Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014455.1 Kokia drynarioides strain JFW-HI SEQ_129494, whole genome shotgun sequence
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: 326107
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 41 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:2503 original size:16 final size:17
Alignment explanation
Indices: 2482--2519 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
2472 AATGGGGATT
2482 TAATTAATTAAAG-ATA
1 TAATTAATTAAAGCATA
2498 TAATTAATTAAAGCATA
1 TAATTAATTAAAGCATA
2515 -AATTA
1 TAATTA
2520 TGAAGTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (17 bp):
TAATTAATTAAAGCATA
Found at i:12656 original size:17 final size:18
Alignment explanation
Indices: 12634--12673 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
12624 ATAGTTTTCA
*
12634 TGCATTTT-TATTGTCAT
1 TGCATTTTATATTGTCAC
*
12651 TGCATTTTATTTTGTCAC
1 TGCATTTTATATTGTCAC
12669 TGCAT
1 TGCAT
12674 CTCTTTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.55
Consensus pattern (18 bp):
TGCATTTTATATTGTCAC
Found at i:14778 original size:14 final size:14
Alignment explanation
Indices: 14759--14785 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14749 TTTAGTACAT
14759 TGACATTTAACTTC
1 TGACATTTAACTTC
14773 TGACATTTAACTT
1 TGACATTTAACTT
14786 TGATTACGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (14 bp):
TGACATTTAACTTC
Found at i:15595 original size:26 final size:26
Alignment explanation
Indices: 15559--15692 Score: 144
Period size: 26 Copynumber: 5.2 Consensus size: 26
15549 CTCTGAAGAC
* *
15559 ATACTAAACTGGCTCGTAAGAGTGAT
1 ATACTGAACTGGCTCGTAAGAGCGAT
*
15585 ATACTGAACTGGCTCGTAAGAGAGAT
1 ATACTGAACTGGCTCGTAAGAGCGAT
* * *
15611 ATACTG-ATTGGCTCGTAGGAGCAAT
1 ATACTGAACTGGCTCGTAAGAGCGAT
* * * *
15636 ATACTGAACTGGCCCTTAAAAGCAAT
1 ATACTGAACTGGCTCGTAAGAGCGAT
* * *
15662 ATATTGAACTGGCTAGTATGAGCGAT
1 ATACTGAACTGGCTCGTAAGAGCGAT
15688 ATACT
1 ATACT
15693 TTAGGTGTTG
Statistics
Matches: 88, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
25 21 0.24
26 67 0.76
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (26 bp):
ATACTGAACTGGCTCGTAAGAGCGAT
Found at i:15664 original size:51 final size:52
Alignment explanation
Indices: 15559--15692 Score: 146
Period size: 51 Copynumber: 2.6 Consensus size: 52
15549 CTCTGAAGAC
* * * *
15559 ATACTAAACTGGCTCGTAAGAGTGATATACTGAACTGGCTCGTAAGAGAGAT
1 ATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCCCGTAAAAGAGAT
* * * *
15611 ATACTG-ATTGGCTCGTAGGAGCAATATACTGAACTGGCCCTTAAAAGCA-AT
1 ATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCCCGTAAAAG-AGAT
* * *
15662 ATATTGAACTGGCTAGTATGAGCGATATACT
1 ATACTGAACTGGCTCGTAAGAGCGATATACT
15693 TTAGGTGTTG
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
51 41 0.61
52 26 0.39
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (52 bp):
ATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCCCGTAAAAGAGAT
Found at i:34186 original size:16 final size:18
Alignment explanation
Indices: 34165--34208 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
34155 TCATTTTTGT
34165 TTTTGACAT-TTC-CAAC
1 TTTTGACATCTTCACAAC
34181 TTTTGACATCGTTCACAAC
1 TTTTGACATC-TTCACAAC
*
34200 TTCTGACAT
1 TTTTGACAT
34209 AGGCATACGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
18 3 0.12
19 12 0.50
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.41
Consensus pattern (18 bp):
TTTTGACATCTTCACAAC
Found at i:36675 original size:16 final size:16
Alignment explanation
Indices: 36654--36693 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
36644 TCGAGCGAGA
36654 AAAGAGTGGAAAAAGG
1 AAAGAGTGGAAAAAGG
36670 AAAGAGTGGAAAAAGG
1 AAAGAGTGGAAAAAGG
36686 AAAGAGTG
1 AAAGAGTG
36694 AGGAAGAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.38, T:0.07
Consensus pattern (16 bp):
AAAGAGTGGAAAAAGG
Found at i:39833 original size:15 final size:16
Alignment explanation
Indices: 39809--39862 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 16
39799 TGTTACAAAA
*
39809 AAAAATAAA-TGAGAG
1 AAAAAGAAATTGAGAG
39824 AAAAAGAAATTGAGA-
1 AAAAAGAAATTGAGAG
* **
39839 AAAGAGAGCTTGAGAG
1 AAAAAGAAATTGAGAG
39855 -AAAAGAAA
1 AAAAAGAAA
39863 AAGAAATTGC
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 25 0.83
16 5 0.17
ACGTcount: A:0.63, C:0.02, G:0.24, T:0.11
Consensus pattern (16 bp):
AAAAAGAAATTGAGAG
Found at i:43625 original size:22 final size:24
Alignment explanation
Indices: 43584--43628 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
43574 GAAAATGAGT
43584 GAAAAATAAAAGAAATTGAGAGAG
1 GAAAAATAAAAGAAATTGAGAGAG
43608 GAAAAA-AAAAGAAA-TGAGAGA
1 GAAAAATAAAAGAAATTGAGAGA
43629 AAAAGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.33
23 8 0.38
24 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (24 bp):
GAAAAATAAAAGAAATTGAGAGAG
Found at i:43641 original size:14 final size:15
Alignment explanation
Indices: 43613--43646 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
43603 GAGAGGAAAA
43613 AAAAAGAAATGAGAG
1 AAAAAGAAATGAGAG
43628 AAAAAGAAAT-AGAG
1 AAAAAGAAATGAGAG
43642 AAAAA
1 AAAAA
43647 AGAGCTTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (15 bp):
AAAAAGAAATGAGAG
Found at i:43647 original size:15 final size:14
Alignment explanation
Indices: 43612--43649 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
43602 AGAGAGGAAA
43612 AAAAAAGAAATGAG
1 AAAAAAGAAATGAG
43626 AGAAAAAGAAATAGAG
1 A-AAAAAGAAAT-GAG
43642 AAAAAAGA
1 AAAAAAGA
43650 GCTTGAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 17 0.77
16 4 0.18
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (14 bp):
AAAAAAGAAATGAG
Found at i:56940 original size:30 final size:30
Alignment explanation
Indices: 56906--56976 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
56896 ATGGAAGATG
*
56906 CGAGCACTCATGCTGCGAACACTGATGTTA
1 CGAGCACTCATGCTACGAACACTGATGTTA
* * *
56936 CGAGCACTCATGCTACGAATATTGATGTTG
1 CGAGCACTCATGCTACGAACACTGATGTTA
*
56966 TGAGCACTCAT
1 CGAGCACTCAT
56977 ATTTGAAGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (30 bp):
CGAGCACTCATGCTACGAACACTGATGTTA
Found at i:56952 original size:15 final size:15
Alignment explanation
Indices: 56906--56953 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
56896 ATGGAAGATG
*
56906 CGAGCACTCATGCTG
1 CGAGCACTCATGCTA
* * *
56921 CGAACACTGATGTTA
1 CGAGCACTCATGCTA
56936 CGAGCACTCATGCTA
1 CGAGCACTCATGCTA
56951 CGA
1 CGA
56954 ATATTGATGT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (15 bp):
CGAGCACTCATGCTA
Found at i:62216 original size:37 final size:37
Alignment explanation
Indices: 62161--62242 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
62151 ACTACTAATT
* * *
62161 TCGTTGCATGAACACTTCCAGATTGCGCCTAAAACTG
1 TCGTCGCATGAACACTTCCAGATTGCACCCAAAACTG
*
62198 TCGTCGCATGAGCACTTCCAGATTGCACCCAAAACTG
1 TCGTCGCATGAACACTTCCAGATTGCACCCAAAACTG
*
62235 TCGCCGCA
1 TCGTCGCA
62243 AGAATATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
TCGTCGCATGAACACTTCCAGATTGCACCCAAAACTG
Found at i:62286 original size:37 final size:36
Alignment explanation
Indices: 62221--62338 Score: 114
Period size: 38 Copynumber: 3.2 Consensus size: 36
62211 ACTTCCAGAT
*
62221 TGCACCCAAAACTGTCGCCGCA-AGAATATT-TTCGAAA
1 TGCA-CCAAAACTGTCGCTGCATA-AATATTCTTC-AAA
*
62258 TGCACCTAAGACTGTCGCTGCATAAATATTCTTCAAA
1 TGCACC-AAAACTGTCGCTGCATAAATATTCTTCAAA
* * * *
62295 TTACATCCAAAACTATCGCTGCATAAGTATTCTTCAAT
1 -TGCA-CCAAAACTGTCGCTGCATAAATATTCTTCAAA
62333 TGCACC
1 TGCACC
62339 CAGGCATTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
36 4 0.06
37 29 0.43
38 33 0.49
39 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (36 bp):
TGCACCAAAACTGTCGCTGCATAAATATTCTTCAAA
Found at i:71440 original size:17 final size:17
Alignment explanation
Indices: 71420--71457 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
71410 ATTATGCAAC
71420 TCAAGTATTTATTTTAT
1 TCAAGTATTTATTTTAT
71437 TCAAGTATTTATTTTAT
1 TCAAGTATTTATTTTAT
71454 TCAA
1 TCAA
71458 ATTATCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (17 bp):
TCAAGTATTTATTTTAT
Found at i:74135 original size:26 final size:25
Alignment explanation
Indices: 74113--74162 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
74103 GACTAAAATA
*
74113 TTAACAATTTAAAATAAATTAAAAAG
1 TTAACAAATT-AAATAAATTAAAAAG
*
74139 TTAATAAATTAAATAAATTAAAAA
1 TTAACAAATTAAATAAATTAAAAA
74163 AATTTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
TTAACAAATTAAATAAATTAAAAAG
Found at i:74155 original size:9 final size:9
Alignment explanation
Indices: 74124--74166 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
74114 TAACAATTTA
74124 AAATAAATT
1 AAATAAATT
*
74133 AAA-AAGTT
1 AAATAAATT
74141 -AATAAATT
1 AAATAAATT
74149 AAATAAATT
1 AAATAAATT
*
74158 AAAAAAATT
1 AAATAAATT
74167 TGAAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 2 0.07
8 8 0.28
9 19 0.66
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
AAATAAATT
Found at i:84443 original size:53 final size:52
Alignment explanation
Indices: 84355--84455 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
84345 TTCCCTTTTA
*
84355 TTTTTGCTTTTCAAATTAAATTTATAGTTCCATTTCTCTCACTCTCTCCCTT
1 TTTTTGCTTTTCAAATTAAACTTATAGTTCCATTTCTCTCACTCTCTCCCTT
*
84407 TTTTTTCTTTTCAAATTAAACTTATGAGTTCCATTTCTCTCACTCTCTC
1 TTTTTGCTTTTCAAATTAAACTTAT-AGTTCCATTTCTCTCACTCTCTC
84456 TAAATGTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 23 0.50
53 23 0.50
ACGTcount: A:0.20, C:0.25, G:0.04, T:0.51
Consensus pattern (52 bp):
TTTTTGCTTTTCAAATTAAACTTATAGTTCCATTTCTCTCACTCTCTCCCTT
Found at i:87415 original size:14 final size:14
Alignment explanation
Indices: 87381--87416 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
87371 CTAGAAAATA
87381 ATTTTAAAAAATGT
1 ATTTTAAAAAATGT
*
87395 TTCTTTAAAAAATGT
1 AT-TTTAAAAAATGT
87410 ATTTTAA
1 ATTTTAA
87417 TTTATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (14 bp):
ATTTTAAAAAATGT
Found at i:90280 original size:194 final size:195
Alignment explanation
Indices: 90012--90373 Score: 462
Period size: 194 Copynumber: 1.9 Consensus size: 195
90002 TAAACTATCT
* * **
90012 CCTAACGATGCTGCTCACACAAGCTATTGAGAATATGCGTTCAAGCATAAGTCCCAGCCATCATA
1 CCTAACGATGCTGCTCACACAAGCTATCGAGAATATGCCTTCAAGCATAAAACCCAGCCATCATA
* * * *
90077 GGACCTATAATCCATT-TTGGATTTCATATCTC-TTTTTTGACTCATGATGCTACTCACACAAGC
66 GGACCTATAATCCATTCTTGGA-TTCATATCTCATTTCTCGACTCACGATACTACTCACACAAGC
**
90140 TGTCGAGGACTCGCAATGTATGTGGTACCTCAACCATCGATATGGTATATGTGCATATAATTGCT
130 TGTCGAGGACTCGCAACATATGTGGTACCTCAACCATCGATATGGTATATGTGCATATAATTGCT
90205 C
195 C
* * * * * *
90206 CCTAACGATGCTTCTCACACGAA-CTGTCGAGAATATGCACTT-ATGCATAAAACTCAGTCATCG
1 CCTAACGATGCTGCTCACAC-AAGCTATCGAGAATATGC-CTTCAAGCATAAAACCCAGCCATCA
* * * *
90269 TAGGGCCTATAATCCATTCTTGGATTCATTTCTCATTTCTCGACTCACGATACTGCTCACACGAG
