATGTGATTCTTCTTATCAGTGGCTACCTTTTGCTTGTTCAAATCT
2947395 CCAAACAAAGATTGGAAATCCTAAGTCGTAAGATAAATCCTCTTTTCCTTTTTCTTTATTTGTTG
326 CCAAACAAAGATTGGAAATCCTAAGTCGTAAGATAAATCCTCTTTTCCTTTTTCTTTATTTGTTG
2947460 AGATCTTCAGGTCTTCATATGGCTGCGAC
391 AGATCTTCAGGTCTTCATATGGCTGCGAC
2947489 AATTA
1 AATTA
2947494 CATAATTAAG
Statistics
Matches: 421, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
419 421 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (419 bp):
AATTATGATTTTTTTTTACTATAAACCTAAATTCTCTTTAAACTTTCATCTCTTTTTTCTTTTCC
CAATATCAAGCCCCACTGTCGTCAACTTCTTCTCCGGCGCCGATCACTTCTTCGACAAGAATGGC
ACGAGTTTAAGATCTTCTCACCCTATTTCACTTTATCAACCCAAATTCGCCGAGAAATGCCCCAA
AATCCCTGAAACTAAAGCCCACTTTCGAACTCTTCTTTCGCCAGATCTCTGTCAGCAACCGTTAA
ACCGTCTTGGTTTTTTTGTAATGTGATTCTTCTTATCAGTGGCTACCTTTTGCTTGTTCAAATCT
CCAAACAAAGATTGGAAATCCTAAGTCGTAAGATAAATCCTCTTTTCCTTTTTCTTTATTTGTTG
AGATCTTCAGGTCTTCATATGGCTGCGAC
Found at i:2948081 original size:21 final size:19
Alignment explanation
Indices: 2948056--2948094 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
2948046 GTAAAATAAA
*
2948056 AAGAAATAATCATAATTTTTT
1 AAGAAAAAAT-AT-ATTTTTT
2948077 AAGAAAAAATATATTTTT
1 AAGAAAAAATATATTTTT
2948095 ATAAATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (19 bp):
AAGAAAAAATATATTTTTT
Found at i:2955814 original size:6 final size:6
Alignment explanation
Indices: 2955803--2955827 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2955793 CCGGTTCTCA
2955803 GCGGTG GCGGTG GCGGTG GCGGTG G
1 GCGGTG GCGGTG GCGGTG GCGGTG G
2955828 AAATGAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.68, T:0.16
Consensus pattern (6 bp):
GCGGTG
Found at i:2956702 original size:36 final size:37
Alignment explanation
Indices: 2956662--2956764 Score: 140
Period size: 36 Copynumber: 2.9 Consensus size: 37
2956652 TTGAAAACCA
* * **
2956662 GCTTATGTT-TTATAATATTGTTGTTGGTATATTGTT
1 GCTTATGTTGTTATAATATGGCTACTGGTATATTGTT
2956698 GCTTATGTTGTTAT-ATATGGCTACTGGTATATTGTT
1 GCTTATGTTGTTATAATATGGCTACTGGTATATTGTT
*
2956734 GCTTATGTTGTTAT-ACATGGCTACTGGTATA
1 GCTTATGTTGTTATAATATGGCTACTGGTATA
2956765 CATGGCTAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 57 0.93
37 4 0.07
ACGTcount: A:0.20, C:0.08, G:0.21, T:0.50
Consensus pattern (37 bp):
GCTTATGTTGTTATAATATGGCTACTGGTATATTGTT
Found at i:2956712 original size:20 final size:20
Alignment explanation
Indices: 2956683--2956748 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
2956673 ATAATATTGT
*
2956683 TGTTGGTATATTGTTGCTTA
1 TGTTGTTATATTGTTGCTTA
2956703 TGTTGTTATATATG--GC-TA
1 TGTTGTTATAT-TGTTGCTTA
2956721 CTG--G-TATATTGTTGCTTA
1 -TGTTGTTATATTGTTGCTTA
2956739 TGTTGTTATA
1 TGTTGTTATA
2956749 CATGGCTACT
Statistics
Matches: 37, Mismatches: 1, Indels: 16
0.69 0.02 0.30
Matches are distributed among these distances:
15 2 0.05
16 5 0.14
17 5 0.14
18 4 0.11
19 5 0.14
20 14 0.38
21 2 0.05
ACGTcount: A:0.18, C:0.06, G:0.23, T:0.53
Consensus pattern (20 bp):
TGTTGTTATATTGTTGCTTA
Found at i:2957484 original size:21 final size:22
Alignment explanation
Indices: 2957458--2957520 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 22
2957448 ATCTTTTTGG
2957458 TGAGTTGGGGCAGCTTGTTGA-
1 TGAGTTGGGGCAGCTTGTTGAC
* *
2957479 TGAGTTGGGGCAGTTTG-TAAC
1 TGAGTTGGGGCAGCTTGTTGAC
* *
2957500 TGAGTTGGGGTAGCCTGTTGA
1 TGAGTTGGGGCAGCTTGTTGA
2957521 GTTAGGGTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.16, C:0.10, G:0.41, T:0.33
Consensus pattern (22 bp):
TGAGTTGGGGCAGCTTGTTGAC
Found at i:2957523 original size:18 final size:18
Alignment explanation
Indices: 2957500--2957558 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
2957490 AGTTTGTAAC
2957500 TGAGTTGGGGTAGCCTGT
1 TGAGTTGGGGTAGCCTGT
* * *
2957518 TGAGTTAGGGTACTCTCTTGC
1 TGAGTTGGGGTA-GC-C-TGT
*
2957539 TGATTTGGGGTAGCCTGT
1 TGAGTTGGGGTAGCCTGT
2957557 TG
1 TG
2957559 CTAATTTGGG
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
18 15 0.48
19 2 0.06
20 2 0.06
21 12 0.39
ACGTcount: A:0.12, C:0.14, G:0.37, T:0.37
Consensus pattern (18 bp):
TGAGTTGGGGTAGCCTGT
Found at i:2957748 original size:2 final size:2
Alignment explanation
Indices: 2957741--2957937 Score: 211
Period size: 2 Copynumber: 100.0 Consensus size: 2
2957731 CTCATGTCCA
*
2957741 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AA AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
2957783 -C A- AC AC AC AC AC AC AC AC AC AC AC AC AA AA AC AC AC AC A-
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* ** * * * * * * *
2957822 AT TG AG AC AT AC AT AC AC AC GC AC GC AC GC AC GC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * * * *
2957864 AC AC AC AC AC AC AC AC AC AC AC AC AT AT AC GC AC GC AC GC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2957906 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2957938 TTAAAAAGCA
Statistics
Matches: 164, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
1 3 0.02
2 161 0.98
ACGTcount: A:0.48, C:0.45, G:0.05, T:0.03
Consensus pattern (2 bp):
AC
Found at i:2958076 original size:28 final size:26
Alignment explanation
Indices: 2958044--2958121 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
2958034 ACACCGACAA
2958044 TCACTGCATGCATATTATTAAAAAATAC
1 TCACTGCATGC-TA-TATTAAAAAATAC
*
2958072 TCACTGCATGC-ATATTAAAAAATAG
1 TCACTGCATGCTATATTAAAAAATAC
2958097 TCAACTGCATG-TATATTAAAAAATA
1 TC-ACTGCATGCTATATTAAAAAATA
2958122 GTCATACACA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
25 14 0.30
26 22 0.47
28 11 0.23
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (26 bp):
TCACTGCATGCTATATTAAAAAATAC
Found at i:2958103 original size:26 final size:26
Alignment explanation
Indices: 2958059--2958125 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
2958049 GCATGCATAT
*
2958059 TATTAAAAAATACTC-ACTGCATGCA
1 TATTAAAAAATAGTCAACTGCATGCA
*
2958084 TATTAAAAAATAGTCAACTGCATGTA
1 TATTAAAAAATAGTCAACTGCATGCA
2958110 TATTAAAAAATAGTCA
1 TATTAAAAAATAGTCA
2958126 TACACACCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 14 0.36
26 25 0.64
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (26 bp):
TATTAAAAAATAGTCAACTGCATGCA
Found at i:2958168 original size:26 final size:25
Alignment explanation
