Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 225 of 226
Found at i:70251924 original size:31 final size:31
Alignment explanation
Indices: 70251882--70251943 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
70251872 GTTGAGCCTG
*
70251882 ATGGCAGTAAAATAATTAGTACCAATTGAAC
1 ATGGCAATAAAATAATTAGTACCAATTGAAC
70251913 ATGGCAATAAAATAATTAGTACCAATTGAAC
1 ATGGCAATAAAATAATTAGTACCAATTGAAC
70251944 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.26
Consensus pattern (31 bp):
ATGGCAATAAAATAATTAGTACCAATTGAAC
Found at i:70261989 original size:28 final size:27
Alignment explanation
Indices: 70261947--70262011 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 27
70261937 GACCCATATT
70261947 AAAA-ATATATATTTGATTAAAAATAA
1 AAAATATATATATTTGATTAAAAATAA
*
70261973 ATATATATATATATTTGATTAAAAATAA
1 A-AAATATATATATTTGATTAAAAATAA
70262001 AAAATATATAT
1 AAAATATATAT
70262012 TTAATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 1 0.03
27 11 0.31
28 23 0.66
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (27 bp):
AAAATATATATATTTGATTAAAAATAA
Found at i:70266892 original size:19 final size:19
Alignment explanation
Indices: 70266865--70266902 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
70266855 AAATTAATAC
*
70266865 TTATTTATTAGATCAAAGA
1 TTATATATTAGATCAAAGA
70266884 TTATATATTAGATCAAAGA
1 TTATATATTAGATCAAAGA
70266903 GCACATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (19 bp):
TTATATATTAGATCAAAGA
Found at i:70274075 original size:9 final size:9
Alignment explanation
Indices: 70274061--70274093 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
70274051 GAGGATTTGG
70274061 TTAATTAAA
1 TTAATTAAA
70274070 TTAATTAAA
1 TTAATTAAA
*
70274079 TTAACTAAA
1 TTAATTAAA
70274088 TTAATT
1 TTAATT
70274094 TTCTAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAATTAAA
Found at i:70282696 original size:46 final size:46
Alignment explanation
Indices: 70282610--70282699 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
70282600 TATATAAAAA
* *
70282610 AAATCTATTCATGCTTTAGATAGCACATTCTCGAAGTCAAGCCAGC
1 AAATCTAATCATGCTTTAGATAGCACAATCTCGAAGTCAAGCCAGC
* * * * *
70282656 AAATCTAATCATGCTTTAGATTGGAGAATCTTGAATTCAAGCCA
1 AAATCTAATCATGCTTTAGATAGCACAATCTCGAAGTCAAGCCA
70282700 AAATTTCTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (46 bp):
AAATCTAATCATGCTTTAGATAGCACAATCTCGAAGTCAAGCCAGC
Found at i:70286533 original size:2 final size:2
Alignment explanation
Indices: 70286528--70286557 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
70286518 CTCTCCTACT
70286528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70286558 AATCATCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:70290771 original size:31 final size:31
Alignment explanation
Indices: 70290733--70290791 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
70290723 CTACCTAGTG
70290733 ACTTAAAT-AAAAATTTTCGAACAATTCAATA
1 ACTTAAATGAAAAATTTT-GAACAATTCAATA
* *
70290764 ACTTAAATGAAAACTTTTGAATAATTCA
1 ACTTAAATGAAAAATTTTGAACAATTCA
70290792 GTGACAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (31 bp):
ACTTAAATGAAAAATTTTGAACAATTCAATA
Found at i:70295588 original size:13 final size:13
Alignment explanation
Indices: 70295570--70295600 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
70295560 AGGAAGGATA
70295570 TCAAAATCTAAAG
1 TCAAAATCTAAAG
70295583 TCAAAATCTAAAG
1 TCAAAATCTAAAG
70295596 TCAAA
1 TCAAA
70295601 CCCTGGGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.23
Consensus pattern (13 bp):
TCAAAATCTAAAG
Found at i:70295639 original size:83 final size:83
Alignment explanation
Indices: 70295500--70295652 Score: 297
Period size: 83 Copynumber: 1.8 Consensus size: 83
70295490 ACAACGGGTA
70295500 TCAAAATCTAAAGTCAAAACCTGGGTGCTGAACCATAACTGAGTTGCTTTTGGTGCCTTTAGGAA
1 TCAAAATCTAAAGTCAAAACCTGGGTGCTGAACCATAACTGAGTTGCTTTTGGTGCCTTTAGGAA
70295565 GGATATCAAAATCTAAAG
66 GGATATCAAAATCTAAAG
*
70295583 TCAAAATCTAAAGTCAAACCCTGGGTGCTGAACCATAACTGAGTTGCTTTTGGTGCCTTTAGGAA
1 TCAAAATCTAAAGTCAAAACCTGGGTGCTGAACCATAACTGAGTTGCTTTTGGTGCCTTTAGGAA
70295648 GGATA
66 GGATA
70295653 CTGAGATTCC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 69 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (83 bp):
TCAAAATCTAAAGTCAAAACCTGGGTGCTGAACCATAACTGAGTTGCTTTTGGTGCCTTTAGGAA
GGATATCAAAATCTAAAG
Found at i:70299437 original size:14 final size:14
Alignment explanation
Indices: 70299418--70299450 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
70299408 AAGCCTAAAA
70299418 CCAAATTCAATGGC
1 CCAAATTCAATGGC
*
70299432 CCAAATTCAGTGGC
1 CCAAATTCAATGGC
70299446 CCAAA
1 CCAAA
70299451 CCAAACATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.30, G:0.15, T:0.18
Consensus pattern (14 bp):
CCAAATTCAATGGC
Found at i:70300670 original size:35 final size:35
Alignment explanation
Indices: 70300629--70300705 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
70300619 AAAATGTTTC
70300629 CTTTGTATGTATTTATACCTTAAAAATTAATATTT
1 CTTTGTATGTATTTATACCTTAAAAATTAATATTT
70300664 CTTTGTATGTATTTATACCTTAAAAATTAATATTT
1 CTTTGTATGTATTTATACCTTAAAAATTAATATTT
70300699 C-TTGTAT
1 CTTTGTAT
70300706 ATTTTTTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 6 0.14
35 36 0.86
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.52
Consensus pattern (35 bp):
CTTTGTATGTATTTATACCTTAAAAATTAATATTT
Found at i:70301234 original size:98 final size:98
Alignment explanation
Indices: 70301118--70301314 Score: 324
Period size: 98 Copynumber: 2.0 Consensus size: 98
70301108 AAAAAAATCA
* *
70301118 TAAAGGAAATTTTCCGAGTTT-GAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTT
1 TAAAGGAAATATTCCGAGTTTGGA-ATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
70301182 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
65 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * *
70301216 TAAAGGAACTATTCCGAGTTTGGAATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGGTTTC
1 TAAAGGAAATATTCCGAGTTTGGAATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
70301281 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
70301314 T
1 T
70301315 TTTATTGTTT
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 90 0.98
99 2 0.02
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGAATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:70304107 original size:21 final size:17
Alignment explanation
Indices: 70304064--70304097 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
70304054 TATTTAATAT
70304064 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
70304081 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
70304098 TAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATATTTGATTAAAAA
Found at i:70304115 original size:21 final size:20
Alignment explanation
Indices: 70304059--70304115 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
70304049 AAAAATATTT
**
70304059 AATATATATATTTGATTAAAA
1 AATATATATATTT-AAAAAAA
*
70304080 AATATATTTGA-TTAAAAATAA
1 AATATATAT-ATTTAAAAA-AA
70304101 AATATATATATTTAA
1 AATATATATATTTAA
70304116 TATATATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 4 0.14
21 24 0.83
22 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (20 bp):
AATATATATATTTAAAAAAA
Found at i:70309648 original size:2 final size:2
Alignment explanation
Indices: 70309641--70309675 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
70309631 GATCTTCTAA
70309641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70309676 AACTTAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70312142 original size:46 final size:46
Alignment explanation
Indices: 70312043--70312689 Score: 671
Period size: 46 Copynumber: 13.6 Consensus size: 46
70312033 TTTGAGTACT
* *
70312043 TCTGATCAAGTGATAAAGTGTTAAGTGAG-AGC-TTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTG-GTAGCATTAGCTACACTTA
* *
70312088 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
** * * *
70312134 TCTGATCAAGTGACAAAGTGATAAGTGAAAGTGATAAG-TGATAGCTTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CATTAGCT-ACA-C-TTA
* * * ** * *
70312183 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCGTTAGCTACACTTA
1 TCT-GA-TCAAGTGA-C-------AAAGTGATAAGTGGTAGCATTAGCTACACTTA
70312239 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
70312285 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
70312331 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCGTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
* *
70312377 ACTGATCAAGTGACAAAGTGATAAGTGGTAGCGTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
** * * *
70312423 TCTGATCAAGTGACAAAGTGATAAGTGAAAGTGATAAG-TGATAGCGTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CATTAGCT-ACA-C-TTA
