Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold381
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: 1193157
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:628944 original size:51 final size:51
Alignment explanation
Indices: 628879--628998 Score: 204
Period size: 51 Copynumber: 2.4 Consensus size: 51
628869 TGGAAATAAA
* * *
628879 GGGGTTGGGGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
*
628930 GGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
628981 GGGGTTGGAGTATCCCCG
1 GGGGTTGGAGTATCCCCG
628999 CAGAAACAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
Found at i:628971 original size:287 final size:287
Alignment explanation
Indices: 628643--629199 Score: 902
Period size: 287 Copynumber: 1.9 Consensus size: 287
628633 TCGGAAATAA
*
628643 CGGGGTTGGAGTATCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGATTGGAGTATC
1 CGGGGTTGGAGTATCCCGATTATGAAAAATTGAAATTTTAGAAATAAAACCGGGATTGGAGTATC
** * *
628708 CCCTTAGAAATAACGGGGTTGAAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAATC
66 CCCGCAGAAACAACGGGGTTGAAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACC
*
628773 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTAT-CCCGATTATGAAAAATTGAAGTT
131 GGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATTGAAGTT
* * *
628837 TTAGAAATAAAACTGGGGTTGGAGTATCCCCTTGGAAATAAAGGGGTTGGGGTATCCCCGATTAT
196 TTAGAAATAAAACCGGAGTTGGAGTATCCCCTTGGAAATAAAGGGGTTGGAGTATCCCCGATTAT
628902 GAAAAATTGATGTTTTAGAAATAAAAC
261 GAAAAATTGATGTTTTAGAAATAAAAC
* *
628929 CGGGGTTGGAGTATCCCCGATTATGAGAAATT-AATATTTTAGAAATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTAT-CCCGATTATGAAAAATTGAA-ATTTTAGAAATAAAACCGGGATTGGAGTA
* * * *
628993 TCCCCGCAGAAACAATGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAA
64 TCCCCGCAGAAACAACGGGGTTGAAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAA
* *
629058 CCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTTGAGTATCCCCGATTATGAAAAATTGATG
129 CCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATTGAAG
* *
629123 TTTTAGAAATAAAACCGGAGTTTGAGTATCCCCTTGGAAATAATGGGGTTGGAGTATCCCCGATT
194 TTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTTGGAAATAAAGGGGTTGGAGTATCCCCGATT
*
629188 GTGAAAAATTGA
259 ATGAAAAATTGA
629200 GAAACTTAAC
Statistics
Matches: 248, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
286 16 0.06
287 141 0.57
288 91 0.37
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (287 bp):
CGGGGTTGGAGTATCCCGATTATGAAAAATTGAAATTTTAGAAATAAAACCGGGATTGGAGTATC
CCCGCAGAAACAACGGGGTTGAAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACC
GGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATTGAAGTT
TTAGAAATAAAACCGGAGTTGGAGTATCCCCTTGGAAATAAAGGGGTTGGAGTATCCCCGATTAT
GAAAAATTGATGTTTTAGAAATAAAAC
Found at i:628985 original size:130 final size:130
Alignment explanation
Indices: 628800--629076 Score: 432
Period size: 130 Copynumber: 2.1 Consensus size: 130
628790 TCGGAAATAA
* * *
628800 CGGGGTTAGAGTAT-CCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAATTTTAGAAATAAAACCGGGGTTGGAGTAT
*** * *
628864 CCCCTTGGAAATAAAGGGGTTGGGGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
66 CCCCGCAGAAACAAAGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
*
628929 CGGGGTTGGAGTATCCCCGATTATGAGAAATT-AATATTTTAGAAATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGAA-ATTTTAGAAATAAAACCGGGGTTGGAGTA
* *
628993 TCCCCGCAGAAACAATGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAA
65 TCCCCGCAGAAACAAAGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA
629058 C
130 C
629059 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
629077 TCGGAAATAA
Statistics
Matches: 135, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
129 15 0.11
130 120 0.89
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAATTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCGCAGAAACAAAGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:629013 original size:79 final size:79
Alignment explanation
Indices: 628930--629199 Score: 414
Period size: 79 Copynumber: 3.4 Consensus size: 79
628920 AAATAAAACC
* * *
628930 GGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
* * *
628995 CCCGCAGAAACAAT
66 CCCTCGGAAATAAT
*
629009 GGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
*
629074 CCCTCGGAAATAAC
66 CCCTCGGAAATAAT
* * * *
629088 AGGGTTTGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGAGTTTGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
*
629153 CCCTTGGAAATAAT
66 CCCTCGGAAATAAT
*
629167 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGA
629200 GAAACTTAAC
Statistics
Matches: 173, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 173 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCTCGGAAATAAT
Found at i:629104 original size:209 final size:208
Alignment explanation
Indices: 628721--629155 Score: 685
Period size: 209 Copynumber: 2.1 Consensus size: 208
628711 TTAGAAATAA
* * *
628721 CGGGGTTGAAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAATTTTAGAAATAAAACCGGGGTTGGAGTAT
* * * *
628786 CCCCTCGGAAATAACGGGGTTAGAGTATCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACT
66 CCCCGCAGAAACAACGGGGTTAGAGTATCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACC
* *
628851 GGGGTTGGAGTATCCCCTTGGAAATAAAGGGGTTGGGGTATCCCCGATTATGAAAAATTGATGTT
131 GGGGTTGGAGTATCCCCTCGGAAATAAAGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
628916 TTAGAAATAAAAC
196 TTAGAAATAAAAC
*
628929 CGGGGTTGGAGTATCCCCGATTATGAGAAATT-AATATTTTAGAAATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGAA-ATTTTAGAAATAAAACCGGGGTTGGAGTA
* * *
628993 TCCCCGCAGAAACAATGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAA
65 TCCCCGCAGAAACAACGGGGTTAGAGTATCCC-GATTATGAAAAATTGAAGTTTTAGAAATAAAA
*
629058 CCGGGGTTGGAGTATCCCCTCGGAAATAACA-GGGTTTGAGTATCCCCGATTATGAAAAATTGAT
129 CCGGGGTTGGAGTATCCCCTCGGAAATAA-AGGGGTTGGAGTATCCCCGATTATGAAAAATTGAT
629122 GTTTTAGAAATAAAAC
193 GTTTTAGAAATAAAAC
* *
629138 CGGAGTTTGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
629156 TTGGAAATAA
Statistics
Matches: 208, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
207 2 0.01
208 84 0.40
209 121 0.58
210 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (208 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAATTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCGCAGAAACAACGGGGTTAGAGTATCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACC
GGGGTTGGAGTATCCCCTCGGAAATAAAGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
TTAGAAATAAAAC
Found at i:630480 original size:35 final size:35
Alignment explanation
Indices: 630401--630606 Score: 380
Period size: 35 Copynumber: 5.9 Consensus size: 35
630391 TTTCATTTTT
630401 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
* *
630435 ATGCCCATCATTCCATGCCTTAATTTTTATATTTC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
630470 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
630505 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
630540 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
630575 ATGCCCATCATTCCATGCCTTCATTTTT-TATT
1 ATGCCCATCATTCCATGCCTTCATTTTTATATT
630607 ATTATTTTTT
Statistics
Matches: 167, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
34 31 0.19
35 136 0.81
ACGTcount: A:0.20, C:0.30, G:0.06, T:0.44
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:630648 original size:6 final size:6
Alignment explanation
Indices: 630614--630641 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
630604 ATTATTATTT
630614 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
630642 TGATTTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:631116 original size:40 final size:41
Alignment explanation
Indices: 631070--631173 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 41
631060 TCCCACTTTT
* *
631070 TTGAGGACAAAGAAAAAGAGGATGAA-ATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAAGAGGA-AAAGAAAGTGTCCTGCTCC
* * *
631110 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAGAGGAAAA-GAAAGTGTCCTGCTCC
631152 TTGAGGACAAAGTGAAAAAGAG
1 TTGAGGACAAA--GAAAAAGAG
631174 TACGTCTCGT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.04
40 20 0.38
41 3 0.06
42 20 0.38
44 7 0.13
ACGTcount: A:0.43, C:0.12, G:0.29, T:0.16
Consensus pattern (41 bp):
TTGAGGACAAAGAAAAAGAGGAAAAGAAAGTGTCCTGCTCC
Found at i:631453 original size:122 final size:115
Alignment explanation
Indices: 631307--631530 Score: 295
Period size: 122 Copynumber: 1.9 Consensus size: 115
631297 AAGAAGTGTG
* *
631307 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGGTCTTTGGAAAGAAAAGGCGTCCT
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGGGCTTT------AAAAGGCGTCCT
*
631372 GCACTTTGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
60 GCACTTTGAGGACT-AAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
** * *
631429 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAATGGCGTCCTGCTCTT
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGGGCTTTAAAAGGCGTCCTGCACTT
* * *
631494 TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTG
66 TGAGGACTAAAGATGCCACCAACTAGTGTGGGATTTG
631531 AAAGGCATCC
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
115 25 0.27
116 24 0.26