Indices: 2958139--2958212 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 25
2958129 ACACCAACAA
2958139 TCACTGCATGCATATTATAAAAATAC
1 TCACTGCATGCATATTA-AAAAATAC
*
2958165 TCACTGCATGCATATTAAAAAATAG
1 TCACTGCATGCATATTAAAAAATAC
** *
2958190 TCAACAACATGTATATTAAAAAA
1 TC-ACTGCATGCATATTAAAAAA
2958213 CAGTCATACA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.21
26 34 0.79
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.28
Consensus pattern (25 bp):
TCACTGCATGCATATTAAAAAATAC
Found at i:2958206 original size:93 final size:95
Alignment explanation
Indices: 2957949--2958248 Score: 480
Period size: 95 Copynumber: 3.2 Consensus size: 95
2957939 TAAAAAGCAG
* * *
2957949 TCACTACATGCATATTATTAAAAAATACTCACTGCATTCATATTAAAAAATAGTCAA-AAGTATG
1 TCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAA-CATG
* *
2958013 TATATTAAAAAACAATCATACACACCGACAA
65 TATATTAAAAAACAGTCATACACACCAACAA
**
2958044 TCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACTGCATGT
1 TCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAACATGT
*
2958109 ATATTAAAAAATAGTCATACACACCAACAA
66 ATATTAAAAAACAGTCATACACACCAACAA
2958139 TCACTGCATGCATATTA-T-AAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAACATGT
1 TCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAACATGT
2958202 ATATTAAAAAACAGTCATACACACCAACAA
66 ATATTAAAAAACAGTCATACACACCAACAA
* *
2958232 TCATTGTATGCATATTA
1 TCACTGCATGCATATTA
2958249 AAAAACATTC
Statistics
Matches: 191, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
93 87 0.46
94 1 0.01
95 103 0.54
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.28
Consensus pattern (95 bp):
TCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAACATGT
ATATTAAAAAACAGTCATACACACCAACAA
Found at i:2960130 original size:61 final size:62
Alignment explanation
Indices: 2960055--2960191 Score: 249
Period size: 62 Copynumber: 2.2 Consensus size: 62
2960045 CCATTTCTAT
2960055 CAGACAATAACCAATAC-AAAATAATTTAATACAAACACAACCATTTTTGTCATGCACATGG
1 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTTTGTCATGCACATGG
*
2960116 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTTTGTCATGCACGTGG
1 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTTTGTCATGCACATGG
*
2960178 CAGGCAATAACCAA
1 CAGACAATAACCAA
2960192 ACATTTTAAC
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
61 17 0.23
62 56 0.77
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (62 bp):
CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTTTGTCATGCACATGG
Found at i:2960470 original size:6 final size:6
Alignment explanation
Indices: 2960461--2960614 Score: 157
Period size: 6 Copynumber: 25.7 Consensus size: 6
2960451 AAATAACCCT
*
2960461 AAATTA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * * * ** * *
2960509 GAATCA GAATCA GAATCG AAATCA AAATTG AAATCA AAATCC AAATCG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * * * *
2960557 AAATCG AAATCA AAATCA TAATCG AAATCA AAAT-A GAAATCG AAATCG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA -AAATCA AAATCA
*
2960605 AAATCG AAAT
1 AAATCA AAAT
2960615 AACCCAAAAT
Statistics
Matches: 129, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
5 1 0.01
6 128 0.99
ACGTcount: A:0.58, C:0.15, G:0.08, T:0.19
Consensus pattern (6 bp):
AAATCA
Found at i:2960872 original size:43 final size:42
Alignment explanation
Indices: 2960806--2960893 Score: 113
Period size: 43 Copynumber: 2.1 Consensus size: 42
2960796 CTAACCTTAT
* * *
2960806 ACCTTGTTAATCAATTATTGAATCAATTTCTAACCCTAAACCA
1 ACCTTCTTAATCAATTATCGAATCAATTTCAAACCC-AAACCA
* * *
2960849 ACCTTCTTAATCGATTCTCGAATCAGTTTCAAACCCAAACCA
1 ACCTTCTTAATCAATTATCGAATCAATTTCAAACCCAAACCA
2960891 ACC
1 ACC
2960894 CAAATCACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 9 0.23
43 30 0.77
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (42 bp):
ACCTTCTTAATCAATTATCGAATCAATTTCAAACCCAAACCA
Found at i:2961070 original size:21 final size:21
Alignment explanation
Indices: 2961046--2961087 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2961036 TTCACCAACG
2961046 TAGCAAGTTAACTTACCACAT
1 TAGCAAGTTAACTTACCACAT
** *
2961067 TAGCTGGTTAACTTGCCACAT
1 TAGCAAGTTAACTTACCACAT
2961088 CAACGGTCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (21 bp):
TAGCAAGTTAACTTACCACAT
Found at i:2963997 original size:20 final size:21
Alignment explanation
Indices: 2963972--2964010 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2963962 CTAATTATGG
*
2963972 AATTAAAAATTAAA-AAAAAT
1 AATTAAAAAATAAACAAAAAT
2963992 AATTAAAAAATAAACAAAA
1 AATTAAAAAATAAACAAAA
2964011 CTCATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (21 bp):
AATTAAAAAATAAACAAAAAT
Found at i:2964413 original size:18 final size:18
Alignment explanation
Indices: 2964390--2964442 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
2964380 AATCGTGTCG
2964390 TTCGTTTTCAAAACATTA
1 TTCGTTTTCAAAACATTA
* * *
2964408 TTCGTTTACAAATCGTTA
1 TTCGTTTTCAAAACATTA
*
2964426 TTCAATTTT-AAAACATT
1 TTC-GTTTTCAAAACATT
2964443 TTTTTATTGC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (18 bp):
TTCGTTTTCAAAACATTA
Found at i:2964554 original size:38 final size:39
Alignment explanation
Indices: 2964495--2964572 Score: 149
Period size: 38 Copynumber: 2.0 Consensus size: 39
2964485 ATTTTTGATA
2964495 AAACATTAATTTTATTTGAAAACTCGAGTTTTACCTAAC
1 AAACATTAATTTTATTTGAAAACTCGAGTTTTACCTAAC
2964534 AAACATTAA-TTTATTTGAAAACTCGAGTTTTACCTAAC
1 AAACATTAATTTTATTTGAAAACTCGAGTTTTACCTAAC
2964572 A
1 A
2964573 CTAGCAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 30 0.77
39 9 0.23
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (39 bp):
AAACATTAATTTTATTTGAAAACTCGAGTTTTACCTAAC
Found at i:2966539 original size:13 final size:13
Alignment explanation
Indices: 2966518--2966547 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2966508 GAAGCTGCAA
*
2966518 AAAATTGAAGAAG
1 AAAAGTGAAGAAG
2966531 AAAAGTGAAGAAG
1 AAAAGTGAAGAAG
2966544 AAAA
1 AAAA
2966548 TTGACCTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (13 bp):
AAAAGTGAAGAAG
Found at i:2991724 original size:30 final size:30
Alignment explanation
Indices: 2991664--2991725 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
2991654 NNNTTTTGAA
* * *