* * * **
70312472 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCT-GA-TCAAGTGA-C-------AAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
70312528 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
70312574 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
70312620 TCTGATCAAGTGACAAAATGATAAGTGGTAG--TCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCAT-TAGCTACACTTA
*
70312665 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
70312690 ATCATAAGTG
Statistics
Matches: 514, Mismatches: 55, Indels: 68
0.81 0.09 0.11
Matches are distributed among these distances:
43 11 0.02
44 6 0.01
45 46 0.09
46 346 0.67
47 10 0.02
48 2 0.00
49 10 0.02
50 2 0.00
51 10 0.02
52 2 0.00
53 2 0.00
54 10 0.02
55 2 0.00
56 10 0.02
57 2 0.00
58 11 0.02
59 32 0.06
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
Found at i:70312166 original size:13 final size:13
Alignment explanation
Indices: 70312148--70312174 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
70312138 ATCAAGTGAC
70312148 AAAGTGATAAGTG
1 AAAGTGATAAGTG
70312161 AAAGTGATAAGTG
1 AAAGTGATAAGTG
70312174 A
1 A
70312175 TAGCTTTAGC
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:0.00, G:0.30, T:0.22
Consensus pattern (13 bp):
AAAGTGATAAGTG
Found at i:70312168 original size:59 final size:59
Alignment explanation
Indices: 70312102--70312219 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
70312092 ATCAAGTGAC
70312102 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
70312161 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
70312220 TTAGCGTTAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (59 bp):
AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
Found at i:70312322 original size:138 final size:138
Alignment explanation
Indices: 70312161--70312689 Score: 805
Period size: 138 Copynumber: 3.8 Consensus size: 138
70312151 GTGATAAGTG
* * *
70312161 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCG
1 AAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCG
70312226 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
66 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
70312291 CAAGTGAC
131 CAAGTGAC
70312299 AAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCG
1 AAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCG
* *
70312364 TTAGCTACACTTAACTGATCAAGTGACAAAGTGATAAGTGGTAGCGTTAGCTACACTTATCTGAT
66 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
70312429 CAAGTGAC
131 CAAGTGAC
*
70312437 AAAGTGATAAGTGAAAGTGATAAGTGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 AAAGTG---A-T--AA--G-T--G-G-TAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTG
* *
70312502 ATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATCAGCT
53 ATAAGTGGTAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCT
70312567 ACACTTATCTGATCAAGTGAC
118 ACACTTATCTGATCAAGTGAC
* *
70312588 AAAGTGATAAGTGGTAGCATCAGCTACACTTATCTGATCAAGTGACAAAATGATAAGTGGTA--G
1 AAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCG
*
70312651 TCTAGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
66 T-TAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
70312690 ATCATAAGTG
Statistics
Matches: 362, Mismatches: 15, Indels: 31
0.89 0.04 0.08
Matches are distributed among these distances:
135 12 0.03
136 6 0.02
137 19 0.05
138 184 0.51
139 1 0.00
140 1 0.00
141 1 0.00
142 2 0.01
143 1 0.00
144 2 0.01
145 2 0.01
146 1 0.00
147 2 0.01
148 1 0.00
149 1 0.00
150 1 0.00
151 125 0.35
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (138 bp):
AAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCG
TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
CAAGTGAC
Found at i:70312455 original size:13 final size:13
Alignment explanation
Indices: 70312437--70312463 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
70312427 ATCAAGTGAC
70312437 AAAGTGATAAGTG
1 AAAGTGATAAGTG
70312450 AAAGTGATAAGTG
1 AAAGTGATAAGTG
70312463 A
1 A
70312464 TAGCGTTAGC
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:0.00, G:0.30, T:0.22
Consensus pattern (13 bp):
AAAGTGATAAGTG
Found at i:70312456 original size:197 final size:197
Alignment explanation
Indices: 70312253--70312646 Score: 716
Period size: 197 Copynumber: 2.0 Consensus size: 197
70312243 ATCAAGTGAC
*
70312253 AAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCA
1 AAAGTGATAAGTGATAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCA
* *
70312318 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCGTTAGCTACACTTAACTGAT
66 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTAACTGAT
* * *
70312383 CAAGTGACAAAGTGATAAGTGGTAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
131 CAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTATCTGATCAAGTGACAAAATGATAAG
70312448 TG
196 TG
*
70312450 AAAGTGATAAGTGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCA
1 AAAGTGATAAGTGATAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCA
*
70312515 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTATCTGAT
66 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTAACTGAT
70312580 CAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTATCTGATCAAGTGACAAAATGATAAG
131 CAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTATCTGATCAAGTGACAAAATGATAAG
70312645 TG
196 TG
70312647 GTAGTCTAGC
Statistics
Matches: 189, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
197 189 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (197 bp):
AAAGTGATAAGTGATAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCA
TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTAACTGAT
CAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTATCTGATCAAGTGACAAAATGATAAG
TG
Found at i:70312460 original size:59 final size:59
Alignment explanation
Indices: 70312391--70312508 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
70312381 ATCAAGTGAC
*
70312391 AAAGTGATAAGTGGTAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
70312450 AAAGTGATAAGTGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
70312509 GTAGCATTAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (59 bp):
AAAGTGATAAGTGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
Found at i:70312594 original size:289 final size:289
Alignment explanation
Indices: 70312043--70312691 Score: 1130
Period size: 289 Copynumber: 2.3 Consensus size: 289
70312033 TTTGAGTACT
* *
70312043 TCTGATCAAGTGATAAAGTGTTAAGTGAG-AGC-TTAGCTACACTTATCTGATCAAGTGACAAAG
1 TCTGATCAAGTGACAAAGTGATAAGTG-GTAGCGTTAGCTACACTTATCTGATCAAGTGACAAAG
*
70312106 TGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGAAAGTGATAA
65 TGATAAGTGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGAAAGTGATAA
* * *
70312171 GTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCGTTAGCTACAC
130 GTGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACAC
*
70312236 TTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACAA
195 TTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTATCTGATCAAGTGACAA
*
70312301 AGTGATAAGTGGTAGCATTAGCTACACTTA
260 AGTGATAAGTGGTAGCATCAGCTACACTTA
*
70312331 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCGTTAGCTACACTTAACTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
70312396 GATAAGTGGTAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGAAAGTGATAAG
66 GATAAGTGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGAAAGTGATAAG
70312461 TGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACT
131 TGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACT
70312526 TATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTATCTGATCAAGTGACAAA
196 TATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTATCTGATCAAGTGACAAA
70312591 GTGATAAGTGGTAGCATCAGCTACACTTA
261 GTGATAAGTGGTAGCATCAGCTACACTTA
* *
70312620 TCTGATCAAGTGACAAAATGATAAGTGGTA--GTCTAGCTACACTTATCTGATC-AGGGAC-AAG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCGT-TAGCTACACTTATCTGATCAAGTGACAAAG
70312681 TGATAAGTGAT
65 TGATAAGTGAT
70312692 CATAAGTGAG
Statistics
Matches: 344, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
286 13 0.04
287 8 0.02
288 46 0.13
289 277 0.81
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (289 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGAAAGTGATAAG
TGATAGCGTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACT
TATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATCAGCTACACTTATCTGATCAAGTGACAAA
GTGATAAGTGGTAGCATCAGCTACACTTA
Found at i:70314469 original size:13 final size:13
Alignment explanation
Indices: 70314451--70314482 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
70314441 TTTCCAGCAA
70314451 TTATGAATTTATT
1 TTATGAATTTATT