64 TAGGACCTATAATCCATTCTTGGATTCATATCTCATTTCTCGACTCACGATACTACTCACACAAG
* * *
90334 CTGTCGAGTACTCGTAACATATGTGGTACCTCAGCCATCG
129 CTGTCGAGGACTCGCAACATATGTGGTACCTCAACCATCG
90374 TGTCGGTTTC
Statistics
Matches: 141, Mismatches: 23, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
194 73 0.52
195 68 0.48
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (195 bp):
CCTAACGATGCTGCTCACACAAGCTATCGAGAATATGCCTTCAAGCATAAAACCCAGCCATCATA
GGACCTATAATCCATTCTTGGATTCATATCTCATTTCTCGACTCACGATACTACTCACACAAGCT
GTCGAGGACTCGCAACATATGTGGTACCTCAACCATCGATATGGTATATGTGCATATAATTGCTC
Found at i:108051 original size:253 final size:253
Alignment explanation
Indices: 107416--108125 Score: 1102
Period size: 254 Copynumber: 2.8 Consensus size: 253
107406 TGATTGAAAA
* * ** * *
107416 CTCCTTATTGTATACTCTTTATAAAAGCAATTCATCTAATTATTTTATCCAATGACCTTGTCATG
1 CTCCTTATTGTATACTCTTTATTAAAGCAATTCATCAAATTGCTTTGTCCAATGACCTCGTCATG
*
107481 TGCATG-TTACCCTCATATGATATCCTTGATTCCTTTTAGTTAAATCGGTTCACTCAATACAATC
66 TG--TGTTTACCCTCATATGATATCCTTGATTCCTTTTAGTTAAATCCGTTCACTCAATACAATC
* *
107545 CTATTTCATCTCATTATCACCATTGTGTCTTCTTAATGATTAATATGA-CAATCGTTAACAAATA
129 CTATTTTATCTCATTATCACCATTGTGTCTTCTTAATGATTAATATGATC-ATCGTCAACAAATA
* **
107609 TTAATATTTAATATTTACGAGTCCATGAAAACCATTCAAAATTTAATATTTATTATTGTGT
193 TTAATATTTAATATTTAAGAGTCCATGAAAACCATTCAAAATTTAATATTTACCATTGTGT
* * *
107670 CTCCTTATTGTATACTCTTTATTAAAGCAATTCATCCAATTGCTTTGTCCAATAATCTCGTCATG
1 CTCCTTATTGTATACTCTTTATTAAAGCAATTCATCAAATTGCTTTGTCCAATGACCTCGTCATG
*
107735 TGTGTATTACCCTCATATGATATCCTTGATTCCTTTTAGTTAAATTCGTTCACTCAATACAATCC
66 TGTGT-TTACCCTCATATGATATCCTTGATTCCTTTTAGTTAAATCCGTTCACTCAATACAATCC
*
107800 TATTTTATCTCATTATCACCATTTTGTCTTCTTAATGATTAATATGATCATCGTCAACAAATATT
130 TATTTTATCTCATTATCACCATTGTGTCTTCTTAATGATTAATATGATCATCGTCAACAAATATT
* *
107865 AATATTTAATATTTAAGAGTCCATGAAAGCCATTGAAAATTTAATA-TTACCATTGTGT
195 AATATTTAATATTTAAGAGTCCATGAAAACCATTCAAAATTTAATATTTACCATTGTGT
* * *
107923 CTCCTTATTGTATACTCTTTATTAAATCAATTCATCAAATTGCTTTGTCCAATGACCTCATCATA
1 CTCCTTATTGTATACTCTTTATTAAAGCAATTCATCAAATTGCTTTGTCCAATGACCTCGTCATG
*
107988 TGTGTTCTACCCTCATATGATATCCTTGATTCCTTTGAGTTAAATCCGTTCACTCAATACAATCC
66 TGTGTT-TACCCTCATATGATATCCTTGATTCCTTTTAGTTAAATCCGTTCACTCAATACAATCC
* * * * *
108053 TATTTTATCTCATTATCGCCATTGTGTCTTCTTAATGATTGATATGATTATTGACAACAAATATT
130 TATTTTATCTCATTATCACCATTGTGTCTTCTTAATGATTAATATGATCATCGTCAACAAATATT
108118 AATATTTA
195 AATATTTA
108126 CTAAAATAGA
Statistics
Matches: 420, Mismatches: 32, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
252 3 0.01
253 197 0.47
254 219 0.52
255 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (253 bp):
CTCCTTATTGTATACTCTTTATTAAAGCAATTCATCAAATTGCTTTGTCCAATGACCTCGTCATG
TGTGTTTACCCTCATATGATATCCTTGATTCCTTTTAGTTAAATCCGTTCACTCAATACAATCCT
ATTTTATCTCATTATCACCATTGTGTCTTCTTAATGATTAATATGATCATCGTCAACAAATATTA
ATATTTAATATTTAAGAGTCCATGAAAACCATTCAAAATTTAATATTTACCATTGTGT
Found at i:110585 original size:28 final size:28
Alignment explanation
Indices: 110554--110644 Score: 105
Period size: 28 Copynumber: 3.3 Consensus size: 28
110544 ATATAGCACA
110554 TTCGAGCCCAGAACAGAATAATGCTCCT
1 TTCGAGCCCAGAACAGAATAATGCTCCT
* * * *
110582 TTCGAGCCAAAAACATAATAATGTTCCT
1 TTCGAGCCCAGAACAGAATAATGCTCCT
* *
110610 TTCGAG-CCAGAAATAGAATAACGCT-CT
1 TTCGAGCCCAG-AACAGAATAATGCTCCT
110637 TTCGAGCC
1 TTCGAGCC
110645 AAAGTCCAGA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
27 10 0.20
28 41 0.80
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (28 bp):
TTCGAGCCCAGAACAGAATAATGCTCCT
Found at i:110671 original size:28 final size:28
Alignment explanation
Indices: 110632--110699 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
110622 ATAGAATAAC
* *
110632 GCTCTTTCGAGCCAAAGTCCAGAGTATT
1 GCTCTTACGAGCCAAAGTCCAGAATATT
*
110660 GCTCTTACGAGCCAAAGTCTAGAATATT
1 GCTCTTACGAGCCAAAGTCCAGAATATT
110688 GCTCTTACGAGC
1 GCTCTTACGAGC
110700 TAGAATTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (28 bp):
GCTCTTACGAGCCAAAGTCCAGAATATT
Found at i:116006 original size:36 final size:36
Alignment explanation
Indices: 115959--116075 Score: 189
Period size: 36 Copynumber: 3.2 Consensus size: 36
115949 TGAGATGTTA
*
115959 TGACAGTAAATATGTGGGTATGTTTTTCATGTCACG
1 TGACAGTAAATATGTGGGTATGTTTTTCATGTCATG
* * *
115995 TGACAGTAAATATGTAGGTATGTGTTTCATGCCATG
1 TGACAGTAAATATGTGGGTATGTTTTTCATGTCATG
116031 TGACAGTAAATATGTGGGTATGTTTTTCATGTCATG
1 TGACAGTAAATATGTGGGTATGTTTTTCATGTCATG
*
116067 TGAAAGTAA
1 TGACAGTAA
116076 TTATATTATG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 73 1.00
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (36 bp):
TGACAGTAAATATGTGGGTATGTTTTTCATGTCATG
Found at i:116505 original size:11 final size:10
Alignment explanation
Indices: 116464--116506 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
116454 TCAAACTATC
*
116464 ATTAAACGTG
1 ATTAAATGTG
116474 ATTAAATGTG
1 ATTAAATGTG
*
116484 ACTAAATGTG
1 ATTAAATGTG
116494 ATTAATATGTG
1 ATTAA-ATGTG
116505 AT
1 AT
116507 GTGATAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 22 0.76
11 7 0.24
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (10 bp):
ATTAAATGTG
Found at i:116603 original size:10 final size:10
Alignment explanation
Indices: 116590--116614 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
116580 AATATTCATA
116590 TGATTAAATG
1 TGATTAAATG
116600 TGATTAAATG
1 TGATTAAATG
116610 TGATT
1 TGATT
116615 TATATGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (10 bp):
TGATTAAATG
Found at i:116633 original size:59 final size:59
Alignment explanation
Indices: 116472--116622 Score: 223
Period size: 59 Copynumber: 2.6 Consensus size: 59
116462 TCATTAAACG
*
116472 TGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATTCATG
1 TGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATTCATA
* * * *
116531 TAATTAAATGTGGCCT-AATGTTATTAATATGTGATGTGATAAATTCTGAAATATTCATA
1 TGATTAAATGT-GACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATTCATA
* *
116590 TGATTAAATGTGATTAAATGTGATTTATATGTG
1 TGATTAAATGTGACTAAATGTGATTAATATGTG
116623 TTGTATTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
58 2 0.03
59 75 0.94
60 3 0.04
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (59 bp):
TGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATTCATA
Found at i:116653 original size:59 final size:58
Alignment explanation
Indices: 116471--116655 Score: 212
Period size: 59 Copynumber: 3.1 Consensus size: 58
116461 ATCATTAAAC
*
116471 GTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATTCAT
1 GTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAAT-TTGAAATATTCAT
* * *
116530 GTAATTAAATGTGGCCT-AATGTTATTAATATGTGATGTGATAAATTCTGAAATATTCAT
1 GTGATTAAATGT-GACTAAATGTGATTAATATGTGATGTGATAAATT-TGAAATATTCAT
* * * * * * *
116589 ATGATTAAATGTGATTAAATGTGATTTATATGTGTTGT-ATTAAATGTTTACATACTCAT
1 GTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGA-TAAAT-TTGAAATATTCAT
116648 GTGATTAA
1 GTGATTAA
116656 TGCTATTATT
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
58 3 0.03
59 99 0.93
60 4 0.04
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.41
Consensus pattern (58 bp):
GTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATTTGAAATATTCAT
Found at i:118094 original size:66 final size:65
Alignment explanation
Indices: 118002--118131 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 65
117992 GACTAATTTG
*
118002 TAAAAGAGTCAAAACTTAGAATTTTTATGAAGCAATATAACCATATTTTAAAATTAAACCTGACA
1 TAAAAGAGTCAAAACTTAGAAATTTTATGAAGCAATATAACCATATTTTAAAATTAAA-CTGACA
118067 C
65 C
*
118068 TAAAAGAGTCAAAACTTAGAAATTTTATGAAGCAATTTAACCATATTTTAAAATTAAACTGACA
1 TAAAAGAGTCAAAACTTAGAAATTTTATGAAGCAATATAACCATATTTTAAAATTAAACTGACA
118132 ACCTCATTCT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 6 0.10
66 56 0.90
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (65 bp):
TAAAAGAGTCAAAACTTAGAAATTTTATGAAGCAATATAACCATATTTTAAAATTAAACTGACAC
Found at i:119692 original size:39 final size:39
Alignment explanation
Indices: 119649--119741 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 39
119639 GTGACTAAAC
*
119649 GTGATTAATATGTGATGTGATAAATGCTGAAGTAGTCAT
1 GTGATTAATATGTGATGTGATAAATGCTGAAATAGTCAT
* *
119688 GTGATTAATATGTCG-TGTTATAAATGCTGAAATATTCAT
1 GTGATTAATATGT-GATGTGATAAATGCTGAAATAGTCAT
*
119727 ATGATTAA-ATGTGAT
1 GTGATTAATATGTGAT
119742 TAAATGTGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
37 1 0.02
38 5 0.10
39 41 0.85
40 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (39 bp):
GTGATTAATATGTGATGTGATAAATGCTGAAATAGTCAT
Found at i:119743 original size:10 final size:10
Alignment explanation
Indices: 119728--119760 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
119718 AATATTCATA
119728 TGATTAAATG
1 TGATTAAATG
119738 TGATTAAATG
1 TGATTAAATG
119748 TGATTAATATG
1 TGATTAA-ATG
119759 TG
1 TG
119761 TTGTGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.42
Consensus pattern (10 bp):
TGATTAAATG
Found at i:119749 original size:59 final size:57
Alignment explanation
Indices: 119686--119806 Score: 147
Period size: 59 Copynumber: 2.1 Consensus size: 57
119676 TGAAGTAGTC
*
119686 ATGTGATTAATATGTCG-TGT-TATAAATGCTGAAATATTCATATGATTAAATGTGATTAA
1 ATGTGATTAATATGT-GTTGTGT-TAAATGCTGAAATACTCATATGATT-AATGTGATT-A
* * * *
119745 ATGTGATTAATATGTGTTGTGTTAAATGTTTAAGTACTCATGTGATTAATGTGATTA
1 ATGTGATTAATATGTGTTGTGTTAAATGCTGAAATACTCATATGATTAATGTGATTA
119802 ATGTG
1 ATGTG
119807 TAAAAGAATG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
57 6 0.11
58 10 0.18
59 38 0.69
60 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (57 bp):
ATGTGATTAATATGTGTTGTGTTAAATGCTGAAATACTCATATGATTAATGTGATTA
Found at i:123129 original size:31 final size:33
Alignment explanation
Indices: 123094--123156 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
123084 CCACAACTAA
* *
123094 CTTAAACCCT-AATAAA-CCTTACTTTAAAAAG
1 CTTAAACCCTAAAAAAATCCTAACTTTAAAAAG
*
123125 CTTAAACCTTAAAAAAATCCTAACTTTAAAAA
1 CTTAAACCCTAAAAAAATCCTAACTTTAAAAA
123157 ACATAGGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 9 0.33
32 5 0.19
33 13 0.48
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.29
Consensus pattern (33 bp):
CTTAAACCCTAAAAAAATCCTAACTTTAAAAAG
Found at i:128435 original size:40 final size:40
Alignment explanation
Indices: 128391--128468 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
128381 TCTTTAGACG
*
128391 ATCTTATGCTTCACAGATTCACAAGTCTTCCTTTTTAACA
1 ATCTTATGCTTCACAGAGTCACAAGTCTTCCTTTTTAACA
* * *
128431 ATCTTATGCTTTACCGAGTCATAAGTCTTCCTTTTTAA
1 ATCTTATGCTTCACAGAGTCACAAGTCTTCCTTTTTAA
128469 ACATAATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (40 bp):
ATCTTATGCTTCACAGAGTCACAAGTCTTCCTTTTTAACA
Found at i:128584 original size:41 final size:42
Alignment explanation