2991664 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAAATTTT
2991694 AATATTTACAAAAAGA-GCAGCCAAAATTTT
1 AATATTTACAAAAAGAGGCA-CCAAAATTTT
2991724 AA
1 AA
2991726 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAAATTTT
Found at i:2997197 original size:40 final size:41
Alignment explanation
Indices: 2997059--2997245 Score: 195
Period size: 40 Copynumber: 4.6 Consensus size: 41
2997049 ACTCCATGTT
* *
2997059 TCGCACACTAAATGCCATCGCATAGCCGAAGCTATT-A-TAA
1 TCGCACACTAAGTGCCAT-ACATAGCCGAAGCTATTCACTAA
* * *
2997099 TCCCGCACACTAAGTGCCTTACATAGCCGAAGCTATCTCAGT-T
1 T--CGCACACTAAGTGCCATACATAGCCGAAGCTAT-TCACTAA
*
2997142 TCGCACACTAAGTGCCATATATAGCCGAAGCTATTC-CTAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATTCACTAA
* * *
2997182 TCGCACACTAAGTGCCATAAATAGCCGAAGCTA-TCTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATTCACTAA
* * *
2997222 TCGTACACTAAGTGCTAAACATAG
1 TCGCACACTAAGTGCCATACATAG
2997246 TCGATTAATT
Statistics
Matches: 126, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 3 0.02
40 58 0.46
41 46 0.37
42 16 0.13
43 2 0.02
44 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATTCACTAA
Found at i:2997211 original size:81 final size:81
Alignment explanation
Indices: 2997056--2997236 Score: 240
Period size: 81 Copynumber: 2.2 Consensus size: 81
2997046 AATACTCCAT
* * * *
2997056 GTTTCGCACACTAAATGCCATCGCATAGCCGAAGCTATTATAATCCCGCACACTAAGTGCCTTAC
1 GTTTCGCACACTAAGTGCCATCACATAGCCGAAGCTATTATAAT-CCGCACACTAAGTGCCATAA
2997121 ATAGCCGAAGCTATCTC
65 ATAGCCGAAGCTATCTC
* *
2997138 AGTTTCGCACACTAAGTGCCAT-ATATAGCCGAAGCTATTCCTAAT-CGCACACTAAGTGCCATA
1 -GTTTCGCACACTAAGTGCCATCACATAGCCGAAGCTATT-ATAATCCGCACACTAAGTGCCATA
2997201 AATAGCCGAAGCTATCTC
64 AATAGCCGAAGCTATCTC
** *
2997219 GAATCGTACACTAAGTGC
1 GTTTCGCACACTAAGTGC
2997237 TAAACATAGT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
80 15 0.17
81 34 0.39
82 15 0.17
83 24 0.27
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (81 bp):
GTTTCGCACACTAAGTGCCATCACATAGCCGAAGCTATTATAATCCGCACACTAAGTGCCATAAA
TAGCCGAAGCTATCTC
Found at i:3003681 original size:24 final size:25
Alignment explanation
Indices: 3003644--3003711 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 25
3003634 GTTACGAACC
* *
3003644 ACAGCTCATAAGAGCATACCGA-TT
1 ACAGCTCGTGAGAGCATACCGATTT
*
3003668 ATAGCTCGTGAGAGCATACCGATTT
1 ACAGCTCGTGAGAGCATACCGATTT
*
3003693 ACAGCTCGTGTGAGCATAC
1 ACAGCTCGTGAGAGCATAC
3003712 ATGTATAGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
24 19 0.50
25 19 0.50
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACCGATTT
Found at i:3004299 original size:25 final size:25
Alignment explanation
Indices: 3004245--3004299 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
3004235 TTGGTTAGTG
*
3004245 TTGGTCATGTGTTTTGGTTGTTGAA
1 TTGGCCATGTGTTTTGGTTGTTGAA
* * *
3004270 ATGGCCATTTGTTTTGGCTTG-TGAT
1 TTGGCCATGTGTTTTGG-TTGTTGAA
3004295 TTGGC
1 TTGGC
3004300 ACTTTGATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.11, C:0.09, G:0.31, T:0.49
Consensus pattern (25 bp):
TTGGCCATGTGTTTTGGTTGTTGAA
Found at i:3007810 original size:25 final size:25
Alignment explanation
Indices: 3007782--3007856 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
3007772 TATGCTTTTG
*
3007782 CGAGCTGTGAATCGGTAAGCTCATA
1 CGAGCTGAGAATCGGTAAGCTCATA
* *
3007807 CGAGCTGAGGATCGGTAAGCTTATA
1 CGAGCTGAGAATCGGTAAGCTCATA
* *
3007832 CTAGTTGAGAATCGGTAAGCTCATA
1 CGAGCTGAGAATCGGTAAGCTCATA
3007857 AGAGTCTCCG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (25 bp):
CGAGCTGAGAATCGGTAAGCTCATA
Found at i:3015603 original size:22 final size:22
Alignment explanation
Indices: 3015558--3015603 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3015548 TTAATTTCTT
**
3015558 TTAAAATTTTTTTTTTTTAGAA
1 TTAAAATTTTTTTGATTTAGAA
3015580 TTAAAATTTATTTTGATTTA-AA
1 TTAAAATTT-TTTTGATTTAGAA
3015602 TT
1 TT
3015604 TAATTAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TTAAAATTTTTTTGATTTAGAA
Found at i:3019305 original size:34 final size:34
Alignment explanation
Indices: 3019262--3019330 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
3019252 ATCAATTAAG
3019262 ATAATTTTAACGTCCCATATTTGACCTGATCACC
1 ATAATTTTAACGTCCCATATTTGACCTGATCACC
3019296 ATAATTTTAACGTCCCATATTTGACCTGATCACC
1 ATAATTTTAACGTCCCATATTTGACCTGATCACC
3019330 A
1 A
3019331 AGTCCGAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (34 bp):
ATAATTTTAACGTCCCATATTTGACCTGATCACC
Found at i:3022957 original size:19 final size:19
Alignment explanation
Indices: 3022933--3022972 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
3022923 ACGCCTTTTT
*
3022933 TTGCATTT-ATGCATCTGCA
1 TTGCATTTCAT-CATATGCA
3022952 TTGCATTTCATCATATGCA
1 TTGCATTTCATCATATGCA
3022971 TT
1 TT
3022973 AAATTTCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (19 bp):
TTGCATTTCATCATATGCA
Found at i:3025574 original size:20 final size:20
Alignment explanation
Indices: 3025549--3025593 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
3025539 TTTACTTTAA
3025549 AAAAACAAAGAAAAGAAAA-G
1 AAAAACAAA-AAAAGAAAAGG
*
3025569 AAAAACAAAAAAGGAAAAGG
1 AAAAACAAAAAAAGAAAAGG
3025589 AAAAA
1 AAAAA
3025594 AGAGAGGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAAACAAAAAAAGAAAAGG
Found at i:3026362 original size:143 final size:143
Alignment explanation
Indices: 3026155--3026561 Score: 643
Period size: 143 Copynumber: 2.8 Consensus size: 143
3026145 ATTTCCCAGG
*
3026155 CGTTGTAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGTAGTGG
1 CGTTGTAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGG
* * * *
3026220 AGCAGATTGAAGCCACCAGTCTTATCTCCCTGCAGTTGCAGCGAAGCAGACTGAAGACATCAAAT
66 AGCAGATTGAAACCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGACAACAAAT
*
3026285 TTTATTTCCTTAA
131 CTTATTTCCTTAA
* * * *
3026298 CGTTGCAGTGGAATAGATTAAAGCTACAAATTATAGCGGATCTTATCTTCCTGAAGTTGCAGTGG
1 CGTTGTAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGG
* *
3026363 AGCAGATTGAAACCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAACAGACTGAAGACAACGAAT
66 AGCAGATTGAAACCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGACAACAAAT
*
3026428 CTTATTTCCTTAG
131 CTTATTTCCTTAA
* * * *
3026441 CATTGTAGTGGAACAAATTAAAGCTACAACTTGTGGCAGATCTTATCTTCCTGAAGTTGCAGTGG