122 43 0.47
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (115 bp):
TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGGGCTTTAAAAGGCGTCCTGCACTT
TGAGGACTAAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
Found at i:631518 original size:54 final size:56
Alignment explanation
Indices: 631306--631560 Score: 266
Period size: 61 Copynumber: 4.4 Consensus size: 56
631296 AAAGAAGTGT
* ** *
631306 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGGTCTTTGGAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAAGGC
* * * * *
631367 GTCCTGCACTTTGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAAAG---GC
* * * *
631428 ATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAATGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGC
631483 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGC
*
631537 ATCCTGCTCTTTGAGGACT-AAAGG
1 GTCCTGCTCTTTGAGGACTGAAAGG
631561 GTGAAAAGAG
Statistics
Matches: 166, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
54 55 0.33
55 19 0.11
56 1 0.01
58 9 0.05
61 82 0.49
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (56 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGC
Found at i:631770 original size:54 final size:54
Alignment explanation
Indices: 631579--631823 Score: 330
Period size: 54 Copynumber: 4.4 Consensus size: 54
631569 AGAGAGTGTT
* *
631579 CTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTC
1 CTGCTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
* *
631634 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTGAAAAAAGAAAGCATC
1 CTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTG---AAAG---GCGTC
* * *
631695 CTGCTCTTTGAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
*
631749 CTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
1 CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
631803 CTGCTCTTTGAGGACTAAAGG
1 CTGCTCTTTGAGGACTAAAGG
631824 GTGAAAGGAG
Statistics
Matches: 168, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
54 75 0.45
55 39 0.23
56 1 0.01
57 4 0.02
58 4 0.02
60 26 0.15
61 19 0.11
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (54 bp):
CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
Found at i:631881 original size:94 final size:94
Alignment explanation
Indices: 631746--631918 Score: 287
Period size: 94 Copynumber: 1.8 Consensus size: 94
631736 TTTGAAAGGT
* *
631746 GTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 GTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTT
631811 TGAGGACT-AAAGGGTGAAAGGAGAGAGC
66 TGAGGACTGAAAGGGTGAAAGGAGAGAGC
*
631839 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTC
1 GTCCTACTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTC
631903 TTTGAGGACTGAAAGG
64 TTTGAGGACTGAAAGG
631919 TGCCACCAAC
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
93 19 0.26
94 48 0.65
95 7 0.09
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.26
Consensus pattern (94 bp):
GTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTT
TGAGGACTGAAAGGGTGAAAGGAGAGAGC
Found at i:631904 original size:55 final size:55
Alignment explanation
Indices: 631839--631949 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
631829 AGGAGAGAGC
*
631839 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
631894 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
631949 G
1 G
631950 AAGGCGTCCT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 3 0.06
55 51 0.94
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:631999 original size:155 final size:149
Alignment explanation
Indices: 631689--632127 Score: 688
Period size: 155 Copynumber: 2.9 Consensus size: 149
631679 GAAAAAAGAA
* * * *
631689 AGCATCCTGCTCTTTGAGGACT--GAAGGTGCTACCAACTTGTGTGGGCTTTGAAAGGTGTCCTA
1 AGCATCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTG
631752 CTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
65 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
*
631816 ACTAAAGGGTGAAAGGAGAG
130 ACTAAAGGATGAAAGGAGAG
*
631836 AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 AGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
631901 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTT
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTT
*
631966 TGAGGACTAAAGGATGAAGGGAGAG
125 TGAGGACTAAAGGATGAAAGGAGAG
* *
631991 AGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAATTTGTGTGGGCTTTTAAAGGAGTCCTGC
1 AGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
*
632056 TCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGA
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
632120 CTGAAAGG
131 CT-AAAGG
632128 TGCCACCAAC
Statistics
Matches: 271, Mismatches: 11, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
147 21 0.08
148 69 0.25
149 38 0.14
154 29 0.11
155 114 0.42
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (149 bp):
AGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
CTAAAGGATGAAAGGAGAG
Found at i:632149 original size:55 final size:55
Alignment explanation
Indices: 631995--632643 Score: 793
Period size: 55 Copynumber: 11.4 Consensus size: 55
631985 GGAGAGAGCA
* * * *
631995 TCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAATTTGTGTGGGCTTTTAAAGGAG
1 TCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
632050 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
632104 TCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAACAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
*
632165 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
632220 TCCTGTTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGAG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
*
632281 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
632336 TCCTGCTCTTTGAGGGCTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
** *
632391 TCCTGCTCTTTGAGGACTGAATGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* *
632452 TCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
632507 ACCTGCTCTTTGAGGATTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* **
632562 TCTTGCTCTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
632623 TCCTGCTCTTTGAGGACTGAA
1 TCCTGCTCTTTGAGGACTGAA
632644 GGGCTAAAAG
Statistics
Matches: 520, Mismatches: 44, Indels: 54
0.84 0.07 0.09
Matches are distributed among these distances:
54 51 0.10
55 276 0.53
56 13 0.03
60 7 0.01
61 173 0.33
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:632223 original size:116 final size:113
Alignment explanation
Indices: 631995--632643 Score: 810
Period size: 116 Copynumber: 5.7 Consensus size: 113
631985 GGAGAGAGCA
* *
631995 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAATTTGTGTGGGCTTTTAAAGG---A--GTCCTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGC-TTTAAAGGAAAAGGGTCCTG
*
632055 CTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
64 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
632104 TCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAACAGGAAAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGAAAAGG-GTCCT
*
632169 ACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
63 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
632220 TCCTGTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGAGTCCT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAGG-GTCCT
*
632285 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
63 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
632336 TCCTGCTCTTTGAGGGCTGAAAAATGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTCCTG
1 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGG-GTCCTG
** *
632396 CTCTTTGAGGACTGAATGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCG
64 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* *
632452 TCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG-CAA----CCTG
1 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAGGGTCCTG
* *
632512 CTCTTTGAGGATTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCG
64 CTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
632562 TCTTGCTCTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAA-AGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAGG-GTCCT
632627 GCTCTTTGAGGACTGAA
63 GCTCTTTGAGGACTGAA
632644 GGGCTAAAAG
Statistics
Matches: 475, Mismatches: 33, Indels: 58
0.84 0.06 0.10
Matches are distributed among these distances:
108 8 0.02
109 42 0.09
110 104 0.22
111 2 0.00
112 1 0.00
115 24 0.05
116 283 0.60
117 9 0.02
121 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (113 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGGTCCTGCT
CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:632366 original size:171 final size:171
Alignment explanation
Indices: 631992--632643 Score: 962
Period size: 171 Copynumber: 3.8 Consensus size: 171
631982 AAGGGAGAGA
* * * * *
631992 GCATCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAATTTGTGTGGGCTTTTAAAGGAGTCCTGC
1 GCATCCTGCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
632056 TCTTTGAGGACTGAA-GGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTT
65 TCTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
* *
632114 TGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAACAGGAAAAG
130 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
** * * * *
632162 GTGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGTT
1 GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
** *
632227 CTTTGAGGACTGGAA-AATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGAGTCCTGCTCTT
66 CTTTGAGGACT-GAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
632291 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
130 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
632333 GCATCCTGCTCTTTGAGGGCTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
632398 CTTTGAGGACTGAATGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
66 CTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
*
632463 AAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
131 GAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
632504 GCAACCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCT
1 GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
632569 CTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
66 CTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
632634 GAGGACTGAA
131 GAGGACTGAA
632644 GGGCTAAAAG
Statistics
Matches: 441, Mismatches: 32, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
170 69 0.16
171 319 0.72
172 1 0.00
176 1 0.00
177 51 0.12
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (171 bp):
GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
GAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:639085 original size:78 final size:79
Alignment explanation
Indices: 638785--639606 Score: 1212
Period size: 79 Copynumber: 10.4 Consensus size: 79
638775 AAAATAAAAT
* * * ** *
638785 CGGGGTTAGAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGGGTCGAGGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAAATTGATGTTTTAGAAATAA-AATCGGGGTTGGAGT
638850 ATCCCCGT-GAAAATAA
64 ATCCCC-TCGAAAATAA
* * *
638866 CGGGGTTGGAGTATCCCCGATTGTGAGAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
* *
638931 CCACTCAAAAATAA
66 CCCCTCGAAAATAA
*
638945 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTT-GAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
*
639009 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* *
639023 CGGGGTTGGAGTAT-CCCGATTATGAAAAATTGAAGTTTTAGAAATAAAATCGGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
*
639087 CCCCT-TAGAAATAA
66 CCCCTCGA-AAATAA
*
639101 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
*
639166 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* *
639180 CGGGGTTGGAGTAT-CCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
639244 CCCCTC-AGAAATAA
66 CCCCTCGA-AAATAA
* *
639258 C-GGGTTGGGGTATCCCCGATTATAAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
639322 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * * * *
639336 CGGGGATGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
*
639401 -CCCTGCGAAAACAA
66 CCCCT-CGAAAATAA
* *
639415 CGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
639480 CCCCTC-AGAAATAA
66 CCCCTCGA-AAATAA
* **
639494 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAAGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
639559 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
639573 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
639607 GAAACTTAAG
Statistics
Matches: 679, Mismatches: 49, Indels: 28
0.90 0.06 0.04
Matches are distributed among these distances:
77 52 0.08
78 189 0.28
79 390 0.57
80 26 0.04
81 22 0.03
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:639257 original size:235 final size:236
Alignment explanation
Indices: 638785--639606 Score: 1230
Period size: 235 Copynumber: 3.5 Consensus size: 236
638775 AAAATAAAAT
* * **
638785 CGGGGTTAGAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGGGTCGAGG-TTGGAG
1 CGGGGTTGGAGTATCCCCGATTAT-AAAAAATTGATGTTTTAGAAATAA-AATCG-GGATTGGAG
* * *
638849 TATCCCCGT-GAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATTGATGTTTTAGAAATA
63 TATCCCC-TCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATA
* * * *
638913 AAATCGGGGTTAGAGTATCCACTCAAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTG
127 AAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT-CCCGATTATGAAAAATTG
* *
638978 ATGTTTTAGAAATAAAATCGGGGTT-GAGTATCCCCTCGGAAATAA
191 ATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAA
* *
639023 CGGGGTTGGAGTAT-CCCGATTATGAAAAATTGAAGTTTTAGAAATAAAATCGGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTTTTAGAAATAAAATCGGGATTGGAGTAT
*
639087 CCCCT-TAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAA
66 CCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAA
* *
639151 TCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCGATTATGAAAAATTGAAGT
130 TCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCGATTATGAAAAATTGATGT
639216 TTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAA
195 TTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAA
* *
639258 C-GGGTTGGGGTATCCCCGATTATAAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTTTTAGAAATAAAATCGGGATTGGAGTAT
* * *
639322 CCCCTCGAAAATAACGGGGATGGAGTATCCCCGATTATGAGAAATT-AATATTTTAGAAATAAAA
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAA-GTTTTAGAAATAAAA
* *
639386 CCGGGGTTGGAGTAT-CCCTGCGAAAACAACGGGGTTGGAGTATCCCTGATTATGAAAAATTGAT
130 TCGGGGTTGGAGTATCCCCT-CGAAAATAACGGGGTTGGAGTATCCC-GATTATGAAAAATTGAT
639450 GTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAA
193 GTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAA
* * *
639494 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA-CCGAAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTTTTAGAAATAAAATCGGGA-TTGGAGTA
*
639558 TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
65 TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
639607 GAAACTTAAG
Statistics
Matches: 535, Mismatches: 38, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
234 62 0.12
235 267 0.50
236 85 0.16
237 107 0.20
238 14 0.03
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (236 bp):
CGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTTTTAGAAATAAAATCGGGATTGGAGTAT
CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAAT
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCGATTATGAAAAATTGATGTT
TTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAA
Found at i:640825 original size:28 final size:28
Alignment explanation
Indices: 640793--640943 Score: 104
Period size: 35 Copynumber: 4.7 Consensus size: 28
640783 CTCATTTTCG
*
640793 TCCATGCTTTCATTTTTATGCCCATCAT
1 TCCATGCCTTCATTTTTATGCCCATCAT
640821 TCCATGCCTTCATTTTTTATTCCATGCCCATCAT
1 TCCATGCCTTCA---TTT-TT--ATGCCCATCAT
*
640855 TCCATGCCTTCATTTTTATATTCCATCCCCATCAT
1 TCCATGCCTTCA---TT-T-TT--ATGCCCATCAT
640890 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCA---TT-T-TT--ATGCCCATCAT
640925 TCCATGCCTTCATTTTTAT
1 TCCATGCCTTCATTTTTAT
640944 ATTCCATGCC
Statistics
Matches: 113, Mismatches: 3, Indels: 14
0.87 0.02 0.11
Matches are distributed among these distances:
28 13 0.12
30 2 0.02
31 4 0.04
32 4 0.04
34 28 0.25
35 62 0.55
ACGTcount: A:0.19, C:0.31, G:0.05, T:0.45
Consensus pattern (28 bp):
TCCATGCCTTCATTTTTATGCCCATCAT
Found at i:640886 original size:35 final size:35
Alignment explanation
Indices: 640810--640980 Score: 310
Period size: 35 Copynumber: 4.9 Consensus size: 35
640800 TTTCATTTTT
640810 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
640844 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
640879 ATCCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
640914 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
640949 ATGCCCATCATTCCATGTCTTCATTTTT-TATT
1 ATGCCCATCATTCCATGCCTTCATTTTTATATT
640981 ATTATTTTTT
Statistics
Matches: 133, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
34 32 0.24
35 101 0.76
ACGTcount: A:0.19, C:0.31, G:0.05, T:0.44
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:645275 original size:52 final size:52
Alignment explanation
Indices: 645190--645314 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
645180 ATATGAAAAG
* *
645190 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
* *
645242 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATTTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
645294 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
645315 AAGATCAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:645325 original size:52 final size:52
Alignment explanation
Indices: 645190--645334 Score: 195
Period size: 52 Copynumber: 2.8 Consensus size: 52
645180 ATATGAAAAG
* * *
645190 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAAT
*** *
645242 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATTTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
645294 TTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATACA
645335 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 4 0.05
52 80 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
Found at i:645338 original size:13 final size:13
Alignment explanation
Indices: 645320--645347 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
645310 ATACAAAGAT
645320 CAATGTATCGATA
1 CAATGTATCGATA
645333 CAATGTATCGATA
1 CAATGTATCGATA
645346 CA
1 CA
