Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold329
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: 4121247
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 5938 characters in sequence are not A, C, G, or T
File 4 of 25
Found at i:478852 original size:58 final size:58
Alignment explanation
Indices: 478762--479037 Score: 371
Period size: 58 Copynumber: 4.8 Consensus size: 58
478752 CCTCACCCTA
* *
478762 TCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCATAAGTCAGTGGCAACCT
1 TCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCT
* *
478820 TCAAAAGCCCACAAGTTACTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCAACCT
1 TCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCT
478878 TCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCT
1 TCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCT
* * * * * * *
478936 TCCAAAGCCTACAAGTCAGTGGCAACC--TTCAAAAGCCCACACGTCAGTGGCACCCTTT
1 TCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACC--T
* * * *
478994 TCCAAAGCCCATAAGTTAGTGGCAACC--TTCAAAAGCCCACAAGT
1 TCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGT
479038 TAATAGTATC
Statistics
Matches: 199, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
56 25 0.13
58 174 0.87
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.19
Consensus pattern (58 bp):
TCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCT
Found at i:478957 original size:86 final size:86
Alignment explanation
Indices: 478765--479037 Score: 370
Period size: 86 Copynumber: 3.2 Consensus size: 86
478755 CACCCTATCA
* * * * *
478765 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCATAAGTCAGTGGCAACC--TTCAAAAGC
1 AAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGC
* *
478828 CCACAAGTTACTGGCACCCTTTTCC
64 CCACAAGTTAGTGGCAACC--TTCC
* *
478853 AAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
*
478918 ACAAGTCAGTGGCAACCTTCC
66 ACAAGTTAGTGGCAACCTTCC
* *
478939 AAAGCCTACAAGTCAGTGGCAACCTTCAAAAGCCCACACGTCAGTGGCACCCTTTTCCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
* *
479004 ATAAGTTAGTGGCAACCTTCA
66 ACAAGTTAGTGGCAACCTTCC
479025 AAAGCCCACAAGT
1 AAAGCCCACAAGT
479038 TAATAGTATC
Statistics
Matches: 165, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
86 119 0.72
88 46 0.28
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.19
Consensus pattern (86 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
ACAAGTTAGTGGCAACCTTCC
Found at i:479121 original size:60 final size:57
Alignment explanation
Indices: 478819--479092 Score: 212
Period size: 58 Copynumber: 4.7 Consensus size: 57
478809 AGTGGCAACC
* * * * * * * *
478819 TTCAAAAGCCCACAAGTTACTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCAAC-C
1 TTCAAAAGCCCATAAGTTAGTGGCAACC--TTCAAAAGCCCACAAGTTAATAGCATCTT
* * * * * * * *
478877 TTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-C
1 TTCAAAAGCCCATAAGTTAGTGGCAACC--TTCAAAAGCCCACAAGTTAATAGCATCTT
* * * * * * * * *
478935 TTCCAAAGCCTACAAGTCAGTGGCAACCTTCAAAAGCCCACACGTCAGTGGCACCCTT
1 TTCAAAAGCCCATAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTTAATAGCA-TCTT
* *
478993 TTCCAAAGCCCATAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTTAATAGTATCTT
1 TTCAAAAGCCCATAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTTAATAGCATCTT
*
479050 TTCAAAAGCCCATAAGTTGGT-GCAACCCTATCAAAAGCCCACA
1 TTCAAAAGCCCATAAGTTAGTGGCAA-CCT-TCAAAAGCCCACA
479093 CAAGTTGGTG
Statistics
Matches: 191, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
56 27 0.14
57 26 0.14
58 138 0.72
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (57 bp):
TTCAAAAGCCCATAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTTAATAGCATCTT
Found at i:479213 original size:35 final size:34
Alignment explanation
Indices: 479155--479255 Score: 121
Period size: 35 Copynumber: 2.9 Consensus size: 34
479145 TATTAGCACC
* * *
479155 TTTTCTTTTTTAAGTCCATAACTCCGTGGCACTCT
1 TTTTC-TTTTTAAGCCCACAACTCCGTGGCACTAT
*
479190 TTTTCTTTTGTAAGCCCACAACTCCATGGCACTAT
1 TTTTCTTTT-TAAGCCCACAACTCCGTGGCACTAT
* * *
479225 TTTTCCTTTTAAGCCCACAATTCAGTGGCAC
1 TTTTCTTTTTAAGCCCACAACTCCGTGGCAC
479256 CCTTATCCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
34 23 0.40
35 34 0.60
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.40
Consensus pattern (34 bp):
TTTTCTTTTTAAGCCCACAACTCCGTGGCACTAT
Found at i:479384 original size:49 final size:49
Alignment explanation
Indices: 479315--479559 Score: 229
Period size: 49 Copynumber: 4.9 Consensus size: 49
479305 GGTGGCGTCT
* * * * * *
479315 TCTTCTAAGTCCAATATCGCTGACCTTGAATTAGCATATTGGCACCTTTA
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
*
479365 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * * *
479414 TTTTTAGGTCTAATGTCGTTGGCCTAGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
** * * * * *
479463 TCTTTAAAGATTAGTATCGCTGACCTTGAATCAGCATATTGGCGCCTTCGTCA
1 TCTTT-AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T--TCA
* * *
479516 TCTTTAAAACCTAATGTCGTTGGCCTTAAATCAGCACATTGGCA
1 TCTTTAAGACC-AATGTCGCTGGCCTTGAATCAGCACATTGGCA
479560 TTCTTCTCAT
Statistics
Matches: 155, Mismatches: 35, Indels: 7
0.79 0.18 0.04
Matches are distributed among these distances:
49 84 0.54
50 34 0.22
51 1 0.01
52 3 0.02
53 33 0.21
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (49 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:480357 original size:20 final size:20
Alignment explanation
Indices: 480320--480373 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
480310 TTTCAACGAT
480320 TTGTATCGATAC-ATAAGTG
1 TTGTATCGATACAATAAGTG
*
480339 TTGTATCGATACAATAAGTT
1 TTGTATCGATACAATAAGTG
480359 TTGTATCGATACAAT
1 TTGTATCGATACAAT
480374 GTACAGTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 12 0.36
20 21 0.64
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACAATAAGTG
Found at i:480500 original size:52 final size:52
Alignment explanation
Indices: 480459--480585 Score: 227
Period size: 52 Copynumber: 2.4 Consensus size: 52
480449 CTAATCTTTA
*
480459 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATGAAATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATG
* *
480511 TATCGATACATACAGGCAAATTTGCCCAGATGTATTGATACACTATGAAATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATG
480563 TATCGATACATGCAGGCAAATTT
1 TATCGATACATGCAGGCAAATTT
480586 TCATATTTCG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATG
Found at i:492921 original size:284 final size:284
Alignment explanation
Indices: 492411--492981 Score: 1142
Period size: 284 Copynumber: 2.0 Consensus size: 284
492401 CAGATTACGT
492411 GCATTATCGGTGATGATCTGCTCAGGAAGACCATATCTGCAAATGATGTCCCATTTCAAAAACTT
1 GCATTATCGGTGATGATCTGCTCAGGAAGACCATATCTGCAAATGATGTCCCATTTCAAAAACTT
492476 GCAAACGACCGACCTAGTGACATTGGCATAAGATGCTGCCTCTACCCATTTGGTGAAATAATCAA
66 GCAAACGACCGACCTAGTGACATTGGCATAAGATGCTGCCTCTACCCATTTGGTGAAATAATCAA
492541 TGGCCACTAAAATGAAGCGGTGCACATTAGAAGCCTTAGAAGTAATTGGTCCAATCATGTCCATG
131 TGGCCACTAAAATGAAGCGGTGCACATTAGAAGCCTTAGAAGTAATTGGTCCAATCATGTCCATG
492606 CCCCACATAGAAAAAGGCCAAGGGGCTGTCATGACATGTAAAGACGTTGGCGAGACATGTATTTT
196 CCCCACATAGAAAAAGGCCAAGGGGCTGTCATGACATGTAAAGACGTTGGCGAGACATGTATTTT
492671 GTCAGCATATATTTGGCATTTATG
261 GTCAGCATATATTTGGCATTTATG
492695 GCATTATCGGTGATGATCTGCTCAGGAAGACCATATCTGCAAATGATGTCCCATTTCAAAAACTT
1 GCATTATCGGTGATGATCTGCTCAGGAAGACCATATCTGCAAATGATGTCCCATTTCAAAAACTT
492760 GCAAACGACCGACCTAGTGACATTGGCATAAGATGCTGCCTCTACCCATTTGGTGAAATAATCAA
66 GCAAACGACCGACCTAGTGACATTGGCATAAGATGCTGCCTCTACCCATTTGGTGAAATAATCAA
492825 TGGCCACTAAAATGAAGCGGTGCACATTAGAAGCCTTAGAAGTAATTGGTCCAATCATGTCCATG
131 TGGCCACTAAAATGAAGCGGTGCACATTAGAAGCCTTAGAAGTAATTGGTCCAATCATGTCCATG
492890 CCCCACATAGAAAAAGGCCAAGGGGCTGTCATGACATGTAAAGACGTTGGCGAGACATGTATTTT
196 CCCCACATAGAAAAAGGCCAAGGGGCTGTCATGACATGTAAAGACGTTGGCGAGACATGTATTTT
492955 GTCAGCATATATTTGGCATTTATG
261 GTCAGCATATATTTGGCATTTATG
492979 GCA
1 GCA
492982 CTTTCTAGCG
Statistics
Matches: 287, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
284 287 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (284 bp):
GCATTATCGGTGATGATCTGCTCAGGAAGACCATATCTGCAAATGATGTCCCATTTCAAAAACTT
GCAAACGACCGACCTAGTGACATTGGCATAAGATGCTGCCTCTACCCATTTGGTGAAATAATCAA
TGGCCACTAAAATGAAGCGGTGCACATTAGAAGCCTTAGAAGTAATTGGTCCAATCATGTCCATG
CCCCACATAGAAAAAGGCCAAGGGGCTGTCATGACATGTAAAGACGTTGGCGAGACATGTATTTT
GTCAGCATATATTTGGCATTTATG
Found at i:504504 original size:79 final size:79
Alignment explanation
Indices: 504367--504643 Score: 331
Period size: 79 Copynumber: 3.5 Consensus size: 79
504357 ACAGGGCTGA
* * * **
504367 AGTATCCCCGATTATGGAAAATCGGTGTTTT-GACAATAAAATCGGGGTTGGAGTATCCCCTCAA
1 AGTATCCCCGATTGTGAAAAATCGATGTTTTAGA-AATAAAGCCGGGGTTGGAGTATCCCCTCAA
504431 AAATAACGGGGTTGG
65 AAATAACGGGGTTGG
* ** * * * * *
504446 AATATCCATGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGCATCCCCGCCAA
1 AGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAAA
504511 AATAACGGGGTTGG
66 AATAACGGGGTTGG
* * * * * *
504525 AGTATCCCCAATTGTGAGAAATCGATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCTCTCAGA
1 AGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAAA
*
504590 AATAACGGGATTGG
66 AATAACGGGGTTGG
* * *
504604 AGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAA
1 AGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAA
504644 ACCATGGCTA
Statistics
Matches: 163, Mismatches: 34, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
79 161 0.99
80 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
AGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAAA
AATAACGGGGTTGG
Found at i:507061 original size:49 final size:50
Alignment explanation
Indices: 507006--507139 Score: 200
Period size: 49 Copynumber: 2.7 Consensus size: 50
506996 AAAAATGTGT
*
507006 GAATGTATCGATACATTGAAAAATGTATCGATACATCTGGGT-AAACCCA
1 GAATGTATCGATACATTGAAAAATGTATCGATACATCAGGGTAAAACCCA
* * *
507055 GAATGTATCGATACAATGAATAATGTATCAATACATCAGGGTAAAACCCA
1 GAATGTATCGATACATTGAAAAATGTATCGATACATCAGGGTAAAACCCA
*
507105 GAATGTATCGATACAATT-AACAATGTATCGATACA
1 GAATGTATCGATAC-ATTGAAAAATGTATCGATACA
507140 AATTGTAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
49 38 0.50
50 36 0.47
51 2 0.03
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (50 bp):
GAATGTATCGATACATTGAAAAATGTATCGATACATCAGGGTAAAACCCA
Found at i:507119 original size:50 final size:49
Alignment explanation
Indices: 507006--507139 Score: 205
Period size: 50 Copynumber: 2.7 Consensus size: 49
506996 AAAAATGTGT
* *
507006 GAATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATCAGGGTAAACCCA
* *
507055 GAATGTATCGATACAATGAATAATGTATCAATACATCAGGGTAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATCAGGGT-AAACCCA
* *
507105 GAATGTATCGATACAATTAACAATGTATCGATACA
1 GAATGTATCGATACAATGAAAAATGTATCGATACA
507140 AATTGTAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 38 0.49
50 39 0.51
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (49 bp):
GAATGTATCGATACAATGAAAAATGTATCGATACATCAGGGTAAACCCA
Found at i:508421 original size:11 final size:11
Alignment explanation
Indices: 508407--508436 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
508397 AAATTTTTAA
508407 AAAAAAAACCC
1 AAAAAAAACCC
508418 AAAAAAAACCC
1 AAAAAAAACCC
508429 AAAAAAAA
1 AAAAAAAA
508437 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACCC
Found at i:508434 original size:26 final size:24
Alignment explanation
Indices: 508405--508462 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
508395 AAAAATTTTT
**
508405 AAAAAAAAAACCCAAAAAAAACCCA
1 AAAAAAAAAAAACAAAAAAAA-CCA
*
508430 AAAAAAATAAAAATAAAAAAAACCA
1 AAAAAAA-AAAAACAAAAAAAACCA
*
508455 AGAAAAAA
1 AAAAAAAA
508463 CCAAGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.04
25 16 0.57
26 11 0.39
ACGTcount: A:0.81, C:0.14, G:0.02, T:0.03
Consensus pattern (24 bp):
AAAAAAAAAAAACAAAAAAAACCA
Found at i:508460 original size:11 final size:11
Alignment explanation
Indices: 508446--508473 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
508436 ATAAAAATAA
508446 AAAAAACCAAG
1 AAAAAACCAAG
508457 AAAAAACCAAG
1 AAAAAACCAAG
508468 AAAAAA
1 AAAAAA
508474 TAGCAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.79, C:0.14, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAACCAAG
Found at i:508473 original size:26 final size:24
Alignment explanation
Indices: 508418--508473 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
508408 AAAAAAACCC
* *
508418 AAAAAAAACCCAAAAAAAATAAAA
1 AAAAAAAAACCAAAAAAAACAAAA
* *
508442 ATAAAAAAAACCAAGAAAAAACCAAG
1 A-AAAAAAAACCAA-AAAAAACAAAA
508468 AAAAAA
1 AAAAAA
508474 TAGCAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 16 0.62
26 9 0.35
ACGTcount: A:0.80, C:0.12, G:0.04, T:0.04
Consensus pattern (24 bp):
AAAAAAAAACCAAAAAAAACAAAA
Found at i:509722 original size:28 final size:28
Alignment explanation
Indices: 509688--510317 Score: 659
Period size: 28 Copynumber: 21.5 Consensus size: 28
509678 CGTTCATCTC
*
509688 TTCAAAGCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
509716 TTCAAAGCCCACACAAGTCAATGGTAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGG-CA-TCCT
* *
509748 TTGAAAGCTCACACAAGTCAGTGGCATCAT
1 TTCAAAGC-C-CACAAGTCAGTGGCATCCT
* *
509778 TTCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
** *
509810 TTCAAAGCCCATACAAGTTGGTGGCAACCAAT
1 TTCAAAGCCC--ACAAGTCAGTGGCATCC--T
** *
509842 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
509874 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