70314464 TTATGAATTTATT
1 TTATGAATTTATT
*
70314477 TGATGA
1 TTATGA
70314483 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:70314690 original size:50 final size:50
Alignment explanation
Indices: 70314589--70314761 Score: 220
Period size: 50 Copynumber: 3.3 Consensus size: 50
70314579 AGATCTCATA
* *
70314589 TAAGACCATGTCTGGCACATGGCATTGGCATCCTTAAGATCATGAGAGGTCTCCTG
1 TAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--GAGAGGTCTCCTG
* *
70314645 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGTCTCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCTCCTG
* * * *
70314695 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTA
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCTCCTG
70314745 TAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGA
70314762 NNNNNNNNNN
Statistics
Matches: 107, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
50 73 0.68
52 1 0.01
53 3 0.03
55 2 0.02
56 28 0.26
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCTCCTG
Found at i:70328526 original size:4 final size:4
Alignment explanation
Indices: 70328519--70328549 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
70328509 TTATATATGT
*
70328519 ATGG ATGG ATAG ATGG ATGG ATGG ATGG ATG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATG
70328550 TGTGTGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.45, T:0.26
Consensus pattern (4 bp):
ATGG
Found at i:70329066 original size:6 final size:6
Alignment explanation
Indices: 70329052--70329090 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
70329042 TATATAATAT
* *
70329052 TATATA TATAGA TATAGA TATAGA TATAGA TGTAGA TAT
1 TATAGA TATAGA TATAGA TATAGA TATAGA TATAGA TAT
70329091 CTGACAACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (6 bp):
TATAGA
Found at i:70329230 original size:2 final size:2
Alignment explanation
Indices: 70329223--70329264 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
70329213 AGAAGATTGA
70329223 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70329265 GGTGTTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70334099 original size:15 final size:16
Alignment explanation
Indices: 70334069--70334099 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70334059 AGTTTGTTGG
70334069 TTTATAATATATATTT
1 TTTATAATATATATTT
70334085 TTTATAATA-ATATTT
1 TTTATAATATATATTT
70334100 AAAGAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATAATATATATTT
Found at i:70337694 original size:14 final size:14
Alignment explanation
Indices: 70337657--70337687 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
70337647 CTAGAAAAAT
*
70337657 AAATCATTTTTCAG
1 AAATCATTTTCCAG
70337671 AAATCATTTTCCAG
1 AAATCATTTTCCAG
70337685 AAA
1 AAA
70337688 CTATTTTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:70339201 original size:7 final size:7
Alignment explanation
Indices: 70339189--70339217 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
70339179 AAGATTTTAC
70339189 ATAAAAT
1 ATAAAAT
70339196 ATAAAAT
1 ATAAAAT
70339203 ATAAAAT
1 ATAAAAT
70339210 ATAAAAT
1 ATAAAAT
70339217 A
1 A
70339218 ACAAAAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAAAAT
Found at i:70345467 original size:18 final size:18
Alignment explanation
Indices: 70345444--70345484 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
70345434 GTTCAAGGTG
70345444 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
70345462 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
70345480 TAATT
1 TAATT
70345485 GAAAACCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:70345763 original size:18 final size:18
Alignment explanation
Indices: 70345737--70345771 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70345727 TTAGGGTCCA
*
70345737 AAATGCAAATGCAAATTT
1 AAATGCAAATACAAATTT
*
70345755 AAATTCAAATACAAATT
1 AAATGCAAATACAAATT
70345772 GTTTACACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (18 bp):
AAATGCAAATACAAATTT
Found at i:70351339 original size:2 final size:2
Alignment explanation
Indices: 70351332--70351361 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
70351322 AATTTACTTC
70351332 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
70351362 TAATCAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:70353875 original size:13 final size:12
Alignment explanation
Indices: 70353856--70353898 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
70353846 ATTTTTCAAT
70353856 ATTTTTTTATAA
1 ATTTTTTTATAA
*
70353868 CTTCTTTTTATAA
1 ATT-TTTTTATAA
70353881 ATTTTGTTTAT-A
1 ATTTT-TTTATAA
70353893 ATTTTT
1 ATTTTT
70353899 ATGATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 1 0.04
12 10 0.37
13 16 0.59
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (12 bp):
ATTTTTTTATAA
Found at i:70353923 original size:18 final size:19
Alignment explanation
Indices: 70353890--70353927 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
70353880 AATTTTGTTT
*
70353890 ATAATTTTTATGATTTTAA
1 ATAATTTTTATAATTTTAA
70353909 ATAATTTTTA-AATTTTAA
1 ATAATTTTTATAATTTTAA
70353927 A
1 A
70353928 AGGGCTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
ATAATTTTTATAATTTTAA
Found at i:70354466 original size:87 final size:86
Alignment explanation
Indices: 70354359--70354654 Score: 220
Period size: 101 Copynumber: 3.2 Consensus size: 86
70354349 AAGTCTCCGC
* *
70354359 TTTTTTTTGCATTCATTTGAGTATTTAAACTTTTAAAATGTATCAGAAAGGCCCTCAAAATTAAA
1 TTTTTTTTGCACTCAATTGAGTATTTAAACTTTTAAAATGTATCA-AAAGGCCCTCAAAATTAAA
* *
70354424 AAAAGAAATGAAGCTCTTGCTT
65 AAAAGAAATTAAGCTCCTGCTT
* * ** * * *
70354446 TTTTTTTTGCACTCAATTGAGTACTTGAACTACTAAAAAGCATCTAAATGGCCCTCAAATTTTTT
1 TTTTTTTTGCACTCAATTGAGTATTTAAACTTTTAAAATGTATC-AAAAGG-CC-C--------T
* * *
70354511 CAAAAAATAAAAAATAAAAATTAAGCCCCTGCTTTT
55 C-AAAATTAAAAAA-AGAAATTAAGCTCCTGC--TT
* *
70354547 TTTTTTTTGCATTCAATTG-GATATTTAAACTTTTAAAATGTATCAAAAAAGCCCTCAAAATTTT
1 TTTTTTTTGCACTCAATTGAG-TATTTAAACTTTTAAAATGTATC-AAAAGGCCCTCAAAA---T
*
70354611 TAAAAAAAAGCAATTAAGCTCCTGC-T
61 T-AAAAAAAGAAATTAAGCTCCTGCTT
70354637 TTTTTTTT-CACTCAATTG
1 TTTTTTTTGCACTCAATTG
70354655 GGTACTTGAA
Statistics
Matches: 160, Mismatches: 29, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
87 40 0.25
88 3 0.02
89 10 0.06
90 13 0.08
91 2 0.01
93 15 0.09
94 6 0.04
97 2 0.01
98 11 0.07
99 14 0.09
100 3 0.02
101 41 0.26
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (86 bp):
TTTTTTTTGCACTCAATTGAGTATTTAAACTTTTAAAATGTATCAAAAGGCCCTCAAAATTAAAA
AAAGAAATTAAGCTCCTGCTT
Found at i:70354720 original size:188 final size:186
Alignment explanation
Indices: 70354359--70354751 Score: 519
Period size: 188 Copynumber: 2.1 Consensus size: 186
70354349 AAGTCTCCGC
* * *
70354359 TTTTTTTTGCATTC-ATTTGAGTATTTAAACTTTTAAAATGTATCAGAAAGGCCCTCAAAATTAA
1 TTTTTTTTGCATTCAATTGGAGTATTTAAACTTTTAAAATGTATCAAAAAAGCCCTCAAAATTAA
*
70354423 AAAAAGAAATGAAGCTCTTGCTTTTTTTTTTGCACTCAATTGAGTACTTGAACTACTAAAAAGCA
66 AAAAAGAAATGAAGCTCCTGCTTTTTTTTTTGCACTCAATTGAGTACTTGAACTACTAAAAAGCA
* * * *
70354488 TCTAAATGGCCCTCAAATTTTTTCAAAAAATAAAAAATAAAAATTAAGCCCCTGCTTTT
131 TCAAAAAGGCCCTCAAACTTTTTCAAAAAATAAAAAATAAAAATTAA--CCCT-CTATT
70354547 TTTTTTTTGCATTCAATTGGA-TATTTAAACTTTTAAAATGTATCAAAAAAGCCCTCAAAATTTT
1 TTTTTTTTGCATTCAATTGGAGTATTTAAACTTTTAAAATGTATCAAAAAAGCCCTCAAAA---T
* * * *
70354611 TAAAAAAAAGCAATTAAGCTCCTGC-TTTTTTTTT-CACTCAATTGGGTACTTGAACTACTAAGA
63 T-AAAAAAAGAAATGAAGCTCCTGCTTTTTTTTTTGCACTCAATTGAGTACTTGAACTACTAAAA
* * * * *
70354674 TGCATCAAAAAGGCTCTTAGACTTTTTCAAAAAAT-AAAAA-AAAAATTAATCCTCTATT
127 AGCATCAAAAAGGCCCTCAAACTTTTTCAAAAAATAAAAAATAAAAATTAACCCTCTATT
*
70354732 TTTTTTTTGCACTCAATTGG
1 TTTTTTTTGCATTCAATTGG
70354752 GTACATTAGC
Statistics
Matches: 182, Mismatches: 18, Indels: 13
0.85 0.08 0.06
Matches are distributed among these distances:
185 23 0.13
186 3 0.02
188 60 0.33
189 10 0.05
190 55 0.30
191 11 0.06
192 20 0.11
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (186 bp):
TTTTTTTTGCATTCAATTGGAGTATTTAAACTTTTAAAATGTATCAAAAAAGCCCTCAAAATTAA
AAAAAGAAATGAAGCTCCTGCTTTTTTTTTTGCACTCAATTGAGTACTTGAACTACTAAAAAGCA
TCAAAAAGGCCCTCAAACTTTTTCAAAAAATAAAAAATAAAAATTAACCCTCTATT
Found at i:70354883 original size:10 final size:9
Alignment explanation
Indices: 70354847--70354983 Score: 86
Period size: 9 Copynumber: 15.2 Consensus size: 9
70354837 GCAAGAAAAG
70354847 AAATTAT-A
1 AAATTATAA
70354855 AAA--ATAA
1 AAATTATAA
*
70354862 AAATCAATAA
1 AAAT-TATAA
*
70354872 AAGTTATAA
1 AAATTATAA
70354881 AAATTATTAA
1 AAATTA-TAA
**
70354891 ATTTTAATAA
1 AAATT-ATAA
70354901 AAA-TATAA
1 AAATTATAA
70354909 AAATT-TAA
1 AAATTATAA
**
70354917 ATTTTATTAA
1 AAATTA-TAA
*
70354927 AAATTAGAA
1 AAATTATAA
*
70354936 AAATTAGAA
1 AAATTATAA