645348 TTTGAGTAAT
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:645425 original size:33 final size:33
Alignment explanation
Indices: 645388--645454 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
645378 AGTAGCTTAA
645388 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
645421 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
645454 A
1 A
645455 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:645428 original size:13 final size:13
Alignment explanation
Indices: 645410--645434 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
645400 CAAAAAAATA
645410 TGTATCGATACAT
1 TGTATCGATACAT
645423 TGTATCGATACA
1 TGTATCGATACA
645435 ACACTTTATG
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:646370 original size:67 final size:68
Alignment explanation
Indices: 646248--646374 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
646238 ATTGGGTTTT
* * *
646248 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
646313 AGA
66 AGA
* * * *
646316 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
646375 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:646596 original size:49 final size:49
Alignment explanation
Indices: 646378--646945 Score: 688
Period size: 49 Copynumber: 11.9 Consensus size: 49
646368 AAGATGAGAA
* *
646378 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
646428 GAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * *
646474 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACACTAGACTTAAAGGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
*
646523 -GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * *
646571 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * *
646620 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * *
646669 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTATATTGGACTT--A-AT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
*
646715 ---GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * *
646761 AAATGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT--A-AT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
*
646807 ---GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
646853 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGTCTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * *
646902 AAAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
646946 GAAGGGTTGC
Statistics
Matches: 450, Mismatches: 46, Indels: 42
0.84 0.09 0.08
Matches are distributed among these distances:
43 110 0.24
44 1 0.00
45 2 0.00
46 8 0.02
47 1 0.00
48 43 0.10
49 247 0.55
51 1 0.00
52 32 0.07
53 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
Found at i:646756 original size:141 final size:142
Alignment explanation
Indices: 646387--646945 Score: 712
Period size: 141 Copynumber: 3.9 Consensus size: 142
646377 AAAAGGATGT
* * *
646387 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT-AAGAT-----AGGTGCCAATATGCTGAGT
* * * * *
646452 CAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACACT
60 CAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
*
646511 AGACTTAAAGGTGAGGTGC
125 GGACTT-AAGGTGAGGTGC
* *
646530 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT-AAGAT--AGGTGCCAATATGCTGAGTCAA
*
646595 GGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
63 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
646660 CTTAATGGTGAAGGTGC
128 CTTAA-GGTG-AGGTGC
* *
646677 CAATGTGCTGAGTCAAGGCCAGCTATATTGGACTT-A-AT-GGTGCCAATGTGCTGAGTCAAGGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAGATAGGTGCCAATATGCTGAGTCAAGGC
* *
646739 CAGCTACATTGGACTTAAAGATAAATGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT
66 CAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
646804 AA--T--GGTGC
131 AAGGTGAGGTGC
*
646812 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT-AAGAT--AGGTGCCAATATGCTGAGTCAA
* * *
646877 GGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGG
63 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
646942 CTTA
128 CTTA
646946 GAAGGGTTGC
Statistics
Matches: 378, Mismatches: 24, Indels: 30
0.88 0.06 0.07
Matches are distributed among these distances:
135 39 0.10
137 1 0.00
138 3 0.01
140 36 0.10
141 172 0.46
143 40 0.11
144 2 0.01
145 3 0.01
146 43 0.11
147 39 0.10
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (142 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAGATAGGTGCCAATATGCTGAGTCAAGGC
CAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
AAGGTGAGGTGC
Found at i:646769 original size:92 final size:93
Alignment explanation
Indices: 646433--646945 Score: 601
Period size: 92 Copynumber: 5.5 Consensus size: 93
646423 AAGATGAAAA
* * *
646433 AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCTAATGTGCTG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTG
* *
646492 ATTCAAGGCCAGCTACACTAGACTTAAAGGT
66 ATTCAAGGCCAGCTACATTGGACTT-AA--T
*
646523 GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCT
* *
646588 GAGTCAAGGCCAGCTACATTGGTCTTAAAGAT
65 GATTCAAGGCCAGCTACATTGGACTT--A-AT
* * * * *
646620 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
* *
646685 TGAGTCAAGGCCAGCTATATTGGACTTAAT
64 TGATTCAAGGCCAGCTACATTGGACTTAAT
* * *
646715 -GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAATGTGCCAATATGCTG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTG
* *
646779 ATTCAAGGCTAGCTATATTGGACTTAAT
66 ATTCAAGGCCAGCTACATTGGACTTAAT
* *
646807 -GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTG
*
646871 ATTCAAGGCCAGCTACATTGGTCTTAAAGAT
66 ATTCAAGGCCAGCTACATTGGACTT--A-AT
* * * *
646902 AAAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
646946 GAAGGGTTGC
Statistics
Matches: 373, Mismatches: 34, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
91 37 0.10
92 168 0.45
94 1 0.00
95 4 0.01
96 1 0.00
97 39 0.10
98 122 0.33
99 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (93 bp):
AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTG
ATTCAAGGCCAGCTACATTGGACTTAAT
Found at i:647047 original size:33 final size:33
Alignment explanation
Indices: 646938--647056 Score: 167
Period size: 33 Copynumber: 3.7 Consensus size: 33
646928 CCAGCTATAT
646938 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
646968 TGGGCTTTAG-AGAGTGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGA-AGGTTGCCACCGACTTGTG
* *
647001 TGAGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
647034 TGGGCTTTAGAAGAAGG-TGCCAC
1 TGGGCTTTAGAAGAAGGTTGCCAC
647057 GGAGTCGTGG
Statistics
Matches: 79, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
30 7 0.09
31 4 0.05
32 6 0.08
33 59 0.75
34 3 0.04
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.27
Consensus pattern (33 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:647150 original size:27 final size:27
Alignment explanation
Indices: 647119--647252 Score: 142
Period size: 27 Copynumber: 4.6 Consensus size: 27
647109 AGGAAAAAGA
*
647119 TGCCACGGAGTTGTGGGCTTAAAATGG
1 TGCCACGGAGTTGTGGGCTTAAAAGGG
*
647146 TGCCACGGAGTTGTGGGCTTAAACGGG
1 TGCCACGGAGTTGTGGGCTTAAAAGGG
647173 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAGAG
1 TGCCACGGAGTTGTGGGCTTAAAA-G----G-G
* *
647206 TGCCACGTAGTTGTGAGCTTTGAAAAGGAGG
1 TGCCACGGAGTTGTGGGC-TT-AAAA-G-GG
647237 TGCCACGGAGTTGTGG
1 TGCCACGGAGTTGTGG
647253 ACTTTGAAAG
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
27 48 0.52
28 1 0.01
31 15 0.16
32 3 0.03
33 17 0.18
34 2 0.02
35 6 0.07
ACGTcount: A:0.24, C:0.15, G:0.38, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGGCTTAAAAGGG
Found at i:647218 original size:33 final size:32
Alignment explanation
Indices: 647047--647285 Score: 200
Period size: 33 Copynumber: 7.6 Consensus size: 32
647037 GCTTTAGAAG
* *
647047 AAGGTGCCACGGAGTCGTGGACTTAAAAGGAA
1 AAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
647079 AAGAGTGCCACGTG-GTTGTGGGCTTTAAAAAGGAAA
1 AAG-GTGCCACG-GAGTTGTGGGC-TT-AAAAGG-AA
*
647115 AAGATGCCACGGAGTTGTGGGCTT---A--AA
1 AAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
647142 ATGGTGCCACGGAGTTGTGGGCTT-AAACG--
1 AAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
647171 --GGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1 AAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
647201 AAGAGTGCCACGTAGTTGTGAGCTTTGAAAAGG--
1 AAG-GTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
647234 -AGGTGCCACGGAGTTGTGGACTTTGAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
647266 AAGGTGCCACGGAGTCGTGG
1 AAGGTGCCACGGAGTTGTGG
647286 ACTTTGATGC
Statistics
Matches: 172, Mismatches: 14, Indels: 41
0.76 0.06 0.18
Matches are distributed among these distances:
27 46 0.27
28 4 0.02
29 1 0.01
30 5 0.03
31 19 0.11
32 6 0.03
33 50 0.29
34 8 0.05
35 28 0.16
36 5 0.03
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (32 bp):
AAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:647291 original size:64 final size:62
Alignment explanation
Indices: 647049--647292 Score: 186
Period size: 64 Copynumber: 3.9 Consensus size: 62
647039 TTTAGAAGAA
* * * *
647049 GGTGCCACGGAGTCGTGGACTTAAAAGGAAAAGAGTGCCACGTG-GTTGTGGGCTTT-AAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGAAAAAG-GTGCCACG-GAGTTGTGGACTTTGAAAACG
* * *
647111 GAAAAAGATGCCACGGAGTTGTGGGCTT-----AAAATGGTGCCACGGAGTTGTGGGC-TT--AA