1 CGTTGTAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGG
* *
3026506 AGCAGATTGAAATCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAG
66 AGCAGATTGAAACCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAG
3026562 TAGAGGTGCT
Statistics
Matches: 240, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
143 240 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (143 bp):
CGTTGTAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGG
AGCAGATTGAAACCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGACAACAAAT
CTTATTTCCTTAA
Found at i:3026402 original size:44 final size:44
Alignment explanation
Indices: 3026339--3026560 Score: 133
Period size: 44 Copynumber: 4.8 Consensus size: 44
3026329 TATAGCGGAT
*
3026339 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAACCACCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCACCAGC
* * * * * * **
3026383 CTTATCTCCCTGAAGTTGCAGCGAAACAGACTGAAGACAACGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ACCACCAGC
* * * * * * *
3026428 CTTATTTCCTTAGCA-TTGTAGTGGAACAAATT-AAAGCTACAACTTGTGGCAGAT
1 CTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTGAAA-C--C-AC------CAG-C
* *
3026482 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAATCACCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCACCAGC
* *
3026526 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
3026561 GTAGAGGTGC
Statistics
Matches: 131, Mismatches: 32, Indels: 30
0.68 0.17 0.16
Matches are distributed among these distances:
43 1 0.01
44 65 0.50
45 29 0.22
46 2 0.02
47 2 0.02
51 2 0.02
52 1 0.01
53 3 0.02
54 23 0.18
55 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCACCAGC
Found at i:3027035 original size:44 final size:44
Alignment explanation
Indices: 3026964--3027805 Score: 171
Period size: 44 Copynumber: 17.9 Consensus size: 44
3026954 TTATGGCAGA
* * *
3026964 TCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAG
* * * * *
3027008 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACCAG
* * ** ** * * *
3027053 TCTTATTTTCCTGGCGTTGCAGTGGAATAGATTAAAGCTACAAATTATAGCGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C-------ACCAG
* * *
3027106 ATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCATCAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAG
* * * * * *
3027151 CCTTATCTCCCTGAAG-TGACAGCGGAGCAGACTGAAGACAACGAA
1 TCTTATCTCCCTGAAGTTG-CAGTGGAGCAGATTGAAG-CCACCAG
* ** * * * * **
3027196 TCTTATTTCCCTGGCGTTGTAGTGGAACAGATTAAAACTACAAATTATGGTGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C--ACCA-----G
3027249 ATCTTATCTTCCC-GAAGTTGCAGTGGAGCAGATTGAAGCCACCAG
1 -TCTTATC-TCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAG
* ** * * * * *
3027294 CCTTATCTCCCTGAAGTTATAGCGGAGCAGACTGAAGACATCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAG
* ** * * * * *
3027339 TCTTATTTCCCTGGCGTTGCAGTGGAACATATTAAAGCTACAAATTATGGCGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C-----A--CCAG
* *
3027392 ATCTTATCTTCCTGAAGTTGCAGTGGAGCATATTGAAGCCACCAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAG
* * * * * * * *
3027437 CCTTATCTCCCTGAAGTTACAGCGGAGTAGACTGAAGACAGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAG
* * * * * * * *
3027482 TCTTATTTCCCT-AGCGTTACAGTGGAACATATTAAAGCTACAAATTATGGCGAA
1 TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGC--C-----A---CCAG
*** * * *
3027536 TCTTATCTTTTTGAAGTTGTAGTGGAACAGATTGAAGCCATCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAG
* * * * * * *
3027580 TCTTATCTCCCTGAAGTTACAGCGGAGTAGACTGAAGACAGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAG
* * * * * * * * *
3027625 TCTTATTTCTCT-AGCGTTACAGTGGAACATATTAAAGCTACAAATTATGGCGAA
1 TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGC--C-----A---CCAG
*** * * *
3027679 TCTTATCTTTTTGAAGTTGTAGTGGAACAGATTGAAGCCATCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAG
* *** * *
3027723 TCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAAATAGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAG
* *
3027768 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
3027806 TATAAATTAC
Statistics
Matches: 558, Mismatches: 179, Indels: 121
0.65 0.21 0.14
Matches are distributed among these distances:
43 6 0.01
44 189 0.34
45 182 0.33
46 2 0.00
47 6 0.01
48 2 0.00
50 2 0.00
52 8 0.01
53 1 0.00
54 154 0.28
55 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAG
Found at i:3027156 original size:143 final size:143
Alignment explanation
Indices: 3026892--3027814 Score: 1333
Period size: 143 Copynumber: 6.5 Consensus size: 143
3026882 TAAGCACCTC
* * *
3026892 CAGACTGAAGACAATGAATCTTATTTCCTTGGCGTTGCAGTGGAACATATTAAAGATACAAATTA
1 CAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACATATTAAAGCTACAAATTA
* * *
3026957 TGGCAGATCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGA
66 TGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGA
*
3027022 AGTTGCAGCGGAG
131 AGTTACAGCGGAG
* * *
3027035 CAGACTGAAGACAACGAATCTTATTTTCCTGGCGTTGCAGTGGAATAGATTAAAGCTACAAATTA
1 CAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACATATTAAAGCTACAAATTA
* *
3027100 TAGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCATCAGCCTTATCTCCCTGA
66 TGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGA
*
3027165 AGTGACAGCGGAG
131 AGTTACAGCGGAG
* * *
3027178 CAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGATTAAAACTACAAATTA
1 CAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACATATTAAAGCTACAAATTA
* * *
3027243 TGGTGGATCTTATCTTCCCGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGA
66 TGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGA
*
3027308 AGTTATAGCGGAG
131 AGTTACAGCGGAG
* *
3027321 CAGACTGAAGACATCAAATCTTATTTCCCTGGCGTTGCAGTGGAACATATTAAAGCTACAAATTA
1 CAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACATATTAAAGCTACAAATTA
* *
3027386 TGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCATATTGAAGCCACCAGCCTTATCTCCCTGA
66 TGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGA
3027451 AGTTACAGCGGAG
131 AGTTACAGCGGAG
* * * *
3027464 TAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACATATTAAAGCTACAAATTA
1 CAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACATATTAAAGCTACAAATTA
* ** * * *