509902 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
509930 TTCAAAGCTCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
509958 TTCAAAGCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
*
509988 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
510016 TTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
510045 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
510073 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
510101 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
510130 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
510158 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
510186 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
510214 TTCAAAGCCCACAAGCCAGTAGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * *
510243 TTCAAAGCCCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCT
* *
510273 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCCT
510305 TTCAAAGCCCACA
1 TTCAAAGCCCACA
510318 CAAGTTAATG
Statistics
Matches: 529, Mismatches: 47, Indels: 48
0.85 0.08 0.08
Matches are distributed among these distances:
27 2 0.00
28 233 0.44
29 82 0.16
30 93 0.18
31 10 0.02
32 103 0.19
33 5 0.01
34 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:510074 original size:57 final size:57
Alignment explanation
Indices: 509688--510317 Score: 710
Period size: 57 Copynumber: 10.7 Consensus size: 57
509678 CGTTCATCTC
* * * *
509688 TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCAATGGTAACTCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGG-CACTCTT
* * * *
509748 TTGAAAGCTCACACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TTCAAAGC-C-CACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTT
** * ** * *
509810 TTCAAAGCCCATACAAGTTGGTGGCAACCAATTTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAGCCC--ACAAGTCAGTGGCATCC--TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTT
509874 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
509930 TTCAAAGCTCACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCTT
* *
509988 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
*
510045 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
510101 TTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
510158 TTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * *
510214 TTCAAAGCCCACAAGCCAGTAGCACTCTTTTCAAAGCCCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGG-CACTCTT
* *
510273 TTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACA
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCCTTTCAAAGCCCACA
510318 CAAGTTAATG
Statistics
Matches: 509, Mismatches: 43, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
56 124 0.24
57 138 0.27
58 64 0.13
59 17 0.03
60 16 0.03
61 9 0.02
62 100 0.20
64 41 0.08
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:510099 original size:85 final size:85
Alignment explanation
Indices: 509688--510317 Score: 726
Period size: 85 Copynumber: 7.2 Consensus size: 85
509678 CGTTCATCTC
* * * * *
509688 TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCAATGGTAACTCATTTGAA
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGG-CAC-CCTTTCAA
*
509753 AGCTCACACAAGTCAGTGGCA-TCAT
62 AGC-C-CACAAGTCAGTGGCACTCTT
* * ** *
509778 TTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCATACAAGTTGGTGGCAACCAATT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAGCCC--ACAAGTCAGTGGC-ACC-CTT
** * *
509843 TCAAAGCCCACACAAGTTGGTGGCAACCCAT
58 TCAAAG-CC-CACAAGTCAGTGGC-ACTCTT
* *
509874 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
*
509939 CACAAGTCAGTGGCAC-CCT
66 CACAAGTCAGTGGCACTCTT
* * *
509958 TTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
510023 CCTACAAGTCAGTGGCACTCTT
64 CCCACAAGTCAGTGGCACTCTT
510045 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
*
510110 CACAAGTTAGTGGCACTCTT
66 CACAAGTCAGTGGCACTCTT
*
510130 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
*
510195 CACAAGTCAGTGGCAC-CCT
66 CACAAGTCAGTGGCACTCTT
* * * * * *
510214 TTCAAAGCCCACAAGCCAGTAGCACTCTTTTCAAAGCCCACAAGCCAGTGGTAACTCTTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGG-CAC-CCTTTCAAA
*
510279 GCCCACACGAGTCGGTGGCAACTCTT
63 GCCCACA--AGTCAGTGGC-ACTCTT
510305 TTCAAAGCCCACA
1 TTCAAAGCCCACA
510318 CAAGTTAATG
Statistics
Matches: 477, Mismatches: 42, Indels: 41
0.85 0.08 0.07
Matches are distributed among these distances:
84 47 0.10
85 163 0.34
86 68 0.14
87 39 0.08
88 8 0.02
89 12 0.03
90 20 0.04
91 17 0.04
92 27 0.06
93 5 0.01
94 57 0.12
95 4 0.01
96 10 0.02
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (85 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
CACAAGTCAGTGGCACTCTT
Found at i:511231 original size:20 final size:20
Alignment explanation
Indices: 511208--511332 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
511198 AAGTACCTAT
511208 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
511228 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
511248 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
511268 ATGTATCGATACATTATGTCTTTTTACCCA
1 ATGTATCGATAC---A----TTTTT---CA
511298 TATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
511319 ATGTATCGATACAT
1 ATGTATCGATACAT
511333 CTAGTTAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
20 59 0.69
21 2 0.02
23 1 0.01
24 5 0.06
27 4 0.05
28 1 0.01
30 2 0.02
31 12 0.14
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:511268 original size:40 final size:39
Alignment explanation
Indices: 511208--511285 Score: 138
Period size: 40 Copynumber: 2.0 Consensus size: 39
511198 AAGTACCTAT
*
511208 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATGTATCGATACAT-TATGA
511248 ATGTATCGATACATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATGTATCGATACATTATG
511286 TCTTTTTACC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 4 0.11
40 33 0.89
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTATGA
Found at i:516514 original size:15 final size:15
Alignment explanation
Indices: 516494--516523 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
516484 AATAGCTTTA
*
516494 TTTATTTGTATATAT
1 TTTATTTATATATAT
516509 TTTATTTATATATAT
1 TTTATTTATATATAT
516524 ATATATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTATTTATATATAT
Found at i:516514 original size:19 final size:19
Alignment explanation
Indices: 516490--516527 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
516480 GGTAAATAGC
* *
516490 TTTATTTATTTGTATATAT
1 TTTATTTATATATATATAT
516509 TTTATTTATATATATATAT
1 TTTATTTATATATATATAT
516528 ATATATATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTATTTATATATATATAT
Found at i:516823 original size:24 final size:26
Alignment explanation
Indices: 516796--516855 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
516786 CTTAATTTTT
**
516796 TATTTGTAAT-TAA-ATTAAATAAAG
1 TATTTGTAATATAATAAAAAATAAAG
*
516820 TATTTTTAATATAATAAAAAATAAAG
1 TATTTGTAATATAATAAAAAATAAAG
516846 TATTATGTAA
1 TATT-TGTAA
516856 AATATAAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 9 0.31
25 3 0.10
26 13 0.45
27 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.42
Consensus pattern (26 bp):
TATTTGTAATATAATAAAAAATAAAG
Found at i:519551 original size:14 final size:14
Alignment explanation
Indices: 519532--519560 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
519522 TTGAAAATTG
519532 AAAGAAAACTTTTC
1 AAAGAAAACTTTTC
519546 AAAGAAAACTTTTC
1 AAAGAAAACTTTTC
519560 A
1 A
519561 TGAGTTTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
AAAGAAAACTTTTC
Found at i:522331 original size:3 final size:3
Alignment explanation
Indices: 522323--522351 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
522313 ATGATCTTTT
522323 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
522352 TCTTTCACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:525118 original size:16 final size:16
Alignment explanation
Indices: 525097--525127 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
525087 TCAAGTTTAA
525097 TTTTATTTTATATTAT
1 TTTTATTTTATATTAT
525113 TTTTATTTTATATTA
1 TTTTATTTTATATTA
525128 AATGTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTATTTTATATTAT
Found at i:525298 original size:18 final size:18
Alignment explanation
Indices: 525259--525298 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
525249 ATATTTATAT
*
525259 ATAAAATTAATTTGTTAT
1 ATAAAATTAATTTGTTAA
*
525277 ATAAAATTAATTTTTTAA
1 ATAAAATTAATTTGTTAA
525295 ATAA
1 ATAA
525299 CTTATTATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATAAAATTAATTTGTTAA
Found at i:529997 original size:21 final size:20
Alignment explanation
Indices: 529957--529998 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
529947 TATAATTTTG
*
529957 AGATAAATTTTTAATAAAAA
1 AGATAAATATTTAATAAAAA
*
529977 AGATGAATATTTAAGTAAAAA
1 AGATAAATATTTAA-TAAAAA
529998 A
1 A
529999 TAAGTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (20 bp):
AGATAAATATTTAATAAAAA
Found at i:531426 original size:33 final size:33
Alignment explanation
Indices: 531384--531452 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
531374 CCGTTACAAG
* *
531384 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATATATCGAT-CAATTGCACCATGTATCGATA
* *
531417 CAATATATCGATTAATTGTACCATGTATCGATA
1 CAATATATCGATCAATTGCACCATGTATCGATA
531450 CAA
1 CAA
531453 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 4 0.13
33 27 0.87
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATATATCGATCAATTGCACCATGTATCGATA
Found at i:531525 original size:19 final size:19
Alignment explanation
Indices: 531482--531536 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
531472 TGCCAACCTT
**
531482 ATGTATCGATACAATTGTTC
1 ATGTATCGATACAA-TGAAC
531502 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
531521 ATGTATCGATACAATG
1 ATGTATCGATACAATG
531537 TATCGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:531539 original size:13 final size:13
Alignment explanation
Indices: 531521--531547 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
531511 TACAATGAAC
531521 ATGTATCGATACA
1 ATGTATCGATACA
531534 ATGTATCGATACA
1 ATGTATCGATACA
531547 A
1 A
531548 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:540287 original size:33 final size:33
Alignment explanation
Indices: 540247--540315 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
540237 CCGTTACAAG
*
540247 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCACCATGTATCGATA
* *
540280 CAATGTATTGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
540313 CAA
1 CAA
540316 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:541440 original size:2 final size:2
Alignment explanation
Indices: 541433--541468 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
541423 TTTGTTTTGA
541433 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
541469 GCTTTGGCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:542995 original size:15 final size:15
Alignment explanation
Indices: 542975--543004 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
542965 TAAGATTCTT
542975 TGATTAATTGAAGTA
1 TGATTAATTGAAGTA
542990 TGATTAATTGAAGTA
1 TGATTAATTGAAGTA
543005 AAAAAACGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (15 bp):
TGATTAATTGAAGTA
Found at i:543986 original size:26 final size:26
Alignment explanation
Indices: 543950--543999 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
543940 GGAAAAATGG
*
543950 TTTAGTATTTTAAATTGATTTTTTTA
1 TTTAGTATTTTAAAATGATTTTTTTA
543976 TTTAGTATTTTAAAATGATTTTTT
1 TTTAGTATTTTAAAATGATTTTTT
544000 AATCCTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (26 bp):
TTTAGTATTTTAAAATGATTTTTTTA
Found at i:544625 original size:20 final size:20
Alignment explanation
Indices: 544582--544636 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
544572 ATTCAGCAAT
544582 ATGTATCGATACAATAAGGTA
1 ATGTATCGATAC-ATAAGGTA
*
544603 ATGTATAGATACATAA-GTGA
1 ATGTATCGATACATAAGGT-A
544623 ATGTATCGATACAT
1 ATGTATCGATACAT
544637 GCTTGAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 2 0.06
20 18 0.58
21 11 0.35
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATAAGGTA
Found at i:549588 original size:30 final size:30
Alignment explanation
Indices: 549554--549654 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 30
549544 ACATTGAATC
549554 ATGTATCGATACATTTGGTAAAAAATCCAA
1 ATGTATCGATACATTTGGTAAAAAATCCAA
* * * *
549584 ATGTATCAATACA-ATGATAAATTGAAT-C--
1 ATGTATCGATACATTTGGTAAA--AAATCCAA
*
549612 ATGTATCGATGCATTTGGTAAAAAATCCAA
1 ATGTATCGATACATTTGGTAAAAAATCCAA
549642 ATGTATCGATACA
1 ATGTATCGATACA
549655 ATGATAAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
27 3 0.05
28 12 0.22
29 12 0.22
30 25 0.45
31 3 0.05
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (30 bp):
ATGTATCGATACATTTGGTAAAAAATCCAA
Found at i:549596 original size:50 final size:50
Alignment explanation
Indices: 549534--549677 Score: 155
Period size: 58 Copynumber: 2.7 Consensus size: 50
549524 ATTTGCCTGC
549534 ATGTATCGATACATTGAATCATGTATCGATACATTTGGTAAAAAATCCAA
1 ATGTATCGATACATTGAATCATGTATCGATACATTTGGTAAAAAATCCAA
* *
549584 ATGTATCAATACAATGATAAATTGAATCATGTATCGATGCATTTGGTAAAAAATCCAA
1 ATG--T--AT-C---GATACATTGAATCATGTATCGATACATTTGGTAAAAAATCCAA
* * *
549642 ATGTATCGATACAATG-ATAAATGTATTGATACATTT
1 ATGTATCGATACATTGAAT-CATGTATCGATACATTT
549678 CCTTAGTAGT
Statistics
Matches: 78, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