*
70354945 AAATTGTAA
1 AAATTATAA
*
70354954 AATTTTATAA
1 AA-ATTATAA
*
70354964 AAATCATAA
1 AAATTATAA
*
70354973 AAAATATAA
1 AAATTATAA
70354982 AA
1 AA
70354984 TGCATCAAAA
Statistics
Matches: 99, Mismatches: 20, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
6 2 0.02
7 4 0.04
8 16 0.16
9 45 0.45
10 31 0.31
11 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (9 bp):
AAATTATAA
Found at i:70354891 original size:19 final size:19
Alignment explanation
Indices: 70354858--70354975 Score: 75
Period size: 19 Copynumber: 6.4 Consensus size: 19
70354848 AATTATAAAA
* * *
70354858 ATAAAAATCAATAAAAGTT
1 ATAAAAATTATTAAAAATT
**
70354877 ATAAAAATTATTAAATTTT
1 ATAAAAATTATTAAAAATT
70354896 AATAAAAA-TA-TAAAAATT
1 -ATAAAAATTATTAAAAATT
**
70354914 -TAAATTTTATTAAAAATT
1 ATAAAAATTATTAAAAATT
* *
70354932 AGAAAAATTA-GAAAAATT
1 ATAAAAATTATTAAAAATT
* * *
70354950 GT-AAAATTTTATAAAAATC
1 ATAAAAATTAT-TAAAAATT
70354969 ATAAAAA
1 ATAAAAA
70354976 ATATAAAATG
Statistics
Matches: 74, Mismatches: 18, Indels: 13
0.70 0.17 0.12
Matches are distributed among these distances:
16 4 0.05
17 8 0.11
18 21 0.28
19 30 0.41
20 11 0.15
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (19 bp):
ATAAAAATTATTAAAAATT
Found at i:70355300 original size:29 final size:27
Alignment explanation
Indices: 70355242--70355339 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 27
70355232 TATATTTCTA
* * *
70355242 TATATTTTTATAAAATTTTACACATCTT
1 TATATTTTTTTAAAATTTTATA-ATTTT
** *
70355270 TATATTTTTTTACGATTTTTTGTAATTTT
1 TATATTTTTTTA--AAATTTTATAATTTT
70355299 TAATATTTTTATTAAAATTTTATAATTTT
1 T-ATATTTTT-TTAAAATTTTATAATTTT
70355328 TATAATTTTTTT
1 TAT-ATTTTTTT
70355340 GACACATGTC
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
28 15 0.27
29 24 0.43
30 14 0.25
31 3 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (27 bp):
TATATTTTTTTAAAATTTTATAATTTT
Found at i:70355328 original size:9 final size:9
Alignment explanation
Indices: 70355286--70355337 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
70355276 TTTTTACGAT
*
70355286 TTTTTGTAA
1 TTTTTATAA
70355295 TTTTTA-ATA
1 TTTTTATA-A
70355304 TTTTTATTAAA
1 TTTTTA-T-AA
*
70355315 ATTTTATAA
1 TTTTTATAA
70355324 TTTTTATAA
1 TTTTTATAA
70355333 TTTTT
1 TTTTT
70355338 TTGACACATG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
8 1 0.03
9 27 0.75
10 1 0.03
11 6 0.17
12 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:70355337 original size:58 final size:60
Alignment explanation
Indices: 70355225--70355338 Score: 153
Period size: 58 Copynumber: 1.9 Consensus size: 60
70355215 TTTTATAATT
*
70355225 TTTTTTCTATATTTCTATATATTTTTATAAAATTTTACACATCTTTATATTTTTTTACGA
1 TTTTTTCTATATTTCTATATATTTTTATAAAATTTTACACATCTTTATAATTTTTTACGA
* * * *
70355285 TTTTTTGTA-ATTTTTA-ATATTTTTATTAAAATTTTATA-ATTTTTATAATTTTTT
1 TTTTTTCTATATTTCTATATATTTTTA-TAAAATTTTACACATCTTTATAATTTTTT
70355339 TGACACATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 23 0.48
59 17 0.35
60 8 0.17
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (60 bp):
TTTTTTCTATATTTCTATATATTTTTATAAAATTTTACACATCTTTATAATTTTTTACGA
Found at i:70360805 original size:14 final size:14
Alignment explanation
Indices: 70360782--70360822 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
70360772 ACCTAAACCC
*
70360782 AAACCTTAAATTTT
1 AAACCCTAAATTTT
* *
70360796 AAACTCTAAATATT
1 AAACCCTAAATTTT
70360810 AAACCCTAAATTT
1 AAACCCTAAATTT
70360823 GGTCTTTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (14 bp):
AAACCCTAAATTTT
Found at i:70360879 original size:20 final size:20
Alignment explanation
Indices: 70360843--70360880 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
70360833 TTTAAGGTTT
**
70360843 GGGTTCAAGGTTTGAGTTCA
1 GGGTTCAAGGTCCGAGTTCA
70360863 GGGTTCAAGGTCCGAGTT
1 GGGTTCAAGGTCCGAGTT
70360881 TAGAATTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.37, T:0.32
Consensus pattern (20 bp):
GGGTTCAAGGTCCGAGTTCA
Found at i:70365271 original size:22 final size:22
Alignment explanation
Indices: 70365246--70365317 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
70365236 GAACTAAACC
70365246 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
70365268 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
** *
70365290 CTCATGTTTCACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
70365312 CTCATG
1 CTCATG
70365318 TAAAAATGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (22 bp):
CTCATGGCTAACGTACTAAGCT
Found at i:70366919 original size:18 final size:17
Alignment explanation
Indices: 70366898--70366941 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
70366888 AATAATAAAG
*
70366898 TAAATAAACATAAAAGAA
1 TAAAGAAAC-TAAAAGAA
*
70366916 TAAAGAAACTCAAAGAA
1 TAAAGAAACTAAAAGAA
70366933 TAAAAGAAA
1 T-AAAGAAA
70366942 GAAATGAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (17 bp):
TAAAGAAACTAAAAGAA
Found at i:70373191 original size:14 final size:13
Alignment explanation
Indices: 70373158--70373224 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 13
70373148 TAAAATTATT
70373158 ATTTAAATAAAAA
1 ATTTAAATAAAAA
*
70373171 ATATTAATTAAAAA
1 AT-TTAAATAAAAA
70373185 CATTTAAAATATATAAAA
1 -ATTT--AA-ATA-AAAA
70373203 ATTCTAAATAAAAA
1 ATT-TAAATAAAAA
*
70373217 ATATAAAT
1 ATTTAAAT
70373225 TTAATTTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
13 7 0.16
14 18 0.41
15 5 0.11
16 4 0.09
17 5 0.11
18 5 0.11
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
ATTTAAATAAAAA
Found at i:70377211 original size:12 final size:12
Alignment explanation
Indices: 70377190--70377254 Score: 112
Period size: 12 Copynumber: 5.4 Consensus size: 12
70377180 AGAAGAAATA
*
70377190 AAAGACGAGAAG
1 AAAGAAGAGAAG
70377202 AAAGAAGAGAAG
1 AAAGAAGAGAAG
*
70377214 AAAGAAAAGAAG
1 AAAGAAGAGAAG
70377226 AAAGAAGAGAAG
1 AAAGAAGAGAAG
70377238 AAAGAAGAGAAG
1 AAAGAAGAGAAG
70377250 AAAGA
1 AAAGA
70377255 TGATGAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 50 1.00
ACGTcount: A:0.68, C:0.02, G:0.31, T:0.00
Consensus pattern (12 bp):
AAAGAAGAGAAG
Found at i:70381754 original size:16 final size:15
Alignment explanation
Indices: 70381729--70381758 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
70381719 TAGGATTCTC
70381729 TAATTAAAATTTTAA
1 TAATTAAAATTTTAA
70381744 TAATATAAAATTTTA
1 TAAT-TAAAATTTTA
70381759 GAAAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTAAAATTTTAA
Found at i:70383587 original size:12 final size:13
Alignment explanation
Indices: 70383570--70383595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70383560 TTTTTTTGTT
70383570 GTTTTTTATCATA
1 GTTTTTTATCATA
70383583 GTTTTTTATCATA
1 GTTTTTTATCATA
70383596 TCTGTTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
GTTTTTTATCATA
Found at i:70387054 original size:38 final size:38
Alignment explanation
Indices: 70387003--70387079 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
70386993 CAGTCCGATC
* *
70387003 GTTGAAACAAACTCAAATTTAGAAATTTTACTTTTGAA
1 GTTGAAACAAACTCAAATTTAGAAATGTCACTTTTGAA
70387041 GTTGAAACAAACTCAAATTTAGAAATGTCACTTTTGAA
1 GTTGAAACAAACTCAAATTTAGAAATGTCACTTTTGAA
70387079 G
1 G
70387080 GGGAAACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (38 bp):
GTTGAAACAAACTCAAATTTAGAAATGTCACTTTTGAA
Found at i:70392639 original size:14 final size:13
Alignment explanation
Indices: 70392606--70392672 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 13
70392596 TAAAATTATT
70392606 ATTTAAATAAAAA
1 ATTTAAATAAAAA
*
70392619 ATATTAATTAAAAA
1 AT-TTAAATAAAAA
70392633 CATTTAAAATATATAAAA
1 -ATTT--AA-ATA-AAAA
70392651 ATTCTAAATAAAAA
1 ATT-TAAATAAAAA
*
70392665 ATATAAAT
1 ATTTAAAT
70392673 TTAATTTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
13 7 0.16
14 18 0.41
15 5 0.11
16 4 0.09
17 5 0.11
18 5 0.11
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
ATTTAAATAAAAA
Found at i:70394210 original size:20 final size:20
Alignment explanation
Indices: 70394187--70394241 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
70394177 TTTTATTAAC
*
70394187 TTTTGTCTTTTTCTTAAATT
1 TTTTATCTTTTTCTTAAATT
* *
70394207 TTTTTTCTTTTT-TTAAGTT
1 TTTTATCTTTTTCTTAAATT
* *
70394226 TTATATTTTTTTCTTA
1 TTTTATCTTTTTCTTA
70394242 TCTTATTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.75
Consensus pattern (20 bp):
TTTTATCTTTTTCTTAAATT
Found at i:70394259 original size:23 final size:23
Alignment explanation
Indices: 70394239--70394283 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
70394229 TATTTTTTTC
*
70394239 TTATCTTATT-TTGTTTATTTTAT
1 TTAT-TTATTGTTGTTAATTTTAT
70394262 TTATTTATTGTTGTTAATTTTA
1 TTATTTATTGTTGTTAATTTTA
70394284 AAAAATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (23 bp):