3027529 TGGCGAATCTTATCTTTTTGAAGTTGTAGTGGAACAGATTGAAGCCATCAGTCTTATCTCCCTGA
66 TGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGA
3027594 AGTTACAGCGGAG
131 AGTTACAGCGGAG
* * * * *
3027607 TAGACTGAAGACAGCGAATCTTATTTCTCTAGCGTTACAGTGGAACATATTAAAGCTACAAATTA
1 CAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACATATTAAAGCTACAAATTA
* ** * * *
3027672 TGGCGAATCTTATCTTTTTGAAGTTGTAGTGGAACAGATTGAAGCCATCAGTCTTATCTCCCTGA
66 TGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGA
* *
3027737 AGTTGCAGTGGAG
131 AGTTACAGCGGAG
* * * * * ** * * *
3027750 CATATTGAAAATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTA
1 CAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACATATTAAAGCTACAAATTA
3027815 CAGATCTTAT
Statistics
Matches: 718, Mismatches: 62, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
143 718 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (143 bp):
CAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACATATTAAAGCTACAAATTA
TGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGA
AGTTACAGCGGAG
Found at i:3032425 original size:16 final size:16
Alignment explanation
Indices: 3032375--3032425 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
3032365 GGTTTACTGG
* *
3032375 AATGAAATAGAGCAGT
1 AATGGAATAGAGCTGT
*
3032391 AATGGAATAGAGTTGT
1 AATGGAATAGAGCTGT
*
3032407 AATGGAATAGAGCTCT
1 AATGGAATAGAGCTGT
3032423 AAT
1 AAT
3032426 CAATAATTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:3034361 original size:16 final size:16
Alignment explanation
Indices: 3034340--3034372 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3034330 TTCGCTGTAT
3034340 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
3034356 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
3034372 T
1 T
3034373 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:3034628 original size:18 final size:18
Alignment explanation
Indices: 3034605--3034656 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
3034595 TTATTATTAA
3034605 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
3034623 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
3034640 ATATGAATTTACTAAAA
1 ATAT-AATTTAATAAAA
3034657 CCATAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 9 0.29
18 19 0.61
19 3 0.10
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:3042883 original size:6 final size:6
Alignment explanation
Indices: 3042832--3042896 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
3042822 GTGAATTCTT
* * * *
3042832 GAAAGAA GAAAAA -AAAAA GAAGAAG GAAGAAG GAAGAA GGAAAA GAAAAA
1 GAAA-AA GAAAAA GAAAAA GAA-AAA GAA-AAA GAAAAA GAAAAA GAAAAA
3042882 GAAAAA GAAAAA GAA
1 GAAAAA GAAAAA GAA
3042897 GAAAAAAGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
5 5 0.10
6 29 0.58
7 16 0.32
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:3045882 original size:14 final size:15
Alignment explanation
Indices: 3045855--3045884 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3045845 ATTCATTTCA
3045855 TTTCATTTCATTTTT
1 TTTCATTTCATTTTT
3045870 TTTC-TTTCATTTTT
1 TTTCATTTCATTTTT
3045884 T
1 T
3045885 CCACTTCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTCATTTCATTTTT
Found at i:3047357 original size:45 final size:45
Alignment explanation
Indices: 3047306--3047434 Score: 188
Period size: 45 Copynumber: 2.9 Consensus size: 45
3047296 AATGAGAAGA
*
3047306 ATTGGTGGTTTCGTCCACAACCTACATGGCAGCTTGTCTGCGAAT
1 ATTGGTGGTTTCGTCCACAACCTACATGGTAGCTTGTCTGCGAAT
* * * *
3047351 ATTGGTGGCTTCGTCCATAACCTACATGATAGCTTGTCTACGAAT
1 ATTGGTGGTTTCGTCCACAACCTACATGGTAGCTTGTCTGCGAAT
* *
3047396 ATTGGTAGTTT-ATCCACAACCTACATGGTAGCTTGTCTG
1 ATTGGTGGTTTCGTCCACAACCTACATGGTAGCTTGTCTG
3047435 TAAATTTAGA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 24 0.33
45 49 0.67
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (45 bp):
ATTGGTGGTTTCGTCCACAACCTACATGGTAGCTTGTCTGCGAAT
Found at i:3050141 original size:10 final size:10
Alignment explanation
Indices: 3050112--3050161 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
3050102 TTCTTTTATC
* *
3050112 AAATGTATAT
1 AAATATATAA
3050122 AAATAT-TAA
1 AAATATATAA
3050131 AAATATATAA
1 AAATATATAA
*
3050141 AAATAGA-AA
1 AAATATATAA
3050150 TAAATATATAA
1 -AAATATATAA
3050161 A
1 A
3050162 TTATAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 10 0.30
10 21 0.64
11 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (10 bp):
AAATATATAA
Found at i:3050253 original size:9 final size:9
Alignment explanation
Indices: 3050238--3050318 Score: 63
Period size: 9 Copynumber: 8.3 Consensus size: 9
3050228 AAAAGGTTAG
3050238 AAAAACTTAT
1 AAAAA-TTAT
*
3050248 AAAACTTAT
1 AAAAATTAT
3050257 AAAAATTTAT
1 AAAAA-TTAT
*
3050267 AAAAATTGT
1 AAAAATTAT
3050276 AAAAATTATTT
1 AAAAATTA--T
*
3050287 AAAAAATTTT
1 -AAAAATTAT
* *
3050297 AAAAATAAA
1 AAAAATTAT
3050306 AATAAATTAT
1 AA-AAATTAT
3050316 AAA
1 AAA
3050319 TTCATATATG
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
9 27 0.48
10 21 0.38
11 1 0.02
12 7 0.12
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:3050266 original size:19 final size:19
Alignment explanation
Indices: 3050238--3050302 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
3050228 AAAAGGTTAG
* *
3050238 AAAAACTTATAAAACTTAT
1 AAAAATTTATAAAAATTAT
*
3050257 AAAAATTTATAAAAATTGT
1 AAAAATTTATAAAAATTAT
* *
3050276 AAAAATTATTTAAAAAATTTT
1 AAAAATT-TAT-AAAAATTAT
3050297 AAAAAT
1 AAAAAT
3050303 AAAAATAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 23 0.59
20 2 0.05
21 14 0.36
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTTATAAAAATTAT
Found at i:3050293 original size:21 final size:22
Alignment explanation
Indices: 3050261--3050302 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
3050251 ACTTATAAAA
3050261 ATTTATAAAAATTGTAAAAATT
1 ATTTATAAAAATTGTAAAAATT
*
3050283 ATTTA-AAAAATTTTAAAAAT
1 ATTTATAAAAATTGTAAAAAT
3050303 AAAAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTTATAAAAATTGTAAAAATT
Found at i:3055332 original size:11 final size:11
Alignment explanation
Indices: 3055313--3055350 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
3055303 AAAAATTAAA
3055313 AAAAGTATTTTT
1 AAAA-TATTTTT
3055325 AAAATATTTTT
1 AAAATATTTTT
3055336 AAAATA-TTTT