49 2 0.03
50 24 0.31
52 1 0.01
53 1 0.01
54 4 0.05
55 1 0.01
56 1 0.01
58 44 0.56
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (50 bp):
ATGTATCGATACATTGAATCATGTATCGATACATTTGGTAAAAAATCCAA
Found at i:549610 original size:58 final size:58
Alignment explanation
Indices: 549541--549663 Score: 219
Period size: 58 Copynumber: 2.1 Consensus size: 58
549531 TGCATGTATC
*
549541 GATACATTGAATCATGTATCGATACATTTGGTAAAAAATCCAAATGTATCAATACAAT
1 GATAAATTGAATCATGTATCGATACATTTGGTAAAAAATCCAAATGTATCAATACAAT
* *
549599 GATAAATTGAATCATGTATCGATGCATTTGGTAAAAAATCCAAATGTATCGATACAAT
1 GATAAATTGAATCATGTATCGATACATTTGGTAAAAAATCCAAATGTATCAATACAAT
549657 GATAAAT
1 GATAAAT
549664 GTATTGATAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (58 bp):
GATAAATTGAATCATGTATCGATACATTTGGTAAAAAATCCAAATGTATCAATACAAT
Found at i:550501 original size:60 final size:61
Alignment explanation
Indices: 550404--550539 Score: 186
Period size: 60 Copynumber: 2.2 Consensus size: 61
550394 AATGATTATG
* ***
550404 AAGATGAGAA-AAGTAATAAAGATGCCAATATGCTGATTCAAGGTTAGAGATATTGGACTTA
1 AAGATGAGAAGAA-TGATAAAGATGCCAATATGCTGATTCAAGACCAGAGATATTGGACTTA
* * *
550465 AAG-TGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTA
1 AAGATGAGAAGAATGATAAAGATGCCAATATGCTGATTCAAGACCAGAGATATTGGACTTA
550525 AAGATGAGAAGAATG
1 AAGATGAGAAGAATG
550540 TCAATGTGCT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
60 50 0.76
61 16 0.24
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.24
Consensus pattern (61 bp):
AAGATGAGAAGAATGATAAAGATGCCAATATGCTGATTCAAGACCAGAGATATTGGACTTA
Found at i:550582 original size:52 final size:52
Alignment explanation
Indices: 550486--550967 Score: 266
Period size: 52 Copynumber: 9.4 Consensus size: 52
550476 ATGATAAAGG
* * * * *
550486 TGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTAAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAAGACCAACGACATTAGACTTAAAGATGAGAAGAA
* *
550538 TGTCAATGTGCTGATTCACAG-CCAACGACATTAGACTTGAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCA-AGACCAACGACATTAGACTTAAAGATGAGAAGAA
* * * * * *
550590 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGGCTTAGGAATG-TTA-AAG-A
1 TGCCAATGTGCTGATTCAAGACCAACGACATTAGACTTA--AA-GATGAGAAGAA
* * * * * *
550642 TGCCAATATGCTGATTCAAGGCCAGCGATA-TCGAACTTAAAGAT--GAAG-G
1 TGCCAATGTGCTGATTCAAGACCAACGACATTAG-ACTTAAAGATGAGAAGAA
* * * *
550691 TGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGAT-A-AAG-G
1 TGCCAATGTGCTGATTCAAGACCAACGACATTAGACTTAAAGATGAGAAGAA
* * * * *
550740 TACCAATGTGTTGATTCAAGACCAGCGACATTGGACTTAAAGATG-GTAA-AGG
1 TGCCAATGTGCTGATTCAAGACCAACGACATTAGACTTAAAGATGAG-AAGA-A
* * * * * *
550792 TGCAAATGTGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTG-GTAA-AGG
1 TGCCAATGTGCTGATTCAAGACCAACGACATTAGACTTAAAGATGAG-AAGA-A
* * ** * * *
550844 TGCCAATATGCTGATTCAAGGCTGACGATATTGGACTTAAAGGTG-GTAA-AA
1 TGCCAATGTGCTGATTCAAGACCAACGACATTAGACTTAAAGATGAG-AAGAA
* * ** * *
550895 GTGCCAATATGCTGATTCAAGGCTGACGATATT-GAACTTAAAGGTG-GTAA-AA
1 -TGCCAATGTGCTGATTCAAGACCAACGACATTAG-ACTTAAAGATGAG-AAGAA
*
550947 GTGCCAATATGCTGATTCAAG
1 -TGCCAATGTGCTGATTCAAG
550968 GCTGGCGATA
Statistics
Matches: 369, Mismatches: 44, Indels: 34
0.83 0.10 0.08
Matches are distributed among these distances:
49 83 0.22
50 5 0.01
51 7 0.02
52 264 0.72
53 5 0.01
54 4 0.01
55 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGACCAACGACATTAGACTTAAAGATGAGAAGAA
Found at i:550685 original size:104 final size:101
Alignment explanation
Indices: 550480--551132 Score: 548
Period size: 104 Copynumber: 6.4 Consensus size: 101
550470 AGAAGAATGA
* * * *
550480 TAAAGGTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTAAA-GATGAGAAGAATGTCAA
1 TAAA-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAATGGT-A-AAG-ATGCCAA
* * * * *
550544 TGTGCTGATTCACA-GCCAACGACATTAGACTTGAAGATGAG
62 TATGCTGATTCA-AGGCCAGCGATATTGGACTTAAAGATG-G
* * * * * *
550585 -AAGAATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAAT
1 TAA-AGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA--AATGGTAAAGATGCCAAT
* *
550649 ATGCTGATTCAAGGCCAGCGATATCGAACTTAAAGAT-G
63 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGG
* * * * * * * * *
550687 -AAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAA-GATAAAGGTACCAATGTG
1 TAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAATGGTAAAGATGCCAATATG
* * *
550750 TTGATTCAAGACCAGCGACATTGGACTTAAAGATGG
66 CTGATTCAAGGCCAGCGATATTGGACTTAAAGATGG
* * * *
550786 TAAAGGTGCAAATGTGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGGTAAAGGTGCCAAT
1 TAAA-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA--TGGTAAAGATGCCAAT
* *
550851 ATGCTGATTCAAGG-CTGACGATATTGGACTTAAAGGTGG
63 ATGCTGATTCAAGGCCAG-CGATATTGGACTTAAAGATGG
* *
550890 TAAAAGTGCCAATATGCTGATTCAAGG-CTGACGATATTGAACTTAAAGGTGGTAAA-AGTGCCA
1 T-AAAGTGCCAATATGCTGATTCAAGGCCAG-CGATATTGGACTTAAA--TGGTAAAGA-TGCCA
** *
550953 ATATGCTGATTCAAGGCTGGCGATATTGGACTTAAAGGTGG
61 ATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGG
* ** * *
550994 TAAAGGTGCCAATATGCTAATTCAAGGCTGGCGATATT-GA--T--CT--TAAAG-TGCCAATGT
1 TAAA-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAATGGTAAAGATGCCAATAT
* * * *
551051 GCTGATTCAAGGCCAGCGATGTTGGGCTTGAATATGG
65 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGG
* *
551088 TAAAAGTTCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTA
1 T-AAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
551133 TAGGTGCCAA
Statistics
Matches: 457, Mismatches: 67, Indels: 55
0.79 0.12 0.09
Matches are distributed among these distances:
94 69 0.15
95 9 0.02
97 2 0.00
98 43 0.09
99 3 0.01
100 2 0.00
101 73 0.16
102 3 0.01
103 9 0.02
104 230 0.50
105 9 0.02
106 3 0.01
107 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (101 bp):
TAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAATGGTAAAGATGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTTAAAGATGG
Found at i:550964 original size:156 final size:154
Alignment explanation
Indices: 550421--551138 Score: 600
Period size: 156 Copynumber: 4.7 Consensus size: 154
550411 GAAAAGTAAT
* * * *
550421 AAAGATGCCAATATGCTGATTCAAGG-TTAGAGATATTGGACTTAAAGTGAGAAGAATGATAAAG
1 AAAG-TGCCAATGTGCTGATTCAAGGCTCAGCGATATTGGACTTAAAG-GTG--G--T-A-AAA-
* * * * * *
550485 GTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTAAAGAT-GAGAAGAATGTCAATGTGC
57 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGGA-AAG-GTGCCAATATGC
*
550549 TGATTCACA-GCCAACGACATTAGACTTGAAGATGAG-A
120 TGATTCA-AGGCCAACGACATTGGACTT-AA-ATG-GTA
* * *
550586 AGAA-TGCCAATGTGCTGATTCAAGGCT-AGCGACATTGGGCTT--AGGAAT-GTTAAAGATGCC
1 A-AAGTGCCAATGTGCTGATTCAAGGCTCAGCGATATTGGACTTAAAGG--TGGTAAAAG-TGCC
* * * *
550646 AATATGCTGATTCAAGGCCAGCGATATCGAACTTAAAGAT-G-AAGGTGCCAATGTGCTGATTCA
62 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGGAAAGGTGCCAATATGCTGATTCA
* *
550709 AGGCCAACAACATTGGACTTAAA-GATA
127 AGGCCAACGACATTGGACTTAAATGGTA
* * * * * * * * *
550736 AAGGTACCAATGTGTTGATTCAAGAC-CAGCGACATTGGACTTAAAGATGGTAAAGGTGCAAATG
1 AAAGTGCCAATGTGCTGATTCAAGGCTCAGCGATATTGGACTTAAAGGTGGTAAAAGTGCCAATA
*
550800 TGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGGTAAAGGTGCCAATATGCTGATTCAAGG
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGG-AAAGGTGCCAATATGCTGATTCAAGG
** *
550865 CTGACGATATTGGACTTAAAGGTGGTA
130 CCAACGACATTGGACTTAAA--TGGTA
* * *
550892 AAAGTGCCAATATGCTGATTCAAGGCTGA-CGATATTGAACTTAAAGGTGGTAAAAGTGCCAATA
1 AAAGTGCCAATGTGCTGATTCAAGGCTCAGCGATATTGGACTTAAAGGTGGTAAAAGTGCCAATA
** *
550956 TGCTGATTCAAGGCTGGCGATATTGGACTTAAAGGTGGTAAAGGTGCCAATATGCTAATTCAAGG
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGG-AAAGGTGCCAATATGCTGATTCAAGG
*** * *
551021 CTGGCGATATT-GA--T--CT--T-
130 CCAACGACATTGGACTTAAATGGTA
* * * ** *
551038 AAAGTGCCAATGTGCTGATTCAAGGC-CAGCGATGTTGGGCTTGAATATGGTAAAAGTTCCAATA
1 AAAGTGCCAATGTGCTGATTCAAGGCTCAGCGATATTGGACTTAAAGGTGGTAAAAGTGCCAATA
* *
551102 TGCTGATTCAAGGCTAGCGATATTGGACTTATAGGTG
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
551139 CCAATGTGCT
Statistics
Matches: 469, Mismatches: 64, Indels: 59
0.79 0.11 0.10
Matches are distributed among these distances:
145 1 0.00
146 88 0.19
147 1 0.00
149 2 0.00
150 75 0.16
151 7 0.01
152 5 0.01
153 74 0.16
154 3 0.01
155 3 0.01
156 168 0.36
157 1 0.00
158 1 0.00
160 1 0.00
161 1 0.00
162 2 0.00
164 32 0.07
165 2 0.00
166 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (154 bp):
AAAGTGCCAATGTGCTGATTCAAGGCTCAGCGATATTGGACTTAAAGGTGGTAAAAGTGCCAATA
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGGAAAGGTGCCAATATGCTGATTCAAGGC
CAACGACATTGGACTTAAATGGTA
Found at i:550968 original size:52 final size:52
Alignment explanation
Indices: 550636--551041 Score: 436
Period size: 52 Copynumber: 7.9 Consensus size: 52
550626 TTAGGAATGT
* * * *
550636 TAAAGATGCCAATATGCTGATTCAAGGC-CAGCGATATCGAACTTAAAGAT-G
1 TAAAGGTGCCAATATGCTGATTCAAGGCTGA-CGATATTGAACTTAAAGGTGG
* ** * * * *
550687 --AAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAA---GA
1 TAAAGGTGCCAATATGCTGATTCAAGGCTGACGATATTGAACTTAAAGGTGG
* * * * * * * *
550734 TAAAGGTACCAATGTGTTGATTCAAGAC-CAGCGACATTGGACTTAAAGATGG
1 TAAAGGTGCCAATATGCTGATTCAAGGCTGA-CGATATTGAACTTAAAGGTGG
* * *
550786 TAAAGGTGCAAATGTGCTGATTCAAGGC-CAGCGATATT-AGACTTAAAGGTGG
1 TAAAGGTGCCAATATGCTGATTCAAGGCTGA-CGATATTGA-ACTTAAAGGTGG
*
550838 TAAAGGTGCCAATATGCTGATTCAAGGCTGACGATATTGGACTTAAAGGTGG
1 TAAAGGTGCCAATATGCTGATTCAAGGCTGACGATATTGAACTTAAAGGTGG
*
550890 TAAAAGTGCCAATATGCTGATTCAAGGCTGACGATATTGAACTTAAAGGTGG
1 TAAAGGTGCCAATATGCTGATTCAAGGCTGACGATATTGAACTTAAAGGTGG
* * *
550942 TAAAAGTGCCAATATGCTGATTCAAGGCTGGCGATATTGGACTTAAAGGTGG
1 TAAAGGTGCCAATATGCTGATTCAAGGCTGACGATATTGAACTTAAAGGTGG
* * *
550994 TAAAGGTGCCAATATGCTAATTCAAGGCTGGCGATATTGATCTTAAAG
1 TAAAGGTGCCAATATGCTGATTCAAGGCTGACGATATTGAACTTAAAG
551042 TGCCAATGTG
Statistics
Matches: 311, Mismatches: 33, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.00
49 74 0.24
50 1 0.00
52 234 0.75
53 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (52 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCTGACGATATTGAACTTAAAGGTGG
Found at i:551059 original size:42 final size:42
Alignment explanation
Indices: 550994--551167 Score: 125
Period size: 43 Copynumber: 3.9 Consensus size: 42
550984 TTAAAGGTGG
* *
550994 TAAAGGTGCCAATATGCTAATTCAAGGCTGGCGATATTGATCT
1 TAAA-GTGCCAATATGCTGATTCAAGGCTAGCGATATTGATCT
* * * *
551037 TAAAGTGCCAATGTGCTGATTCAAGGCCAGCGATGTTGGGCTTGAATAT
1 TAAAGTGCCAATATGCTGATTCAAGGCTAGCGA---T---ATTG-ATCT
*
551086 GGTAAAAGTTCCAATATGCTGATTCAAGGCTAGCGATATTGGA-CT
1 --T-AAAGTGCCAATATGCTGATTCAAGGCTAGCGATATT-GATCT
* * * *
551131 TATAGGTGCCAATGTGCTGATTCAAGGCCAACGATAT
1 TA-AAGTGCCAATATGCTGATTCAAGGCTAGCGATAT
551168 CGGGCTTAGA
Statistics
Matches: 103, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
42 26 0.25
43 34 0.33
45 2 0.02
46 3 0.03
47 1 0.01
48 3 0.03
49 4 0.04
51 1 0.01
52 29 0.28
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TAAAGTGCCAATATGCTGATTCAAGGCTAGCGATATTGATCT
Found at i:551105 original size:94 final size:94
Alignment explanation
Indices: 550944--551175 Score: 304
Period size: 94 Copynumber: 2.5 Consensus size: 94
550934 AAAGGTGGTA
* ** * * *
550944 AAAGTGCCAATATGCTGATTCAAGGCTGGCGATATTGGACTTAAAGGTGGTAAAGGTGCCAATAT
1 AAAGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGGTAAAAGTGCCAATAT
*
551009 GCTAATTCAAGGCTGGCGATATT-GATCTT
66 GCTAATTCAAGGCTAGCGATATTGGA-CTT
* * * *
551038 AAAGTGCCAATGTGCTGATTCAAGGCCAGCGATGTTGGGCTTGAATATGGTAAAAGTTCCAATAT
1 AAAGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGGTAAAAGTGCCAATAT
*
551103 GCTGATTCAAGGCTAGCGATATTGGACTT
66 GCTAATTCAAGGCTAGCGATATTGGACTT
* * *
551132 ATAGGTGCCAATGTGCTGATTCAAGGCCAACGATATCGGGCTTA
1 A-AAGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
551176 GAAGTAGATG
Statistics
Matches: 119, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
94 80 0.67
95 39 0.33
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (94 bp):
AAAGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGGTAAAAGTGCCAATAT
GCTAATTCAAGGCTAGCGATATTGGACTT
Found at i:551221 original size:32 final size:30
Alignment explanation
Indices: 551184--551254 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 30
551174 TAGAAGTAGA
* * *
551184 TGCCACATACTTGTGTGGGCTTTTGAGAGGG
1 TGCCACAGACCTGTGTGGGCTTTAGA-AGGG
*
551215 TTGCCACCGACCTGTGTGGGCTTTAGAAGGG
1 -TGCCACAGACCTGTGTGGGCTTTAGAAGGG
551246 TGCCACAGA
1 TGCCACAGA
551255 GTCATGGACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 8 0.24
31 4 0.12
32 22 0.65
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.27
Consensus pattern (30 bp):
TGCCACAGACCTGTGTGGGCTTTAGAAGGG
Found at i:551310 original size:27 final size:27
Alignment explanation
Indices: 551241--551300 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
551231 TGGGCTTTAG
* *
551241 AAGGGTGCCACAGAGTCATGGACTTAA
1 AAGGGTACCACGGAGTCATGGACTTAA
*
551268 AATGGTACCACGGAGTCATGGACTTAA
1 AAGGGTACCACGGAGTCATGGACTTAA
551295 AAGGGT
1 AAGGGT
551301 GCTTCGGAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (27 bp):
AAGGGTACCACGGAGTCATGGACTTAA
Found at i:552534 original size:20 final size:20
Alignment explanation
Indices: 552509--552583 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
552499 TTTTACCCAG
* *
552509 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTATCA
* * * *
552529 ATGTATTGATAAATGTATGA
1 ATGTATCGATACATTTATCA
**
552549 ATGTATCGATACATTCCTCA