TTATTTATTGTTGTTAATTTTAT
Found at i:70394361 original size:23 final size:26
Alignment explanation
Indices: 70394306--70394362 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 26
70394296 TGTATATTTG
70394306 AAATT-TTTTATAATATATATTTTTT
1 AAATTATTTTATAATATATATTTTTT
*
70394331 AAA-AATTTTA-AATAT-TA-TTTTT
1 AAATTATTTTATAATATATATTTTTT
70394353 AAATTATTTT
1 AAATTATTTT
70394363 TTAAATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 8 0.29
23 7 0.25
24 5 0.18
25 8 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
AAATTATTTTATAATATATATTTTTT
Found at i:70394377 original size:32 final size:36
Alignment explanation
Indices: 70394302--70394383 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 36
70394292 GAAATGTATA
70394302 TTTGAA-ATT-TTTTATAATATATATTTTTTAAAAAT
1 TTTGAATATTATTTTATAATATATATTTTTT-AAAAT
*
70394337 TTTAAATATTATTTT-TAA-AT-TATTTTTT-AAAT
1 TTTGAATATTATTTTATAATATATATTTTTTAAAAT
70394369 TTTGAATATTATTTT
1 TTTGAATATTATTTT
70394384 GAATAAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 18 0.42
34 8 0.19
35 7 0.16
36 6 0.14
37 4 0.09
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (36 bp):
TTTGAATATTATTTTATAATATATATTTTTTAAAAT
Found at i:70395560 original size:54 final size:54
Alignment explanation
Indices: 70395500--70395607 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
70395490 AAAAAAAAAG
70395500 AATAAAAAATTAATTAAGGAAAAAATTTGAGTTTTTATTGATAATATATATTTT
1 AATAAAAAATTAATTAAGGAAAAAATTTGAGTTTTTATTGATAATATATATTTT
70395554 AATAAAAAATTAATTAAGGAAAAAATTTGAGTTTTTATTGATAATATATATTTT
1 AATAAAAAATTAATTAAGGAAAAAATTTGAGTTTTTATTGATAATATATATTTT
70395608 TTATTTTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (54 bp):
AATAAAAAATTAATTAAGGAAAAAATTTGAGTTTTTATTGATAATATATATTTT
Found at i:70396653 original size:28 final size:29
Alignment explanation
Indices: 70396599--70396662 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
70396589 TATATCTTTT
** *
70396599 TAATTTTTTATATTTATATTTTAATTATA
1 TAATTTTTTATAAATATATTTTAATTAGA
70396628 TAAGTTTTTTATAAATATA-TTT-ATTAGA
1 TAA-TTTTTTATAAATATATTTTAATTAGA
70396656 TAATTTT
1 TAATTTT
70396663 ATTCTTCTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 4 0.13
28 8 0.26
29 6 0.19
30 13 0.42
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (29 bp):
TAATTTTTTATAAATATATTTTAATTAGA
Found at i:70399493 original size:17 final size:17
Alignment explanation
Indices: 70399471--70399505 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
70399461 CGTGTATTTT
* *
70399471 ATAAAATTATTATTTAA
1 ATAAAAATATTAATTAA
70399488 ATAAAAATATTAATTAA
1 ATAAAAATATTAATTAA
70399505 A
1 A
70399506 ACTATTAATA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAAAATATTAATTAA
Found at i:70399506 original size:12 final size:13
Alignment explanation
Indices: 70399490--70399524 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
70399480 TTATTTAAAT
*
70399490 AAAAATATTAATT
1 AAAAATATTAATA
*
70399503 AAAACTATTAATA
1 AAAAATATTAATA
70399516 AAAAATATT
1 AAAAATATT
70399525 TAAAGAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAAATATTAATA
Found at i:70401580 original size:29 final size:30
Alignment explanation
Indices: 70401535--70401620 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 30
70401525 GTAATATAAC
* *
70401535 ATTTGGTATCTAAACTTGATTTTTTTTCAA
1 ATTTGATACCTAAACTTGATTTTTTTTCAA
*
70401565 ATTTGATACCT-AACTT--TTTTTTTGTCCA
1 ATTTGATACCTAAACTTGATTTTTTT-TCAA
* *
70401593 ATTTGGTATCTAAACTTGAATTTTTTTT
1 ATTTGATACCTAAACTTG-ATTTTTTTT
70401621 TTTCTAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
27 7 0.15
28 12 0.26
29 10 0.22
30 9 0.20
31 1 0.02
32 7 0.15
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (30 bp):
ATTTGATACCTAAACTTGATTTTTTTTCAA
Found at i:70401646 original size:62 final size:58
Alignment explanation
Indices: 70401535--70401648 Score: 156
Period size: 62 Copynumber: 1.9 Consensus size: 58
70401525 GTAATATAAC
*
70401535 ATTTGGTATCTAAACTTGATTTTTTTTCAAATTTGATACCTAACTTTTTTTTTGTCCA
1 ATTTGGTATCTAAACTTGATTTTTTTTCAAATTTGACACCTAACTTTTTTTTTGTCCA
* *
70401593 ATTTGGTATCTAAACTTGAATTTTTTTTTTTCTAATTTGGCACCTAAGCTTTTTTT
1 ATTTGGTATCTAAACTTG-A---TTTTTTTTCAAATTTGACACCTAA-CTTTTTTT
70401649 AGGTTTATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
58 18 0.38
59 1 0.02
62 21 0.44
63 8 0.17
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.54
Consensus pattern (58 bp):
ATTTGGTATCTAAACTTGATTTTTTTTCAAATTTGACACCTAACTTTTTTTTTGTCCA
Found at i:70403803 original size:15 final size:18
Alignment explanation
Indices: 70403785--70403821 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
70403775 TTATGATTTT
70403785 TTTTGAAT-TTT-TAT-A
1 TTTTGAATATTTGTATAA
70403800 TTTTGAATATTTGTATAA
1 TTTTGAATATTTGTATAA
70403818 TTTT
1 TTTT
70403822 AAAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 3 0.16
17 3 0.16
18 5 0.26
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TTTTGAATATTTGTATAA
Found at i:70405886 original size:16 final size:15
Alignment explanation
Indices: 70405861--70405890 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
70405851 TAAGATTCTC
70405861 TAATTAAAATTTTAA
1 TAATTAAAATTTTAA
70405876 TAATATAAAATTTTA
1 TAAT-TAAAATTTTA
70405891 GAAAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTAAAATTTTAA
Found at i:70411536 original size:17 final size:17
Alignment explanation
Indices: 70411514--70411547 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
70411504 GATTGCTAAG
70411514 AAATAAAATTGAAATTC
1 AAATAAAATTGAAATTC
70411531 AAATAAAATTGAAATTC
1 AAATAAAATTGAAATTC
70411548 GATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AAATAAAATTGAAATTC
Found at i:70420117 original size:9 final size:9
Alignment explanation
Indices: 70420100--70420202 Score: 145
Period size: 9 Copynumber: 11.4 Consensus size: 9
70420090 GTAGTGATTC
*
70420100 AATTTGGTT
1 AATTCGGTT
70420109 AATTCGGTT
1 AATTCGGTT
*
70420118 AATTCGGGT
1 AATTCGGTT
*
70420127 AATCCGGTT
1 AATTCGGTT
70420136 AATTCGGTT
1 AATTCGGTT
*
70420145 AATTCGGGT
1 AATTCGGTT
*
70420154 AATCCGGTT
1 AATTCGGTT
70420163 AATTCGGTT
1 AATTCGGTT
70420172 AATTCAGG-T
1 AATTC-GGTT
70420181 AATTCGGTT
1 AATTCGGTT
70420190 AATTCGGTT
1 AATTCGGTT
70420199 AATT
1 AATT
70420203 TTTAACCAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
8 2 0.02
9 79 0.95
10 2 0.02
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:70420137 original size:27 final size:27
Alignment explanation
Indices: 70420105--70420202 Score: 178
Period size: 27 Copynumber: 3.6 Consensus size: 27
70420095 GATTCAATTT
70420105 GGTTAATTCGGTTAATTCGGGTAATCC
1 GGTTAATTCGGTTAATTCGGGTAATCC
70420132 GGTTAATTCGGTTAATTCGGGTAATCC
1 GGTTAATTCGGTTAATTCGGGTAATCC
* *
70420159 GGTTAATTCGGTTAATTCAGGTAATTC
1 GGTTAATTCGGTTAATTCGGGTAATCC
70420186 GGTTAATTCGGTTAATT
1 GGTTAATTCGGTTAATT
70420203 TTTAACCAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.40
Consensus pattern (27 bp):
GGTTAATTCGGTTAATTCGGGTAATCC
Found at i:70422997 original size:3 final size:3
Alignment explanation
Indices: 70422991--70423016 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
70422981 CCACCACCAC
70422991 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
70423017 CCTCCTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:70435609 original size:15 final size:15
Alignment explanation
Indices: 70435589--70435617 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70435579 CCCCATAATA
70435589 ATATTCGATTAACTG
1 ATATTCGATTAACTG
70435604 ATATTCGATTAACT
1 ATATTCGATTAACT
70435618 CGTGACGTTA
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:0.14, G:0.10, T:0.41
Consensus pattern (15 bp):
ATATTCGATTAACTG
Found at i:70435994 original size:25 final size:25
Alignment explanation
Indices: 70435966--70436050 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
70435956 CATTCCATAA
70435966 TTTTTCTTAATTTGGTATCTAAATT
1 TTTTTCTTAATTTGGTATCTAAATT
* ** * *
70435991 TTTTACTCGATTTGATATTTAAATTT
1 TTTTTCTTAATTTGGTATCTAAA-TT
*
70436017 TACACATTTTCTTAATTTGGTACCTAAATT
1 T-----TTTTCTTAATTTGGTATCTAAATT
70436047 TTTT
1 TTTT
70436051 CAGGCTCGAT
Statistics
Matches: 43, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
25 21 0.49
26 3 0.07
30 3 0.07
31 16 0.37
ACGTcount: A:0.26, C:0.11, G:0.07, T:0.56
Consensus pattern (25 bp):
TTTTTCTTAATTTGGTATCTAAATT
Found at i:70436109 original size:59 final size:56
Alignment explanation
Indices: 70435967--70436108 Score: 171
Period size: 56 Copynumber: 2.5 Consensus size: 56
70435957 ATTCCATAAT
* *
70435967 TTTTCTTAATTTGGTATCTAAATTTTTTACTCGATTTGATATTTAAATTTTACACA
1 TTTTCTTAATTTGGTATCTAAATTTTTTACTCGATTTGATACTTAAATTGTACACA
* * *
70436023 TTTTCTTAATTTGGTACCTAAATTTTTTCAGGCTCGATTTGGTACTTAAACTTGT-CATA