1 AAAATATTTTT
3055346 AAAAT
1 AAAAT
3055351 TAAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 9 0.35
11 13 0.50
12 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:3055334 original size:42 final size:42
Alignment explanation
Indices: 3055287--3055429 Score: 123
Period size: 53 Copynumber: 3.2 Consensus size: 42
3055277 AGCCCATTTT
*
3055287 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTTAAAA
1 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
3055329 TATTTTTAAAATATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAA
1 TA-TTTTAAAA-A--TT----TT--AAAAAATT-AAAAAAAGTATTTTAAAAA
** *
3055382 TATTTT-AAAATTAAAAAAAATT--AAAAAGTA-TGTAAAAA
1 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
3055420 TATTTTAAAA
1 TATTTTAAAA
3055430 TTAAAAAAAT
Statistics
Matches: 85, Mismatches: 4, Indels: 27
0.73 0.03 0.23
Matches are distributed among these distances:
38 13 0.15
39 11 0.13
42 10 0.12
43 8 0.09
44 1 0.01
46 2 0.02
48 2 0.02
50 3 0.04
51 3 0.04
52 12 0.14
53 20 0.24
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (42 bp):
TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:3055350 original size:10 final size:10
Alignment explanation
Indices: 3055287--3055350 Score: 58
Period size: 11 Copynumber: 6.1 Consensus size: 10
3055277 AGCCCATTTT
3055287 TATTTTAAAA
1 TATTTTAAAA
3055297 -ATTTTAAAA
1 TATTTTAAAA
* **
3055306 AATTAAAAAAA
1 TATT-TTAAAA
3055317 GTATTTTTAAAA
1 -TA-TTTTAAAA
3055329 TATTTTTAAAA
1 TA-TTTTAAAA
3055340 TATTTTAAAA
1 TATTTTAAAA
3055350 T
1 T
3055351 TAAAAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
9 9 0.20
10 12 0.27
11 17 0.38
12 5 0.11
13 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:3055402 original size:52 final size:52
Alignment explanation
Indices: 3055293--3055408 Score: 146
Period size: 52 Copynumber: 2.2 Consensus size: 52
3055283 TTTTTATTTT
** * **
3055293 AAAAATTTTAAAAAATTAAAAAAAGTATTTTTAAAATATTTTTAAAATATTT
1 AAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTTAAAATATAA
*
3055345 TAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATA-TTTTAAAAT-TAAA
1 AAAAATTAAAAAAAATT-AAAAAAAGTATTTTAAAAATATTTTTAAAATAT-AA
3055397 AAAAATTAAAAA
1 AAAAATTAAAAA
3055409 GTATGTAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 1 0.02
52 34 0.62
53 20 0.36
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (52 bp):
AAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTTAAAATATAA
Found at i:3057585 original size:19 final size:19
Alignment explanation
Indices: 3057557--3057593 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3057547 AAATGAAAAT
*
3057557 AAATATAAAAATATTTTTA
1 AAATAAAAAAATATTTTTA
3057576 AAATAAAAAAATATTTTT
1 AAATAAAAAAATATTTTT
3057594 TTCAAAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATAAAAAAATATTTTTA
Found at i:3057788 original size:22 final size:22
Alignment explanation
Indices: 3057763--3057817 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
3057753 AAAAATAAAA
3057763 ATAAAATTATTTAAAT-TTAATT
1 ATAAAATTATTTAAATATTAA-T
*
3057785 ATAAAA-TATATAAATATTAAT
1 ATAAAATTATTTAAATATTAAT
*
3057806 ATAAAATGATTT
1 ATAAAATTATTT
3057818 TATATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAAAATTATTTAAATATTAAT
Found at i:3068539 original size:14 final size:14
Alignment explanation
Indices: 3068522--3068551 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3068512 TTATAAATAA
3068522 ATATGTATATATAT
1 ATATGTATATATAT
*
3068536 ATATGTATATGTAT
1 ATATGTATATATAT
3068550 AT
1 AT
3068552 GCCTACATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
ATATGTATATATAT
Found at i:3069725 original size:20 final size:20
Alignment explanation
Indices: 3069691--3069739 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
3069681 TGTAAATTTT
*
3069691 ATTTATATAAATTTTT-TATG
1 ATTTATATATATTTTTCTA-G
*
3069711 ATTTATATATTTTTTTCTAG
1 ATTTATATATATTTTTCTAG
3069731 A-TTATATAT
1 ATTTATATAT
3069740 GTTTCTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 16 0.62
21 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (20 bp):
ATTTATATATATTTTTCTAG
Found at i:3069726 original size:19 final size:20
Alignment explanation
Indices: 3069691--3069739 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
3069681 TGTAAATTTT
*
3069691 ATTTATATAAATTTTTTAT-G
1 ATTTATAT-ATTTTTTTATAG
*
3069711 ATTTATATATTTTTTTCTAG
1 ATTTATATATTTTTTTATAG
3069731 A-TTATATAT
1 ATTTATATAT
3069740 GTTTCTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (20 bp):
ATTTATATATTTTTTTATAG
Found at i:3071696 original size:21 final size:21
Alignment explanation
Indices: 3071670--3071711 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3071660 TTACTATACT
*
3071670 ATATATCTATGTAGTGAAAGA
1 ATATATCTATATAGTGAAAGA
*
3071691 ATATATGTATATAGTGAAAGA
1 ATATATCTATATAGTGAAAGA
3071712 GGGCGGCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.33
Consensus pattern (21 bp):
ATATATCTATATAGTGAAAGA
Found at i:3077388 original size:155 final size:156
Alignment explanation
Indices: 3077101--3077409 Score: 577
Period size: 155 Copynumber: 2.0 Consensus size: 156
3077091 AAATGTGTGC
3077101 TGGATATTGGTCTTTTTTTTTTTTTAAATGAAGGCCTGAAGCACAGCATAGTGCATGCTTTTGAA
1 TGGATATTGGTCTTTTTTTTTTTTTAAATGAAGGCCTGAAGCACAGCATAGTGCATGCTTTTGAA
3077166 CTTAATTGTAAACAAAAGCACTAGTTAACATTAAACCATCACAAAGCACCTTGTGGTGCTGACAC
66 CTTAATTGTAAACAAAAGCACTAGTTAACATTAAACCATCACAAAGCACCTTGTGGTGCTGACAC
3077231 ACTGATGGGTAGACATGTTAATAGTG
131 ACTGATGGGTAGACATGTTAATAGTG
3077257 TGGA-ATTGGTCTTTTTTTTTTTTTAAATGAAGAG-CTGAAGCACAGCATAGTGCATGCTTTTGA
1 TGGATATTGGTCTTTTTTTTTTTTTAAATGAAG-GCCTGAAGCACAGCATAGTGCATGCTTTTGA
* *
3077320 ACTTAATTGTAGACAAAAGCACTAGTTAACATTAAACCGTCACAAAGCACCTTGTGGTGCTGACA
65 ACTTAATTGTAAACAAAAGCACTAGTTAACATTAAACCATCACAAAGCACCTTGTGGTGCTGACA
3077385 CACTGATGGGTAGACATGTTAATAG
130 CACTGATGGGTAGACATGTTAATAG
3077410 GGGAATGGTT
Statistics
Matches: 150, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
155 145 0.97
156 5 0.03
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (156 bp):
TGGATATTGGTCTTTTTTTTTTTTTAAATGAAGGCCTGAAGCACAGCATAGTGCATGCTTTTGAA
CTTAATTGTAAACAAAAGCACTAGTTAACATTAAACCATCACAAAGCACCTTGTGGTGCTGACAC
ACTGATGGGTAGACATGTTAATAGTG
Found at i:3081283 original size:19 final size:18