Indices: 128454--128641 Score: 155
Period size: 42 Copynumber: 4.4 Consensus size: 42
128444 CCGAGTCATA
* *
128454 AGTCTTCCTTTTTAAACATAATCTTACGCTCATTCTGAGACATG
1 AGTCTTCC--TTTAAACATAATCTCATGCTCATTCTGAGACATG
* * *
128498 AGTCTTCCTTTAAACATAATCTCATTCTCATCCCGAGACATG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATTCTGAGACATG
* * * * *
128540 AGTCTTCCTTT-AATATATTCTCATGCTCATTTTGAGTCACG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATTCTGAGACATG
* * * * * *
128581 AGTCTTCAATTCATACA-AATTCTCATGTTCAATCCGAGACATG
1 AGTCTTC-CTTTAAACATAA-TCTCATGCTCATTCTGAGACATG
* *
128624 AGTATTCCATTTATACAT
1 AGTCTTCC-TTTAAACAT
128642 CAAGTGTCTC
Statistics
Matches: 112, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
41 29 0.26
42 43 0.38
43 32 0.29
44 8 0.07
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (42 bp):
AGTCTTCCTTTAAACATAATCTCATGCTCATTCTGAGACATG
Found at i:128640 original size:43 final size:42
Alignment explanation
Indices: 128490--128640 Score: 121
Period size: 43 Copynumber: 3.6 Consensus size: 42
128480 CGCTCATTCT
*
128490 GAGACATGAGTCTTCCTTTAAACATAA-TCTCAT-TCTC-ATCCC
1 GAGACATGAGTCTTCCTTTATACA-AATTCTCATGT-TCAAT-CC
* * * * **
128532 GAGACATGAGTCTTCCTTTA-ATATATTCTCATGCTCATTTT
1 GAGACATGAGTCTTCCTTTATACAAATTCTCATGTTCAATCC
* * * *
128573 GAGTCACGAGTCTTCAATTCATACAAATTCTCATGTTCAATCC
1 GAGACATGAGTCTTC-CTTTATACAAATTCTCATGTTCAATCC
*
128616 GAGACATGAGTATTCCATTTATACA
1 GAGACATGAGTCTTCC-TTTATACA
128641 TCAAGTGTCT
Statistics
Matches: 82, Mismatches: 21, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
40 1 0.01
41 23 0.28
42 24 0.29
43 34 0.41
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (42 bp):
GAGACATGAGTCTTCCTTTATACAAATTCTCATGTTCAATCC
Found at i:137343 original size:84 final size:84
Alignment explanation
Indices: 137251--137515 Score: 204
Period size: 84 Copynumber: 3.2 Consensus size: 84
137241 CAGATTCACA
* * * *
137251 AGTCTTCCTTTTTAAC-AATCTTATACTC-TAC-CGAGTCATAAGTCTTCCTTTTTAAATATAAT
1 AGTCTTCCTTTTAAACAAATCTCATACTCAT-CTCGAGACATAAGTCTT-C-TTTTAAACATAAT
* *
137313 CTCATGCTCATTTCGAGAGATG
63 CTCATGCTCATCTCGAGACATG
* *
137335 AGTCTTCC-TTTAAACATAATCTCATTCTCATCTCGAGACATGAGTCTTCTTTTAAACATAATCT
1 AGTCTTCCTTTTAAACA-AATCTCATACTCATCTCGAGACATAAGTCTTCTTTTAAACATAATCT
*
137399 CATTCTCATCTCGAGACATG
65 CATGCTCATCTCGAGACATG
* * * * * * ** * * *
137419 AGTCTACC-TTTAATA-TATTCTCATGCTCATTTCGAGTCACGAGTCTTCCATTCATACA-AATT
1 AGTCTTCCTTTTAA-ACAAATCTCATACTCATCTCGAGACATAAGTCTT-CTTTTAAACATAA-T
*
137481 CTCATGCTCAATC-CAAGACATG
63 CTCATGCTC-ATCTCGAGACATG
*
137503 AGTCTTCCATTTA
1 AGTCTTCCTTTTA
137516 TACATCAAGA
Statistics
Matches: 150, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
83 34 0.23
84 82 0.55
85 20 0.13
86 14 0.09
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (84 bp):
AGTCTTCCTTTTAAACAAATCTCATACTCATCTCGAGACATAAGTCTTCTTTTAAACATAATCTC
ATGCTCATCTCGAGACATG
Found at i:137406 original size:48 final size:42
Alignment explanation
Indices: 137282--137520 Score: 241
Period size: 42 Copynumber: 5.6 Consensus size: 42
137272 TATACTCTAC
* * * *
137282 CGAGTCATAAGTCTTCCTTTTTAAATATAATCTCATGCTCATTT
1 CGAGACATGAGTCTTCC--TTTAAACATAATCTCATGCTCATCT
* *
137326 CGAGAGATGAGTCTTCCTTTAAACATAATCTCATTCTCATCT
1 CGAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCT
* *
137368 CGAGACATGAGTCTTCTTTTAAACATAATCTCATTCTCATCT
1 CGAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCT
* * * *
137410 CGAGACATGAGTCTACCTTT-AATATATTCTCATGCTCATTT
1 CGAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCT
* * * *
137451 CGAGTCACGAGTCTTCCATTCATACA-AATTCTCATGCTCAATC-
1 CGAGACATGAGTCTTCC-TTTAAACATAA-TCTCATGCTC-ATCT
* *
137494 CAAGACATGAGTCTTCCATTTATACAT
1 CGAGACATGAGTCTTCC-TTTAAACAT
137521 CAAGAGTCTC
Statistics
Matches: 164, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
41 31 0.19
42 83 0.51
43 34 0.21
44 16 0.10
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (42 bp):
CGAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCT
Found at i:146469 original size:32 final size:32
Alignment explanation
Indices: 146428--146492 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
146418 CTATTCAATT
146428 TAGTCCATAAGGTCAATACATGCAAAATAACC
1 TAGTCCATAAGGTCAATACATGCAAAATAACC
146460 TAGTCCATAAGGTCAATACATGCAAAATAACC
1 TAGTCCATAAGGTCAATACATGCAAAATAACC
146492 T
1 T
146493 TTCTCCTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (32 bp):
TAGTCCATAAGGTCAATACATGCAAAATAACC
Found at i:150129 original size:19 final size:19
Alignment explanation
Indices: 150105--150149 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
150095 TTAACAAAAG
*
150105 AAATGCACTAACAAAATAA
1 AAATGCAATAACAAAATAA
* *
150124 AAATGCAATGACAGAATAA
1 AAATGCAATAACAAAATAA
150143 AAATGCA
1 AAATGCA
150150 TGAAAACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.60, C:0.13, G:0.11, T:0.16
Consensus pattern (19 bp):
AAATGCAATAACAAAATAA
Found at i:164787 original size:77 final size:77
Alignment explanation
Indices: 164583--165108 Score: 705
Period size: 77 Copynumber: 6.8 Consensus size: 77
164573 TAGGGAAAAG
* * * *
164583 TGAAGACAATTCAATCTCTTACCTCGATCATGGAGCA-ATTTGAAACATCTAATCTCTTACCTTA
1 TGAAGAC-ATCCAATCTCTTACCCCGATCATGGGGCAGA-TTGAAACATCCAATCTCTTACCTTA
* *
164647 ATCAAAAGGCAAAT
64 ATCAGAAGGCAGAT
* * * *
164661 TGAAGACAATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATTTTTTACCTTAA
1 TGAAGAC-ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAA
*
164726 TCAAAAGGCAGAT
65 TCAGAAGGCAGAT
*
164739 TGAAGACATGCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAAT
1 TGAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAAT
164804 CAGAAGGCAGAT
66 CAGAAGGCAGAT
* * *
164816 TGAAGACATGCAATCTCTTACCCCGATCATGAGGCAGATTGAAACATCCAACCTCTTACCTTAAT
1 TGAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAAT
*
164881 TAGAAGGCAGAT
66 CAGAAGGCAGAT
* * *
164893 TGAAGACAATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATTCAATCTTTTACCTTAA
1 TGAAGAC-ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAA
*
164958 TCAGAAGGCATAT
65 TCAGAAGGCAGAT
* ** * *
164971 TGAAGACATGCAATCTCTTACCCCGATCATGGGGCAGATTGAAGTATCTAATCTTTTACCTTAAT
1 TGAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAAT
* *
165036 TAGAAGGCAAAT
66 CAGAAGGCAGAT
* * * *
165048 TGAAG-CATCCAATCTTTTACCCCGATCATAGGGCAGATTGAAGACACACCAATTTCTTACC
1 TGAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-ACA-TCCAATCTCTTACC
165109 CCGAATAAAG
Statistics
Matches: 403, Mismatches: 41, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
76 34 0.08
77 215 0.53
78 153 0.38
79 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (77 bp):
TGAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAAT
CAGAAGGCAGAT
Found at i:164908 original size:155 final size:154
Alignment explanation
Indices: 164583--165108 Score: 741
Period size: 155 Copynumber: 3.4 Consensus size: 154
164573 TAGGGAAAAG
* * * *
164583 TGAAGACAATTCAATCTCTTACCTCGATCATGGAGCA-ATTTGAAACATCTAATCTCTTACCTTA
1 TGAAGAC-ATCCAATCTCTTACCCCGATCATGGGGCAGA-TTGAAACATCCAATCTCTTACCTTA
* * *
164647 ATCAAAAGGCAAATTGAAGACAATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGCATCCA
64 ATCAGAAGGCAAATTGAAGAC-ATGCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCA
* * *
164712 ATTTTTTACCTTAATCAAAAGGCAGAT
128 ATCTTTTACCTTAATTAGAAGGCAGAT
*
164739 TGAAGACATGCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAAT
1 TGAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAAT
* * * *
164804 CAGAAGGCAGATTGAAGACATGCAATCTCTTACCCCGATCATGAGGCAGATTGAAACATCCAACC
66 CAGAAGGCAAATTGAAGACATGCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATC
*
164869 TCTTACCTTAATTAGAAGGCAGAT
131 TTTTACCTTAATTAGAAGGCAGAT
* * *
164893 TGAAGACAATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATTCAATCTTTTACCTTAA
1 TGAAGAC-ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAA
* * *
164958 TCAGAAGGCATATTGAAGACATGCAATCTCTTACCCCGATCATGGGGCAGATTGAAGTATCTAAT
65 TCAGAAGGCAAATTGAAGACATGCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAAT
*
165023 CTTTTACCTTAATTAGAAGGCAAAT
130 CTTTTACCTTAATTAGAAGGCAGAT
* * * *
165048 TGAAG-CATCCAATCTTTTACCCCGATCATAGGGCAGATTGAAGACACACCAATTTCTTACC
1 TGAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-ACA-TCCAATCTCTTACC
165109 CCGAATAAAG
Statistics
Matches: 332, Mismatches: 34, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
153 34 0.10
154 71 0.21
155 219 0.66
156 8 0.02
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (154 bp):
TGAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACATCCAATCTCTTACCTTAAT
CAGAAGGCAAATTGAAGACATGCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATC
TTTTACCTTAATTAGAAGGCAGAT
Found at i:165000 original size:232 final size:232
Alignment explanation
Indices: 164583--165089 Score: 770
Period size: 232 Copynumber: 2.2 Consensus size: 232
164573 TAGGGAAAAG
* * * *
164583 TGAAGACAATTCAATCTCTTACCTCGATCATG-GAGCA-ATTTGAAACATCTAATCTCTTACCTT
1 TGAAGAC-ATCCAATCTCTTACCCCGATCATGAG-GCAGA-TTGAAACATCCAACCTCTTACCTT
*
164646 AATCAAAAGGCAAATTGAAGACAATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGCATCC
63 AATCAAAAGGCAAATTGAAGACAATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCC
*
164711 AATTTTTTACCTTAATCAAAAGGCAGATTGAAGACATGCAATCTCTTACCCCGATCATGGGGCAG
128 AATCTTTTACCTTAATCAAAAGGCAGATTGAAGACATGCAATCTCTTACCCCGATCATGGGGCAG
*
164776 ATTGAAACATCCAATCTCTTACCTTAATCAGAAGGCAGAT
193 ATTGAAACATCCAATCTCTTACCTTAATCAGAAGGCAAAT
*
164816 TGAAGACATGCAATCTCTTACCCCGATCATGAGGCAGATTGAAACATCCAACCTCTTACCTTAAT
1 TGAAGACATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAACATCCAACCTCTTACCTTAAT
* * * *
164881 TAGAAGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATTCAAT
66 CAAAAGGCAAATTGAAGACAATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAAT
* *
164946 CTTTTACCTTAATCAGAAGGCATATTGAAGACATGCAATCTCTTACCCCGATCATGGGGCAGATT
131 CTTTTACCTTAATCAAAAGGCAGATTGAAGACATGCAATCTCTTACCCCGATCATGGGGCAGATT
** * * *
165011 GAAGTATCTAATCTTTTACCTTAATTAGAAGGCAAAT
196 GAAACATCCAATCTCTTACCTTAATCAGAAGGCAAAT
*
165048 TGAAG-CATCCAATCTTTTACCCCGATCAT-AGGGCAGATTGAA
1 TGAAGACATCCAATCTCTTACCCCGATCATGA-GGCAGATTGAA
165090 GACACACCAA
Statistics
Matches: 251, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
230 1 0.00
231 33 0.13
232 208 0.83
233 9 0.04
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (232 bp):
TGAAGACATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAACATCCAACCTCTTACCTTAAT
CAAAAGGCAAATTGAAGACAATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAAT
CTTTTACCTTAATCAAAAGGCAGATTGAAGACATGCAATCTCTTACCCCGATCATGGGGCAGATT
GAAACATCCAATCTCTTACCTTAATCAGAAGGCAAAT
Found at i:166728 original size:30 final size:31
Alignment explanation
Indices: 166694--166937 Score: 245
Period size: 30 Copynumber: 8.0 Consensus size: 31
166684 CCCTGTTTTG