1 ATGTATCGATACATTTATCA
*
552569 ATGTATCGATGCATT
1 ATGTATCGATACATT
552584 CTGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:552624 original size:20 final size:20
Alignment explanation
Indices: 552599--552650 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
552589 TTTTTACCCA
552599 GATGTATCGATACATTAAAT
1 GATGTATCGATACATTAAAT
*
552619 GATGTATCGATACATTGAAT
1 GATGTATCGATACATTAAAT
*
552639 AATGTATCGATA
1 GATGTATCGATA
552651 TATCTAGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (20 bp):
GATGTATCGATACATTAAAT
Found at i:556396 original size:12 final size:12
Alignment explanation
Indices: 556379--556424 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
556369 TAATGCTTAA
556379 TGTCAGGGCAAT
1 TGTCAGGGCAAT
556391 TGTCAGGGTTC-AT
1 TGTCAGGG--CAAT
556404 ATGTCAGGGCAAT
1 -TGTCAGGGCAAT
556417 TGTCAGGG
1 TGTCAGGG
556425 TTCATTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 17 0.57
13 4 0.13
14 9 0.30
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (12 bp):
TGTCAGGGCAAT
Found at i:556410 original size:14 final size:15
Alignment explanation
Indices: 556389--556429 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 15
556379 TGTCAGGGCA
556389 ATTGTCAGGGTTCAT
1 ATTGTCAGGGTTCAT
556404 A-TGTCAGGG--CA-
1 ATTGTCAGGGTTCAT
556415 ATTGTCAGGGTTCAT
1 ATTGTCAGGGTTCAT
556430 TCTTGACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
11 1 0.05
12 10 0.45
14 10 0.45
15 1 0.05
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (15 bp):
ATTGTCAGGGTTCAT
Found at i:556414 original size:26 final size:26
Alignment explanation
Indices: 556378--556429 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
556368 GTAATGCTTA
556378 ATGTCAGGGCAATTGTCAGGGTTCAT
1 ATGTCAGGGCAATTGTCAGGGTTCAT
556404 ATGTCAGGGCAATTGTCAGGGTTCAT
1 ATGTCAGGGCAATTGTCAGGGTTCAT
556430 TCTTGACCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (26 bp):
ATGTCAGGGCAATTGTCAGGGTTCAT
Found at i:563432 original size:20 final size:19
Alignment explanation
Indices: 563409--563478 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
563399 GACAGAATGC
563409 ATCGATACATTGAAGAATTT
1 ATCGATACATTGAA-AATTT
* *
563429 ATCGATACATTCATACATTT
1 ATCGATACATTGA-AAATTT
* * *
563449 ATCGACAGATTGAAAAATGT
1 ATCGATACATTG-AAAATTT
563469 ATCGATACAT
1 ATCGATACAT
563479 CTGGGTAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 37 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (19 bp):
ATCGATACATTGAAAATTT
Found at i:563967 original size:27 final size:27
Alignment explanation
Indices: 563936--563990 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
563926 GACAAAATTT
*
563936 GGTGTCTACAGTTACCCCTTTTTGACC
1 GGTGTCTACAGTTACCCCTCTTTGACC
* *
563963 GGTGTCTATAGTTGCCCCTCTTTGACC
1 GGTGTCTACAGTTACCCCTCTTTGACC
563990 G
1 G
563991 TTGCTGAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.13, C:0.29, G:0.22, T:0.36
Consensus pattern (27 bp):
GGTGTCTACAGTTACCCCTCTTTGACC
Found at i:571938 original size:20 final size:20
Alignment explanation
Indices: 571912--571967 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
571902 AAAAAGATAG
* *
571912 AATGTATCGATACATTCATA
1 AATGTATCGATACATTAAAA
*
571932 CATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
571952 AATGTATCGATACATT
1 AATGTATCGATACATT
571968 TAGGGTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:572961 original size:28 final size:28
Alignment explanation
Indices: 572871--573359 Score: 507
Period size: 28 Copynumber: 17.1 Consensus size: 28
572861 TTTTAAAAAA
*
572871 AAAGG-TGCCACTAACTTGTGTGGGCTTTG
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTG
* **
572900 AAAAGAATTGCCACCAACTTGTGTGGGCTTTG
1 -AAAGGA-TGCCACTGAC-T-TGTGGGCTTTG
*
572932 AAAGGATGCCACCGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
572960 AAAGGGTATGCCACTAACTTGTGGGCTTTG
1 AAA-GG-ATGCCACTGACTTGTGGGCTTTG
* *
572990 AAAGGGTGCCACTGACTTGTGGACTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
573018 AAGGGGTGCCACTGACTTGTGGGCTTT-
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
573045 AGAAGGGTGCCACTAACTTGTGGGCTTTG
1 A-AAGGATGCCACTGACTTGTGGGCTTTG
* * *
573074 GAAGGGTGCCACTGATTTGTGTGGGCTTTG
1 AAAGGATGCCACTGA-CT-TGTGGGCTTTG
* *
573104 AAAGTGTATGCCACTGATTTATGGGCTTTG
1 AAAG-G-ATGCCACTGACTTGTGGGCTTTG
* * *
573134 AAAGGGTGCTACTGACTTGTGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
573162 AAAGGATGCCACAGACTTGTGGTCTTTT
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
573190 AAAGAGATGTCACTGACTTGTGGGCTTTG
1 AAAG-GATGCCACTGACTTGTGGGCTTTG
*
573219 AAAGGATACCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
573247 AAAGGATGCCACTAAGTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
573275 AAAGGGTGCCATTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
573303 AAAAGATGCCACTAACTTGT-GGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
573330 AAAAGATGCCACTGACCTATGAGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
573358 AA
1 AA
573360 GAGATGAACT
Statistics
Matches: 395, Mismatches: 52, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.06
28 235 0.59
29 31 0.08
30 65 0.16
31 8 0.02
32 32 0.08
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
AAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:574617 original size:1 final size:1
Alignment explanation
Indices: 574613--574703 Score: 74
Period size: 1 Copynumber: 91.0 Consensus size: 1
574603 CGTTTGTTTG
* * ** * * * ** *
574613 TTTTTTGTTTTTTTTGTTTTTTTTAATTTTTTTTGTTTTGTTTTTTTTCTTGGTTTTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
574678 TTTTTTTTTGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
574704 GGTACAAAAA
Statistics
Matches: 70, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.02, C:0.01, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:574625 original size:24 final size:21
Alignment explanation
Indices: 574598--574703 Score: 104
Period size: 24 Copynumber: 4.7 Consensus size: 21
574588 TCTAAACCCC
*
574598 TTTTTCGTTTGTTTGTTTTTTGTT
1 TTTTTTGTTT-TTT-TTTTTTG-T
*
574622 TTTTTTGTTTTTTTTAATTTTTT
1 TTTTTTGTTTTTTTT--TTTTGT
* *
574645 TTGTTTTGTTTTTTTTCTTGGT
1 TT-TTTTGTTTTTTTTTTTTGT
*
574667 TTTTTTTTTGTTTTTTTTTTGT
1 TTTTTTGTT-TTTTTTTTTTGT
574689 TTTTTTGTTTTTTTT
1 TTTTTTGTTTTTTTT
574704 GGTACAAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
21 12 0.17
22 25 0.36
23 6 0.09
24 26 0.38
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (21 bp):
TTTTTTGTTTTTTTTTTTTGT
Found at i:574627 original size:9 final size:9
Alignment explanation
Indices: 574613--574704 Score: 98
Period size: 9 Copynumber: 9.8 Consensus size: 9
574603 CGTTTGTTTG
574613 TTTTTTGTT
1 TTTTTTGTT
574622 TTTTTTGTT
1 TTTTTTGTT
*
574631 TTTTTTAATT
1 TTTTTT-GTT
574641 TTTTTTGTT
1 TTTTTTGTT
574650 TTGTTTT-TT
1 TT-TTTTGTT
574659 TTCTTGGTT-TT
1 TT-TT--TTGTT
574670 TTTTTTGTT
1 TTTTTTGTT
*
574679 TTTTTTTTGT
1 TTTTTTGT-T
574689 TTTTTTGTT
1 TTTTTTGTT
574698 TTTTTTG
1 TTTTTTG
574705 GTACAAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
8 2 0.03
9 42 0.58
10 22 0.31
11 6 0.08
ACGTcount: A:0.02, C:0.01, G:0.11, T:0.86
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:574644 original size:12 final size:11
Alignment explanation
Indices: 574605--574703 Score: 107
Period size: 11 Copynumber: 8.8 Consensus size: 11
574595 CCCTTTTTCG
*
574605 TTTGTTTGTTT
1 TTTGTTTTTTT
574616 TTTG--TTTTT
1 TTTGTTTTTTT
574625 TTTGTTTTTTT
1 TTTGTTTTTTT
574636 TAATT-TTTTTTGT
1 T--TTGTTTTTT-T
574649 TTTGTTTTTTT
1 TTTGTTTTTTT
574660 TCTTGGTTTTTTT
1 T-TT-GTTTTTTT
574673 TTTGTTTTTTT
1 TTTGTTTTTTT
574684 TTTGTTTTTTT
1 TTTGTTTTTTT
574695 GTTT-TTTTT
1 -TTTGTTTTT
574704 GGTACAAAAA
Statistics
Matches: 78, Mismatches: 1, Indels: 18
0.80 0.01 0.19
Matches are distributed among these distances:
9 8 0.10
11 38 0.49
12 19 0.24
13 13 0.17
ACGTcount: A:0.02, C:0.01, G:0.11, T:0.86
Consensus pattern (11 bp):
TTTGTTTTTTT
Found at i:582804 original size:79 final size:79
Alignment explanation
Indices: 582622--582855 Score: 251
Period size: 79 Copynumber: 2.9 Consensus size: 79
582612 ATATTTCCCG
* * * * * *
582622 ATGAGAAATTTAATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCCCTTGAAAATAATGGGGT
1 ATGAGAAA-TTAATATTTTAGAAATAA-AATCGAGGTTGGAGTATCCCCTCGGAAATAACGGGGT
**
582686 TGGAGTATCCCCGGTT
64 TGGAGTATCCCCAATT
* * * *
582702 GTGAAAAATTGATGA--TTAGGAAATAAAATCGAGATTGGAGTATCCCCTCGGAAATAACGGGGT
1 ATGAGAAATTAAT-ATTTTA-GAAATAAAATCGAGGTTGGAGTATCCCCTCGGAAATAACGGGGT
582765 TGGAGTATCCCCAATT
64 TGGAGTATCCCCAATT
* * **
582781 ATGAGAAATCAATATTTTAGAAATAAAGTC-AGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTT
1 ATGAGAAATTAATATTTTAGAAATAAAATCGA-GGTTGGAGTATCCCCTCGGAAATAACGGGGTT
582845 GGAGTATCCCC
65 GGAGTATCCCC
582856 GATGAAATAA
Statistics
Matches: 128, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
78 6 0.05
79 112 0.88
80 10 0.08
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (79 bp):
ATGAGAAATTAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
GAGTATCCCCAATT
Found at i:582864 original size:107 final size:108
Alignment explanation
Indices: 582736--582935 Score: 260
Period size: 107 Copynumber: 1.9 Consensus size: 108
582726 AAAATCGAGA
** * *
582736 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTA
1 TTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTTA
*
582800 GAAATAAAGTCAGG-GTTGGAGTATCCCCTCGGAGGTAACGGGG
66 GAAATAAAATC-GGAGTTGGAGTATCCCCTCGGAGGTAACGGGG
* * * * *** *
582843 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTA
1 TTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTTA
582908 GAAATAAAATCGGAGTTGGAGTATCCCC
66 GAAATAAAATCGGAGTTGGAGTATCCCC
582936 GATTAAAGGA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
107 49 0.63
108 29 0.37
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (108 bp):
TTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTTA
GAAATAAAATCGGAGTTGGAGTATCCCCTCGGAGGTAACGGGG
Found at i:582866 original size:28 final size:28
Alignment explanation
Indices: 582812--582886 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 28
582802 AATAAAGTCA
*** **
582812 GGGTTGGAGTATCCCCTCGGAGGTAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
582840 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
* *
582868 AGGTTGGAGTATCCTCGAT
1 GGGTTGGAGTATCCCCGAT
582887 TGTGAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACG
Found at i:582939 original size:52 final size:52
Alignment explanation
Indices: 582869--583263 Score: 277
Period size: 51 Copynumber: 7.6 Consensus size: 52
582859 GAAATAACGA
* *
582869 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTAGAAATAAAATCGG
* * * *
582921 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGA-AAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTAGAAATAAAATCGG
* * *
582973 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTAGAAATAAAA-CTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTAGAAATAAAATC-GG
* *** * * *
583024 GGTTGGAGTATCCCCGATTATGAGAAATAAAT-ATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTAGAAATAAAATCGG
**** * ** * *** *
583075 GGTTGGAGTATCCCCTCGGAGGTAACGGGATTGGAGTATCCCCGATGAAAT--AA-CGA
1 GGTTGGAGTATCCCCGATTATG-AA--AAATTGGTGT-T--TTTA-GAAATAAAATCGG
* * *
583131 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAA-AAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTAGAAATAAAATCGG
* *** * * * *
583182 AGTTGGAGTATCGATGATTAAAGGAAAATTGGTGTTTTGA-AAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTAGAAATAAAATCGG
*
583234 GGTTGGAGTATCCCCGATTATGAACAATTG
1 GGTTGGAGTATCCCCGATTATGAAAAATTG
583264 AGAAACTTAA
Statistics
Matches: 256, Mismatches: 69, Indels: 37
0.71 0.19 0.10
Matches are distributed among these distances:
49 4 0.02
50 7 0.03
51 107 0.42
52 87 0.34
53 23 0.09
54 2 0.01
55 2 0.01
56 18 0.07
57 1 0.00
59 5 0.02
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTAGAAATAAAATCGG
Found at i:583080 original size:262 final size:261
Alignment explanation
Indices: 582760--583252 Score: 887
Period size: 262 Copynumber: 1.9 Consensus size: 261
582750 CGGAAATAAC
*
582760 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATAAATATTTTAGAAATAAAGTCAGGGTTGGAGTATC
*
582825 CCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
66 CCCTCGGAGGTAACGGGATTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
*
582890 GAAAAATTGGTGTTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
131 GAAAAATTGGTGTTTTTAGAAA-AAAATCGGAGTTGGAGTATCCACGATTAAAGGAAAATTGGTG
*
582955 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAA
195 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAA
583020 CT
260 CT
* * *
583022 GGGGTTGGAGTATCCCCGATTATGAGAAATAAATATTTTGGAAATAAAGTCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATAAATATTTTAGAAATAAAGTCAGGGTTGGAGTATC
583087 CCCTCGGAGGTAACGGGATTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
66 CCCTCGGAGGTAACGGGATTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
* * *
583152 GAAAAATTGGTGTTTTTGGAAAAAAATCGGAGTTGGAGTATCGATGATTAAAGGAAAATTGGTGT
131 GAAAAATTGGTGTTTTTAGAAAAAAATCGGAGTTGGAGTATCCACGATTAAAGGAAAATTGGTGT
583217 TTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATT
196 TTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATT
583253 ATGAACAATT
Statistics
Matches: 221, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
261 75 0.34
262 146 0.66
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (261 bp):
GGGGTTGGAGTATCCCCAATTATGAGAAATAAATATTTTAGAAATAAAGTCAGGGTTGGAGTATC
CCCTCGGAGGTAACGGGATTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
GAAAAATTGGTGTTTTTAGAAAAAAATCGGAGTTGGAGTATCCACGATTAAAGGAAAATTGGTGT
TTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
T
Found at i:585658 original size:21 final size:21
Alignment explanation
Indices: 585634--585675 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
585624 GTATCGATGC
585634 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
585655 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
585676 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:585710 original size:13 final size:13
Alignment explanation
Indices: 585692--585743 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
585682 AGCTTCGTAG
585692 CGATACATTGTAT
1 CGATACATTGTAT
585705 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
585724 CGATACATTGTAT
1 CGATACATTGTAT
585737 CGATACA
1 CGATACA
585744 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:585724 original size:19 final size:18
Alignment explanation
Indices: 585700--585762 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
585690 AGCGATACAT
585700 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
585719 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
585732 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
585751 TGTATCGATACA
1 TGTATCGATACA
585763 TTTACGGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:585733 original size:32 final size:32
Alignment explanation
Indices: 585692--585764 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
585682 AGCTTCGTAG
585692 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
585724 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
585756 CGATACATT
1 CGATACATT
585765 TACGGTTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:590382 original size:13 final size:14
Alignment explanation
Indices: 590364--590392 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
590354 GGGAATGGAC
590364 TTTTGTTGA-GTTT
1 TTTTGTTGATGTTT
590377 TTTTGTTGATGTTT
1 TTTTGTTGATGTTT
590391 TT
1 TT
590393 CTAAGATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.07, C:0.00, G:0.21, T:0.72
Consensus pattern (14 bp):
TTTTGTTGATGTTT
Found at i:594200 original size:20 final size:20
Alignment explanation
Indices: 594175--594212 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
594165 AGTTAAAAAC
594175 CAAAAATGTATCGATACAAA
1 CAAAAATGTATCGATACAAA
594195 CAAAAATGTATCGATACA
1 CAAAAATGTATCGATACA
594213 TTTCTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (20 bp):
CAAAAATGTATCGATACAAA
Found at i:594292 original size:20 final size:20
Alignment explanation
Indices: 594269--594310 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
594259 CAGTTCAAAC
*
594269 ATGTATCGATATATTCACTT
1 ATGTATCAATATATTCACTT
594289 ATGTATCAATATATTCACTT
1 ATGTATCAATATATTCACTT
594309 AT
1 AT
594311 TGCATTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.45
Consensus pattern (20 bp):
ATGTATCAATATATTCACTT
Found at i:595160 original size:155 final size:153
Alignment explanation
Indices: 594948--595244 Score: 368
Period size: 155 Copynumber: 1.9 Consensus size: 153
594938 CTTCTGAGGC
* *
594948 ATTTTGTAATTTTTCCTAGAGCCAAGTCCTACATAGTCACTAGGATATTTTTATGCTAAAGGTGT
1 ATTTTGTAATTTTTCCTAAAGCCAAGTCCTACATAGTCACTAGGATATTTTTATGCTAAAAGTGT
* * *
595013 GCATTTAGGATAGGTTTAT-CATTTTATAATCTTTCCATGTCCTTTAAGGTCACT-AGGATACTT
66 GCATCTAGGATAGGTTCATGC-TTTTATAAT-TTT-CATGTCCTTTAAGATCACTAAGG-TACTT
* *
595076 TCACGTTGAAGGTATATCTTACTGTGT
127 TCACATTGAAAGTATATCTTACTGTGT
* * ** * *
595103 ATTTTAGTAATTTTTCTTAAAGCCAAGTCTTATGTAGTCATTA-GATGCTTTTT-TGCTAAAAGT
1 ATTTT-GTAATTTTTCCTAAAGCCAAGTCCTACATAGTCACTAGGAT-ATTTTTATGCTAAAAGT
* * *
595166 GTGCATCTAGGATAGGTTCATGCTTTTATCATTTTCATTTCCTTTAAGATTACTAAGGTACTTTC
64 GTGCATCTAGGATAGGTTCATGCTTTTATAATTTTCATGTCCTTTAAGATCACTAAGGTACTTTC
595231 ACATTGAAAGTATA
129 ACATTGAAAGTATA
595245 CCCCAAAGGC
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
153 35 0.29
154 6 0.05
155 44 0.36
156 37 0.30
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.42
Consensus pattern (153 bp):
ATTTTGTAATTTTTCCTAAAGCCAAGTCCTACATAGTCACTAGGATATTTTTATGCTAAAAGTGT
GCATCTAGGATAGGTTCATGCTTTTATAATTTTCATGTCCTTTAAGATCACTAAGGTACTTTCAC
ATTGAAAGTATATCTTACTGTGT
Found at i:595556 original size:20 final size:21
Alignment explanation
Indices: 595531--595571 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
595521 ATCACATTTT
595531 TTTCTA-AATATATCGATACA
1 TTTCTAGAATATATCGATACA
*
595551 TTTCTAGAATGTATCGATACA
1 TTTCTAGAATATATCGATACA
595572 AGGTCCCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (21 bp):
TTTCTAGAATATATCGATACA
Found at i:595653 original size:19 final size:21
Alignment explanation
Indices: 595608--595661 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
595598 ATTCAACAAT
595608 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
595629 TTGTATCGATACATA-AGT-G
1 TTGTATCGATACAAACAGTAA
595648 TTGTATCGATACAA
1 TTGTATCGATACAA
595662 TGTATCGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:595730 original size:13 final size:13
Alignment explanation
Indices: 595712--595739 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
595702 CATTACTCAA
595712 TGTATCGATACAT
1 TGTATCGATACAT
595725 TGTATCGATACAT
1 TGTATCGATACAT
595738 TG
1 TG
595740 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:595735 original size:33 final size:33
Alignment explanation
Indices: 595692--595755 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
595682 GCCAAGGAAA
*
595692 TGTATTGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
595725 TGTATCGATACATTGATCTTTGTATCGATAC
1 TGTATCGATACATTGATCAATGTATCGATAC
595756 TATCGCAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:596921 original size:79 final size:79
Alignment explanation
Indices: 596729--596927 Score: 211
Period size: 79 Copynumber: 2.5 Consensus size: 79
596719 GAGATAATAA
* * * * ** * *
596729 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
*
596794 TTAGAAAAAAAAAT
66 TTAGAAAAAAAAAC
* * *
596808 CGGGATTGGAGTATCCCCTCGAAAATGACAGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
* ** * *
596872 TTTTGGGAATAAAGC
66 -TTAGAAAAAAAAAC
*
596887 CGGGGTTGGAGTATCCCCTCGAAAGTAACGGGGTTAGGAGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTT-GGAGT
596928 GTCCTCGATG
Statistics
Matches: 97, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
78 1 0.01
79 91 0.94
80 5 0.05
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
TTAGAAAAAAAAAC
Found at i:596944 original size:29 final size:30
Alignment explanation
Indices: 596907--596965 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
596897 GTATCCCCTC
* * *
596907 GAAAGTAACGGGGTTAGGAGTGTCCTCGAT
1 GAAAGTAACGAGGTTAGGAGTATACTCGAT
596937 GAAA-TAACGAGGTTAGGAGTATACTCGAT
1 GAAAGTAACGAGGTTAGGAGTATACTCGAT
596966 TGTGAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (30 bp):
GAAAGTAACGAGGTTAGGAGTATACTCGAT
Found at i:597017 original size:51 final size:50
Alignment explanation
Indices: 596947--597169 Score: 221
Period size: 51 Copynumber: 4.3 Consensus size: 50
596937 GAAATAACGA
* * * *
596947 GGTTAGGAGTATACTCGATTGTGAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTT-GGAGTATCCCCGATTGTGAAAATTGGT-GTTTTGGAAATAAAACCGG
* * *
596999 AGTTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT---GTGAAAATTGGTGTTTTGGAAATAAAACCGG
* * *
597052 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGT-G-AAAATTGGTGTTTTGGAAATAAAACCGG
* *** * **
597104 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTG-AAAATTGGTGTTTTGGAAATAAAACCGG
597155 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
597170 TCGGAGATAA
Statistics
Matches: 145, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
50 1 0.01
51 52 0.36
52 47 0.32
53 34 0.23
54 11 0.08
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTGGAAATAAAACCGG
Found at i:597100 original size:52 final size:51
Alignment explanation
Indices: 596981--597169 Score: 218
Period size: 52 Copynumber: 3.6 Consensus size: 51
596971 AAATTGGTAT
* * * * *
596981 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGGAAAATTGGTG
1 TTTT-GAAATAAAACCGGGGTTGGAGTATCCCCGATT-ATGGAAAAATTAGTG
*
597034 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTG-AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTG
* * * *
597086 TTTTAGCAATAAAACCGGGGTTGGAGTATCCCCGATTAT-GAAAAATCAATA
1 TTTT-GAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTG
**
597137 TTTTGGAAATAAAGTCGGGGTTGGAGTATCCCC
1 TTTT-GAAATAAAACCGGGGTTGGAGTATCCCC
597170 TCGGAGATAA
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
51 38 0.32
52 47 0.39
53 34 0.29
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
TTTTGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTG
Found at i:597280 original size:80 final size:79
Alignment explanation
Indices: 597101--597280 Score: 288
Period size: 79 Copynumber: 2.3 Consensus size: 79
597091 GCAATAAAAC
*
597101 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGTCGGGGTTGGAGTAT
* *
597166 CCCCTCGGAGATAA
66 CCCCTCGAAAATAA
* * *
597180 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCTGGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAG-TCGGGGTTGGAGTA
*
597245 TCCCCTTGAAAATAA
65 TCCCCTCGAAAATAA
597260 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
597281 GATTAACGGG
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 47 0.51
80 46 0.49
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGTCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:597295 original size:27 final size:27
Alignment explanation
Indices: 597233--597310 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
597223 AATAAAGCTG
*
597233 GGGGTTGGAGTATCCCCTTGA-AAATAAC
1 GGGGTTGGAGTATCCCC--GATGAATAAC
*
597261 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
*
597288 GGGGTTGGAGTATCCTCGATGAA
1 GGGGTTGGAGTATCCCCGATGAA
597311 AAATTGATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 2 0.04
27 26 0.58
28 17 0.38
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:599827 original size:19 final size:19
Alignment explanation
Indices: 599803--599859 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
599793 CAGTAGCTAA
599803 TTATGTATCGATACAATAC
1 TTATGTATCGATACAATAC
599822 TTATGTATCGATAC---A-
1 TTATGTATCGATACAATAC
599837 -T-TGTATCGATACAATAC
1 TTATGTATCGATACAATAC
599854 TTATGT
1 TTATGT
599860 TGATATTACG
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.34
14 1 0.03
16 2 0.06
18 1 0.03
19 17 0.53
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (19 bp):
TTATGTATCGATACAATAC
Found at i:599843 original size:13 final size:13
Alignment explanation
Indices: 599825--599849 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
599815 ACAATACTTA
599825 TGTATCGATACAT
1 TGTATCGATACAT
599838 TGTATCGATACA
1 TGTATCGATACA
599850 ATACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:599847 original size:32 final size:32
Alignment explanation
Indices: 599806--599894 Score: 113
Period size: 32 Copynumber: 3.0 Consensus size: 32
599796 TAGCTAATTA
599806 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
599838 TGTATCGATACAATACTTATGT-T-GAT--A-
1 TGTATCGATACAATACTTATGTATCGATACAT
*
599865 T-TA-CGATACAAAAC-TATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
599894 T
1 T
599895 TATTCAAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
24 5 0.10
25 11 0.22
26 5 0.10
27 1 0.02
28 2 0.04
29 1 0.02
30 3 0.06
31 1 0.02
32 22 0.43
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAATACTTATGTATCGATACAT
Found at i:599949 original size:21 final size:21
Alignment explanation
Indices: 599923--599999 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
599913 GTTGGGACCC
* *
599923 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
599944 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
599965 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
*
599986 TGTATTGATACATT
1 TGTATCGATACATT
600000 TGAAATTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 3 0.06
21 47 0.94
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:600798 original size:55 final size:54
Alignment explanation
Indices: 600699--601609 Score: 758
Period size: 55 Copynumber: 15.9 Consensus size: 54
600689 ATAAAGCGTA
* * *
600699 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
600754 TCCTACTCTTTGAGGACTGGAAAATGCCACTAACTTGTGCGGGCTTTAAAAGGAG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
600809 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
600864 TCCTGCTCTTTGA-G---G---ATGCCACCAACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
600911 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
** * * *
600966 TCCTATTCTTTGGGGACTGAAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGGG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
601021 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTAGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGT-GGGCTTTG-AAAG-----GCG
** * *
601083 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGTTTTAAAAGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----GAAAGGCG
* ** **
601141 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATACG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
** *
601200 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* *
601259 TCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT------GAAAGGCG
* **