1 G-----G-TGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA
647168 ACG
60 ACG
* * * *
647171 GGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGAGTGCCACGTAGTTGT-GAGCTTTGAAAAGG
1 GGTGCCACGGAGTTGTGGACTTAAAAGAAAAAG-GTGCCACGGAGTTGTGGA-CTTTGAAAACG
* *
647234 AGGTGCCACGGAGTTGTGGACTTTGAAAGAAAAAGGTGCCACGGAGTCGTGGACTTTGA
1 -GGTGCCACGGAGTTGTGGAC-TTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGA
647293 TGCCACTGAG
Statistics
Matches: 147, Mismatches: 15, Indels: 38
0.74 0.08 0.19
Matches are distributed among these distances:
54 20 0.14
55 1 0.01
59 5 0.03
60 20 0.14
61 5 0.03
62 18 0.12
63 8 0.05
64 38 0.26
65 13 0.09
67 1 0.01
68 18 0.12
ACGTcount: A:0.28, C:0.14, G:0.36, T:0.22
Consensus pattern (62 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAACG
Found at i:647387 original size:31 final size:31
Alignment explanation
Indices: 647292--647526 Score: 223
Period size: 31 Copynumber: 7.7 Consensus size: 31
647282 GTGGACTTTG
** *
647292 ATGCCACTGAGTTATGGAC-TTGA-AAG-GG
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * * * * *
647320 ATGCCACTGAATTGCGGACTTTTAGGACAAA
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
*
647351 ATGCCACTGAGTCGTGGGCTTTGAGAAGAGA
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
647382 TTGCCACTGAGTCGTGGACTTT-AGGACGA-A
1 ATGCCACTGAGTCGTGGACTTTGA-GAAGAGA
* * * *
647412 ATGCCACTGATTCGTGGGCTTTGAAGAAAAGG
1 ATGCCACTGAGTCGTGGACTTTG-AGAAGAGA
*
647444 ATGCCACTAAGTCGTGGACTTTGAGACA-A-A
1 ATGCCACTGAGTCGTGGACTTTGAGA-AGAGA
647474 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
*
647505 TTGCCACTGAGTCGTGGACTTT
1 ATGCCACTGAGTCGTGGACTTT
647527 AAAAAGGTAT
Statistics
Matches: 166, Mismatches: 31, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
28 16 0.10
29 4 0.02
30 48 0.29
31 76 0.46
32 22 0.13
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (31 bp):
ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:647401 original size:62 final size:61
Alignment explanation
Indices: 647292--647526 Score: 289
Period size: 62 Copynumber: 3.9 Consensus size: 61
647282 GTGGACTTTG
** * * * *
647292 ATGCCACTGAGTTATGGAC-TTGA-AAGGGATGCCACTGAATTGCGGACTTTTAGGACAAA
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTTAGGACAAA
* *
647351 ATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAGTCGTGGAC-TTTAGGACGAA
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA-TGCCACTGAGTCGTGGACTTTTAGGACAAA
* * * * *
647412 ATGCCACTGATTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGA-GACAAA
1 ATGCCACTGAGTCGTGGACTTTG-AGAAGA-GATGCCACTGAGTCGTGGACTTTTAGGACAAA
647474 ATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA-TGCCACTGAGTCGTGGACTTT
647527 AAAAAGGTAT
Statistics
Matches: 152, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
59 16 0.11
60 6 0.04
61 62 0.41
62 63 0.41
63 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (61 bp):
ATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTTAGGACAAA
Found at i:655727 original size:52 final size:52
Alignment explanation
Indices: 655647--655766 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 52
655637 AAAAGTTGCT
* *
655647 TGCATGTATCGATATATTTAATAGTGTATCGATACATCTGGGCAAATTTACC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTACC
* *
655699 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTACC
*
655751 TACATGTATCGATACA
1 TGCATGTATCGATACA
655767 AAGATCAATG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTACC
Found at i:655777 original size:52 final size:52
Alignment explanation
Indices: 655649--655786 Score: 172
Period size: 52 Copynumber: 2.7 Consensus size: 52
655639 AAGTTGCTTG
* * * *
655649 CATGTATCGATATATTTA-ATAGTGTATCGATACATCTGGGCAAATTTACCTG
1 CATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAATTTACCTA
*** *
655701 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTACCTA
655753 CATGTATCGATACA-AAGATCAATGTATCGATACA
1 CATGTATCGATACATAAGAT-AATGTATCGATACA
655787 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
51 4 0.05
52 72 0.95
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (52 bp):
CATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTACCTA
Found at i:655790 original size:13 final size:13
Alignment explanation
Indices: 655772--655799 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
655762 ATACAAAGAT
655772 CAATGTATCGATA
1 CAATGTATCGATA
655785 CAATGTATCGATA
1 CAATGTATCGATA
655798 CA
1 CA
655800 TTTGAGTAAT
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:656561 original size:19 final size:19
Alignment explanation
Indices: 656539--656596 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
656529 AAGTAAACAC
656539 AAAAAAACAACACAAAAAA
1 AAAAAAACAACACAAAAAA
656558 AAAACAAACAA-ACAAAAAA
1 AAAA-AAACAACACAAAAAA
656577 ACAAAAAAC-ACACAAAAAA
1 A-AAAAAACAACACAAAAAA
656596 A
1 A
656597 TTGCAAAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.03
19 26 0.72
20 9 0.25
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAACAACACAAAAAA
Found at i:656585 original size:15 final size:16
Alignment explanation
Indices: 656537--656586 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
656527 AAAAGTAAAC
656537 ACAAAAAAACAACACAA
1 ACAAAAAAACAA-ACAA
656554 A-AAAAAAACAAACAA
1 ACAAAAAAACAAACAA
656569 ACAAAAAAACAAA-AA
1 ACAAAAAAACAAACAA
656584 ACA
1 ACA
656587 CACAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.31
16 21 0.66
17 1 0.03
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (16 bp):
ACAAAAAAACAAACAA
Found at i:657982 original size:31 final size:31
Alignment explanation
Indices: 657874--657999 Score: 171
Period size: 32 Copynumber: 4.0 Consensus size: 31
657864 TCTTCAAATC
* *
657874 TCTTTTCTTTAAAGTCCATGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
* *
657905 TATTTTTCTTCAAAGTCCACGACTTAGTGGCA
1 T-CTTTTCTTCAAAGTCCACGACTCAGTGGCA
*
657937 TCTTTTTCTTCAAAGTCCATGACTCAGTGGCA
1 TC-TTTTCTTCAAAGTCCACGACTCAGTGGCA
* *
657969 TCTTTTCTCCAAAGTCCACAACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
658000 ATCACTTTTC
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
31 27 0.33
32 56 0.67
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (31 bp):
TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
Found at i:658014 original size:63 final size:63
Alignment explanation
Indices: 657875--658014 Score: 176
Period size: 64 Copynumber: 2.2 Consensus size: 63
657865 CTTCAAATCT
* * * * *
657875 CTTTTCTTTAAAGTCCATGACTCAGTGGCATATTTTTCTTCAAAGTCCACGACTTAGTGGCATC
1 CTTTTC-TCAAAGTCCATGACTCAGTGGCATACTTTTCTCCAAAGTCCACAACTCAGTGGCATC
*
657939 TTTTTCTTCAAAGTCCATGACTCAGTGGCAT-CTTTTCTCCAAAGTCCACAACTCAGTGGCAATC
1 CTTTTC-TCAAAGTCCATGACTCAGTGGCATACTTTTCTCCAAAGTCCACAACTCAGTGGC-ATC
658003 ACTTTTC-CAAAG
1 -CTTTTCTCAAAG
658015 CCCACAAGCT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
63 30 0.45
64 32 0.48
65 5 0.07
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (63 bp):
CTTTTCTCAAAGTCCATGACTCAGTGGCATACTTTTCTCCAAAGTCCACAACTCAGTGGCATC
Found at i:658020 original size:32 final size:32
Alignment explanation
Indices: 657894--658036 Score: 100
Period size: 32 Copynumber: 4.5 Consensus size: 32
657884 AAAGTCCATG
* * * *
657894 ACTCAGTGGCATAT-TTTTCTTCAAAGTCCACG
1 ACTCAGTGGCA-ATCCTTTCTCCAAAGCCCACA
* * * * **
657926 ACTTAGTGGC-ATCTTTTTCTTCAAAGTCCATG
1 ACTCAGTGGCAATC-CTTTCTCCAAAGCCCACA
* *
657958 ACTCAGTGGC-ATCTTTTCTCCAAAGTCCACA
1 ACTCAGTGGCAATCCTTTCTCCAAAGCCCACA
657989 ACTCAGTGGCAATCACTTT-TCCAAAGCCCACA
1 ACTCAGTGGCAATC-CTTTCTCCAAAGCCCACA
658021 AGCT-AGTGGCAA-CCTT
1 A-CTCAGTGGCAATCCTT
658037 CAAAAGTCCA
Statistics
Matches: 98, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
30 5 0.05
31 26 0.27
32 62 0.63
33 5 0.05
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (32 bp):
ACTCAGTGGCAATCCTTTCTCCAAAGCCCACA
Found at i:658049 original size:28 final size:31
Alignment explanation
Indices: 657948--658052 Score: 85
Period size: 32 Copynumber: 3.5 Consensus size: 31
657938 CTTTTTCTTC
** ** *
657948 AAAGTCCATGACTCAGTGGC-ATCTTTTCTCC
1 AAAGTCCACAACTCAGTGGCAATCACTT-TCA
*
657979 AAAGTCCACAACTCAGTGGCAATCACTTTTCC
1 AAAGTCCACAACTCAGTGGCAATCAC-TTTCA
*
658011 AAAGCCCACAAGCT-AGTGGCAA-C-C-TTCA
1 AAAGTCCACAA-CTCAGTGGCAATCACTTTCA
658039 AAAGTCCACAACTC
1 AAAGTCCACAACTC
658053 CATGGCACCT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
27 2 0.03
28 13 0.21
30 1 0.02
31 19 0.30
32 24 0.38
33 4 0.06
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.23
Consensus pattern (31 bp):
AAAGTCCACAACTCAGTGGCAATCACTTTCA
Found at i:658127 original size:34 final size:34
Alignment explanation
Indices: 658044--658272 Score: 291
Period size: 34 Copynumber: 6.7 Consensus size: 34
658034 CTTCAAAAGT
* *
658044 CCACAACTCCATGGCAC-CTTTCTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTT-TTCCTTTT-AAGC
* * * * *
658079 TCAGAACTCTGTGGCACTCTTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
658113 CCACAACTCCGTGGCAC-CTTTCTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTT-TTCCTTTT-AAGC
*
658148 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
658182 CCATAACTCCGTAGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
658216 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