166694 TCTAAAAATT-ATATTTTAACCC-TAAACTTT
1 TCTAAAAATTCAT-TTTTAACCCTTAAACTTT
*
166724 TCTAAAAATTCAAATTTT-ACCCTTAAAC-TT
1 TCTAAAAATTC-ATTTTTAACCCTTAAACTTT
* * *
166754 TCTAAAAATTCATTTTTGACCGTCAAACTTT
1 TCTAAAAATTCATTTTTAACCCTTAAACTTT
*
166785 TCTAAAATTTCATTTTTAACCCTTAAAC-TT
1 TCTAAAAATTCATTTTTAACCCTTAAACTTT
*
166815 TCTAAAAATTCATTTTTGACCCTTAAAC-TT
1 TCTAAAAATTCATTTTTAACCCTTAAACTTT
* *** *
166845 TCTAAAATTTCATTTTTAACCCCCGATC-TT
1 TCTAAAAATTCATTTTTAACCCTTAAACTTT
*
166875 TCTAAAAATTTCA-TTTTGACCCTTAAA-TTT
1 TCTAAAAA-TTCATTTTTAACCCTTAAACTTT
* * *
166905 TCTAAAAAATACCTTTTTAGCCCTTAAAACTTT
1 TCT-AAAAATTCATTTTTAACCCTT-AAACTTT
166938 CCAATATTTT
Statistics
Matches: 177, Mismatches: 26, Indels: 19
0.80 0.12 0.09
Matches are distributed among these distances:
29 5 0.03
30 112 0.63
31 53 0.30
32 4 0.02
33 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.43
Consensus pattern (31 bp):
TCTAAAAATTCATTTTTAACCCTTAAACTTT
Found at i:166792 original size:60 final size:61
Alignment explanation
Indices: 166694--166938 Score: 286
Period size: 60 Copynumber: 4.0 Consensus size: 61
166684 CCCTGTTTTG
* * *
166694 TCTAAAAATT-ATATTTTAACCC-TAAACTTTTCTAAAAATTCAAATTTT-ACCCTTAAACTT
1 TCTAAAAATTCAT-TTTTGACCCTTAAACTTTTCTAAAATTTC-ATTTTTAACCCTTAAACTT
* *
166754 TCTAAAAATTCATTTTTGACCGTCAAACTTTTCTAAAATTTCATTTTTAACCCTTAAACTT
1 TCTAAAAATTCATTTTTGACCCTTAAACTTTTCTAAAATTTCATTTTTAACCCTTAAACTT
*** *
166815 TCTAAAAATTCATTTTTGACCCTTAAAC-TTTCTAAAATTTCATTTTTAACCCCCGATCTT
1 TCTAAAAATTCATTTTTGACCCTTAAACTTTTCTAAAATTTCATTTTTAACCCTTAAACTT
* * * *
166875 TCTAAAAATTTCA-TTTTGACCCTTAAA-TTTTCTAAAAAATACCTTTTTAGCCCTTAAAACTT
1 TCTAAAAA-TTCATTTTTGACCCTTAAACTTTTCT-AAAATTTCATTTTTAACCCTT-AAACTT
166937 TC
1 TC
166939 CAATATTTTG
Statistics
Matches: 159, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
60 77 0.48
61 76 0.48
62 6 0.04
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.43
Consensus pattern (61 bp):
TCTAAAAATTCATTTTTGACCCTTAAACTTTTCTAAAATTTCATTTTTAACCCTTAAACTT
Found at i:166849 original size:91 final size:89
Alignment explanation
Indices: 166694--166938 Score: 280
Period size: 91 Copynumber: 2.7 Consensus size: 89
166684 CCCTGTTTTG
* *
166694 TCTAAAAATT-ATATTTTAACCC-TAAACTTTTCTAAAAATTCAAATTTTACCCTTAAACTTTCT
1 TCTAAAATTTCAT-TTTTAACCCTTAAAC-TTTCTAAAAATTC-ATTTTTACCCTTAAACTTTCT
* **
166757 AAAAATTCATTTTTGACCGTCAAACTTT
63 AAAAATTCATTTTTAACCCCCAAAC-TT
166785 TCTAAAATTTCATTTTTAACCCTTAAACTTTCTAAAAATTCATTTTTGACCCTTAAACTTTCTAA
1 TCTAAAATTTCATTTTTAACCCTTAAACTTTCTAAAAATTCATTTTT-ACCCTTAAACTTTCTAA
* * *
166850 AATTTCATTTTTAACCCCCGATCTT
65 AAATTCATTTTTAACCCCCAAACTT
* * * *
166875 TCTAAAAATTTCA-TTTTGACCCTTAAATTTTCTAAAAAATACCTTTTTAGCCCTTAAAACTTTC
1 TCT-AAAATTTCATTTTTAACCCTTAAACTTTCT-AAAAATTCATTTTTA-CCCTT-AAACTTTC
166939 CAATATTTTG
Statistics
Matches: 135, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
90 29 0.21
91 91 0.67
92 15 0.11
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.43
Consensus pattern (89 bp):
TCTAAAATTTCATTTTTAACCCTTAAACTTTCTAAAAATTCATTTTTACCCTTAAACTTTCTAAA
AATTCATTTTTAACCCCCAAACTT
Found at i:171620 original size:15 final size:16
Alignment explanation
Indices: 171593--171622 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
171583 TTTTAATAAT
171593 AATTATAATATTATTA
1 AATTATAATATTATTA
171609 AATTAT-ATATTATT
1 AATTATAATATTATT
171623 TTATAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTATAATATTATTA
Found at i:171659 original size:29 final size:28
Alignment explanation
Indices: 171599--171672 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 28
171589 TAATAATTAT
* * * *
171599 AATATTATTAAATTATATATTATTTTATA
1 AATATGATTAAATAATA-ATTATGTTAAA
* *
171628 AATTTGTATTTAATAATAATTATGTTAAA
1 AATATG-ATTAAATAATAATTATGTTAAA
171657 AATATGATTAAATAAT
1 AATATGATTAAATAAT
171673 TTATTATTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 9 0.25
29 18 0.50
30 9 0.25
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (28 bp):
AATATGATTAAATAATAATTATGTTAAA
Found at i:183954 original size:59 final size:60
Alignment explanation
Indices: 183883--184082 Score: 185
Period size: 68 Copynumber: 3.2 Consensus size: 60
183873 ATCATTTTAA
* * *
183883 TATTAAATTAATATAATATTTATC-AAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTATCTAAGATAAATATTAAATTAAATTTAATATTAAATCT
183942 TATTAAAATAATAAAATATTTATCTATAAGATAAATATTAAATTAAATTTAATATTAATATAATC
1 TATTAAAATAATAAAATATTTATC--TAAGATAAATATTAAATTAAATTTAATA-T--TA-AAT-
184007 ACTTT
59 -C--T
* * * * *
184012 AATATTAAATTAATACAATA-CTAT-TAAAATAAGTATTAAATTAAATTTAATATTAAA-C-
1 --TATTAAAATAATAAAATATTTATCTAAGATAAATATTAAATTAAATTTAATATTAAATCT
184070 TATTAAAATAATA
1 TATTAAAATAATA
184083 TTATTTTTGG
Statistics
Matches: 119, Mismatches: 9, Indels: 29
0.76 0.06 0.18
Matches are distributed among these distances:
56 12 0.10
59 22 0.18
61 1 0.01
62 26 0.22
63 1 0.01
64 2 0.02
65 4 0.03
66 3 0.03
67 1 0.01
68 27 0.23
70 1 0.01
71 3 0.03
72 16 0.13
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (60 bp):
TATTAAAATAATAAAATATTTATCTAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:183991 original size:62 final size:62
Alignment explanation
Indices: 183883--184082 Score: 187
Period size: 62 Copynumber: 3.2 Consensus size: 62
183873 ATCATTTTAA
* * *
183883 TATTAAATTAATATAATATTTATC---AAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTATCTATAAGATAAATATTAAATTAAATTTAATATTAAATCT
*
183942 TATTAAAATAATAAAATATTTATCTATAAGATAAATATTAAATTAAATTTAATATTAATATAAT
1 TATTAAAATAATAAAATATTTATCTATAAGATAAATATTAAATTAAATTTAATATTAA-AT-CT
* * * * ** * *
184006 CACTT-TAATATTAAATTAATACAATACTATTAAAATAAGTATTAAATTAAATTTAATATTAAA-
1 TA-TTAAAATAATAAAAT-AT-TTAT-CTA-TAAGATAAATATTAAATTAAATTTAATATTAAAT
184069 C-
61 CT
184070 TATTAAAATAATA
1 TATTAAAATAATA
184083 TTATTTTTGG
Statistics
Matches: 114, Mismatches: 16, Indels: 17
0.78 0.11 0.12
Matches are distributed among these distances:
59 22 0.19
62 30 0.26
63 4 0.04
64 18 0.16
65 4 0.04
66 2 0.02
67 4 0.04
68 30 0.26
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (62 bp):
TATTAAAATAATAAAATATTTATCTATAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:183998 original size:12 final size:12
Alignment explanation
Indices: 183973--184085 Score: 53
Period size: 12 Copynumber: 9.8 Consensus size: 12
183963 ATCTATAAGA
183973 TAAATATTAAAT
1 TAAATATTAAAT
183985 TAAAT-TTAATAT
1 TAAATATTAA-AT
* * *
183997 TAATATAATCACT
1 TAA-ATATTAAAT
*
184010 TTAATATTAAAT
1 TAAATATTAAAT
*
184022 T-AATA--CAA-
1 TAAATATTAAAT
* *
184030 T-ACTATTAAAA
1 TAAATATTAAAT
*
184041 TAAGTATTAAAT
1 TAAATATTAAAT
184053 TAAAT-TTAATAT
1 TAAATATTAA-AT
*
184065 TAAACTATTAAAA
1 TAAA-TATTAAAT
184078 T-AATATTA
1 TAAATATTA
184086 TTTTTGGAAT
Statistics
Matches: 77, Mismatches: 14, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
8 4 0.05
9 2 0.03
10 2 0.03
11 18 0.23
12 37 0.48
13 8 0.10
14 6 0.08
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:184025 original size:20 final size:18
Alignment explanation
Indices: 183975--184084 Score: 75
Period size: 19 Copynumber: 5.9 Consensus size: 18
183965 CTATAAGATA
183975 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
183992 AATATT-AATATAATCACTTT
1 AATATTAAAT-TAAT-A-TTT
**
184012 AATATTAAATTAATACAAT
1 AATATTAAATTAATA-TTT
* *
184031 ACTATTAAAATAAGTA-TT
1 AATATTAAATTAA-TATTT
*
184049 AA-ATTAAATTTAATATTA
1 AATATTAAA-TTAATATTT
*
184067 AACTATTAAAATAATATT
1 AA-TATTAAATTAATATT
184085 ATTTTTGGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
16 3 0.04
17 17 0.23
18 8 0.11
19 22 0.30
20 21 0.28
21 3 0.04
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:184038 original size:25 final size:26
Alignment explanation
Indices: 183990--184038 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
183980 TAAATTAAAT
*
183990 TTAATATTAATATAATCACTTTAATA
1 TTAATATTAATACAATCACTTTAATA
184016 TTAA-ATTAATACAAT-ACTATTAA
1 TTAATATTAATACAATCACT-TTAA
184039 AATAAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.67
26 4 0.19
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (26 bp):
TTAATATTAATACAATCACTTTAATA
Found at i:184072 original size:37 final size:36
Alignment explanation
Indices: 184010--184085 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
184000 TATAATCACT
184010 TTAATATTAAATTAATACAATACTATTAAAATAAGTA
1 TTAATATTAAATTAATACAATACTATTAAAATAA-TA
*
184047 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-CAATACTATTAAAATAATA
184083 TTA
1 TTA
184086 TTTTTGGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 11 0.31
37 23 0.64
38 2 0.06
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATACAATACTATTAAAATAATA
Found at i:193898 original size:11 final size:11
Alignment explanation
Indices: 193882--193957 Score: 61
Period size: 11 Copynumber: 6.8 Consensus size: 11
193872 GATATTCACC
193882 TTAATATTAAA
1 TTAATATTAAA
193893 TTAATA--AAA
1 TTAATATTAAA
*
193902 -TACTATTAGAA
1 TTAATATTA-AA
193913 TTAATATTAAA
1 TTAATATTAAA
193924 TTAA-ATTTAATA
1 TTAATA-TTAA-A
193936 TTAAATTATTAAA
1 TT-AA-TATTAAA
*
193949 ATAATATTA
1 TTAATATTA
193958 TTTTTGGAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 23 0.43
12 12 0.23
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:193947 original size:31 final size:31
Alignment explanation
Indices: 193850--193947 Score: 74
Period size: 31 Copynumber: 3.0 Consensus size: 31
193840 CAAGATAAAC
193850 ATTAAATTAAATTTAATATTAAGATATTCACCTTAAT
1 ATTAAATTAAATTTAATATT-A-A-ATT-A--TTAAT
** * *
193887 ATTAAATTAATAAAATACTATTAGA--ATTAAT
1 ATTAAATT-A-AATTTAATATTAAATTATTAAT
193918 ATTAAATTAAATTTAATATTAAATTATTAA
1 ATTAAATTAAATTTAATATTAAATTATTAA
193948 AATAATATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
29 10 0.20
30 1 0.02
31 18 0.37
33 1 0.02
36 1 0.02
37 8 0.16
38 2 0.04
39 8 0.16
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (31 bp):
ATTAAATTAAATTTAATATTAAATTATTAAT
Found at i:194760 original size:41 final size:41
Alignment explanation
Indices: 194703--194781 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
194693 TTAATTAAGC
*
194703 TATGAATTCCACTGTTGCTAGTAAAGTCATGTCATACAAGG
1 TATGAATTCCACTGTTGCTAGGAAAGTCATGTCATACAAGG
*
194744 TATGAATTCCACTGTTGCTAGGAAAGTCATGTTATACA
1 TATGAATTCCACTGTTGCTAGGAAAGTCATGTCATACA
194782 CAAGTCATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (41 bp):
TATGAATTCCACTGTTGCTAGGAAAGTCATGTCATACAAGG
Found at i:195216 original size:17 final size:17
Alignment explanation
Indices: 195172--195216 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
195162 TAAGTTGTCT
*
195172 TTCTCTTAATGTAAACG
1 TTCTCATAATGTAAACG
* *
195189 TTCTCACAATGTAAATG
1 TTCTCATAATGTAAACG
*
195206 TTCTTATAATG
1 TTCTCATAATG
195217 CCACTTATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (17 bp):
TTCTCATAATGTAAACG
Found at i:202737 original size:14 final size:12