601320 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCAG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGC-G
** * *
601380 TCCCACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGCGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
** *
601441 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* **
601500 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* ** *
601559 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
601610 AAAAGGCGTC
Statistics
Matches: 750, Mismatches: 65, Indels: 83
0.84 0.07 0.09
Matches are distributed among these distances:
47 40 0.05
48 3 0.00
51 1 0.00
52 1 0.00
54 15 0.02
55 208 0.28
56 11 0.01
57 10 0.01
58 54 0.07
59 188 0.25
60 100 0.13
61 81 0.11
62 27 0.04
63 4 0.01
64 7 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:600902 original size:47 final size:47
Alignment explanation
Indices: 600833--600926 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
600823 GACTGAAAGG
*
600833 TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AAGTGTCCTGCTCTTTGAGGA
600880 TGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGAGGA
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGAGGA
600927 CTGGAAAATG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 43 0.96
48 2 0.04
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (47 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGAGGA
Found at i:601009 original size:157 final size:160
Alignment explanation
Indices: 600723--601609 Score: 639
Period size: 157 Copynumber: 5.2 Consensus size: 160
600713 GACTAAAAAG
* * * *
600723 TGCCACCAACTCGTGTGGGCTTTGAAAGGTG-TCCTACTCTTTGAGGACTGGAAAATGCCACTAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGTGATCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
*
600787 CTTGTGCGGGCTTTA-AAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGG
66 CTTGTGTGGGC-TTAGAAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGG
600851 GCTTTAAGAGGTGTCCTGCTCTTTGA-G-GA
130 GCTTTAAGAGGTGTCCTGCTCTTTGACGAGA
600880 TGCCACCAACTTGTGTGGGCTTTGAAAAGTG-TCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGTGATCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
* * ** **
600944 CTTGTGTGGGCTTCGAAAGGGGTCCTATTCTTTGGGGACTGAAAAATGCCACCAACTTGTGTGGG
66 CTTGTGTGGGCTTAGAAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGG
* * *
601009 CTTCGAA-AGGGGTCCTGCTCTTTGGGGACTGAAAGG
131 CTT-TAAGAGGTGTCCTGCTCTTT---GAC-G--AGA
* **
601045 TGCCACCAACTTGTGTAGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACT-GAAGGTGC
1 TGCCACCAACTTGTGT-GGGCTTTGAAAAG----TG-ATCCTGCTCTTTGAGGACTGGAAAATGC
* * * * *
601109 CACCAACTTGGGTGGGTTTTAAAAGAAAGGCGTCCCGCTCTTTGAGGACTG-AAGGTGCCACCAA
60 CACCAACTTGTGTGGG-CTT---AGAAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAA
** *
601173 CTTGTGTGGGCTTTAAAAGAAAATACGTCCTGCTCTTTGAGGACTGAAGG
121 CTTGTGTGGGCTTT--AAG-AGGT--GTCCTGCTCTTT---GAC-G-AGA
*
601223 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG-GCATCCCGCTCTTTGAGGACTGGAAAATGCC
1 TGCCACCAACTTGTGTGGGCTTT----GAAAAGTG-ATCCTGCTCTTTGAGGACTGGAAAATGCC
* * * *
601287 ACCAACTTGTGTGGGCTTTAAAAAAAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGGTGCCACCA
61 ACCAACTTGTGTGGGC-TT-----AGAAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCA
* ** *
601351 ACTTGTGTGGGCTTTAAAAGAAAAGGCAGTCCCACTCTTTGAGGACTGAAAAA
120 ACTTGTGTGGGCTTT--AAG---AGG-TGTCCTGCTCTTT---GAC-G--AGA
* * **
601404 TGCCACCAACTTGTGTGCGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACT-GAAGGTGCC
1 TGCCACCAACTTGTGTGGGCTTTGAAAAG----TG-ATCCTGCTCTTTGAGGACTGGAAAATGCC
* * * *
601468 ACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGGTGCCACCAA
61 ACCAACTTGTGTGGGC-TT---AG-AAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAA
* * *
601532 CTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
121 CTTGTGTGGGCTTT--AAG---AGGTGTCCTGCTCTTT---GAC-G-AGA
601582 TGCCACCAACTTGTGTGGGCTTT-AAAAG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAG
601610 AAAAGGCGTC
Statistics
Matches: 629, Mismatches: 56, Indels: 70
0.83 0.07 0.09
Matches are distributed among these distances:
156 2 0.00
157 133 0.21
158 2 0.00
160 2 0.00
162 1 0.00
165 17 0.03
166 13 0.02
170 1 0.00
171 21 0.03
172 20 0.03
174 24 0.04
175 24 0.04
176 20 0.03
177 42 0.07
178 44 0.07
179 104 0.17
180 82 0.13
181 57 0.09
182 20 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (160 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAGTGATCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
CTTGTGTGGGCTTAGAAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGG
CTTTAAGAGGTGTCCTGCTCTTTGACGAGA
Found at i:601231 original size:59 final size:59
Alignment explanation
Indices: 600880--601623 Score: 962
Period size: 59 Copynumber: 12.7 Consensus size: 59
600870 TCTTTGAGGA
* * **
600880 TGCCACCAACTTGTGTGGGCTTT----GAAAA-GTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAGG
* * *** * **
600935 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTATTCTTTGGGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
* * * *
600990 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTGCTCTTTGGGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
* * *
601045 TGCCACCAACTTGTGTAGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGT-GGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* *
601106 TGCCACCAACTTGGGTGGGTTTTAAAAG-AAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
** *
601164 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAATACGTCCTGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* **
601223 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAGG
*
601283 TGCCACCAACTTGTGTGGGCTTTAAAAAAAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* **
601343 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCAGTCCCACTCTTTGAGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC-GTCCCGCTCTTTGAGGACTG-AAGG
* * * *
601404 TGCCACCAACTTGTGTGCGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
*
601464 TGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
601523 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
601582 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGC
601624 ACATCGAATT
Statistics
Matches: 623, Mismatches: 50, Indels: 28
0.89 0.07 0.04
Matches are distributed among these distances:
54 6 0.01
55 109 0.17
56 4 0.01
57 2 0.00
58 53 0.09
59 226 0.36
60 100 0.16
61 90 0.14
62 33 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (59 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
Found at i:601484 original size:300 final size:297
Alignment explanation
Indices: 600880--601623 Score: 986
Period size: 300 Copynumber: 2.5 Consensus size: 297
600870 TCTTTGAGGA
**
600880 TGCCACCAACTTGTGTGGGCTTT----GAAAAGT-GTCCTGCTCTTTGAGGACTGGAAAATGCCA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-TCGTCCTGCTCTTTGAGGACT-GAAGGTGCCA
* * *** * *
600940 CCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTATTCTTTGGGGACTGAAAAATGCCACCAAC
64 CCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGGAAAATGCCACCAAC
** * * *
601000 TTGTGTGGGC-TT----CGAAAGGGGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTG
129 TTGTGTGGGCTTTAAAAAAAAAGGCGTCCCGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
** ** *
601060 TAGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGG
194 TAGGGCTTTGAAAAGAAAAAGCATCCCACTCTTTGAGGACTGAAAATGCCACCAACTTGGGTGGC
* * *
601125 TTTTAAAAGAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
259 TTTGAAAAGAAAAGCATCCCGCTCTTTGAGGACTGAAGG
601164 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAATACGTCCTGCTCTTTGAGGACTGAAGGTGCCAC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAT-CGTCCTGCTCTTTGAGGACTGAAGGTGCCAC
*
601229 CAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTGGAAAATGCCACCAACT
65 CAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGGAAAATGCCACCAACT
601294 TGTGTGGGCTTTAAAAAAAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTG
130 TGTGTGGGCTTT-AAAAAAAAAGGCGTCCCGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG
* *
601358 T-GGGCTTT-AAAAGAAAAGGCAGTCCCACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTG
194 TAGGGCTTTGAAAAGAAAAAGCA-TCCCACTCTTTGAGGACTG-AAAATGCCACCAACTTGGGTG
*
601421 CGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGG
257 -GCTTTGAAAAG-AAAAGCATCCCGCTCTTTGAGGACTGAAGG
* * *
601464 TGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCAC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-TCGTCCTGCTCTTTGAGGACTGAAGGTGCCAC
**
601529 CAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAGGTGCCACCAACT
65 CAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGGAAAATGCCACCAACT
*
601593 TGTGTGGGCTTTAAAAGAAAAGGCGTCCCGC
130 TGTGTGGGCTTTAAAAAAAAAGGCGTCCCGC
601624 ACATCGAATT
Statistics
Matches: 405, Mismatches: 33, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
284 23 0.06
287 1 0.00
288 28 0.07
289 21 0.05
292 1 0.00
293 44 0.11
294 2 0.00
296 12 0.03
297 24 0.06
298 56 0.14
299 58 0.14
300 135 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (297 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGAAAATCGTCCTGCTCTTTGAGGACTGAAGGTGCCACC
AACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTT
GTGTGGGCTTTAAAAAAAAAGGCGTCCCGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTA
GGGCTTTGAAAAGAAAAAGCATCCCACTCTTTGAGGACTGAAAATGCCACCAACTTGGGTGGCTT
TGAAAAGAAAAGCATCCCGCTCTTTGAGGACTGAAGG
Found at i:601569 original size:359 final size:347
Alignment explanation
Indices: 600704--601623 Score: 1137
Period size: 359 Copynumber: 2.7 Consensus size: 347
600694 GCGTATCCTG
* ** *
600704 CTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTG-AAAG-----GTGTCCTACTC
1 CTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTC
** * * * * * *
600762 TTTGAGGACTGGAAAATGCCACTAACTTGTGCGGGCTTT-----AAAAGGAGTCCTGCTCTTTGG
65 TTTGAGGACT-GAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGA
*
600822 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTGTCCTGCTCTTTGA-G---
129 GGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT
*
600878 G-A--TGCCACCAACTTGTGTGGGCTTT----GAAAAGTG-TCCTGCTCTTTGAGGACTGGAAAA
193 GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG-GCTCCCGCTCTTTGAGGACTGGAAAA
** * * * *
600935 TGCCACCAACTTGTGTGGGCTTCGAAAGGGGTCCTATTCTTTGGGGACTGAAAAATGCCACCAAC
257 TGCCACCAACTTGTGTGGGCTTAAAAAGGCGTCCCACTCTTTGAGGACTGAAAAATGCCACCAAC
* * **
601000 TTGTGTGGGCTTCGAAAGGGGTCCTG
322 TTGTGTGGGCTTAGAAAGGAGTCCCA
* **
601026 CTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTAGGGCTTTGAAAAGAAAAAGCATCCTGCTC
1 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGT-GGGCTTTGAAAAGAAAAAGCATCCTGCTC
*
601091 TTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGTTTTAAAAG-AAAGGCGTCCCGCTCTTTGAG
65 TTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAG
**
601155 GACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATACGTCCTGCTCTTTGAGGACTGA
130 GACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGA
601220 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTGGAAAATG
195 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC-TCCCGCTCTTTGAGGACTGGAAAATG
* **
601285 CCACCAACTTGTGTGGGCTTTAAAAAAAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGGTGCCAC
259 CCACCAACTTGTGTGGGC-TT-----AAAAAGGCGTCCCACTCTTTGAGGACTGAAAAATGCCAC
601349 CAACTTGTGTGGGCTTTAAAAGAAAAGGCAGTCCCA
318 CAACTTGTGTGGGC-TT---AG-AAAGG-AGTCCCA
*
601385 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGCGCTTTGAAAAGAAAAAGCATCCTGCTCT
1 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCT
601450 TTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGG
66 TTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGG
*
601515 ACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAA
131 ACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAA
601580 GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGC
196 GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC-TCCCGC
601624 ACATCGAATT
Statistics
Matches: 512, Mismatches: 42, Indels: 51
0.85 0.07 0.08
Matches are distributed among these distances:
322 27 0.05
323 11 0.02
324 4 0.01
328 22 0.04
329 18 0.04
331 27 0.05
332 23 0.04
333 3 0.01
336 15 0.03
337 1 0.00
340 1 0.00
341 1 0.00
343 23 0.04
346 1 0.00
347 6 0.01
348 43 0.08
349 2 0.00
353 22 0.04
354 23 0.04
357 1 0.00
358 75 0.15
359 163 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (347 bp):
CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCT
TTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGG
ACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAA
GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCTCCCGCTCTTTGAGGACTGGAAAATGCC
ACCAACTTGTGTGGGCTTAAAAAGGCGTCCCACTCTTTGAGGACTGAAAAATGCCACCAACTTGT
GTGGGCTTAGAAAGGAGTCCCA
Found at i:603597 original size:152 final size:155
Alignment explanation
Indices: 603259--603598 Score: 349
Period size: 152 Copynumber: 2.2 Consensus size: 155
603249 TTTTTTGACA
* * * *
603259 TAGTCACTAGGATATTTTTATGCTAAAGGTGTGCATTTAGGATAGGTTTATCATTTTATAATCTT
1 TAGTCACGA-GATACTTTTATGCTAAAGGTGTGCATCTAGGATAGGTTCATCATTTTATAATCTT
* * * * ** * *
603324 TCCATGTCCTTTAAGGTCACTAGGATACTTTCACGTTGAAGGTATATCTTACGTGTATTTTAGTA
65 TCCATGTCCTTTAAGATCACTAGGATACTTTCACATTGAAAGTATACCCAAAGTGCATTTTAGTA
* *
603389 ATTTTTTCTTAAAGCCAAGTCTTATG
130 ATTTTTTCTTAAAGCCAAGTATGATG
** * * *
603415 TAGTCATTAGATGCTTTT-TGCTAAAAGTGTGCATCTAGGATAGGTTCATGC-TTTTATCAT-TT
1 TAGTCACGAGATACTTTTATGCTAAAGGTGTGCATCTAGGATAGGTTCAT-CATTTTATAATCTT