1 TTTTCTTAATTTGGTATCTAAATTTTTT-A--CTCGATTTGATACTTAAA-TTGTACACA
* *
70436082 -TTTCTTAATTTTGTATTTAAATTTTTT
1 TTTTCTTAATTTGGTATCTAAATTTTTT
70436109 TTAGATTCAA
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
56 27 0.36
57 1 0.01
58 24 0.32
59 19 0.26
60 3 0.04
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.54
Consensus pattern (56 bp):
TTTTCTTAATTTGGTATCTAAATTTTTTACTCGATTTGATACTTAAATTGTACACA
Found at i:70436516 original size:26 final size:27
Alignment explanation
Indices: 70436468--70436525 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
70436458 GGTAATTTGT
*
70436468 AAAAAATTTTACAAGTACCAAATCAAA
1 AAAAAAATTTACAAGTACCAAATCAAA
* *
70436495 CAAAAAAATTTA-AA-TACTAAATTAAA
1 -AAAAAAATTTACAAGTACCAAATCAAA
70436521 AAAAA
1 AAAAA
70436526 GTGTTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.19
26 10 0.37
27 2 0.07
28 10 0.37
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.22
Consensus pattern (27 bp):
AAAAAAATTTACAAGTACCAAATCAAA
Found at i:70436676 original size:30 final size:29
Alignment explanation
Indices: 70436643--70436698 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
70436633 AAAAAGCCCT
70436643 TTTTTTCAA-TATTTACCGAAATGGGCCGG
1 TTTTTT-AATTATTTACCGAAATGGGCCGG
*
70436672 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATTATTTACCGAAATGGGCC
70436699 ATTTTCCGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (29 bp):
TTTTTTAATTATTTACCGAAATGGGCCGG
Found at i:70442650 original size:88 final size:89
Alignment explanation
Indices: 70442501--70443022 Score: 799
Period size: 88 Copynumber: 6.0 Consensus size: 89
70442491 GCAAGGCATA
* * ** * **
70442501 CTGCTTCGTTGTCAATGCAAGAAGGCAAGATCTGCTATCTTTGACCAGCTCCA-CTACAACCGAG
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCTACAACCGAG
*
70442565 AGAGGTAAGGTTTGTGTCTTTGAC
66 AGAGGCAAGGTTTGTGTCTTTGAC
*
70442589 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATC-ACAACCGAG
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCTACAACCGAG
70442653 AGAGGCAAGGTTTGTGTCTTTGAC
66 AGAGGCAAGGTTTGTGTCTTTGAC
* * * * * *
70442677 CTGCTTCACTGTCAATACAGGAAGGTAAGATCTGTTGTCTTCAACCAGCTCC-GCTACAACTGAG
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCTACAACCGAG
70442741 AGAGGCAAGGTTTGTGTCTTTGAC
66 AGAGGCAAGGTTTGTGTCTTTGAC
* * *
70442765 CTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCC-GCTACAACTGAG
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCTACAACCGAG
70442829 AGAGGCAAGGTTTGTGTCTTTGAC
66 AGAGGCAAGGTTTGTGTCTTTGAC
*
70442853 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATC--TTGTCTTTAACCAGCTCCATC-ACAACCGAG
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCTACAACCGAG
*
70442915 AGAGGCAAGGTTTGTGTCTTCGAC
66 AGAGGCAAGGTTTGTGTCTTTGAC
*
70442939 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-ACAACCGAG
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCTACAACCGAG
70443003 AGAGGCAAGGTTTGTGTCTT
66 AGAGGCAAGGTTTGTGTCTT
70443023 NNNNNNNNNN
Statistics
Matches: 401, Mismatches: 28, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
86 79 0.20
87 2 0.00
88 319 0.80
89 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (89 bp):
CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCTACAACCGAG
AGAGGCAAGGTTTGTGTCTTTGAC
Found at i:70445210 original size:20 final size:19
Alignment explanation
Indices: 70445187--70445227 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
70445177 TCATCTAGAT
70445187 TTCTCTTTTT-TCATTCTTCA
1 TTCT-TTTTTCTCATT-TTCA
70445207 TTCTTTTTTCTCATTTTCA
1 TTCTTTTTTCTCATTTTCA
70445226 TT
1 TT
70445228 TTGATCTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.68
Consensus pattern (19 bp):
TTCTTTTTTCTCATTTTCA
Found at i:70445251 original size:34 final size:30
Alignment explanation
Indices: 70445210--70445339 Score: 104
Period size: 30 Copynumber: 4.2 Consensus size: 30
70445200 TTCTTCATTC
70445210 TTTTTTCTCATTTTCATTTTGATCTTGATTTTGA
1 TTTTTT-TC-TTTTCATTTT--TCTTGATTTTGA
** * *
70445244 -TTTTTTCTTTTTGTTTTTTTTTATTTTGA
1 TTTTTTTCTTTTCATTTTTCTTGATTTTGA
**
70445273 TTTTTTTCTTTTTGTTTTT-TT-ATTTTGA
1 TTTTTTTCTTTTCATTTTTCTTGATTTTGA
*
70445301 TTTTTTTGCATTTTCATTTTGACTTTGATTTTGA
1 TTTTTTT-C-TTTTCATTTT-TC-TTGATTTTGA
70445335 TTTTT
1 TTTTT
70445340 CTTTTTCTTC
Statistics
Matches: 82, Mismatches: 7, Indels: 14
0.80 0.07 0.14
Matches are distributed among these distances:
28 14 0.17
29 13 0.16
30 26 0.32
31 8 0.10
32 2 0.02
33 7 0.09
34 12 0.15
ACGTcount: A:0.11, C:0.07, G:0.08, T:0.74
Consensus pattern (30 bp):
TTTTTTTCTTTTCATTTTTCTTGATTTTGA
Found at i:70445261 original size:14 final size:14
Alignment explanation
Indices: 70445238--70445307 Score: 79
Period size: 14 Copynumber: 4.9 Consensus size: 14
70445228 TTGATCTTGA
*
70445238 TTTTGATTTTTTCT
1 TTTTGTTTTTTTCT
*
70445252 TTTTGTTTTTTTTT
1 TTTTGTTTTTTTCT
70445266 ATTTTGATTTTTTTCT
1 -TTTTG-TTTTTTTCT
*
70445282 TTTTGTTTTTTT-A
1 TTTTGTTTTTTTCT
70445295 TTTTGATTTTTTT
1 TTTTG-TTTTTTT
70445308 GCATTTTCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.10
14 26 0.53
15 10 0.20
16 8 0.16
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (14 bp):
TTTTGTTTTTTTCT
Found at i:70445264 original size:15 final size:15
Alignment explanation
Indices: 70445244--70445293 Score: 75
Period size: 15 Copynumber: 3.3 Consensus size: 15
70445234 TTGATTTTGA
70445244 TTTTTTCTTTTTGTT
1 TTTTTTCTTTTTGTT
*
70445259 TTTTTT-TATTTTGAT
1 TTTTTTCT-TTTTGTT
70445274 TTTTTTCTTTTTGTT
1 TTTTTTCTTTTTGTT
70445289 TTTTT
1 TTTTT
70445294 ATTTTGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.94
16 1 0.03
ACGTcount: A:0.04, C:0.04, G:0.06, T:0.86
Consensus pattern (15 bp):
TTTTTTCTTTTTGTT
Found at i:70445314 original size:29 final size:29
Alignment explanation
Indices: 70445237--70445307 Score: 119
Period size: 28 Copynumber: 2.5 Consensus size: 29
70445227 TTTGATCTTG
70445237 ATTTTGA-TTTTTTCTTTTTGTTTTTTTTT
1 ATTTTGATTTTTTTCTTTTTG-TTTTTTTT
70445266 ATTTTGATTTTTTTCTTTTTG-TTTTTTT
1 ATTTTGATTTTTTTCTTTTTGTTTTTTTT
70445294 ATTTTGATTTTTTT
1 ATTTTGATTTTTTT
70445308 GCATTTTCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
28 21 0.51
29 7 0.17
30 13 0.32
ACGTcount: A:0.08, C:0.03, G:0.07, T:0.82
Consensus pattern (29 bp):
ATTTTGATTTTTTTCTTTTTGTTTTTTTT
Found at i:70445320 original size:28 final size:28
Alignment explanation
Indices: 70445220--70445332 Score: 88
Period size: 28 Copynumber: 4.0 Consensus size: 28
70445210 TTTTTTCTCA
* *
70445220 TTTTCATTTTG-ATCTTGATTTTGA-TT
1 TTTTCATTTTGCATTTTTATTTTGATTT
* **
70445246 TTTTCTTTTTGTTTTTTTTTATTTTGATTT
1 TTTTCATTTTG--CATTTTTATTTTGATTT
* **
70445276 TTTTCTTTTTGTTTTTTTATTTTGATTT
1 TTTTCATTTTGCATTTTTATTTTGATTT
* *
70445304 TTTTGCATTTT-CATTTTGACTTTGATTT
1 TTTT-CATTTTGCATTTTTATTTTGATTT
70445332 T
1 T
70445333 GATTTTTCTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 10 0.14
28 35 0.48
29 15 0.21
30 13 0.18
ACGTcount: A:0.11, C:0.06, G:0.09, T:0.74
Consensus pattern (28 bp):
TTTTCATTTTGCATTTTTATTTTGATTT
Found at i:70452215 original size:151 final size:151
Alignment explanation
Indices: 70451941--70452248 Score: 589
Period size: 151 Copynumber: 2.0 Consensus size: 151
70451931 TAACTATTGA
70451941 ATTAAAATGTTGAAATATGAAAAGTACATAGATTAAATTCTAACTCCATGAAAGTACAGGGACTA
1 ATTAAAATGTTGAAATATGAAAAGTACATAGATTAAATTCTAACTCCATGAAAGTACAGGGACTA
*
70452006 GTAGCACATTTTGACCATTATTAAATTATGCATAATATTATTTATTAACAAATATAAACCCAATA
66 GTAGCACATTTTGACCATTATTAAATTATGCACAATATTATTTATTAACAAATATAAACCCAATA
70452071 ACTTAAATAAACTATACATAT
131 ACTTAAATAAACTATACATAT
*
70452092 ATTAAAATGTTGAAATATGAAAAGTACATAGATTAAATTCTAAGTCCATGAAAGTACAGGGACTA
1 ATTAAAATGTTGAAATATGAAAAGTACATAGATTAAATTCTAACTCCATGAAAGTACAGGGACTA
*
70452157 GTAGCACATTTTGACCATTATTAAATTATGCACAATATTATTTATTAATAAATATAAACCCAATA
66 GTAGCACATTTTGACCATTATTAAATTATGCACAATATTATTTATTAACAAATATAAACCCAATA
70452222 ACTTAAATAAACTATACATAT
131 ACTTAAATAAACTATACATAT
70452243 ATTAAA
1 ATTAAA
70452249 CTTATTTTTA
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
151 154 1.00
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (151 bp):
ATTAAAATGTTGAAATATGAAAAGTACATAGATTAAATTCTAACTCCATGAAAGTACAGGGACTA
GTAGCACATTTTGACCATTATTAAATTATGCACAATATTATTTATTAACAAATATAAACCCAATA
ACTTAAATAAACTATACATAT
Found at i:70454383 original size:15 final size:14
Alignment explanation
Indices: 70454359--70454405 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
70454349 AAGAAAAGAG
70454359 AAAATAAAATTAAA
1 AAAATAAAATTAAA
70454373 AAAACTAAAATTAAAAA
1 AAAA-TAAAATT--AAA
*
70454390 AAAATAAAAGTAAA
1 AAAATAAAATTAAA
70454404 AA
1 AA
70454406 TATGTTTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 9 0.31
15 7 0.24
16 6 0.21
17 7 0.24