Alignment explanation
Indices: 202705--202738 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
202695 AAGAAAAAGA
202705 TTGCACACAAGG
1 TTGCACACAAGG
202717 TTGCACACAAGG
1 TTGCACACAAGG
202729 TTGCACACAA
1 TTGCACACAA
202739 CCCTAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (12 bp):
TTGCACACAAGG
Found at i:207128 original size:30 final size:31
Alignment explanation
Indices: 207094--207153 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
207084 AGTAGCCCAA
207094 TGATTTAAATAAAAA-TTTCAAATAATTTAG
1 TGATTTAAATAAAAACTTTCAAATAATTTAG
**
207124 TGATTTAAATAAAAACTTTTGAATAATTTA
1 TGATTTAAATAAAAACTTTCAAATAATTTA
207154 ATAATCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (31 bp):
TGATTTAAATAAAAACTTTCAAATAATTTAG
Found at i:208042 original size:27 final size:27
Alignment explanation
Indices: 208004--208059 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
207994 ATCACTAACT
208004 AATACTAATCTAATACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
208031 AATACTAATCTAATACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
208058 AA
1 AA
208060 AAAATAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (27 bp):
AATACTAATCTAATACTAATAGAATAG
Found at i:208044 original size:5 final size:6
Alignment explanation
Indices: 208001--208051 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
207991 GGGATCACTA
* *
208001 ACTAAT ACTAAT -CTAAT ACTAAT A-GAAT A-GAAT ACTAAT -CTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
208045 ACTAAT A
1 ACTAAT A
208052 GAATAGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
5 19 0.47
6 21 0.52
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (6 bp):
ACTAAT
Found at i:208067 original size:14 final size:14
Alignment explanation
Indices: 208048--208075 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
208038 ATCTAATACT
208048 AATAGAATAGAAAA
1 AATAGAATAGAAAA
208062 AATAGAATAGAAAA
1 AATAGAATAGAAAA
208076 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:208529 original size:27 final size:27
Alignment explanation
Indices: 208491--208546 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
208481 ATCACTAACT
208491 AATACTAATCTAATACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
208518 AATACTAATCTAATACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
208545 AA
1 AA
208547 AAAATAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (27 bp):
AATACTAATCTAATACTAATAGAATAG
Found at i:208531 original size:5 final size:6
Alignment explanation
Indices: 208488--208538 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
208478 GGGATCACTA
* *
208488 ACTAAT ACTAAT -CTAAT ACTAAT A-GAAT A-GAAT ACTAAT -CTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
208532 ACTAAT A
1 ACTAAT A
208539 GAATAGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
5 19 0.47
6 21 0.52
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (6 bp):
ACTAAT
Found at i:208554 original size:14 final size:14
Alignment explanation
Indices: 208535--208562 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
208525 ATCTAATACT
208535 AATAGAATAGAAAA
1 AATAGAATAGAAAA
208549 AATAGAATAGAAAA
1 AATAGAATAGAAAA
208563 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:208560 original size:487 final size:477
Alignment explanation
Indices: 207647--208610 Score: 1838
Period size: 487 Copynumber: 2.0 Consensus size: 477
207637 AATCAAATAA
207647 GATAATGGTAACCCCACGATTAATTACTTCATTTATGAATTTCATAGTAATAGAAATACATGTCC
1 GATAATGGTAACCCCACGATTAATTACTTCATTTATGAATTTCATAGTAATAGAAATACATGTCC
207712 TACCGAAACAGAATTTGTAACTTGCTATCCTCTTGCCTAGCGGGCAAGGATTTACCTCCGTGGAA
66 TACCGAAACAGAATTTGTAACTTGCTATCCTCTTGCCTAGCGGGCAAGGATTTACCTCCGTGGAA
207777 AAGATGATTCATTCGGATCCGCATGAAAGCCCAACTCCATTGCATTGCCAGAATCCATGTTGTAT
131 AAGATGATTCATTCGGATCCGCATGAAAGCCCAACTCCATTGCATTGCCAGAATCCATGTTGTAT
207842 ATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTACAATCCTCTTCCCGCTGAGCCCCCTTT
196 ATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTACAATCCTCTTCCCGCTGAGCCCCCTTT
207907 CTCCTCGGTCCACAGAGACAAAATGTAATGTAGGACTAGGACTGGCGCCAACAGTTAATCACGGA
261 CTCCTCGGTCCACAGAGACAAAATGTAATGTAGGACTAGGACTGGCGCCAACAGTTAATCACGGA
207972 AGAAAGGACTCACTGAGCCGGGATCACTAACTAATACTAATCTAATACTAATAGAATAGAATACT
326 AGAAAGGACTCACTGAGCCGGGATCACTAACTAATACTAATCTAATACTAATAGAATAGAATACT
208037 AATCTAATACTAATAGAATAGAAAAAATAGAATAGAAAATACTAATATAATAGAAAGAAAAGAAC
391 AATCTAATACTAATAGAATAGAAAAAATAGAATAGAAAATACTAATATAATAGAAAGAAAAGAAC
208102 TGTCTTTTCTGTATACTTTCCC
456 TGTCTTTTCTGTATACTTTCCC
208124 NNNNNNNNNNGATAATGGTAACCCCACGATTAATTACTTCATTTATGAATTTCATAGTAATAGAA
1 ----------GATAATGGTAACCCCACGATTAATTACTTCATTTATGAATTTCATAGTAATAGAA
208189 ATACATGTCCTACCGAAACAGAATTTGTAACTTGCTATCCTCTTGCCTAGCGGGCAAGGATTTAC
56 ATACATGTCCTACCGAAACAGAATTTGTAACTTGCTATCCTCTTGCCTAGCGGGCAAGGATTTAC
208254 CTCCGTGGAAAAGATGATTCATTCGGATCCGCATGAAAGCCCAACTCCATTGCATTGCCAGAATC
121 CTCCGTGGAAAAGATGATTCATTCGGATCCGCATGAAAGCCCAACTCCATTGCATTGCCAGAATC
208319 CATGTTGTATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTACAATCCTCTTCCCGCTG
186 CATGTTGTATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTACAATCCTCTTCCCGCTG
208384 AGCCCCCTTTCTCCTCGGTCCACAGAGACAAAATGTAATGTAGGACTAGGACTGGCGCCAACAGT
251 AGCCCCCTTTCTCCTCGGTCCACAGAGACAAAATGTAATGTAGGACTAGGACTGGCGCCAACAGT
208449 TAATCACGGAAGAAAGGACTCACTGAGCCGGGATCACTAACTAATACTAATCTAATACTAATAGA
316 TAATCACGGAAGAAAGGACTCACTGAGCCGGGATCACTAACTAATACTAATCTAATACTAATAGA
208514 ATAGAATACTAATCTAATACTAATAGAATAGAAAAAATAGAATAGAAAATACTAATATAATAGAA
381 ATAGAATACTAATCTAATACTAATAGAATAGAAAAAATAGAATAGAAAATACTAATATAATAGAA
208579 AGAAAAGAACTGTCTTTTCTGTATACTTTCCC
446 AGAAAAGAACTGTCTTTTCTGTATACTTTCCC
208611 CGGTTCCGTT
Statistics
Matches: 477, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
487 477 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (477 bp):
GATAATGGTAACCCCACGATTAATTACTTCATTTATGAATTTCATAGTAATAGAAATACATGTCC
TACCGAAACAGAATTTGTAACTTGCTATCCTCTTGCCTAGCGGGCAAGGATTTACCTCCGTGGAA
AAGATGATTCATTCGGATCCGCATGAAAGCCCAACTCCATTGCATTGCCAGAATCCATGTTGTAT
ATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTACAATCCTCTTCCCGCTGAGCCCCCTTT
CTCCTCGGTCCACAGAGACAAAATGTAATGTAGGACTAGGACTGGCGCCAACAGTTAATCACGGA
AGAAAGGACTCACTGAGCCGGGATCACTAACTAATACTAATCTAATACTAATAGAATAGAATACT
AATCTAATACTAATAGAATAGAAAAAATAGAATAGAAAATACTAATATAATAGAAAGAAAAGAAC
TGTCTTTTCTGTATACTTTCCC
Found at i:217450 original size:15 final size:16
Alignment explanation
Indices: 217425--217454 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
217415 AAAATTTATA
217425 AAAATATTCAAAAAAT
1 AAAATATTCAAAAAAT
217441 AAAA-ATTCAAAAAA
1 AAAATATTCAAAAAA
217455 AAGCATGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATATTCAAAAAAT
Found at i:218753 original size:21 final size:21
Alignment explanation
Indices: 218714--218752 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
218704 TTAATGTTAT
*
218714 TTTGATATTTGAAGTTTTTAA
1 TTTGATACTTGAAGTTTTTAA
218735 TTTGATACTT-AAGTTTTT
1 TTTGATACTTGAAGTTTTT
218753 TTTTTGTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.59
Consensus pattern (21 bp):
TTTGATACTTGAAGTTTTTAA
Found at i:218758 original size:20 final size:21
Alignment explanation
Indices: 218710--218758 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
218700 GGTTTTAATG
*
218710 TTATTTTGATATTTGAAGTTT
1 TTATTTTGATACTTGAAGTTT
*
218731 TTAATTTGATACTT-AAGTTT
1 TTATTTTGATACTTGAAGTTT
*
218751 TTTTTTTG
1 TTATTTTG
218759 TCCTAGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (21 bp):
TTATTTTGATACTTGAAGTTT
Found at i:224132 original size:2 final size:2
Alignment explanation
Indices: 224125--224158 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
224115 ATTATTTTAA
224125 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
224159 GAGTTATTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:225037 original size:26 final size:26
Alignment explanation
Indices: 225008--225057 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
224998 AAGCAGTTTG
225008 GAGATGATGGAACAAGGCAGAAGGCT
1 GAGATGATGGAACAAGGCAGAAGGCT
* *
225034 GAGATGATTGAGCAAGGCAGAAGG
1 GAGATGATGGAACAAGGCAGAAGG
225058 TTACCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.40, T:0.12
Consensus pattern (26 bp):
GAGATGATGGAACAAGGCAGAAGGCT
Found at i:226993 original size:15 final size:16
Alignment explanation
Indices: 226967--226996 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
226957 ACATATAATT
226967 AATATAAAAATCATAA
1 AATATAAAAATCATAA
226983 AATAT-AAAATCATA
1 AATATAAAAATCATA
226997 CACAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (16 bp):
AATATAAAAATCATAA
Found at i:229554 original size:126 final size:126
Alignment explanation
Indices: 229358--229699 Score: 394
Period size: 122 Copynumber: 2.7 Consensus size: 126
229348 GGTGATGCCC
* * * * * * *
229358 TCATGATCCACATCATAGATTTGAGTTATGATGGGTGTGTGGCAGTGATTTATTTCTATCAAAAG
1 TCATAATCCACGTCGTAGATTCGAGTCATGAT--GCGTGTGGCAGTGATTTGTTTCTATCAAAAG
*
229423 TGTGTGAATTGTACCATATATATATATACACA-ATGTTTAACCTACTGATCATAAGTGCTATCC-
64 TGTGTGAATTGTACCATATATATATATAC-CAGACGTTTAACCTACTGATCATAAGTGCTA-CCG
** * *
229486 TCATAATTTATGTCAG-AGATTCGAGTCATGATGCGTGTGACAGTGATTTGTTTCTATCAAAAGT
1 TCATAATCCACGTC-GTAGATTCGAGTCATGATGCGTGTGGCAGTGATTTGTTTCTATCAAAAGT
* * * *
229550 GTGTGAATTGTACC----ATATATATACCAGACGTTTAGCCTATTGGTCATAAGTGTTACCG
65 GTGTGAATTGTACCATATATATATATACCAGACGTTTAACCTACTGATCATAAGTGCTACCG
* * *
229608 TCATAATCCACGTCGTAGATTTGAGTCATGATGTGTGGTGGCAGTGATTTGTTTCTATC-AAGGA
1 TCATAATCCACGTCGTAGATTCGAGTCATGATGCGT-GTGGCAGTGATTTGTTTCTATCAAAAG-
229672 TGTGTGAATTGTACCATATATATATATA
64 TGTGTGAATTGTACCATATATATATATA
229700 TATATATATA
Statistics
Matches: 181, Mismatches: 23, Indels: 21
0.80 0.10 0.09
Matches are distributed among these distances:
121 5 0.03
122 65 0.36
123 36 0.20
126 43 0.24
127 9 0.05
128 23 0.13
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (126 bp):
TCATAATCCACGTCGTAGATTCGAGTCATGATGCGTGTGGCAGTGATTTGTTTCTATCAAAAGTG
TGTGAATTGTACCATATATATATATACCAGACGTTTAACCTACTGATCATAAGTGCTACCG
Found at i:229692 original size:2 final size:2
Alignment explanation
Indices: 229687--229712 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
229677 GAATTGTACC
229687 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
229713 GGAGAGGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:232721 original size:33 final size:33
Alignment explanation
Indices: 232679--232744 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
232669 TGGGGTTTTC
232679 TTATTTTTCATGTTGGTGGTTGTCTGATTGATG
1 TTATTTTTCATGTTGGTGGTTGTCTGATTGATG
232712 TTATTTTTCATGTTGGTGGTTGTCTGATTGATG
1 TTATTTTTCATGTTGGTGGTTGTCTGATTGATG
232745 AACTTTTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.12, C:0.06, G:0.27, T:0.55