* *
603477 T-CATTTCCTTTAAGATTACTAAGG-TACTTTCACATTGAAAGTATACCCCAAAG-GCATTTTAG
65 TCCATGTCCTTTAAGATCACT-AGGATACTTTCACATTGAAAGTATA-CCCAAAGTGCATTTTAG
*
603539 T-A-TTTTTCTTAGAA-CTAAGTATGATG
128 TAATTTTTTCTTA-AAGCCAAGTATGATG
603565 TAGTCAACGAGATACTTTTATG-TCAAAGGTGTGC
1 TAGTC-ACGAGATACTTTTATGCT-AAAGGTGTGC
603599 TATAGACGCC
Statistics
Matches: 153, Mismatches: 24, Indels: 18
0.78 0.12 0.09
Matches are distributed among these distances:
150 23 0.15
151 14 0.09
152 55 0.36
153 9 0.06
154 36 0.24
155 8 0.05
156 8 0.05
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (155 bp):
TAGTCACGAGATACTTTTATGCTAAAGGTGTGCATCTAGGATAGGTTCATCATTTTATAATCTTT
CCATGTCCTTTAAGATCACTAGGATACTTTCACATTGAAAGTATACCCAAAGTGCATTTTAGTAA
TTTTTTCTTAAAGCCAAGTATGATG
Found at i:603834 original size:20 final size:21
Alignment explanation
Indices: 603809--603849 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
603799 ATCACATTTT
*
603809 TTTCTA-AATATATCGATACA
1 TTTCTAGAATATATCCATACA
*
603829 TTTCTAGAATGTATCCATACA
1 TTTCTAGAATATATCCATACA
603850 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (21 bp):
TTTCTAGAATATATCCATACA
Found at i:603931 original size:19 final size:21
Alignment explanation
Indices: 603886--603939 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
603876 ATTCAACAAT
603886 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACAAATAGTAA
* *
603907 TTGTATCGATACATA-AGT-G
1 TTGTATCGATACAAATAGTAA
603926 TTGTATCGATACAA
1 TTGTATCGATACAA
603940 TGTATCACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (21 bp):
TTGTATCGATACAAATAGTAA
Found at i:604010 original size:13 final size:13
Alignment explanation
Indices: 603992--604016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
603982 TTACTCAATG
603992 TATCGATACATTT
1 TATCGATACATTT
604005 TATCGATACATT
1 TATCGATACATT
604017 GATCTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TATCGATACATTT
Found at i:605200 original size:28 final size:27
Alignment explanation
Indices: 605167--605242 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 27
605157 GGAATAAAGC
*
605167 CGGGGTTGGAGTATCCCCTCGA-AAGTAA
1 CGGGGTTGGAGTAT--CCTCGAGAAATAA
*
605195 CGGGGTTGGAGTGTCCTCGATGAAATAA
1 CGGGGTTGGAGTATCCTCGA-GAAATAA
* *
605223 CGAGGTTGGAGTATACTCGA
1 CGGGGTTGGAGTATCCTCGA
605243 TTGTGAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.15
28 35 0.85
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCTCGAGAAATAA
Found at i:605200 original size:79 final size:80
Alignment explanation
Indices: 605008--605206 Score: 222
Period size: 80 Copynumber: 2.5 Consensus size: 80
604998 GAGATAATAA
* * * * ** * *
605008 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
*
605073 TTAGAAAAAAAAAAT
66 TTAGAAAAAAAAAAC
* *
605088 CGGGATTGGAGTATCCCCTCGAAAATGACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
* ** * *
605152 TTTTG-GGAATAAAGC
66 -TTAGAAAAAAAAAAC
*
605167 CGGGGTTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGT
605207 GTCCTCGATG
Statistics
Matches: 99, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 43 0.43
80 56 0.57
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.24
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
TTAGAAAAAAAAAAC
Found at i:605296 original size:52 final size:51
Alignment explanation
Indices: 605227--605448 Score: 230
Period size: 52 Copynumber: 4.3 Consensus size: 51
605217 AAATAACGAG
* * * * *
605227 GTTGGAGTATACTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGT-GTTTTGGAAATAAAACCGGA
* * * *
605279 GTTGGAGTATCCCCGATTAAAG-GGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT---GTGAAAAATTAGTGTTTTGGAAATAAAACCGGA
* * *
605332 GTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTGGAAATAAAACCGGA
* * * * **
605384 GTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGA
605435 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
605449 TCGGAGATAA
Statistics
Matches: 144, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
50 1 0.01
51 37 0.26
52 61 0.42
53 34 0.24
54 10 0.07
55 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGA
Found at i:605574 original size:27 final size:27
Alignment explanation
Indices: 605512--605589 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
605502 AATAAAGCTG
*
605512 GGGGTTGGAGTATCCCCTTGA-AAATAAC
1 GGGGTTGGAGTATCCCC--GATGAATAAC
*
605540 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
*
605567 GGGGTTGGAGTATCCTCGATGAA
1 GGGGTTGGAGTATCCCCGATGAA
605590 AAATTGATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 2 0.04
27 26 0.58
28 17 0.38
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:608106 original size:19 final size:18
Alignment explanation
Indices: 608082--608181 Score: 103
Period size: 19 Copynumber: 5.9 Consensus size: 18
608072 CAGTAGCTAA
608082 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
608101 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
608116 -T-TGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
608133 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
608148 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
608165 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
608182 TTGTTGAATT
Statistics
Matches: 69, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.32
14 2 0.03
16 4 0.06
18 5 0.07
19 36 0.52
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:608122 original size:13 final size:13
Alignment explanation
Indices: 608104--608160 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
608094 ACAATACTTA
608104 TGTATCGATACAT
1 TGTATCGATACAT
608117 TGTATCGATACAATACTT
1 TGTATCGATAC---A--T
608135 ATGTATCGATACAT
1 -TGTATCGATACAT
608149 TGTATCGATACA
1 TGTATCGATACA
608161 AAACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:608126 original size:32 final size:32
Alignment explanation
Indices: 608085--608179 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
608075 TAGCTAATTA
608085 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
608117 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
*
608149 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAATACTTATGTATCGATACA
608180 AATTGTTGAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (32 bp):
TGTATCGATACAATACTTATGTATCGATACAT
Found at i:608243 original size:21 final size:21
Alignment explanation
Indices: 608217--608293 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
608207 GTTGGGACCC
* *
608217 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
608238 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
608259 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
*
608280 TGTATTGATACATT
1 TGTATCGATACATT
608294 TGAAATTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 3 0.06
21 47 0.94
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:609094 original size:55 final size:54
Alignment explanation
Indices: 608995--609991 Score: 772
Period size: 59 Copynumber: 17.4 Consensus size: 54
608985 ATAAAGCGTA
* * *
608995 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
609050 TCCTACTCTTTGAGGACTGGAAAATGCCACTAACTTGTGCGGGCTTTAAAAGGAG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
609105 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
609160 TCCTGCTCTTTGA-G---G---ATGCCACCAACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
609207 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
** * * *
609262 TCCTATTCTTTGGGGACTGAAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGGG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
609317 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* ** * *
609378 TCCTGCTCTTTAAGGACTGAAGGTGCCACCAACTTGGGTGGGTTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* ** **
609437 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATACG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
** *
609496 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * *
609555 TCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT----GAAAGGCG
* ** *
609614 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
** * *
609673 TCCCACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGCGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* *
609734 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* **
609793 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* **
609852 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTT-TGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * ** *
609910 TCCCGCTCTTTGAGAACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
*
609969 TCCTGCTCTTTGAGGACTAAAAA
1 TCCTGCTCTTTGAGGACTGAAAA
609992 GCGAAGGAGA
Statistics
Matches: 826, Mismatches: 77, Indels: 74
0.85 0.08 0.08
Matches are distributed among these distances:
47 40 0.05
48 3 0.00
51 1 0.00
52 1 0.00
54 11 0.01
55 214 0.26
56 14 0.02
58 87 0.11
59 306 0.37
60 98 0.12
61 39 0.05
64 12 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:609198 original size:47 final size:47
Alignment explanation
Indices: 609129--609222 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
609119 GACTGAAAGG
*
609129 TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AAGTGTCCTGCTCTTTGAGGA
609176 TGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGAGGA
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGAGGA
609223 CTGGAAAATG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 43 0.96
48 2 0.04
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (47 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGAGGA
Found at i:609305 original size:157 final size:160
Alignment explanation
Indices: 609019--609986 Score: 618
Period size: 157 Copynumber: 5.7 Consensus size: 160
609009 GACTAAAAAG
* * * *
609019 TGCCACCAACTCGTGTGGGCTTTGAAAGGTG-TCCTACTCTTTGAGGACTGGAAAATGCCACTAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGTGATCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
*
609083 CTTGTGCGGGCTTTA-AAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGG
66 CTTGTGTGGGC-TTAGAAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGG
609147 GCTTTAAGAGGTGTCCTGCTCTTTGA-G-GA
130 GCTTTAAGAGGTGTCCTGCTCTTTGACGAGA
609176 TGCCACCAACTTGTGTGGGCTTTGAAAAGTG-TCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGTGATCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
* * ** **
609240 CTTGTGTGGGCTTCGAAAGGGGTCCTATTCTTTGGGGACTGAAAAATGCCACCAACTTGTGTGGG
66 CTTGTGTGGGCTTAGAAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGG
* * *
609305 CTTCGAA-AGGGGTCCTGCTCTTTGGGGACTGAAAGG
131 CTT-TAAGAGGTGTCCTGCTCTTT---GAC-G--AGA
* * * **
609341 TGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTAAGGACT-GAAGGTGCC
1 TGCCACCAACTTGTGTGGGCTTTGAAAAG----TG-ATCCTGCTCTTTGAGGACTGGAAAATGCC
* * * * *
609405 ACCAACTTGGGTGGGTTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGGTGCCACCAA
61 ACCAACTTGTGTGGG-CTT---AG-AAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAA
** *
609469 CTTGTGTGGGCTTTAAAAGAAAATACGTCCTGCTCTTTGAGGACTGAAGG
121 CTTGTGTGGGCTTT--AAG-AGGT--GTCCTGCTCTTT---GAC-G-AGA
*
609519 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG-GCATCCCGCTCTTTGAGGACTGGAAAATGCC
1 TGCCACCAACTTGTGTGGGCTTT----GAAAAGTG-ATCCTGCTCTTTGAGGACTGGAAAATGCC
* * * * *
609583 ACCAACTTGTGTGGGCTTTAAAAAAAAAGCGTCCCGCTCTTTGAGGACTG-AAGGTGCCACCAAC
61 ACCAACTTGTGTGGGC-TT---AGAAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAAC
** ** *
609647 TTGTGTGGGCTTTAAAAGAAAAGGCATCCCACTCTTTGAGGACTGAAAAA
122 TTGTGTGGGCTTT--AAG---AGGTGTCCTGCTCTTT---GAC-G--AGA
* * *
609697 TGCCACCAACTTGTGTGCGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACT--AAAGGTGC
1 TGCCACCAACTTGTGTGGGCTTTGAAAAG----TG-ATCCTGCTCTTTGAGGACTGGAAA-ATGC
* * * *
609760 CACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGGTGCCACCA
60 CACCAACTTGTGTGGGC-TT---AG-AAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCA
* * *
609824 ACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
120 ACTTGTGTGGGCTTT--AAG---AGGTGTCCTGCTCTTT---GAC-G-AGA
* * * **
609875 TGCCACCAACTT-TGTGGGCTTTAAAAGAAAAG-GCGTCCCGCTCTTTGAGAACT-GAAGGTGCC
1 TGCCACCAACTTGTGTGGGCTTT----GAAAAGTG-ATCCTGCTCTTTGAGGACTGGAAAATGCC
* *
609937 ACCAACTTGTGTGGGCTTTAAAAGAAAAGACGTCCTGCTCTTTGAGGACT
61 ACCAACTTGTGTGGGC-TT---AGAAAGGA-GTCCTGCTCTTTGGGGACT
609987 AAAAAGCGAA
Statistics
Matches: 692, Mismatches: 70, Indels: 79
0.82 0.08 0.09
Matches are distributed among these distances:
156 2 0.00
157 133 0.19
158 2 0.00
160 2 0.00
162 1 0.00
165 29 0.04
169 1 0.00
170 21 0.03
171 19 0.03
174 31 0.04
175 27 0.04
176 64 0.09
177 108 0.16
178 117 0.17
179 123 0.18
181 6 0.01
182 6 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (160 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAGTGATCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
CTTGTGTGGGCTTAGAAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGG
CTTTAAGAGGTGTCCTGCTCTTTGACGAGA
Found at i:609453 original size:59 final size:59
Alignment explanation
Indices: 609176--609986 Score: 1053
Period size: 59 Copynumber: 13.9 Consensus size: 59
609166 TCTTTGAGGA
* * **
609176 TGCCACCAACTTGTGTGGGCTTT----GAAAA-GTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAGG
* * *** * **
609231 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTATTCTTTGGGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
* * * *
609286 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTGCTCTTTGGGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