Alignment explanation
Indices: 3081259--3081299 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
3081249 TAAGTTTGTA
3081259 ATGTTATATATATATATAT
1 ATGTTATATATATATAT-T
* *
3081278 ATGTTATTTTTATATATT
1 ATGTTATATATATATATT
3081296 ATGT
1 ATGT
3081300 AATTTATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (18 bp):
ATGTTATATATATATATT
Found at i:3081293 original size:17 final size:18
Alignment explanation
Indices: 3081269--3081304 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3081259 ATGTTATATA
*
3081269 TATATATATATGTTATTTT
1 TATATAT-TATGTAATTTT
3081288 TATATATTATGTAATTT
1 TATATATTATGTAATTT
3081305 ATAACACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
TATATATTATGTAATTTT
Found at i:3081926 original size:22 final size:22
Alignment explanation
Indices: 3081874--3081926 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
3081864 ATTTGACTAT
3081874 AAATAAAA-TTTTAATAATTAA
1 AAATAAAATTTTTAATAATTAA
3081895 AAATATAAATTTATTAA-ATATT-A
1 AAATA-AAATTT-TTAATA-ATTAA
3081918 AAATAAAAT
1 AAATAAAAT
3081927 AACATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
21 5 0.18
22 7 0.25
23 9 0.32
24 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATAAAATTTTTAATAATTAA
Found at i:3082640 original size:20 final size:20
Alignment explanation
Indices: 3082617--3082677 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
3082607 ATTGTTTGTA
*
3082617 TCAAACTGATGTTGTGTATG
1 TCAAACTAATGTTGTGTATG
** *
3082637 TCAAGTTTATTGTT-TGTA--
1 TCAA-ACTAATGTTGTGTATG
3082655 TCAAACTAATGTTGTGTATG
1 TCAAACTAATGTTGTGTATG
3082675 TCA
1 TCA
3082678 TGTGCAAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
17 6 0.20
18 8 0.27
20 11 0.37
21 5 0.17
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (20 bp):
TCAAACTAATGTTGTGTATG
Found at i:3082645 original size:38 final size:38
Alignment explanation
Indices: 3082590--3082677 Score: 158
Period size: 38 Copynumber: 2.3 Consensus size: 38
3082580 GTGCATGAAA
* *
3082590 TTGTGTATGTCATGTTTATTGTTTGTATCAAACTGATG
1 TTGTGTATGTCAAGTTTATTGTTTGTATCAAACTAATG
3082628 TTGTGTATGTCAAGTTTATTGTTTGTATCAAACTAATG
1 TTGTGTATGTCAAGTTTATTGTTTGTATCAAACTAATG
3082666 TTGTGTATGTCA
1 TTGTGTATGTCA
3082678 TGTGCAAGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.23, C:0.08, G:0.20, T:0.49
Consensus pattern (38 bp):
TTGTGTATGTCAAGTTTATTGTTTGTATCAAACTAATG
Found at i:3082658 original size:18 final size:18
Alignment explanation
Indices: 3082603--3082658 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
3082593 TGTATGTCAT
3082603 GTTTATTGTTTGTATCAA
1 GTTTATTGTTTGTATCAA
** *
3082621 ACTGA-TGTTGTGTATGTCAA
1 GTTTATTGTT-TGTA--TCAA
3082641 GTTTATTGTTTGTATCAA
1 GTTTATTGTTTGTATCAA
3082659 ACTAATGTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
20 10 0.36
21 4 0.14
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.50
Consensus pattern (18 bp):
GTTTATTGTTTGTATCAA
Found at i:3082705 original size:29 final size:29
Alignment explanation
Indices: 3082663--3082738 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
3082653 TATCAAACTA
3082663 ATGTTGTGTATGTCATGTGCAAGTGCATG
1 ATGTTGTGTATGTCATGTGCAAGTGCATG
3082692 ATGTTGTGTATGTCATGTGCAAGTGCATG
1 ATGTTGTGTATGTCATGTGCAAGTGCATG
*
3082721 ATGTTGTGTATATCATGT
1 ATGTTGTGTATGTCATGT
3082739 TTATTGTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.21, C:0.09, G:0.29, T:0.41
Consensus pattern (29 bp):
ATGTTGTGTATGTCATGTGCAAGTGCATG
Found at i:3085326 original size:33 final size:32
Alignment explanation
Indices: 3085284--3085365 Score: 114
Period size: 30 Copynumber: 2.6 Consensus size: 32
3085274 TAAATTATTT
3085284 TTGTATTGGTTATTGTCTGTCATGTTGTATTAAA
1 TTGT-TTGGTTATTGTCTGT-ATGTTGTATTAAA
*
3085318 TTGTTTGGTCATTG-CT-TATGTTGTATTAAA
1 TTGTTTGGTTATTGTCTGTATGTTGTATTAAA
*
3085348 TTGTTTGGTTGTTGTCTG
1 TTGTTTGGTTATTGTCTG
3085366 CCTTTATTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
30 25 0.58
31 3 0.07
32 2 0.05
33 9 0.21
34 4 0.09
ACGTcount: A:0.16, C:0.06, G:0.23, T:0.55
Consensus pattern (32 bp):
TTGTTTGGTTATTGTCTGTATGTTGTATTAAA
Found at i:3085462 original size:15 final size:15
Alignment explanation
Indices: 3085444--3085503 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
3085434 TGGTTGATTT
*
3085444 TGATGTGTCTGATAG
1 TGATGTGTTTGATAG
* * *
3085459 TGATGGGTTTGTTAA
1 TGATGTGTTTGATAG
*
3085474 TGATGTATTTGATAG
1 TGATGTGTTTGATAG
*
3085489 TGATGTGTTTAATAG
1 TGATGTGTTTGATAG
3085504 GATAACGGTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (15 bp):
TGATGTGTTTGATAG
Found at i:3090014 original size:17 final size:17
Alignment explanation
Indices: 3089989--3090023 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3089979 AATTAAAAAT
*
3089989 ATATATTATTGTTATAA
1 ATATATTATTATTATAA
*
3090006 ATATTTTATTATTATAA
1 ATATATTATTATTATAA
3090023 A
1 A
3090024 AATGAATGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATATATTATTATTATAA
Found at i:3090026 original size:19 final size:21
Alignment explanation
Indices: 3089982--3090026 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
3089972 AATGCTTAAT
*
3089982 TAAAAATATATATTATTGTTA
1 TAAAAATATATATTATTATTA
3090003 T--AAATAT-T-TTATTATTA
1 TAAAAATATATATTATTATTA
3090020 TAAAAAT
1 TAAAAAT
3090027 GAATGTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 10 0.48
21 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TAAAAATATATATTATTATTA
Found at i:3092233 original size:21 final size:21
Alignment explanation
Indices: 3092175--3092226 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
3092165 TTTCTAATCT
*
3092175 TGGTCAAAGTGCTTATGAGGC
1 TGGTCAAAATGCTTATGAGGC
3092196 TGGTCAAAATGCTTATGAGGC
1 TGGTCAAAATGCTTATGAGGC
*
3092217 TGGTCGAAAT
1 TGGTCAAAAT
3092227 TGTTATGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (21 bp):
TGGTCAAAATGCTTATGAGGC
Found at i:3098721 original size:18 final size:18
Alignment explanation
Indices: 3098695--3098733 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3098685 TTAATAAATA
* *
3098695 TATGTTATTTTCTTTAAT
1 TATGATATTTTATTTAAT
*
3098713 TATGATATTTTATTTATT
1 TATGATATTTTATTTAAT
3098731 TAT
1 TAT
3098734 TCGGATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (18 bp):
TATGATATTTTATTTAAT