Consensus pattern (33 bp):
TTATTTTTCATGTTGGTGGTTGTCTGATTGATG
Found at i:232872 original size:192 final size:192
Alignment explanation
Indices: 232520--232903 Score: 545
Period size: 192 Copynumber: 2.0 Consensus size: 192
232510 TGGGTTTTTC
*
232520 TTATTTTTCATGTTGGTGATTGTCTGAATGATGAAATTTTAGCTTAGGATTACTTTAATCAGGTT
1 TTATTTTTCATGTTGGTGATTGTCTGAATGATGAAATTTTAACTTAGGATTACTTTAATCAGGTT
*
232585 TATTGTGTTGCAAGTAAACCTTAGGTAAAAAAAATTTCTTCAATGCCTAACAATGGTTGCTTTGA
66 TATTGTCTTGCAAGTAAACCTTAGGTAAAAAAAATTTCTTCAATGCCTAACAATGGTTGCTTTGA
* * * *
232650 TGAATTTTCTTTAAAATTCTGGGGTTTTCTTATTTTTCATGTTGGTGGTTGTCTGATTGATG
131 TGAATTTACTTTAAAATTATGGGGTTTTCTTATTTTCCATGTTGGTGATTGTCTGATTGATG
* * * *
232712 TTATTTTTCATGTTGGTGGTTGTCTGATTGATGAACTTTTAACTTAGGGTTACTTTAATCAGGTT
1 TTATTTTTCATGTTGGTGATTGTCTGAATGATGAAATTTTAACTTAGGATTACTTTAATCAGGTT
* * ****** * *
232777 TCTTGTCTTGCAAGTAAACTTGTAGGTAATTTTTTTTTCTTTAATGTCTAACAATGGTTGCTTTG
66 TATTGTCTTGCAAGTAAACCT-TAGGTAAAAAAAATTTCTTCAATGCCTAACAATGGTTGCTTTG
* * *
232842 ATGAATTTAGTTT-ATATTATGGGTTTTTCTTATTTTCCATGTTGGTGATTGTCTGATTGATG
130 ATGAATTTACTTTAAAATTATGGGGTTTTCTTATTTTCCATGTTGGTGATTGTCTGATTGATG
232904 AAATTTTGAC
Statistics
Matches: 168, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
192 122 0.73
193 46 0.27
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.48
Consensus pattern (192 bp):
TTATTTTTCATGTTGGTGATTGTCTGAATGATGAAATTTTAACTTAGGATTACTTTAATCAGGTT
TATTGTCTTGCAAGTAAACCTTAGGTAAAAAAAATTTCTTCAATGCCTAACAATGGTTGCTTTGA
TGAATTTACTTTAAAATTATGGGGTTTTCTTATTTTCCATGTTGGTGATTGTCTGATTGATG
Found at i:235016 original size:23 final size:23
Alignment explanation
Indices: 234960--235008 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
234950 TTGTGTTTTA
234960 ATTTAAATTTATGTACCACATAT
1 ATTTAAATTTATGTACCACATAT
*
234983 ATTTAAATTTATGTTCCACATAT
1 ATTTAAATTTATGTACCACATAT
235006 ATT
1 ATT
235009 GTGTTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.47
Consensus pattern (23 bp):
ATTTAAATTTATGTACCACATAT
Found at i:235839 original size:22 final size:20
Alignment explanation
Indices: 235801--235840 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
235791 TTTTGTACAA
235801 TTAAAATGAATCAAATAAGG
1 TTAAAATGAATCAAATAAGG
*
235821 TTAAATTGTAATCGAAATAA
1 TTAAAATG-AATC-AAATAA
235841 CACTTACTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 4 0.24
22 6 0.35
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (20 bp):
TTAAAATGAATCAAATAAGG
Found at i:237104 original size:29 final size:29
Alignment explanation
Indices: 237060--237139 Score: 74
Period size: 31 Copynumber: 2.7 Consensus size: 29
237050 ATATCGATTT
**
237060 TATACATGAATTTTGATTTGGTGCA-AT-
1 TATACATGAAACTTGATTTGGTGCACATG
*
237087 TATACACATGAAACTTGAATTGTGGTTCACATG
1 TAT--ACATGAAACTTG-ATT-TGGTGCACATG
237120 TATACATGAAATCTTGATTT
1 TATACATGAAA-CTTGATTT
237140 TGATTCAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 3 0.07
29 10 0.23
30 4 0.09
31 17 0.40
32 6 0.14
33 3 0.07
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (29 bp):
TATACATGAAACTTGATTTGGTGCACATG
Found at i:246802 original size:19 final size:19
Alignment explanation
Indices: 246778--246814 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
246768 AAAATAAATT
* *
246778 TAAATAATTATTATTTAAA
1 TAAATAAATAATATTTAAA
246797 TAAATAAATAATATTTAA
1 TAAATAAATAATATTTAA
246815 TAATATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAATAAATAATATTTAAA
Found at i:249672 original size:6 final size:6
Alignment explanation
Indices: 249661--249728 Score: 77
Period size: 6 Copynumber: 11.7 Consensus size: 6
249651 GGTTCAACAG
* * * *
249661 AATTTA AATTT- ATTTTA AGTTTA AATTT- ACTTAA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
249707 AGTTTA AATTTA AATTTA AATT
1 AATTTA AATTTA AATTTA AATT
249729 AATGTCTAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
5 7 0.14
6 44 0.86
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:249725 original size:18 final size:17
Alignment explanation
Indices: 249661--249724 Score: 83
Period size: 17 Copynumber: 3.7 Consensus size: 17
249651 GGTTCAACAG
*
249661 AATTTAAATTTATTTTA
1 AATTTAAATTTACTTTA
* *
249678 AGTTTAAATTTACTTAA
1 AATTTAAATTTACTTTA
*
249695 AATTTAAATTTAAGTTTA
1 AATTTAAATTT-ACTTTA
249713 AATTTAAATTTA
1 AATTTAAATTTA
249725 AATTAATGTC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
17 25 0.62
18 15 0.38
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (17 bp):
AATTTAAATTTACTTTA
Found at i:250432 original size:3 final size:3
Alignment explanation
Indices: 250419--250499 Score: 65
Period size: 3 Copynumber: 26.7 Consensus size: 3
250409 TAAATAGCCT
* * * *
250419 TAA TGA TAA TAA TAA TAA TAT TAA TAA TAA GT-A TAA TAC TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* * * *
250464 TAT TAA TTAA TAA TAA TGA TAT TAA TAA TAT TAA TA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
250500 TTAAATATTA
Statistics
Matches: 59, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
2 1 0.02
3 54 0.92
4 4 0.07
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:251595 original size:59 final size:58
Alignment explanation
Indices: 251503--251757 Score: 234
Period size: 58 Copynumber: 4.4 Consensus size: 58
251493 GAGGTCCCCA
* * *
251503 AACTTCTCCAAAATTCTATTTTTGA-CCCGAAACTTCCAAAAATTA-CATTTTTACCCTCG
1 AACTTC-CAAAAATTCCA-TTTTGACCCCAAAACTTCCAAAAATTACCA-TTTTACCCTCG
** * **
251562 AACTTCCAAAAATTTTGATTTTGACCCCAAAACTCCCAAAAATTACCATTTTACCCTTA
1 AACTTCCAAAAA-TTCCATTTTGACCCCAAAACTTCCAAAAATTACCATTTTACCCTCG
* * *
251621 AACTTCCAAAAATTCCATTTTGACCCTAAAACCTT-TAAAAACTACCATTTT-CCCTCG
1 AACTTCCAAAAATTCCATTTTGACCCCAAAA-CTTCCAAAAATTACCATTTTACCCTCG
* * * * * *
251678 GA-TGTCCAAAAATTCCATTTTTAACCCCGAAACTTTCAAAAATTACCCTTTTACCCT-T
1 AACT-TCCAAAAATTCCA-TTTTGACCCCAAAACTTCCAAAAATTACCATTTTACCCTCG
*
251736 AAATGTCCAAAAATTCCATTTT
1 AACT-TCCAAAAATTCCATTTT
251758 TCATCTCAAC
Statistics
Matches: 163, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
56 1 0.01
57 21 0.13
58 70 0.43
59 69 0.42
60 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (58 bp):
AACTTCCAAAAATTCCATTTTGACCCCAAAACTTCCAAAAATTACCATTTTACCCTCG
Found at i:251647 original size:29 final size:28
Alignment explanation
Indices: 251532--251757 Score: 154
Period size: 29 Copynumber: 7.8 Consensus size: 28
251522 TTTTGACCCG
* *
251532 AAACTTCCAAAAATTACATTTTTACCCTC
1 AAACTTCCAAAAATTCCA-TTTTACCCTA
* ** *
251561 GAACTTCCAAAAATTTTGATTTTGACCCCA
1 AAACTTCCAAAAA-TTCCATTTT-ACCCTA
* *
251591 AAACTCCCAAAAATTACCATTTTACCCTT
1 AAACTTCCAAAAATT-CCATTTTACCCTA
251620 AAACTTCCAAAAATTCCATTTTGACCCTA
1 AAACTTCCAAAAATTCCATTTT-ACCCTA
* * *
251649 AAACCTT-TAAAAACTACCATTTT-CCCTC
1 AAA-CTTCCAAAAA-TTCCATTTTACCCTA
** **
251677 GGA-TGTCCAAAAATTCCATTTTTAACCCCG
1 AAACT-TCCAAAAATTCCA-TTTT-ACCCTA
* * *
251707 AAACTTTCAAAAATTACCCTTTTACCCTT
1 AAACTTCCAAAAATT-CCATTTTACCCTA
251736 AAA-TGTCCAAAAATTCCATTTT
1 AAACT-TCCAAAAATTCCATTTT
251758 TCATCTCAAC
Statistics
Matches: 153, Mismatches: 30, Indels: 29
0.72 0.14 0.14
Matches are distributed among these distances:
26 1 0.01
27 5 0.03
28 28 0.18
29 65 0.42
30 51 0.33
31 3 0.02
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (28 bp):
AAACTTCCAAAAATTCCATTTTACCCTA
Found at i:251758 original size:29 final size:28
Alignment explanation
Indices: 251597--251809 Score: 126
Period size: 29 Copynumber: 7.3 Consensus size: 28
251587 CCCAAAACTC
251597 CCAAAAATTACCATTTTACCCTTAAACT-T
1 CCAAAAATT-CCATTTTACCCTTAAA-TGT
* **
251626 CCAAAAATTCCATTTTGACCCTAAAACCT
1 CCAAAAATTCCATTTT-ACCCTTAAATGT
** * ***
251655 TTAAAAACTACCATTTT-CCCTCGGATGT
1 CCAAAAA-TTCCATTTTACCCTTAAATGT
**
251683 CCAAAAATTCCATTTTTAACCCCGAAACT-T
1 CCAAAAATTCCA-TTTT-ACCCTTAAA-TGT
* *
251713 TCAAAAATTACCCTTTTACCCTTAAATGT
1 CCAAAAATT-CCATTTTACCCTTAAATGT
* * * * *
251742 CCAAAAATTCCATTTTTCATCTCAACTTT
1 CCAAAAATTCCATTTTAC-CCTTAAATGT
* *
251771 CTTAAAAATTACCATTTTACCCCTAAATGT
1 C-CAAAAATT-CCATTTTACCCTTAAATGT
251801 CCAAAAATT
1 CCAAAAATT
251810 TCGTTTTGAT
Statistics
Matches: 136, Mismatches: 36, Indels: 24
0.69 0.18 0.12
Matches are distributed among these distances:
27 4 0.03
28 30 0.22
29 53 0.39
30 38 0.28
31 11 0.08
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (28 bp):
CCAAAAATTCCATTTTACCCTTAAATGT
Found at i:251778 original size:59 final size:59
Alignment explanation
Indices: 251599--251921 Score: 229
Period size: 59 Copynumber: 5.6 Consensus size: 59
251589 CAAAACTCCC
* * * *
251599 AAAAATTACCATTTTACCCTTAAACT-TCCAAAAATTCCATTTTGACCCTAAAAC-CT-TT
1 AAAAATTACCATTTTACCCTTAAA-TGTCCAAAAATTCCATTTTTAACCT-CAACTTTCTT
* *** *
251657 AAAAACTACCATTTT-CCCTCGGATGTCCAAAAATTCCATTTTTAACCCCGAAACTTTC--
1 AAAAATTACCATTTTACCCTTAAATGTCCAAAAATTCCATTTTTAACCTC--AACTTTCTT
* * *
251715 AAAAATTACCCTTTTACCCTTAAATGTCCAAAAATTCCATTTTTCATCTCAACTTTCTT
1 AAAAATTACCATTTTACCCTTAAATGTCCAAAAATTCCATTTTTAACCTCAACTTTCTT
* * * * * * *
251774 AAAAATTACCATTTTACCCCTAAATGTCCAAAAATTTCGTTTTGATCC-CTA-TTTTTT
1 AAAAATTACCATTTTACCCTTAAATGTCCAAAAATTCCATTTTTAACCTCAACTTTCTT
* * *** * * *
251831 AAAAAGTTATCGTTTTA-CCTTCGGGTGTCTAAAAATTCCATTTTTAACCCCGAACTTTC-C
1 AAAAA-TTACCATTTTACCCTT-AAATGTCCAAAAATTCCATTTTTAACCTC-AACTTTCTT
* * *
251891 CAAAATTACCATTTTGCCC-CAAA-GTCCAAAA
1 AAAAATTACCATTTTACCCTTAAATGTCCAAAA
251922 TTACCCTTTT
Statistics
Matches: 201, Mismatches: 50, Indels: 29
0.72 0.18 0.10
Matches are distributed among these distances:
56 1 0.00
57 52 0.26
58 60 0.30
59 78 0.39
60 7 0.03
61 3 0.01
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCTTAAATGTCCAAAAATTCCATTTTTAACCTCAACTTTCTT
Found at i:252302 original size:96 final size:96
Alignment explanation
Indices: 252169--252353 Score: 236
Period size: 96 Copynumber: 1.9 Consensus size: 96
252159 AAAAATTTAA
*
252169 AATCGAGGCAATATTCTTTTATTTCGAGTTTCAAAAATTTG-TGCGTTAACTTACTA-GTAGCAA
1 AATCGAGGCAATATTCTTTTATTTCGAGTTTCAAAAATTTGCT-CCTTAACTTACTAGGT-GCAA
** *
252232 TTTTTCTTCAAATCGAAATAATCGAATACCATT
64 CCTTTCTTCAAATCAAAATAATCGAATACCATT
* *
252265 AATCGAGGCAATGTT-TTCTTATCTTCGA--TTCTGAAAATTTGCTCCTTAACTTACTAGGTGCA
1 AATCGAGGCAATATTCTT-TTAT-TTCGAGTTTC-AAAAATTTGCTCCTTAACTTACTAGGTGCA
252327 ACCTTTCTTCAAATCAAAATAATCGAA
63 ACCTTTCTTCAAATCAAAATAATCGAA
252354 CATCTTTTTC
Statistics
Matches: 78, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
95 5 0.06
96 65 0.83
97 8 0.10
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (96 bp):
AATCGAGGCAATATTCTTTTATTTCGAGTTTCAAAAATTTGCTCCTTAACTTACTAGGTGCAACC
TTTCTTCAAATCAAAATAATCGAATACCATT
Found at i:257722 original size:50 final size:50
Alignment explanation
Indices: 257663--257760 Score: 178
Period size: 50 Copynumber: 2.0 Consensus size: 50
257653 TAACGTAACC
*
257663 ATACCAAGAGAGGGAGAGCTTAGGAAAGACGTGAATCTGGTTACCCGTTT
1 ATACCAAGAGAGGGAGAGCCTAGGAAAGACGTGAATCTGGTTACCCGTTT
*
257713 ATACCAAGAGAGGGAGAGCCTAGGAAGGACGTGAATCTGGTTACCCGT