658250 CCACAACTCCGTGGCACCCTTTT
1 CCACAACTCCGTGGCACTCTTTT
658273 AAGCCCATAA
Statistics
Matches: 168, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
33 4 0.02
34 111 0.66
35 45 0.27
36 8 0.05
ACGTcount: A:0.19, C:0.33, G:0.11, T:0.36
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
Found at i:658237 original size:27 final size:29
Alignment explanation
Indices: 658103--658308 Score: 94
Period size: 34 Copynumber: 6.4 Consensus size: 29
658093 CACTCTTTTT
* *
658103 CCTTCTAAGTCCACAACTCCGTGGCACCTTTC
1 CCTTTTAAGCCCACAACTCCGTGGCA-C--TC
* *
658135 TTCTTTTTAAAGCCCACAACTCTGTGGCACTC
1 --CCTTTT-AAGCCCACAACTCCGTGGCACTC
* *
658167 TTTTTCCTTTTAAGCCCATAACTCCGTAGCACTC
1 -----CCTTTTAAGCCCACAACTCCGTGGCACTC
658201 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
1 -----CCTTTTAAGCCCACAACTCCGTGGCACTC
*
658235 TTTTTCCTTTTAAGTCCACAACTCCGTGGCA--C
1 -----CCTTTTAAGCCCACAACTCCGTGGCACTC
* * *
658267 CCTTTTAAGCCCATAAGTCGGTGGCAC-C
1 CCTTTTAAGCCCACAACTCCGTGGCACTC
*
658295 CCTTTCAAAGCCCA
1 CCTTT-TAAGCCCA
658309 TAAGTCAGTG
Statistics
Matches: 150, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
27 22 0.15
28 6 0.04
29 7 0.05
32 3 0.02
34 87 0.58
35 25 0.17
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (29 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTC
Found at i:658272 original size:68 final size:69
Alignment explanation
Indices: 658040--658267 Score: 352
Period size: 69 Copynumber: 3.3 Consensus size: 69
658030 CAACCTTCAA
* * *
658040 AAGTCCACAACTCCATGGCACCTTTCTTCTTTTTAAAGCTCAGAACTCTGTGGCACTCTTTTTCC
1 AAGTCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
*
658105 TTCT
66 TTTT
658109 AAGTCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 AAGTCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
658174 TTTT
66 TTTT
* * * * *
658178 AAGCCCATAACTCCGTAGCACTCTTT-TTCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAGTCCACAACTCCGTGGCAC-CTTTCTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
658241 CTTTT
65 CTTTT
658246 AAGTCCACAACTCCGTGGCACC
1 AAGTCCACAACTCCGTGGCACC
658268 CTTTTAAGCC
Statistics
Matches: 146, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
67 1 0.01
68 51 0.35
69 90 0.62
70 4 0.03
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (69 bp):
AAGTCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
TTTT
Found at i:658326 original size:28 final size:28
Alignment explanation
Indices: 658260--658330 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 28
658250 CCACAACTCC
* *
658260 GTGGCACCCTTT-TAAGCCCATAAGTCG
1 GTGGCACCCTTTCAAAGCCCATAAGTCA
658287 GTGGCACCCCTTTCAAAGCCCATAAGTCA
1 GTGGCA-CCCTTTCAAAGCCCATAAGTCA
*
658316 GTGGCAACC-TTCAAA
1 GTGGCACCCTTTCAAA
658331 AGCCTACACA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 12 0.31
28 8 0.21
29 19 0.49
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (28 bp):
GTGGCACCCTTTCAAAGCCCATAAGTCA
Found at i:658412 original size:49 final size:47
Alignment explanation
Indices: 658358--658776 Score: 403
Period size: 49 Copynumber: 8.9 Consensus size: 47
658348 GGCATCTTCT
* *
658358 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TT-TC
* * * *
658407 TTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATCGGCA-C---C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTC
658450 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TT-TC
* * *
658499 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATCGGCA-C---C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTC
* * *
658542 TTTAAGTCGAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTT-TC
* * * *
658591 TTTAAGACCAATGTCGCTGGCCTCGAATCAGCACATCGGCA-C---C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTC
*
658634 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT--TC
* * * *
658683 TTTAAGTCCAGTATCGCTGACCTTGAATCAGCATATTGGCTCCTTCGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-T--T--TC
** * *
658735 TTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
658777 TTCTTCTCAT
Statistics
Matches: 306, Mismatches: 42, Indels: 40
0.79 0.11 0.10
Matches are distributed among these distances:
43 112 0.37
44 2 0.01
48 2 0.01
49 151 0.49
50 1 0.00
52 8 0.03
53 30 0.10
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (47 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTC
Found at i:658467 original size:43 final size:43
Alignment explanation
Indices: 658406--658678 Score: 312
Period size: 43 Copynumber: 6.1 Consensus size: 43
658396 GCACCTTTGT
* *
658406 CTTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATCGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATCGGCAC
* *
658449 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATCGGCA-C
*
658493 TTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATCGGCAC
1 -----CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATCGGCAC
* * * *
658541 CTTTAAGTCGAATATCGCTGGCCTTGAATCAGCATATTGGCATC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATCGGCA-C
* *
658585 TTTGTCTTTAAGACCAATGTCGCTGGCCTCGAATCAGCACATCGGCAC
1 -----CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATCGGCAC
* * *
658633 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATCGGCAC
658676 CTT
1 CTT
658679 CATCTTTAAG
Statistics
Matches: 195, Mismatches: 23, Indels: 24
0.81 0.10 0.10
Matches are distributed among these distances:
43 116 0.59
44 2 0.01
48 2 0.01
49 75 0.38
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (43 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATCGGCAC
Found at i:658515 original size:92 final size:92
Alignment explanation
Indices: 658358--658715 Score: 608
Period size: 92 Copynumber: 3.9 Consensus size: 92
658348 GGCATCTTCT
*
658358 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
*
658423 CTGGCCTTGAATTAGCACATCGGCACC
66 CTGGCCTTGAATCAGCACATCGGCACC
*
658450 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
658515 CTGGCCTTGAATCAGCACATCGGCACC
66 CTGGCCTTGAATCAGCACATCGGCACC
* *
658542 TTTAAGTCGAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
*
658607 CTGGCCTCGAATCAGCACATCGGCACC
66 CTGGCCTTGAATCAGCACATCGGCACC
** * * *
658634 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAGTATCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
*
658699 CTGACCTTGAATCAGCA
66 CTGGCCTTGAATCAGCA
658716 TATTGGCTCC
Statistics
Matches: 250, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 250 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATCGGCACC
Found at i:658577 original size:22 final size:22
Alignment explanation
Indices: 658512--658577 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
658502 AAGACCAATG
*
658512 TCGCTGGCCTTGAATCAGCACA
1 TCGCTGGCCTTGAATCAGCATA
* * *
658534 TCG--GCACCTTTAAGTC-GAATA
1 TCGCTG-GCCTTGAA-TCAGCATA
658555 TCGCTGGCCTTGAATCAGCATA
1 TCGCTGGCCTTGAATCAGCATA
658577 T
1 T
658578 TGGCATCTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
20 1 0.03
21 14 0.44
22 16 0.50
23 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (22 bp):
TCGCTGGCCTTGAATCAGCATA
Found at i:658774 original size:53 final size:52
Alignment explanation
Indices: 658633--658886 Score: 228
Period size: 53 Copynumber: 4.8 Consensus size: 52
658623 ACATCGGCAC
*
658633 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CC-T-TCAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCCTTCTCAT
* * *
658682 CTTTAAGTCCAGTATCGCTGACCTTGAATCAGCATATTGGC-TCCTTCGTCAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCCTTC-TCAT
* * * * *
658734 CTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCAT
1 CTTT-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCCTTCTCAT
* * ** * * * * *
658787 CTTCAAATCTAAATGTCGCTGACCGTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTT-TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCC---TTCTCAT
** * *
658843 CTTTAAGCCCAATATCATTGGCCGTGAATCAACATATTGGCATC
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC
658887 TTTATCACTT
Statistics
Matches: 165, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
49 41 0.25
50 1 0.01
52 8 0.05
53 70 0.42
54 5 0.03
55 30 0.18
56 10 0.06
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (52 bp):
CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCCTTCTCAT
Found at i:659461 original size:21 final size:20
Alignment explanation
Indices: 659433--659471 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
659423 TACAGTTTTG
659433 TTCAAATGTATCGATACATT
1 TTCAAATGTATCGATACATT
659453 TTCAGAATGTATCGATACA
1 TTCA-AATGTATCGATACA
659472 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TTCAAATGTATCGATACATT
Found at i:659527 original size:13 final size:13
Alignment explanation
Indices: 659509--659565 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
659499 TTCAACAATT
659509 TGTATCGATACAA
1 TGTATCGATACAA
659522 TGTATCGATACATAA
1 TGTATCGATAC--AA
659537 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
659554 TGTATCGATACA
1 TGTATCGATACA
659566 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:659546 original size:19 final size:19
Alignment explanation
Indices: 659522--659584 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
659512 ATCGATACAA
659522 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
659541 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