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAATAAAATTAAA
Found at i:70454391 original size:16 final size:15
Alignment explanation
Indices: 70454359--70454405 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
70454349 AAGAAAAGAG
70454359 AAAATAAAATTAAAA
1 AAAATAAAATTAAAA
*
70454374 AAACTAAAATTAAAAA
1 AAAATAAAATT-AAAA
*
70454390 AAAATAAAAGTAAAA
1 AAAATAAAATTAAAA
70454405 A
1 A
70454406 TATGTTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAATAAAATTAAAA
Found at i:70455045 original size:5 final size:5
Alignment explanation
Indices: 70455035--70455060 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
70455025 TTATAGAAGC
70455035 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
70455061 ATTGCAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:70460661 original size:18 final size:19
Alignment explanation
Indices: 70460639--70460685 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
70460629 TATGAATGTT
70460639 TTATTTTTTA-ATTTCCAAA
1 TTATTTTTTATATTT-CAAA
* *
70460658 -TATTTTATATATTTTAAA
1 TTATTTTTTATATTTCAAA
70460676 TTATTTTTTA
1 TTATTTTTTA
70460686 CGTGGCATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTTTTTATATTTCAAA
Found at i:70462180 original size:178 final size:176
Alignment explanation
Indices: 70461864--70462196 Score: 452
Period size: 178 Copynumber: 1.9 Consensus size: 176
70461854 AAAGGCTAAT
* * * * **
70461864 TAATGGTCAAAATTAACTAAAAAAGAACAGGAGTAAAATTGACAAAAGATGTAAACGTTGAGAGT
1 TAATGGTCAAAATTAACTAAAAAAGAACAAGAGCAAAATTGACAAAAGATGCAAACATTGAGAAC
* * * * *
70461929 TAAATTAATAAAAAAATTCAGATTTGTCATTTAAACCAGTTAGCTTGACATTAAATCTAATTCAA
66 TAAATTAACAAAAAAA-TAAGATTTGTCATTTAAACCAATTAACTTGAAATTAAATCTAATTCAA
*
70461994 TTGAATTTGATTATTAAATATAAAAAAATTGACTCCTTTTGAAATGC
130 TCGAATTTGATTATTAAATATAAAAAAATTGACTCCTTTTGAAATGC
* * *
70462041 TAATGGTCAAATTTAGCTAAAAAAAAGAATAAGAGCAAAATTGACAAAAGATGCAAACATTGAGA
1 TAATGGTCAAAATTAACT--AAAAAAGAACAAGAGCAAAATTGACAAAAGATGCAAACATTGAGA
*
70462106 ACTAAATTGACAAAAAAA-AAGGATTTGTCATTTAAACCAATTAACTTGAAATTAAATCTAATTC
64 ACTAAATTAACAAAAAAATAA-GATTTGTCATTTAAACCAATTAACTTGAAATTAAATCTAATTC
** *
70462170 GGTCGAATTTGATTATTAAGTATAAAA
128 AATCGAATTTGATTATTAAATATAAAA
70462197 TATTAGAATC
Statistics
Matches: 134, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
177 17 0.13
178 63 0.47
179 54 0.40
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (176 bp):
TAATGGTCAAAATTAACTAAAAAAGAACAAGAGCAAAATTGACAAAAGATGCAAACATTGAGAAC
TAAATTAACAAAAAAATAAGATTTGTCATTTAAACCAATTAACTTGAAATTAAATCTAATTCAAT
CGAATTTGATTATTAAATATAAAAAAATTGACTCCTTTTGAAATGC
Found at i:70463546 original size:4 final size:4
Alignment explanation
Indices: 70463537--70463567 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
70463527 AGTTTTAAAA
70463537 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
70463568 AGCAAATGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:70474462 original size:20 final size:22
Alignment explanation
Indices: 70474431--70474476 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
70474421 ATTTCGTAAC
70474431 AAAACGATAACA-TAAGTGATT
1 AAAACGATAACATTAAGTGATT
70474452 AAAAC-ATAACATTAAGTGATT
1 AAAACGATAACATTAAGTGATT
70474473 AAAA
1 AAAA
70474477 TACAACTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.24
Consensus pattern (22 bp):
AAAACGATAACATTAAGTGATT
Found at i:70479136 original size:14 final size:14
Alignment explanation
Indices: 70479117--70479147 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
70479107 AACAGTACAT
*
70479117 TTTTTTTAATTTTA
1 TTTTTTTAATGTTA
70479131 TTTTTTTAATGTTA
1 TTTTTTTAATGTTA
70479145 TTT
1 TTT
70479148 GTAGTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTTTTAATGTTA
Found at i:70479202 original size:13 final size:14
Alignment explanation
Indices: 70479184--70479221 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
70479174 AATTTAAATC
*
70479184 TAATTATAA-AAAA
1 TAATTAAAATAAAA
70479197 TAATTAAAATAAAA
1 TAATTAAAATAAAA
70479211 TATATTAAAAT
1 TA-ATTAAAAT
70479222 TACGATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 6 0.27
15 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATTAAAATAAAA
Found at i:70479210 original size:15 final size:15
Alignment explanation
Indices: 70479193--70479221 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
70479183 CTAATTATAA
70479193 AAAATA-ATTAAAAT
1 AAAATATATTAAAAT
70479207 AAAATATATTAAAAT
1 AAAATATATTAAAAT
70479222 TACGATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATATATTAAAAT
Found at i:70485093 original size:22 final size:22
Alignment explanation
Indices: 70485052--70485129 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
70485042 ATCAACACTC
**
70485052 AGCTTAGTACGTTAGCCATGAG
1 AGCTTAGTACGTTAAACATGAG
* * *
70485074 GGTTTAGTTCGTTAAACATGAG
1 AGCTTAGTACGTTAAACATGAG
70485096 AGCTTAGTACGTTAAACATGAG
1 AGCTTAGTACGTTAAACATGAG
70485118 AGCTTAGTACGT
1 AGCTTAGTACGT
70485130 GAAATATAGG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (22 bp):
AGCTTAGTACGTTAAACATGAG
Found at i:70487136 original size:3 final size:3
Alignment explanation
Indices: 70487128--70487172 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
70487118 AATCTTTTTC
* * *
70487128 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAA TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
70487173 GTTAGTTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:70487462 original size:2 final size:2
Alignment explanation
Indices: 70487455--70487523 Score: 61
Period size: 2 Copynumber: 35.0 Consensus size: 2
70487445 TATCTTGTAT
* * *
70487455 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TC TT TGA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
* * *
70487497 TA TA TA TA TC TT TA -A TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70487524 ATTATAGGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
1 2 0.04
2 51 0.94
3 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (2 bp):
TA
Found at i:70487479 original size:19 final size:19
Alignment explanation
Indices: 70487444--70487523 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 19
70487434 TTCTACATAC
*
70487444 ATATCTTGTATTATATATAT
1 ATATCTT-TAATATATATAT
* *
70487464 A-ATATATATATATATATAT
1 ATATCTTTA-ATATATATAT
* *
70487483 ATATCTTTGATTTATATAT
1 ATATCTTTAATATATATAT
*
70487502 ATATCTTTAATTTATATAT
1 ATATCTTTAATATATATAT
70487521 ATA
1 ATA
70487524 ATTATAGGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
18 2 0.04
19 43 0.86
20 5 0.10
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.54
Consensus pattern (19 bp):
ATATCTTTAATATATATAT
Found at i:70487498 original size:17 final size:19
Alignment explanation
Indices: 70487476--70487523 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
70487466 TATATATATA
*
70487476 TATATATATATCTTTGATT
1 TATATATATATCTTTAATT
70487495 TATATATATATCTTTAATT
1 TATATATATATCTTTAATT
70487514 TATATATATA
1 TATATATATA
70487524 ATTATAGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (19 bp):
TATATATATATCTTTAATT
Found at i:70490688 original size:2 final size:2
Alignment explanation
Indices: 70490681--70490736 Score: 89
Period size: 2 Copynumber: 28.5 Consensus size: 2
70490671 TAGTTATTAT
70490681 TA TA TA TA TA CT- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70490723 TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA T
70490737 TCCTATAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.04
2 48 0.94
3 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:70490808 original size:24 final size:24
Alignment explanation
Indices: 70490780--70490826 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
70490770 ATCTATACAC
70490780 ATTTTTATTTTCACAAATACATAA
1 ATTTTTATTTTCACAAATACATAA
**
70490804 ATTTTTATTTTCATGAATACATA
1 ATTTTTATTTTCACAAATACATA
70490827 TATACTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTTTTATTTTCACAAATACATAA
Found at i:70490835 original size:24 final size:24
Alignment explanation
Indices: 70490784--70490835 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
70490774 ATACACATTT
**
70490784 TTATTTTCACAAATACATAAATTT
1 TTATTTTCACAAATACATAAATAC
** *
70490808 TTATTTTCATGAATACATATATAC
1 TTATTTTCACAAATACATAAATAC
70490832 TTAT
1 TTAT
70490836 ATGTTTTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (24 bp):
TTATTTTCACAAATACATAAATAC
Found at i:70492240 original size:27 final size:26
Alignment explanation
Indices: 70492207--70492282 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
70492197 AATAACTCTA
*
70492207 TTTAAATTCTAATTATTTTTAATTATT
1 TTTAAATTATAATTATTTTTAATT-TT
**
70492234 TTTAAATATATAATTA-TCATAATTTT
1 TTTAAAT-TATAATTATTTTTAATTTT
*
70492260 TATTAAATAATAATTATTTTTAA