1 ATACCAAGAGAGGGAGAGCCTAGGAAAGACGTGAATCTGGTTACCCGT
257761 AGTGGTAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.19
Consensus pattern (50 bp):
ATACCAAGAGAGGGAGAGCCTAGGAAAGACGTGAATCTGGTTACCCGTTT
Found at i:263172 original size:201 final size:201
Alignment explanation
Indices: 262905--263423 Score: 743
Period size: 201 Copynumber: 2.6 Consensus size: 201
262895 CGAATCCCAA
* * **
262905 CTTCCTGATGAGATACTGAGAAGTGGACAAAATTCTTCTTCCTGATGAGGCACAGAGAAGCGGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGCGGAT
* *
262970 TGAAACAAGTAAGGCGGTCATCTTCCTGATGAGATACAAAGAAGAATACCAACTC-AGGGCTCAA
66 TGAAACAAGTAAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCGA-CGCTCAA
* * * * * *
263034 TGTAATCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCATGTCGAAGCAATAATA
130 TGCAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCAAAGCAATAAAA
*
263099 TGGTTAG
195 CGGTTAG
* * * *
263106 CTTCTTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGCGGAT
* ** * * *
263171 TGAAACAAGTGAGGCAATCATCTTCCTGATGGGATACAGAGAAGTATACCAACTCGACGCTCGAT
66 TGAAACAAGTAAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCGACGCTCAAT
* * *
263236 GCGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACCGAGAAGCAGGTCAAAGTAATAAAAC
131 GCAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCAAAGCAATAAAAC
263301 GGTTAG
196 GGTTAG
263307 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGCGGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGCGGAT
* * * * *
263372 TGAAACAAATTATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAA
66 TGAAACAAGTAAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAA
263424 ATCAAACCCA
Statistics
Matches: 279, Mismatches: 38, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
201 278 1.00
202 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (201 bp):
CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGCGGAT
TGAAACAAGTAAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCGACGCTCAAT
GCAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCAAAGCAATAAAAC
GGTTAG
Found at i:263504 original size:158 final size:158
Alignment explanation
Indices: 263305--263645 Score: 592
Period size: 158 Copynumber: 2.2 Consensus size: 158
263295 TAAAACGGTT
*
263305 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGAGG
* *
263370 ATTGAAACAAATTATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
66 ATTGAAACAAATGATGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
* * * *
263435 TCTCGATGAGAGCAGATCTTTGAATCCC
131 GCTCGATGAGAGCAAATCTTCGAACCCC
*
263463 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGAAACAGAGAAGAGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGAGG
* *
263528 ATTGAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACTCAC
66 ATTGAAACAAATGATGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
263593 GCTCGATGAGAGCAAATCTTCGAACCCC
131 GCTCGATGAGAGCAAATCTTCGAACCCC
263621 AGCTTCCTGATGAGATACTGAGAAG
1 AGCTTCCTGATGAGATACTGAGAAG
263646 CAGGTCGAAG
Statistics
Matches: 173, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
158 173 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (158 bp):
AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGAGG
ATTGAAACAAATGATGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
GCTCGATGAGAGCAAATCTTCGAACCCC
Found at i:263775 original size:364 final size:359
Alignment explanation
Indices: 263104--263782 Score: 975
Period size: 364 Copynumber: 1.9 Consensus size: 359
263094 TAATATGGTT
* * * *
263104 AGCTTCTTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGAGG
* * * * *
263169 ATTGAAACAAGTGAGGCAATCATCTTCCTGATGGGATACAGAGAAGTATACCAACTCGACGCTCG
66 ATTGAAACAAGTGAGGCAATCATCTTCCTAATGAGATACAGAGAAGCAAACAAACTCGACGCTCG
* * *
263234 ATGCGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACCGAGAAGCAGGTCAAAGTAATAAA
131 ATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCAAAGCAATAAA
* * * *
263299 ACGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAG
196 ACGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAGAAACAAAG
** *
263364 AAGCGGATTGAAACAAATTATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
261 AAGCGGATCAAAACAAATGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
263429 ACCCACTCTCGATGAGAGCAGATCTTTGAATCCC
326 ACCCACTCTCGATGAGAGCAGATCTTTGAATCCC
* *
263463 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGAAACAGAGAAGAGG
1 AGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGAGG
* **
263528 ATTGAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACTC-A
66 ATTGAAACAAGTGAGGCAATCATCTTCCTAATGAGATAC--AG-AGAAG--CAAA-CAAACTCGA
* *
263592 CGCTCGATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
125 CGCTCGATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCAAAGC
** * *
263657 AATAAAGTGGTTAGCTTCCTGATGAGATACGGAGAAGTGAATCAAATCCGTCTTCTTGATGA-AA
190 AATAAAACGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAGAA
* * * *
263721 CATAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCTTGATGAGATACTGAGAAGAAG
255 -ACAAAGAAGCGGATCAAAACAAATGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAG
263783 CTTTAATGAT
Statistics
Matches: 279, Mismatches: 34, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
359 93 0.33
361 2 0.01
362 5 0.02
363 2 0.01
364 171 0.61
365 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (359 bp):
AGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGAGG
ATTGAAACAAGTGAGGCAATCATCTTCCTAATGAGATACAGAGAAGCAAACAAACTCGACGCTCG
ATGAGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCAAAGCAATAAA
ACGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAGAAACAAAG
AAGCGGATCAAAACAAATGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
ACCCACTCTCGATGAGAGCAGATCTTTGAATCCC
Found at i:263816 original size:3 final size:3
Alignment explanation
Indices: 263805--263882 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
263795 TAAATAGCCT
* * * * * *
263805 TAA TGA TAA TAA TAA TAT TAA TAA CAA GT-A TAA TAC TAA TGA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
* * *
263850 TAA TTAA TAA TAA TGA TAT TAA TAA TAT TAA TA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
263883 TTAAATATTA
Statistics
Matches: 54, Mismatches: 18, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
2 1 0.02
3 50 0.93
4 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:263826 original size:9 final size:9
Alignment explanation
Indices: 263804--263882 Score: 61
Period size: 9 Copynumber: 8.7 Consensus size: 9
263794 ATAAATAGCC
*
263804 TTAATGATA
1 TTAATAATA
*
263813 ATAATAATA
1 TTAATAATA
*
263822 TTAATAACAA
1 TTAATAA-TA
*
263832 GT-ATAATA
1 TTAATAATA
* *
263840 CTAATGATA
1 TTAATAATA
263849 TTAATTAATA
1 TTAA-TAATA
* *
263859 ATAATGATA
1 TTAATAATA
263868 TTAATAATA
1 TTAATAATA
263877 TTAATA
1 TTAATA
263883 TTAAATATTA
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
8 2 0.04
9 42 0.79
10 9 0.17
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (9 bp):
TTAATAATA
Found at i:263863 original size:19 final size:18
Alignment explanation
Indices: 263834--263881 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
263824 AATAACAAGT
*
263834 ATAATACTAATGATATTA
1 ATAATAATAATGATATTA
263852 ATTAATAATAATGATATTA
1 A-TAATAATAATGATATTA
*
263871 ATAATATTAAT
1 ATAATAATAAT
263882 ATTAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (18 bp):
ATAATAATAATGATATTA
Found at i:264928 original size:30 final size:29
Alignment explanation
Indices: 264893--265056 Score: 106
Period size: 28 Copynumber: 5.7 Consensus size: 29
264883 AAACTTCTTC
**
264893 AAAATTATATTTTTAACCCCGAAACTTGTA
1 AAAATTATATTTTTAACCCCG-AACTTCAA
*
264923 AAAATTATA-TTTT-ACCCTCGAACTTCCA
1 AAAATTATATTTTTAACCC-CGAACTTCAA
* * *
264951 AAAATTACATATTTACCCCCGAACTTCAA
1 AAAATTATATTTTTAACCCCGAACTTCAA
* * * *
264980 AAAATT-TCATTTTTGACCTCGAAACTCCCA
1 AAAATTAT-ATTTTTAACCCCG-AACTTCAA
* *
265010 AAAATTACCA-TTTT--CCCCTGAACTTCTA
1 AAAATTA-TATTTTTAACCCC-GAACTTCAA
* *
265038 AAAATTCTATTATTAACCC
1 AAAATTATATTTTTAACCC
265057 GAAACCTCCA
Statistics
Matches: 103, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
27 1 0.01
28 36 0.35
29 34 0.33
30 31 0.30
31 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATTATATTTTTAACCCCGAACTTCAA
Found at i:264936 original size:29 final size:29
Alignment explanation
Indices: 264893--265069 Score: 118
Period size: 29 Copynumber: 6.1 Consensus size: 29
264883 AAACTTCTTC
**
264893 AAAATTATATTTTTAACCCCGAAACTTGTA
1 AAAATTATA-TTTTAACCCCGAAACTTCCA
264923 AAAATTATATTTT-ACCCTCG-AACTTCCA
1 AAAATTATATTTTAACCC-CGAAACTTCCA
* * *
264951 AAAATTACATATTTACCCCCG-AACTTCAA
1 AAAATTATAT-TTTAACCCCGAAACTTCCA
* * *
264980 AAAATT-TCATTTTTGACCTCGAAACTCCCA
1 AAAATTAT-A-TTTTAACCCCGAAACTTCCA
* *
265010 AAAATTACCATTTT--CCCCTG-AACTTCTA
1 AAAATTA-TATTTTAACCCC-GAAACTTCCA
* *
265038 AAAATTCTATTATTAA-CCCGAAACCTCCA
1 AAAATTATATT-TTAACCCCGAAACTTCCA
265067 AAA
1 AAA
265070 TTACCATTTT
Statistics
Matches: 115, Mismatches: 19, Indels: 27
0.71 0.12 0.17
Matches are distributed among these distances:
27 3 0.03
28 37 0.32
29 45 0.39
30 29 0.25
31 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (29 bp):
AAAATTATATTTTAACCCCGAAACTTCCA
Found at i:265099 original size:29 final size:29
Alignment explanation
Indices: 264922--265166 Score: 163
Period size: 29 Copynumber: 8.5 Consensus size: 29
264912 CGAAACTTGT
*
264922 AAAAATTA-TATTTTACCCTCGAACTTCC
1 AAAAATTACCATTTTACCCTCGAACTTCC
* *
264950 AAAAATTA-CATATTTACCCCCGAACTTCA
1 AAAAATTACCAT-TTTACCCTCGAACTTCC
* *
264979 AAAAATT-TCATTTTTGA-CCTCGAAACTCCC
1 AAAAATTACCA-TTTT-ACCCTCG-AACTTCC
* *
265009 AAAAATTACCATTTTCCCCT-GAACTTCT
1 AAAAATTACCATTTTACCCTCGAACTTCC
* * *
265037 AAAAATT-CTATTATTAACC-CGAAACCTCC
1 AAAAATTACCATT-TTACCCTCG-AACTTCC
*
265066 -AAAATTACCATTTTGCCCTCGAA-TGTCC
1 AAAAATTACCATTTTACCCTCGAACT-TCC
** *
265094 AAAAATT-CCAATTTTAACCCTTAAACTTTC
1 AAAAATTACC-ATTTT-ACCCTCGAACTTCC
* * *
265124 AAAATTTACCCTTTTACCCTCGGA-TGTCC
1 AAAAATTACCATTTTACCCTCGAACT-TCC
265153 AAAAATT-CCATTTT
1 AAAAATTACCATTTT
265167 GATCCTGATT
Statistics
Matches: 167, Mismatches: 31, Indels: 38
0.71 0.13 0.16
Matches are distributed among these distances:
27 4 0.02
28 51 0.31
29 68 0.41
30 39 0.23
31 5 0.03
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCTCGAACTTCC
Found at i:265200 original size:58 final size:58
Alignment explanation
Indices: 265066--265282 Score: 222
Period size: 58 Copynumber: 3.7 Consensus size: 58
265056 CGAAACCTCC
* * * * * * *** *
265066 AAAA-TTACCATTTTGCCCTCGAATGTCCAAAAATTCCAATTTTAACCCTTAAACTTTC
1 AAAAGTTACCGTTTTACCCTCGGATGTCCAAAAATTCC-ATTTTGATCCTGATTTTTTA
* * *
265124 AAAATTTACCCTTTTACCCTCGGATGTCCAAAAATTCCATTTTGATCCTGATTTTTTT
1 AAAAGTTACCGTTTTACCCTCGGATGTCCAAAAATTCCATTTTGATCCTGATTTTTTA
* * ** *