Found at i:3101107 original size:110 final size:111
Alignment explanation
Indices: 3100888--3101139 Score: 335
Period size: 110 Copynumber: 2.3 Consensus size: 111
3100878 TGTCAATTAC
** * * *
3100888 GGCACCAAAATACGAAAAAAACTAAAAAAAATTATTTTTTTAGTGGTGGCCTGTCAATGGCCGGC
1 GGCACCAGTATACG-AAAAAAGTAAAAAAAATTATTTTTTTAGTGGTGGCCTGCCAATGGCCAGC
* ** *
3100953 ATCACCTTTTATTTAAATTTTTTTTTACTTTTTTCGTGTTAATGGCA
65 ACCACCTTTTATGGAAATTTTTTTTTACTTTTTTCGTGTCAATGGCA
* * * *
3101000 GGCACCAGTATACGAAAAAAGTAAAACAAATTTTTTTTTTGGTGGTGGCCTGCCAATGGTCAGCA
1 GGCACCAGTATACGAAAAAAGTAAAAAAAATTATTTTTTTAGTGGTGGCCTGCCAATGGCCAGCA
* *
3101065 CCACC-TTTATGGGATTTTTTTTTTACTTTTTTCGTGTCAATGGCA
66 CCACCTTTTATGGAAATTTTTTTTTACTTTTTTCGTGTCAATGGCA
* *
3101110 TGCACCAGTATACGAAAAAAGTTAAAAAAA
1 GGCACCAGTATACGAAAAAAGTAAAAAAAA
3101140 GAATTTTTGT
Statistics
Matches: 122, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
110 62 0.51
111 48 0.39
112 12 0.10
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (111 bp):
GGCACCAGTATACGAAAAAAGTAAAAAAAATTATTTTTTTAGTGGTGGCCTGCCAATGGCCAGCA
CCACCTTTTATGGAAATTTTTTTTTACTTTTTTCGTGTCAATGGCA
Found at i:3101448 original size:105 final size:103
Alignment explanation
Indices: 3101160--3101529 Score: 476
Period size: 106 Copynumber: 3.5 Consensus size: 103
3101150 TGGTTCCAAT
* * *
3101160 TTTTTTTTTTACTTTGGGTCTGTCAATGTCCGACACCAATATACGAAAAAAGTAAAAAAAAA-TT
1 TTTTTTTTTTACTTTTGGTCTGTCAATGT-CGGCACCAGTATACGAAAAAAGTAAAAAAAAATTT
*
3101224 GGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTT-TAGAA
65 GGTGGTGGCCTGCCAATGG-CGGCACCACCTTTTTCT-CAA
* * *
3101264 ATTTTTTTTTACTTTTGGTCTGTCAAT-TGCAAGCACTAGTATACGAAAAAAGTAAAAAGAAAAT
1 TTTTTTTTTTACTTTTGGTCTGTCAATGT-C-GGCACCAGTATACGAAAAAAGTAAAAA-AAAAT
*
3101328 TTGGTAGTGGCCTGCCAATGGCGGGCACCACCTTTTTCTCAA
63 TTGGTGGTGGCCTGCCAATGGC-GGCACCACCTTTTTCTCAA
3101370 TTTTTTTTTTACTTTTGGTCTGTCAATGGTCGGCACCAGTATACGAAAAAAGTAAAAAAAAATTT
1 TTTTTTTTTTACTTTTGGTCTGTCAAT-GTCGGCACCAGTATACGAAAAAAGTAAAAAAAAATTT
* * * *
3101435 GGTGGTGGCCTGCCAATGGTCGGTAACACTTTTTTCCCAAAA
65 GGTGGTGGCCTGCCAATGG-CGGCACCACCTTTTTCTC--AA
*
3101477 TTTTTCTTTTCTACTTTTGGTCTGTCAATAGCCGGCACCAGTATACGAAAAAA
1 TTTTT-TTTT-TACTTTTGGTCTGTCAAT-GTCGGCACCAGTATACGAAAAAA
3101530 ATACTTTTTT
Statistics
Matches: 235, Mismatches: 19, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
103 2 0.01
104 48 0.20
105 43 0.18
106 88 0.37
107 9 0.04
108 5 0.02
109 40 0.17
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (103 bp):
TTTTTTTTTTACTTTTGGTCTGTCAATGTCGGCACCAGTATACGAAAAAAGTAAAAAAAAATTTG
GTGGTGGCCTGCCAATGGCGGCACCACCTTTTTCTCAA
Found at i:3101660 original size:107 final size:104
Alignment explanation
Indices: 3101531--3101853 Score: 375
Period size: 107 Copynumber: 3.1 Consensus size: 104
3101521 ACGAAAAAAA
* *
3101531 TACTTTTTTCGTATATTGGTGCCGGCCATTGACACGAAAAAAGTAAAAAAAAAATTCCATAAAGG
1 TACTTTTTTCGTATACTGGTGCCGGCCATTGACACGAAAAAAGT--AAAAAAAATTCAATAAAGG
3101596 TGCTGTCGGCCATTGGCAGGCCACCACCAAAAATTTTTTTTT
64 TGCTGTCGGCCATTGGCAGGCCACCACC-AAAATTTTTTTTT
*
3101638 TACTTTTTTCGTATACTGGTGCCTGCCATTGACACGAAAAAAGTAAAAAAAATTCAATAAAGGTG
1 TACTTTTTTCGTATACTGGTGCCGGCCATTGACACGAAAAAAGTAAAAAAAATTCAATAAAGGTG
* * *
3101703 GTGTCGACCATTGGTAGG---CCACC-AAATTTTTTTTT
66 CTGTCGGCCATTGGCAGGCCACCACCAAAATTTTTTTTT
* * * * * ** * * *
3101738 TACTTTTTTCGTATTCTGGTGCTGGCCATTGACAGGCCAATACCTGAAAAAAATTCGTATACAGG
1 TACTTTTTTCGTATACTGGTGCCGGCCATTGACACG-AAAAAAGTAAAAAAAATTC-AATAAAGG
* * * *
3101803 GGCTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTT
64 TGCTGTCGGCCATTGGCAGGCCACCA-CCAAAATTTTTTTTT
*
3101845 TCCTTTTTT
1 TACTTTTTT
3101854 TCTTTTCTGT
Statistics
Matches: 184, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
100 44 0.24
101 14 0.08
102 25 0.14
105 37 0.20
106 2 0.01
107 62 0.34
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (104 bp):
TACTTTTTTCGTATACTGGTGCCGGCCATTGACACGAAAAAAGTAAAAAAAATTCAATAAAGGTG
CTGTCGGCCATTGGCAGGCCACCACCAAAATTTTTTTTT
Found at i:3101722 original size:105 final size:101
Alignment explanation
Indices: 3101531--3101771 Score: 342
Period size: 100 Copynumber: 2.3 Consensus size: 101
3101521 ACGAAAAAAA
* * *
3101531 TACTTTTTTCGTATATTGGTGCCGGCCATTGACACGAAAAAAGTAAAAAAAAAATTCCATAAAGG
1 TACTTTTTTCGTATACTGGTGCCTGCCATTGACACGAAAAAAGT-AAAAAAAAATTCAATAAAGG
*
3101596 TGCTGTCGGCCATTGGCAGGCCACCACCAAAAATTTTTTTTT
65 TGCTGTCGACCATTGGCAGG---CCACC--AAATTTTTTTTT
3101638 TACTTTTTTCGTATACTGGTGCCTGCCATTGACACGAAAAAAGT-AAAAAAAATTCAATAAAGGT
1 TACTTTTTTCGTATACTGGTGCCTGCCATTGACACGAAAAAAGTAAAAAAAAATTCAATAAAGGT
* *
3101702 GGTGTCGACCATTGGTAGGCCACCAAATTTTTTTTT
66 GCTGTCGACCATTGGCAGGCCACCAAATTTTTTTTT
*
3101738 TACTTTTTTCGTATTCTGGTG-CTGGCCATTGACA
1 TACTTTTTTCGTATACTGGTGCCT-GCCATTGACA
3101772 GGCCAATACC
Statistics
Matches: 126, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
99 2 0.02
100 42 0.33
102 5 0.04
105 35 0.28
107 42 0.33
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (101 bp):
TACTTTTTTCGTATACTGGTGCCTGCCATTGACACGAAAAAAGTAAAAAAAAATTCAATAAAGGT
GCTGTCGACCATTGGCAGGCCACCAAATTTTTTTTT
Found at i:3104222 original size:25 final size:25
Alignment explanation
Indices: 3104194--3104243 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
3104184 TAGGTAAGGC
3104194 TCCTTCTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
3104219 TCCTTCTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
3104244 CTTCGCTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.04, C:0.40, G:0.04, T:0.52
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTCTTCAT
Found at i:3106838 original size:15 final size:15
Alignment explanation
Indices: 3106818--3106848 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3106808 GGGGTTTCCC
3106818 TTTTTCTTCTTAAAG
1 TTTTTCTTCTTAAAG
3106833 TTTTTCTTCTTAAAG
1 TTTTTCTTCTTAAAG
3106848 T
1 T
3106849 ATTTGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTTTCTTCTTAAAG
Found at i:3107162 original size:20 final size:20
Alignment explanation
Indices: 3107137--3107176 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3107127 AATATTTTCC
*
3107137 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
3107157 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
3107177 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Done.