1 T-TTAAATTATAATTATTTTTAA
70492283 ATGTCCATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
26 10 0.25
27 23 0.57
28 7 0.17
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTAAATTATAATTATTTTTAATTTT
Found at i:70492274 original size:17 final size:17
Alignment explanation
Indices: 70492252--70492284 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
70492242 TATAATTATC
70492252 ATAATT-TTTATTAAATA
1 ATAATTATTT-TTAAATA
70492269 ATAATTATTTTTAAAT
1 ATAATTATTTTTAAAT
70492285 GTCCATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATAATTATTTTTAAATA
Found at i:70512105 original size:2 final size:2
Alignment explanation
Indices: 70512098--70512135 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
70512088 GTTTGTTGTG
70512098 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70512136 AAAGGCATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:70517189 original size:7 final size:7
Alignment explanation
Indices: 70517177--70517202 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
70517167 AATTTATTTT
70517177 AAAAATA
1 AAAAATA
70517184 AAAAATA
1 AAAAATA
70517191 AAAAATA
1 AAAAATA
70517198 AAAAA
1 AAAAA
70517203 GTATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:70542061 original size:17 final size:17
Alignment explanation
Indices: 70542039--70542072 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
70542029 TGACAGTTCC
70542039 CAAATATATGTTATTCT
1 CAAATATATGTTATTCT
70542056 CAAATATATGTTATTCT
1 CAAATATATGTTATTCT
70542073 TACTCTGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
CAAATATATGTTATTCT
Found at i:70542941 original size:30 final size:30
Alignment explanation
Indices: 70542905--70542965 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
70542895 ATAATAAAAG
70542905 TTTAAATTGAGAACCCTAAAGGCATGCCCA
1 TTTAAATTGAGAACCCTAAAGGCATGCCCA
70542935 TTTAAATTGAGAACCCTAAAGGCATGCCCA
1 TTTAAATTGAGAACCCTAAAGGCATGCCCA
70542965 T
1 T
70542966 CACCGATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (30 bp):
TTTAAATTGAGAACCCTAAAGGCATGCCCA
Found at i:70543500 original size:37 final size:37
Alignment explanation
Indices: 70543450--70543523 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
70543440 TAAGTCAGAT
70543450 CCGAAGCCCTGTAATCATCATTTACTCTCAAGGTATG
1 CCGAAGCCCTGTAATCATCATTTACTCTCAAGGTATG
* *
70543487 CCGAAGCCCTGTAATCGTCTTTTACTCTCAAGGTATG
1 CCGAAGCCCTGTAATCATCATTTACTCTCAAGGTATG
70543524 GTGCACATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (37 bp):
CCGAAGCCCTGTAATCATCATTTACTCTCAAGGTATG
Found at i:70550552 original size:18 final size:18
Alignment explanation
Indices: 70550514--70550549 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
70550504 TTATTATTTT
*
70550514 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
70550532 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
70550550 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:70551003 original size:30 final size:30
Alignment explanation
Indices: 70550969--70551033 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
70550959 ACCCTATATC
* *
70550969 TTTATAATTTTTA-AAGAATTAAATTAAAAT
1 TTTATAATTTTTAGAA-AACTAAAGTAAAAT
*
70550999 TTTATTATTTTTAGGAAAACTAAAGTAAAAT
1 TTTATAATTTTTA-GAAAACTAAAGTAAAAT
70551030 TTTA
1 TTTA
70551034 ACTTTACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 12 0.40
31 16 0.53
32 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (30 bp):
TTTATAATTTTTAGAAAACTAAAGTAAAAT
Found at i:70556214 original size:6 final size:7
Alignment explanation
Indices: 70556199--70556223 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
70556189 AAAAGAATCC
70556199 AAAAGAA
1 AAAAGAA
70556206 AAAAGAA
1 AAAAGAA
70556213 AAAAGAA
1 AAAAGAA
70556220 AAAA
1 AAAA
70556224 CCCTTACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:70556663 original size:18 final size:19
Alignment explanation
Indices: 70556619--70556663 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
70556609 TTAAATGACG
70556619 TATTTTTATTATTAAAATA
1 TATTTTTATTATTAAAATA
70556638 TATTTTTA-T-TTATAAATA
1 TATTTTTATTATTA-AAATA
70556656 TATTTTTA
1 TATTTTTA
70556664 AATATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.12
18 14 0.56
19 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTTTATTATTAAAATA
Found at i:70556673 original size:20 final size:19
Alignment explanation
Indices: 70556619--70556673 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
70556609 TTAAATGACG
* *
70556619 TATTTTTATTATTAAAATA
1 TATTTTTAATATTTAAATA
70556638 TATTTTT-AT-TTATAAATA
1 TATTTTTAATATT-TAAATA
70556656 TATTTTTAAATATTTAAA
1 TATTTTT-AATATTTAAA
70556674 AATGAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 2 0.07
18 13 0.43
19 7 0.23
20 6 0.20
21 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTTTAATATTTAAATA
Found at i:70558691 original size:38 final size:38
Alignment explanation
Indices: 70558633--70558713 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
70558623 AAATTTTTTG
* * *
70558633 TGAAATTATGTTATAGATAGGAAGTATAGGGTCCTTAA
1 TGAAATTATATTACAAATAGGAAGTATAGGGTCCTTAA
70558671 TGAAATTATATTACAAATAGGAAGTATAGGGTCCTTAA
1 TGAAATTATATTACAAATAGGAAGTATAGGGTCCTTAA
70558709 TGAAA
1 TGAAA
70558714 GAATGTGAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (38 bp):
TGAAATTATATTACAAATAGGAAGTATAGGGTCCTTAA
Found at i:70567141 original size:2 final size:2
Alignment explanation
Indices: 70567134--70567169 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
70567124 GGTGAGGGAA
70567134 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70567170 CAAAAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70568234 original size:29 final size:30
Alignment explanation
Indices: 70568192--70568259 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
70568182 TAACAGAAAA
70568192 ATTAATTTACTCTTTGATCTAACACACATG
1 ATTAATTTACTCTTTGATCTAACACACATG
* **
70568222 ATTAGTTTA-TCTTTGATCTAACATTCATG
1 ATTAATTTACTCTTTGATCTAACACACATG
70568251 ATTAATTTA
1 ATTAATTTA
70568260 AACAAAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (30 bp):
ATTAATTTACTCTTTGATCTAACACACATG
Found at i:70575672 original size:26 final size:27
Alignment explanation
Indices: 70575643--70575701 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 27
70575633 CATTTAGAAA
70575643 ACGCCACACAA-GCAATC-ATAT-AGAGT
1 ACGCCACA-AAGGCAATCAAT-TCAGAGT
*
70575669 ACGCCACAAAGGCGATCAATTCAGAGT
1 ACGCCACAAAGGCAATCAATTCAGAGT
70575696 ACGCCA
1 ACGCCA
70575702 TGGACTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.07
26 14 0.48
27 13 0.45
ACGTcount: A:0.39, C:0.29, G:0.19, T:0.14
Consensus pattern (27 bp):
ACGCCACAAAGGCAATCAATTCAGAGT
Found at i:70592442 original size:33 final size:33
Alignment explanation
Indices: 70592379--70592448 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
70592369 CTGTACTAGT
70592379 ATACCCAAATATATTAACCAAAAAATAGTGATAA
1 ATACCCAAATATATTAA-CAAAAAATAGTGATAA
*
70592413 ATACCCAAATATATTAA-ATTAAAATAGTGATAA
1 ATACCCAAATATATTAACA-AAAAATAGTGATAA
70592446 ATA
1 ATA
70592449 ATTAAAGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 1 0.03
33 16 0.47
34 17 0.50
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.27
Consensus pattern (33 bp):
ATACCCAAATATATTAACAAAAAATAGTGATAA
Found at i:70592599 original size:21 final size:21
Alignment explanation
Indices: 70592552--70592593 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
70592542 GTTTAACAGT
70592552 CGACAATGATAAAGGAATAAC
1 CGACAATGATAAAGGAATAAC
70592573 CGACAATGATAAAGGAATAAC
1 CGACAATGATAAAGGAATAAC
70592594 GAACAAGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.19, T:0.14
Consensus pattern (21 bp):
CGACAATGATAAAGGAATAAC
Found at i:70594564 original size:18 final size:16
Alignment explanation
Indices: 70594525--70594581 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 16
70594515 GTGTGACCCC
70594525 TGTTTTCAAATTTTTA
1 TGTTTTCAAATTTTTA
70594541 TGTTTTCAAAATTTTTAA
1 TGTTTTC-AAATTTTT-A
*
70594559 CT-TTTTCCAAATTTTTT
1 -TGTTTT-CAAATTTTTA
70594576 TGTTTT
1 TGTTTT
70594582 GTTTCAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.23
17 12 0.34
18 13 0.37
19 2 0.06
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.63
Consensus pattern (16 bp):
TGTTTTCAAATTTTTA
Found at i:70605538 original size:30 final size:26
Alignment explanation
Indices: 70605515--70605568 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
70605505 TTAAACATGA
70605515 ATAAAATAAATCTTATTGAATT-AAC
1 ATAAAATAAATCTTATTGAATTAAAC
70605540 ATAAAATAAATCTTATTGAATT-AAC
1 ATAAAATAAATCTTATTGAATTAAAC
70605565 ATAA
1 ATAA
70605569 TCATCCTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (26 bp):
ATAAAATAAATCTTATTGAATTAAAC
Done.