659554 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
659573 TGTATCGATACA
1 TGTATCGATACA
659585 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:659549 original size:32 final size:32
Alignment explanation
Indices: 659508--659592 Score: 170
Period size: 32 Copynumber: 2.7 Consensus size: 32
659498 TTTCAACAAT
659508 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
659540 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
659572 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
659593 CTACGAAGCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:669138 original size:56 final size:56
Alignment explanation
Indices: 669046--669158 Score: 156
Period size: 56 Copynumber: 2.0 Consensus size: 56
669036 GCATATTTGC
* * * * *
669046 ATCTTAAATTGAGAATGCATGTAGGAAAGGTGGTATTGCTTCGGCAAAATTATTTA
1 ATCTTAAATTGAGAATGCATATAGGAAAGGTAGTATTACTTAGACAAAATTATTTA
*
669102 ATCTTAAATTGAGAATGCATATAGG-AAGAGTAGTATTATTTAGACAAAATTATTTA
1 ATCTTAAATTGAGAATGCATATAGGAAAG-GTAGTATTACTTAGACAAAATTATTTA
669158 A
1 A
669159 ATATTATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
55 3 0.06
56 47 0.94
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (56 bp):
ATCTTAAATTGAGAATGCATATAGGAAAGGTAGTATTACTTAGACAAAATTATTTA
Found at i:671254 original size:58 final size:56
Alignment explanation
Indices: 671136--671495 Score: 208
Period size: 58 Copynumber: 6.2 Consensus size: 56
671126 TCGTGGAAAG
** * ** * * ***
671136 TGACCTAAATGATATCAAAATACATGAAATTGTATAAAAGTTTCTAGATCATGGGGAA
1 TGACCTAAATGA-CCCAAAATACAAGAAATTACATAAAA-ATCCTAGATCATGAAAAA
* * * * *
671194 TGACTTAAATGACCCAACATACAAGAAATTTGCATAAAAGTCCTTAGATTATGAAAAA
1 TGACCTAAATGACCCAAAATACAAGAAA-TTACATAAAAATCC-TAGATCATGAAAAA
* * *
671252 TGACCTAAATAATGCCAAAATATATA-AAATTACATAAAAATCACTAGATCATGAAAAA
1 TGACCTAAATGA-CCCAAAATACA-AGAAATTACATAAAAATC-CTAGATCATGAAAAA
* * *
671310 TGACCTAAA-GACCCTAAAGATGCATGAAATTACATAAAAATCCCTAGATGATGAAAAA
1 TGACCTAAATGACCC-AAA-ATACAAGAAATTACATAAAAAT-CCTAGATCATGAAAAA
* * ** * * ** *
671368 TGACCTAAATGGCATCAAAATACGTGAAATTGCACCAAATTTCCTAGATCATTAAAAA
1 TGACCTAAATGAC-CCAAAATACAAGAAATTACA-TAAAAATCCTAGATCATGAAAAA
* * * * ** *
671426 TGACATAAATAACATCAAAA-ATCATGAAATTACACCAAAACCCTA-AGTCATGAAAAA
1 TGACCTAAATGAC-CCAAAATA-CAAGAAATTACATAAAAATCCTAGA-TCATGAAAAA
671483 TGA-CTAAGATGAC
1 TGACCTAA-ATGAC
671496 AAAAAAGATG
Statistics
Matches: 239, Mismatches: 48, Indels: 31
0.75 0.15 0.10
Matches are distributed among these distances:
56 6 0.03
57 42 0.18
58 167 0.70
59 22 0.09
60 2 0.01
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (56 bp):
TGACCTAAATGACCCAAAATACAAGAAATTACATAAAAATCCTAGATCATGAAAAA
Found at i:671376 original size:29 final size:29
Alignment explanation
Indices: 671228--671376 Score: 101
Period size: 29 Copynumber: 5.1 Consensus size: 29
671218 GAAATTTGCA
* * *
671228 TAAAAGTCCTTAGATTATGAAAAATGACC
1 TAAAAATCCCTAGATGATGAAAAATGACC
* * * * *
671257 TAAATAATGCCAAAAT-AT-ATAAAATTACA
1 TAAA-AATCCCTAGATGATGA-AAAATGACC
* *
671286 TAAAAATCACTAGATCATGAAAAATGACC
1 TAAAAATCCCTAGATGATGAAAAATGACC
* * *
671315 TAAAGA-CCCTAAAGATGCATG--AAATTACA
1 TAAAAATCCCT--AGATG-ATGAAAAATGACC
671344 TAAAAATCCCTAGATGATGAAAAATGACC
1 TAAAAATCCCTAGATGATGAAAAATGACC
671373 TAAA
1 TAAA
671377 TGGCATCAAA
Statistics
Matches: 89, Mismatches: 21, Indels: 20
0.68 0.16 0.15
Matches are distributed among these distances:
27 3 0.03
28 16 0.18
29 52 0.58
30 15 0.17
31 3 0.03
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.23
Consensus pattern (29 bp):
TAAAAATCCCTAGATGATGAAAAATGACC
Found at i:671398 original size:116 final size:113
Alignment explanation
Indices: 671136--671527 Score: 285
Period size: 116 Copynumber: 3.4 Consensus size: 113
671126 TCGTGGAAAG
* * * *** *
671136 TGACCTAAATGATATCAAAATACATGAAATTGTATAAAAGTTTCTAGATCATGGGGAATGACTTA
1 TGACCTAAATGA-ATCAAAATACATGAAATTGCATAAAA-ATCCTAGATCATGAAAAATGACATA
* * * * * *
671201 AATGACCC--AACATACAAGAAATTTGCATAAAAGTCCTTAGATTATGAAAAA
64 AA-GACCCTAAAAAT-CATGAAA-TTACATAAAAATCCCTAGATCATGAAAAA
* * * *
671252 TGACCTAAAT-AATGCCAAAATATATAAAATTACATAAAAATCACTAGATCATGAAAAATGACCT
1 TGACCTAAATGAAT--CAAAATACATGAAATTGCATAAAAATC-CTAGATCATGAAAAATGACAT
* *
671316 AAAGACCCTAAAGATGCATGAAATTACATAAAAATCCCTAGATGATGAAAAA
63 AAAGACCCTAAAAAT-CATGAAATTACATAAAAATCCCTAGATCATGAAAAA
* * * ** *
671368 TGACCTAAATGGCATCAAAATACGTGAAATTGCACCAAATTTCCTAGATCATTAAAAATGACATA
1 TGACCTAAAT-GAATCAAAATACATGAAATTGCA-TAAAAATCCTAGATCATGAAAAATGACATA
* * * **
671433 AATAACATCAAAAATCATGAAATTACACCAAAA-CCCTA-AGTCATGAAAAA
64 AAGACCCT-AAAAATCATGAAATTACATAAAAATCCCTAGA-TCATGAAAAA
** *
671483 TGA-CTAAGATGACAAAAAAGATGCATGAAA-TGTCATAAAAATCCT
1 TGACCTAA-ATGA-ATCAAA-ATACATGAAATTG-CATAAAAATCCT
671528 TAAGTCATAG
Statistics
Matches: 220, Mismatches: 42, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
114 8 0.04
115 39 0.18
116 151 0.69
117 20 0.09
118 2 0.01
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (113 bp):
TGACCTAAATGAATCAAAATACATGAAATTGCATAAAAATCCTAGATCATGAAAAATGACATAAA
GACCCTAAAAATCATGAAATTACATAAAAATCCCTAGATCATGAAAAA
Found at i:671510 original size:58 final size:57
Alignment explanation
Indices: 671278--671562 Score: 206
Period size: 58 Copynumber: 4.9 Consensus size: 57
671268 AAAATATATA
* * ** *
671278 AAATTACATAAAAATCACTAGATCATGAAAAATGACCTAAA-GACCCTAAAGATGCATG
1 AAATTACACAAAAATCCCTAGATCATGAAAAATGA-CTAAATGA-CAAAAAAATGCATG
* * * ** * *
671336 AAATTACATAAAAATCCCTAGATGATGAAAAATGACCTAAATGGCATCAAAATACGTG
1 AAATTACACAAAAATCCCTAGATCATGAAAAATGA-CTAAATGACAAAAAAATGCATG
* * * * * * *
671394 AAATTGCACCAAATTTCCTAGATCATTAAAAATGACATAAATAACATCAAAAAT-CATG
1 AAATTACACAAAAATCCCTAGATCATGAAAAATGAC-TAAATGACA-AAAAAATGCATG
*
671452 AAATTACACCAAAA-CCCTA-AGTCATGAAAAATGACTAAGATGACAAAAAAGATGCATG
1 AAATTACACAAAAATCCCTAGA-TCATGAAAAATGACTAA-ATGACAAAAAA-ATGCATG
* *
671510 AAATGT-CATAAAAATCCTTA-AGTCAT-AGAAAATGACTAAGATGACATAAAAAA
1 AAAT-TACACAAAAATCCCTAGA-TCATGA-AAAATGACTAA-ATGACA-AAAAAA
671563 CTTAAATCAT
Statistics
Matches: 187, Mismatches: 29, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
56 8 0.04
57 25 0.13
58 113 0.60
59 36 0.19
60 5 0.03
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.22
Consensus pattern (57 bp):
AAATTACACAAAAATCCCTAGATCATGAAAAATGACTAAATGACAAAAAAATGCATG
Found at i:673647 original size:44 final size:44
Alignment explanation
Indices: 673528--673660 Score: 132
Period size: 47 Copynumber: 3.0 Consensus size: 44
673518 TATTTGAGAA
* *
673528 AATTAA-TAAAATTATTTGAAAAGGTTTAG-TGATAAAAAAATT
1 AATTAATTAAAATTATTTTAAAAAGTTTAGTTGATAAAAAAATT
* *
673570 GATTAATTAAAATTATTTTAAAAAGTAAATTAGTTTGA-ACAATAAATT
1 AATTAATTAAAATTATTTTAAAAAGT---TTAG-TTGATA-AAAAAATT
* *
673618 AATT-ATTCAAATTATTTTAAAAAGTTTAG-TGATAAAATAATT
1 AATTAATTAAAATTATTTTAAAAAGTTTAGTTGATAAAAAAATT
673660 A
1 A
673661 TGCATTCGTT
Statistics
Matches: 75, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
42 15 0.20
43 18 0.24
44 4 0.05
46 4 0.05
47 21 0.28
48 13 0.17
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (44 bp):
AATTAATTAAAATTATTTTAAAAAGTTTAGTTGATAAAAAAATT
Found at i:683538 original size:238 final size:240
Alignment explanation
Indices: 683096--683579 Score: 909
Period size: 238 Copynumber: 2.0 Consensus size: 240
683086 TACATTTGTT
683096 ATTTAAACTTGTCTTATATCTCAAACCTGTGTCGTAAGATTTTAATGATCATTTTTTAGTAGTAT
1 ATTTAAACTTGTCTTATATCTCAAACCTGTGTCGTAAGATTTTAATGATCATTTTTTAGTAGTAT
* *
683161 CTCTTCTATAATCAAGGTTAACCGATAGTCTTCTGTGTTCTGTAGGCTATCTAGAGAGAGGTAAA
66 CTCTTCTATAATCAAGGTTAACCAATAGTCTTCTGTGTTCGGTAGGCTATCTAGAGAGAGGTAAA
683226 GGGTATTCTATGCTTGTGATAGATAGGGCAAGCAGCAAGGAAATATGAAATTAGAAGCTCAGACA
131 GGGTATTCTATGCTTGTGATAGATAGGGCAAGCAGCAAGGAAATATGAAATTAGAAGCTCAGACA
*
683291 TTTGCACAAGCAAGTAAGCATGGCATCCTCCAAGACGCTAAATCA
196 TTTGCACAAGCAAGTAAGCATGGCATCCTCCAAGACACTAAATCA
683336 ATTTAAACTTGTCTTATATCTC-AACCTGTGTCGTAAGATTTTAATGATCA-TTTTTAGTAGTAT
1 ATTTAAACTTGTCTTATATCTCAAACCTGTGTCGTAAGATTTTAATGATCATTTTTTAGTAGTAT
*
683399 CTCTTCTATAATCAAGGTTAACCAATAGTCTTCTGTGTTCGGTAGGCTATCTAGATAGAGGTAAA
66 CTCTTCTATAATCAAGGTTAACCAATAGTCTTCTGTGTTCGGTAGGCTATCTAGAGAGAGGTAAA
683464 GGGTATTCTATGCTTGTGATAGATAGGGCAAGCAGCAAGGAAATATGAAATTAGAAGCTCAGACA
131 GGGTATTCTATGCTTGTGATAGATAGGGCAAGCAGCAAGGAAATATGAAATTAGAAGCTCAGACA
683529 TTTGCACAAGCAAGTAAGCATGGCATCCTCCAAGACACTAAATCA
196 TTTGCACAAGCAAGTAAGCATGGCATCCTCCAAGACACTAAATCA
*
683574 ACTTAA
1 ATTTAA
683580 CTAATTGAAG
Statistics
Matches: 239, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
238 189 0.79
239 28 0.12
240 22 0.09
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (240 bp):
ATTTAAACTTGTCTTATATCTCAAACCTGTGTCGTAAGATTTTAATGATCATTTTTTAGTAGTAT
CTCTTCTATAATCAAGGTTAACCAATAGTCTTCTGTGTTCGGTAGGCTATCTAGAGAGAGGTAAA
GGGTATTCTATGCTTGTGATAGATAGGGCAAGCAGCAAGGAAATATGAAATTAGAAGCTCAGACA
TTTGCACAAGCAAGTAAGCATGGCATCCTCCAAGACACTAAATCA
Found at i:684834 original size:24 final size:24
Alignment explanation
Indices: 684802--684851 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
684792 ACAGTGGCAA
684802 TACAACACAGAAAGTGCTCAAAAC
1 TACAACACAGAAAGTGCTCAAAAC
684826 TACAACACAGAAAGTGCTCAAAAC
1 TACAACACAGAAAGTGCTCAAAAC
684850 TA
1 TA
684852 AGGCAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.24, G:0.12, T:0.14