* * * * *
609341 TGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTAAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* *
609401 TGCCACCAACTTGGGTGGGTTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
** *
609460 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAATACGTCCTGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* **
609519 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAGG
*
609579 TGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* * **
609637 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCACTCTTTGAGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
* * * * *
609697 TGCCACCAACTTGTGTGCGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAAAGG
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
*
609757 TGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
609816 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
*
609875 TGCCACCAACTT-TGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGAACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* *
609933 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGTCCTGCTCTTTGAGGACT
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT
609987 AAAAAGCGAA
Statistics
Matches: 682, Mismatches: 60, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
54 6 0.01
55 112 0.16
56 2 0.00
58 87 0.13
59 324 0.48
60 102 0.15
61 49 0.07
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (59 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
Found at i:609513 original size:118 final size:117
Alignment explanation
Indices: 608999--609986 Score: 1094
Period size: 118 Copynumber: 8.6 Consensus size: 117
608989 AGCGTATCCT
* * * *** *
608999 GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----GAAAGGTGTCCTACTCTT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAACGTCCTGCTCTT
** * * * *
609060 TGAGGACTGGAAAATGCCACTAACTTGTGCGGGCTTT-----AAAAGGAGTCCT
65 TGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* ***
609109 GCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG--AGGTGTCCTGCTCTT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAACGTCCTGCTCTT
* *
609170 TGA-G---G-A--TGCCACCAACTTGTGTGGGCTTT----GAAAA-GTGTCCT
65 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
** * *** **
609211 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TT---CGAAAGGGGTCCTATTCTT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAACGTCCTGCTCTT
* ** * * *
609272 TGGGGACTGAAAAATGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCT
65 TGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * *
609321 GCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCATCCTGCTC
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAA-CGTCCTGCTC
* * *
609386 TTTAAGGACTGAAGGTGCCACCAACTTGGGTGGGTTTTAAAAGAAAAGGCGTCCC
63 TTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
609441 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATACGTCCTGCTCTT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-ACGTCCTGCTCTT
*
609506 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCC
65 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
** *
609559 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGCGTCCCGCTCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAA-CGTCCTGCTCT
*
609623 TTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCC
64 TTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* ** * *
609677 ACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGCGCTTTGAAAAGAAAAAGCATCCTGCTC
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAA-CGTCCTGCTC
* *
609742 TTTGAGGACTAAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCC
63 TTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
609797 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-ACGTCCTGCTCTT
609862 TGAGGACTGAAGGTGCCACCAACTT-TGTGGGCTTTAAAAGAAAAGGCGTCCC
65 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
609914 GCTCTTTGAGAACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGTCCTGCTCTT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-ACGTCCTGCTCTT
609979 TGAGGACT
65 TGAGGACT
609987 AAAAAGCGAA
Statistics
Matches: 776, Mismatches: 66, Indels: 65
0.86 0.07 0.07
Matches are distributed among these distances:
100 1 0.00
101 2 0.00
102 76 0.10
103 6 0.01
104 1 0.00
105 1 0.00
106 1 0.00
108 1 0.00
109 7 0.01
110 116 0.15
111 2 0.00
112 1 0.00
115 24 0.03
116 17 0.02
117 98 0.13
118 233 0.30
119 86 0.11
120 103 0.13
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (117 bp):
GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAACGTCCTGCTCTTT
GAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
Found at i:609862 original size:356 final size:351
Alignment explanation
Indices: 609097--609991 Score: 1221
Period size: 356 Copynumber: 2.6 Consensus size: 351
609087 TGCGGGCTTT
* * *
609097 AAAAGGAGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AG
1 AAAAGGCGTCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
*
609157 GTGTCCTGCTCTTTGA-G---G-A--TGCCACCAACTTGTGTGGGCTTT----GAAAAGTG-TCC
65 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG-GCTCC
* * * * **
609210 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TT---CGAAAGGGGTCCTATTCT
129 CGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGCGTCCTGCTCT
* * ** ** *
609271 TTGGGGACTGAAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGGGTCCTGCTCTTTGGGGACTG
194 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTAGAAAGGCATCCCACTCTTTGAGGACTG
** *
609336 AAAGGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTAAGGACTGAAGG
259 AAAAATGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTAAGGACTAAAGG
*
609401 TGCCACCAACTTGGGTGGGTTTTAAAAG
324 TGCCACCAACTTGGGTGGGCTTTAAAAG
**
609429 AAAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATA
1 AAAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGG
609494 CGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCC
66 CGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC-TCCC
* *
609559 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGCGTCCCGCTCTT
130 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGCGTCCTGCTCTT
**
609624 TGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCACTCTTTGAGG
195 TGAGGACTGAAAAATGCCACCAACTTGTGTGGGC-TT---AG-AAAGGCATCCCACTCTTTGAGG
*
609688 ACTGAAAAATGCCACCAACTTGTGT-GCGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACT
255 ACTGAAAAATGCCACCAACTTGTGTAG-GCTTTGAAAAGAAAAAGCATCCTGCTCTTTAAGGACT
609752 AAAGGTGCCACCAACTTGGGTGGGCTTTAAAAG
319 AAAGGTGCCACCAACTTGGGTGGGCTTTAAAAG
609785 AAAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGG
1 AAAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGG
*
609850 CGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTT-TGTGGGCTTTAAAAGAAAAGGCGTCCC
66 CGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC-TCCC
* **
609914 GCTCTTTGAGAACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGTCCTGCTCT
130 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG-CGTCCTGCTCT
609978 TTGAGGACT-AAAAA
194 TTGAGGACTGAAAAA
609992 GCGAAGGAGA
Statistics
Matches: 494, Mismatches: 39, Indels: 37
0.87 0.07 0.06
Matches are distributed among these distances:
331 27 0.05
332 24 0.05
333 3 0.01
336 15 0.03
337 1 0.00
340 1 0.00
341 1 0.00
343 23 0.05
346 1 0.00
347 6 0.01
348 43 0.09
349 2 0.00
351 22 0.04
352 22 0.04
354 35 0.07
355 62 0.13
356 206 0.42
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (351 bp):
AAAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGG
CGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCTCCCG
CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGCGTCCTGCTCTTT
GAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTAGAAAGGCATCCCACTCTTTGAGGACTGAA
AAATGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTAAGGACTAAAGGTG
CCACCAACTTGGGTGGGCTTTAAAAG
Found at i:611007 original size:20 final size:20
Alignment explanation
Indices: 610969--611017 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
610959 CTTTTCTCTC
*
610969 TTTTTCTTTGTTTTATTTCT
1 TTTTTTTTTGTTTTATTTCT
610989 TTTTTGTTTTGTTTT-TTTCT
1 TTTTT-TTTTGTTTTATTTCT
611009 TTTTTTTTT
1 TTTTTTTTT
611018 AAGAGAAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.15
20 15 0.56
21 8 0.30
ACGTcount: A:0.02, C:0.06, G:0.06, T:0.86
Consensus pattern (20 bp):
TTTTTTTTTGTTTTATTTCT
Found at i:621524 original size:52 final size:52
Alignment explanation
Indices: 621439--621563 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
621429 ATATGAAAAG
* *
621439 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
621491 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
621543 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
621564 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:621576 original size:52 final size:51
Alignment explanation
Indices: 621439--621583 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
621429 ATATGAAAAG
*
621439 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
621491 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
621543 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
621584 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:621590 original size:13 final size:13
Alignment explanation
Indices: 621572--621596 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
621562 CAAAGATCAG
621572 TGTATCGATACAA
1 TGTATCGATACAA
621585 TGTATCGATACA
1 TGTATCGATACA
621597 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:621680 original size:33 final size:33
Alignment explanation
Indices: 621638--621707 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
621628 GGCAGTAGCT
621638 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
621671 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
621704 TACA
1 TACA
621708 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:621681 original size:13 final size:13
Alignment explanation
Indices: 621663--621687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
621653 CAAAAAAATA
621663 TGTATCGATACAT
1 TGTATCGATACAT
621676 TGTATCGATACA
1 TGTATCGATACA
621688 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:622431 original size:22 final size:22
Alignment explanation
Indices: 622406--622473 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
622396 ATGCTGATTT
622406 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* ** *
622428 AAGGTGCCAG-TGTGCT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
622449 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
622471 AAG
1 AAG
622474 ATGGAAAAGG
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 5 0.16
20 3 0.09
21 6 0.19
22 9 0.28
23 4 0.12
24 5 0.16
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:622445 original size:43 final size:43
Alignment explanation
Indices: 622384--623639 Score: 1342
Period size: 43 Copynumber: 27.2 Consensus size: 43
622374 TAAAGATGGA
* * *
622384 AAAGGTGCCAATATGCTGATTTAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
622427 AAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
622476 GGAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
622522 AAAGAAGAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 --A-AAG--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
622571 AAAGAAGAAGGTTCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 -----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
622620 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT
1 -----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
622669 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
622712 AAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 -AA-A--G-----GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * * * * * * *
622764 AAAGATGCCAATATGTTGATTCACGACCAACGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
622807 AAAGATGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
622850 AAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* *
622899 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * * * * * *
622945 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
622988 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
623031 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
623074 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 -----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
623123 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
623166 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
623215 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* *
623264 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
623310 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* *
623359 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
623405 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
623448 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
623491 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* *
623540 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
623586 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
623629 AAAGGTTGCCA
1 AAAGG-TGCCA
623640 CTGACTTGTG
Statistics
Matches: 1064, Mismatches: 75, Indels: 147
0.83 0.06 0.11
Matches are distributed among these distances:
43 584 0.55
44 14 0.01
45 4 0.00
46 8 0.01
47 2 0.00
48 3 0.00
49 203 0.19
50 2 0.00
51 7 0.01
52 237 0.22
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
Done.