265182 AAAAGTTACCGTTTTACCCCCGGGTGTTTAAAAATTCTATTTTGAT-CTCGATTTTTTA
1 AAAAGTTACCGTTTTACCCTCGGATGTCCAAAAATTCCATTTTGATCCT-GATTTTTTA
* *
265240 AAAAGTTACCGTTTTACCCTCGGGTGTCTAAAAATTCCATTTT
1 AAAAGTTACCGTTTTACCCTCGGATGTCCAAAAATTCCATTTT
265283 TAACTCCGAA
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
57 2 0.01
58 104 0.76
59 30 0.22
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.40
Consensus pattern (58 bp):
AAAAGTTACCGTTTTACCCTCGGATGTCCAAAAATTCCATTTTGATCCTGATTTTTTA
Found at i:267862 original size:7 final size:7
Alignment explanation
Indices: 267849--267896 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
267839 ATCATATAAT
267849 ATTAACA
1 ATTAACA
*
267856 TTTAACA
1 ATTAACA
267863 ATTAACA
1 ATTAACA
267870 ATTAACA
1 ATTAACA
267877 ATTAACA
1 ATTAACA
267884 ATTAACA
1 ATTAACA
267891 ATTAAC
1 ATTAAC
267897 GATGGCTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (7 bp):
ATTAACA
Found at i:276644 original size:32 final size:30
Alignment explanation
Indices: 276598--276658 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 30
276588 TAAAAAAATA
*
276598 ATTTTTAAAGGATTAAATTAAAATTTTATC
1 ATTTTTAAAGGATTAAAATAAAATTTTATC
*
276628 ATTTTTAGAGAGGATTAAAATGAAATTTTAT
1 ATTTTTA-A-AGGATTAAAATAAAATTTTAT
276659 TAATTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 7 0.26
31 1 0.04
32 19 0.70
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (30 bp):
ATTTTTAAAGGATTAAAATAAAATTTTATC
Found at i:279722 original size:2 final size:2
Alignment explanation
Indices: 279715--279748 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
279705 TGCAATTAAC
279715 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
279749 TTTCTGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:282054 original size:16 final size:16
Alignment explanation
Indices: 282033--282081 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 16
282023 ATTAAAATCC
282033 AATCAAAATAACATTG
1 AATCAAAATAACATTG
282049 AATCAAAGGATAAACATTG
1 AATCAAA--AT-AACATTG
282068 AATCAAAATAACAT
1 AATCAAAATAACAT
282082 ACGATAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 12 0.40
17 2 0.07
18 2 0.07
19 14 0.47
ACGTcount: A:0.57, C:0.12, G:0.08, T:0.22
Consensus pattern (16 bp):
AATCAAAATAACATTG
Found at i:285217 original size:60 final size:60
Alignment explanation
Indices: 285118--285347 Score: 327
Period size: 60 Copynumber: 3.8 Consensus size: 60
285108 ATAAGAAAAT
* * * *
285118 GAATGGCACGATAGACATACAAGTTCAAAAACAAGATTGCAACAAAACTGGACATAATAAA
1 GAATGGCAGGGTAAACATAC-AGTTCAAAAACAAAATTGCAACAAAACTGGACATAATAAA
285179 GAATGGCAGGGTAAACATACAGTTCAAAAACAAAATTGCAACAAAACTGGACATAATAAA
1 GAATGGCAGGGTAAACATACAGTTCAAAAACAAAATTGCAACAAAACTGGACATAATAAA
* * *
285239 GAATGGCA-GGTAGACATACAGTTTAAAAACAAAATTGCAACAAAATTACTTAGACATAATAAA
1 GAATGGCAGGGTAAACATACAGTTCAAAAACAAAATTGCAAC-AAA--AC-TGGACATAATAAA
*
285302 GAATGGCAGGGTAAACATATAGTTCAAAAAACAAAATTGCAACAAA
1 GAATGGCAGGGTAAACATACAGTTC-AAAAACAAAATTGCAACAAA
285348 TAAGACTACT
Statistics
Matches: 153, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
59 31 0.20
60 50 0.33
61 17 0.11
62 2 0.01
63 20 0.13
64 16 0.10
65 17 0.11
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.18
Consensus pattern (60 bp):
GAATGGCAGGGTAAACATACAGTTCAAAAACAAAATTGCAACAAAACTGGACATAATAAA
Found at i:285314 original size:123 final size:122
Alignment explanation
Indices: 285118--285347 Score: 358
Period size: 123 Copynumber: 1.9 Consensus size: 122
285108 ATAAGAAAAT
* *
285118 GAATGGCACGATAGACATACAAGTTCAAAAACAAGATTGCAACAAAACTGGACATAATAAAGAAT
1 GAATGGCACGATAGACATACAAGTTCAAAAACAAAATTGCAACAAAACTAGACATAATAAAGAAT
285183 GGCAGGGTAAACATACAGTTC-AAAAACAAAATTGCAACAAAACTGGACATAATAAA
66 GGCAGGGTAAACATACAGTTCAAAAAACAAAATTGCAACAAAACTGGACATAATAAA
* *
285239 GAATGGCA-GGTAGACATAC-AGTTTAAAAACAAAATTGCAACAAAATTACTTAGACATAATAAA
1 GAATGGCACGATAGACATACAAGTTCAAAAACAAAATTGCAAC-AAA--AC-TAGACATAATAAA
*
285302 GAATGGCAGGGTAAACATATAGTTCAAAAAACAAAATTGCAACAAA
62 GAATGGCAGGGTAAACATACAGTTCAAAAAACAAAATTGCAACAAA
285348 TAAGACTACT
Statistics
Matches: 99, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
119 20 0.20
120 13 0.13
121 8 0.08
122 2 0.02
123 36 0.36
124 20 0.20
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.18
Consensus pattern (122 bp):
GAATGGCACGATAGACATACAAGTTCAAAAACAAAATTGCAACAAAACTAGACATAATAAAGAAT
GGCAGGGTAAACATACAGTTCAAAAAACAAAATTGCAACAAAACTGGACATAATAAA
Found at i:285407 original size:50 final size:50
Alignment explanation
Indices: 285348--285445 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
285338 TTGCAACAAA
285348 TAAGACTACTGACACTAACAAAGCAATATAAGTTTAATTCATACAGGTAT
1 TAAGACTACTGACACTAACAAAGCAATATAAGTTTAATTCATACAGGTAT
*
285398 TAAGACTACTGACACTGACAAAGCAATATAAGTTTAATTCATACAGGT
1 TAAGACTACTGACACTAACAAAGCAATATAAGTTTAATTCATACAGGT
285446 CACTAGCACC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (50 bp):
TAAGACTACTGACACTAACAAAGCAATATAAGTTTAATTCATACAGGTAT
Found at i:289907 original size:10 final size:10
Alignment explanation
Indices: 289892--289916 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
289882 CACAAAATTG
289892 AAATTAAACA
1 AAATTAAACA
289902 AAATTAAACA
1 AAATTAAACA
289912 AAATT
1 AAATT
289917 CAAAATCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATTAAACA
Found at i:290658 original size:38 final size:38
Alignment explanation
Indices: 290616--290691 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
290606 ATTTGATCTC
290616 TGTATTATTATAATATTATTAACTAATCCAAATAACTA
1 TGTATTATTATAATATTATTAACTAATCCAAATAACTA
290654 TGTATTATTATAATATTATTAACTAATCCAAATAACTA
1 TGTATTATTATAATATTATTAACTAATCCAAATAACTA
290692 AATATTCTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (38 bp):
TGTATTATTATAATATTATTAACTAATCCAAATAACTA
Found at i:299799 original size:20 final size:20
Alignment explanation
Indices: 299774--299900 Score: 146
Period size: 20 Copynumber: 6.3 Consensus size: 20
299764 ATTAGCCTTC
* *
299774 TACCAAAATATCTAAGTATT
1 TACCAATATATCTAAGGATT
*
299794 TACCAATATTTCTAAGGATT
1 TACCAATATATCTAAGGATT
* * *
299814 TATCAAAACATCTAAGGATT
1 TACCAATATATCTAAGGATT
* * *
299834 TACCAATATTTATGAGGATT
1 TACCAATATATCTAAGGATT
299854 TACCAATATATCTAAGGATT
1 TACCAATATATCTAAGGATT
* **
299874 TACCAATATTTCTGTGGATT
1 TACCAATATATCTAAGGATT
299894 TACCAAT
1 TACCAAT
299901 TTTACTAAGA
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (20 bp):
TACCAATATATCTAAGGATT
Found at i:299900 original size:40 final size:40
Alignment explanation
Indices: 299774--299899 Score: 189
Period size: 40 Copynumber: 3.1 Consensus size: 40
299764 ATTAGCCTTC
* *
299774 TACCAAAATATCTAAGTATTTACCAATATTTCTAAGGATT
1 TACCAAAATATCTAAGGATTTACCAATATTTCTGAGGATT
* * *
299814 TATCAAAACATCTAAGGATTTACCAATATTTATGAGGATT
1 TACCAAAATATCTAAGGATTTACCAATATTTCTGAGGATT
* *
299854 TACCAATATATCTAAGGATTTACCAATATTTCTGTGGATT
1 TACCAAAATATCTAAGGATTTACCAATATTTCTGAGGATT
299894 TACCAA
1 TACCAA
299900 TTTTACTAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (40 bp):
TACCAAAATATCTAAGGATTTACCAATATTTCTGAGGATT
Found at i:300493 original size:18 final size:18
Alignment explanation
Indices: 300451--300494 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
300441 ACAACCTATT
* *
300451 AACAAAATTAAGACAAAA
1 AACAAAATCAAAACAAAA
*
300469 AAAAAAATCAAAACAAAA
1 AACAAAATCAAAACAAAA
*
300487 CACAAAAT
1 AACAAAAT
300495 TACTGACACT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.75, C:0.14, G:0.02, T:0.09
Consensus pattern (18 bp):
AACAAAATCAAAACAAAA
Found at i:301559 original size:17 final size:18
Alignment explanation
Indices: 301534--301568 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
301524 TCTAACTTTT
*
301534 TAAAGTAAAATT-AAAAA
1 TAAAATAAAATTGAAAAA
301551 TAAAATAAAATTGAAAAA
1 TAAAATAAAATTGAAAAA
301569 AAGAAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (18 bp):
TAAAATAAAATTGAAAAA
Found at i:304030 original size:40 final size:40
Alignment explanation
Indices: 303975--304051 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
303965 AAGACTGTTT
** *
303975 ATGTGTGAGATTGGTTTTTGTTGTAATCTGTGATTTTCTC
1 ATGTGTGAGATTGGTTCGTGTTATAATCTGTGATTTTCTC
*
304015 ATGTGTGAGATTGGTTCGTGTTATAATCTGTGGTTTT
1 ATGTGTGAGATTGGTTCGTGTTATAATCTGTGATTTT
304052 ATCTTGAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.16, C:0.06, G:0.27, T:0.51
Consensus pattern (40 bp):
ATGTGTGAGATTGGTTCGTGTTATAATCTGTGATTTTCTC
Found at i:304538 original size:19 final size:19
Alignment explanation
Indices: 304514--304551 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
304504 AGATAAAGAC
304514 CAAACCGTAGAGTTTATTA
1 CAAACCGTAGAGTTTATTA
304533 CAAACCGTAGAGTTTATTA
1 CAAACCGTAGAGTTTATTA
304552 TATATATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CAAACCGTAGAGTTTATTA
Found at i:306109 original size:27 final size:27
Alignment explanation
Indices: 306079--306164 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
306069 AATTGAATAG
306079 AAGTTAACGTTATTATGTAAAAAATTC
1 AAGTTAACGTTATTATGTAAAAAATTC
** * ** **
306106 AAG-T-ACAGCAAAATAAATACAAAAATAG
1 AAGTTAAC-G-TTATTATGTA-AAAAATTC
306134 AAGTTAACGTTATTATGTAAAAAATTC
1 AAGTTAACGTTATTATGTAAAAAATTC
306161 AAGT
1 AAGT
306165 ACAACAAAAT
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 18 0.45
28 14 0.35
29 2 0.05
30 2 0.05
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (27 bp):
AAGTTAACGTTATTATGTAAAAAATTC
Found at i:306158 original size:55 final size:55
Alignment explanation
Indices: 306074--306183 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
306064 TGCCAAATTG
*
306074 AATAGAAGTTAACGTTATTATGTAAAAAATTCAAGTACAGCAAAATAAATACAAA
1 AATAGAAGTTAACGTTATTATGTAAAAAATTCAAGTACAACAAAATAAATACAAA
306129 AATAGAAGTTAACGTTATTATGTAAAAAATTCAAGTACAACAAAATAAATACAAA
1 AATAGAAGTTAACGTTATTATGTAAAAAATTCAAGTACAACAAAATAAATACAAA
306184 CAAAAAATTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.55, C:0.09, G:0.10, T:0.25
Consensus pattern (55 bp):
AATAGAAGTTAACGTTATTATGTAAAAAATTCAAGTACAACAAAATAAATACAAA
Found at i:306375 original size:27 final size:26
Alignment explanation
Indices: 306313--306375 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
306303 GTGACAAAAA
306313 ATAAT-ATTTATTTTTAATATTAATAT
1 ATAATAATTT-TTTTTAATATTAATAT
* *
306339 A-ATTAATTTTATTTAATATTAATAT
1 ATAATAATTTTTTTTAATATTAATAT
306364 ATAATAATTTTT
1 ATAATAATTTTT
306376 CAATTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 18 0.58
26 13 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATAATAATTTTTTTTAATATTAATAT
Found at i:306663 original size:10 final size:10
Alignment explanation
Indices: 306648--306672 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
306638 AATTCCACCT
306648 TTTTTTTTTG
1 TTTTTTTTTG
306658 TTTTTTTTTG
1 TTTTTTTTTG
306668 TTTTT
1 TTTTT
306673 CAAAAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Done.