Consensus pattern (24 bp):
TACAACACAGAAAGTGCTCAAAAC
Found at i:689229 original size:16 final size:16
Alignment explanation
Indices: 689188--689237 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
689178 GATCATATCA
*
689188 AATTTAAATCACTTTTT
1 AATTTAAATTA-TTTTT
689205 -ATTTAAATTATTTTT
1 AATTTAAATTATTTTT
*
689220 AATTTAAATTTTTTTT
1 AATTTAAATTATTTTT
689236 AA
1 AA
689238 GTTTGAGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 5 0.17
16 25 0.83
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTTAAATTATTTTT
Found at i:689485 original size:59 final size:59
Alignment explanation
Indices: 689390--689564 Score: 278
Period size: 59 Copynumber: 3.0 Consensus size: 59
689380 TTTATTAACT
* ** * *
689390 ATCTCTTCATTTCAATGGAAGAGGGTAAAGTTTGATAATTAAATGAATTTAAAGGAACC
1 ATCTTTTCATTTCAATCTAAGACGATAAAGTTTGATAATTAAATGAATTTAAAGGAACC
* *
689449 ATCTTTTCATTTCAATCTAAGACGATAAAATCTGATAATTAAATGAATTTAAAGGAACC
1 ATCTTTTCATTTCAATCTAAGACGATAAAGTTTGATAATTAAATGAATTTAAAGGAACC
*
689508 ATCTTTTCATTTCAATCTAAGACGATAAAGTTTGATAATTAAATGAATTTAATGGAA
1 ATCTTTTCATTTCAATCTAAGACGATAAAGTTTGATAATTAAATGAATTTAAAGGAA
689565 AGAATAAACT
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 106 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (59 bp):
ATCTTTTCATTTCAATCTAAGACGATAAAGTTTGATAATTAAATGAATTTAAAGGAACC
Found at i:690538 original size:22 final size:22
Alignment explanation
Indices: 690506--690569 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 22
690496 TTTTATTTTT
690506 AAAT-TAATAAAAAAATTTTAA
1 AAATATAATAAAAAAATTTTAA
*
690527 AAATATAATAAAAATATTTTTTAA
1 AAATATAATAAAAA-A-ATTTTAA
* *
690551 AAATTAAAATTAAAAAATT
1 AAA-TATAATAAAAAAATT
690570 AAATTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 4 0.11
22 9 0.26
23 3 0.09
24 10 0.29
25 9 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATATAATAAAAAAATTTTAA
Found at i:690602 original size:30 final size:31
Alignment explanation
Indices: 690568--690644 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
690558 AATTAAAAAA
* *
690568 TTAAATTAATTTAAACT-TAAAAAATTTAAT
1 TTAAATTAATTTAAACTATAAAAAATTAAAC
* * * *
690598 TTAAATTGATTTAATCTATAAGATATTAAAC
1 TTAAATTAATTTAAACTATAAAAAATTAAAC
690629 TTAAATTAAATTTAAA
1 TTAAATT-AATTTAAA
690645 TTTTTAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 15 0.41
31 16 0.43
32 6 0.16
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (31 bp):
TTAAATTAATTTAAACTATAAAAAATTAAAC
Found at i:690660 original size:21 final size:21
Alignment explanation
Indices: 690631--690678 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
690621 TATTAAACTT
* * *
690631 AAATTAAATTTAAATTTTTAA
1 AAATAAAATTTAAAATATTAA
690652 AAATAAAATTTAAAATATTAA
1 AAATAAAATTTAAAATATTAA
690673 AAATAA
1 AAATAA
690679 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAAAATTTAAAATATTAA
Found at i:691573 original size:6 final size:6
Alignment explanation
Indices: 691562--691605 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
691552 AGAGGAACGG
*
691562 ATATGT ATATGT ATATGT ATATGT ATATGT TTATGT ATATGT AT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT AT
691606 GTGTGTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
ATATGT
Found at i:696430 original size:50 final size:51
Alignment explanation
Indices: 696355--696450 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 51
696345 ATGAGCTTTC
**
696355 AAGGATTGAACTTTGATAGTGAAAGGGTGTATGATT-AACATTATAGGGGA
1 AAGGATTGAACTTTGATAACGAAAGGGTGTATGATTAAACATTATAGGGGA
*
696405 AAGGATTGAACTTTGATAACGAAAGGGTGTTTGATTAAACATTATA
1 AAGGATTGAACTTTGATAACGAAAGGGTGTATGATTAAACATTATA
696451 AGAGTGTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 33 0.79
51 9 0.21
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (51 bp):
AAGGATTGAACTTTGATAACGAAAGGGTGTATGATTAAACATTATAGGGGA
Found at i:697618 original size:29 final size:28
Alignment explanation
Indices: 697581--697636 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
697571 AAAAACTCTA
697581 AAATAAAAGTATATGGAACAAACTCAATG
1 AAATAAAAGTATAT-GAACAAACTCAATG
* * *
697610 AAATGAAAGTATATTAACAAATTCAAT
1 AAATAAAAGTATATGAACAAACTCAAT
697637 ATTCACTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.25
Consensus pattern (28 bp):
AAATAAAAGTATATGAACAAACTCAATG
Found at i:698929 original size:40 final size:40
Alignment explanation
Indices: 698873--698953 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
698863 CATTCGGAAA
698873 TCTTTCAGGGTAGTCAACTAAAAGTTACAAGACTTGTCTT
1 TCTTTCAGGGTAGTCAACTAAAAGTTACAAGACTTGTCTT
*
698913 TCTTTCAGGGTGGTCAACTAAAAGTTACAAGACTTGTCTT
1 TCTTTCAGGGTAGTCAACTAAAAGTTACAAGACTTGTCTT
698953 T
1 T
698954 TTTATCAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (40 bp):
TCTTTCAGGGTAGTCAACTAAAAGTTACAAGACTTGTCTT
Found at i:703222 original size:51 final size:51
Alignment explanation
Indices: 703162--703277 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
703152 AAATAGCGGG
* * * * *
703162 GTTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGGAAAAAAAATTGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAAAAAAATCGGA
* * *
703213 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAACATCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAAAAAAATCGGA
703264 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
703278 TCGAAAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.29, C:0.11, G:0.28, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAAAAAAATCGGA
Found at i:703313 original size:28 final size:29
Alignment explanation
Indices: 703262--703336 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
703252 AATAACATCG
703262 GGGTTGGAGTATCCCC--TCGAAAATAAC
1 GGGTTGGAGTATCCCCGATCGAAAATAAC
703289 GGGATTGGAGTATCCCCGAT-G-AAATAAC
1 GGG-TTGGAGTATCCCCGATCGAAAATAAC
* *
703317 AGGGTTAGAGTACCCCCGAT
1 -GGGTTGGAGTATCCCCGAT
703337 TATGAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 3 0.07
28 34 0.81
29 4 0.10
30 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (29 bp):
GGGTTGGAGTATCCCCGATCGAAAATAAC
Found at i:703413 original size:108 final size:107
Alignment explanation
Indices: 703217--703420 Score: 275
Period size: 108 Copynumber: 1.9 Consensus size: 107
703207 ATTGGAGTTG
* * * ** *
703217 GAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAACATCGGGGTTGGAGTATCCCCTCGA
1 GAGTACCCCCGATTATGAAAAAATAATATTTTAGAAATAACACCGGGGTTGGAGTATCCCCTCGA
* *
703282 AAATAACGGGATTGGAGTATCCCCGATGAAATAACAGGGTTA
66 AAATAACGGGATTGAAGTATCCCCAATGAAATAACAGGGTTA
*
703324 GAGTACCCCCGATTATGAAAAAATAATATTTTTAGATATAA-AGCCGGGGTTGGAGTATCCCCTC
1 GAGTACCCCCGATTATGAAAAAATAATA-TTTTAGAAATAACA-CCGGGGTTGGAGTATCCCCTC
* * *
703388 GGAAATAACGGGGTTGAAGTGTCCCCAATGAAA
64 GAAAATAACGGGATTGAAGTATCCCCAATGAAA
703421 AATTGATGTT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
107 24 0.29
108 59 0.71
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (107 bp):
GAGTACCCCCGATTATGAAAAAATAATATTTTAGAAATAACACCGGGGTTGGAGTATCCCCTCGA
AAATAACGGGATTGAAGTATCCCCAATGAAATAACAGGGTTA
Found at i:703450 original size:76 final size:76
Alignment explanation
Indices: 703353--703537 Score: 307
Period size: 76 Copynumber: 2.4 Consensus size: 76
703343 AAAATAATAT
* * * *
703353 TTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGAAGTGTCCCCAATG
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCAATG
703418 AAAAATTGATG
66 AAAAATTGATG
* *
703429 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCAATG
*
703494 AAGAATTGATG
66 AAAAATTGATG
703505 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
703538 GAGATGAAAA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 102 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (76 bp):
TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCAATG
AAAAATTGATG
Found at i:704753 original size:13 final size:13
Alignment explanation
Indices: 704735--704760 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
704725 ACAAAGATCG
704735 ATGTATCGATACA
1 ATGTATCGATACA
704748 ATGTATCGATACA
1 ATGTATCGATACA
704761 CTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:704771 original size:21 final size:21
Alignment explanation
Indices: 704747--704788 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
704737 GTATCGATAC
*
704747 AATGTATCGATACACTTCCTT
1 AATGTAACGATACACTTCCTT
*
704768 AATGTAACGATACATTTCCTT
1 AATGTAACGATACACTTCCTT
704789 GGCAGTAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (21 bp):
AATGTAACGATACACTTCCTT
Found at i:704837 original size:19 final size:19
Alignment explanation
Indices: 704813--704907 Score: 61
Period size: 19 Copynumber: 5.6 Consensus size: 19
704803 AGTGATACAT
704813 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
* *
704832 TGTATCCAT---ATA--T-
1 TGTATCGATACAAAACTTA
704845 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
704864 TGTATTGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
704877 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
*
704896 TTTATCGATACA
1 TGTATCGATACA
704908 TTTACTGTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 24
0.65 0.08 0.27
Matches are distributed among these distances:
13 18 0.32
14 2 0.04
16 6 0.11
18 2 0.04
19 29 0.51
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:704852 original size:32 final size:32
Alignment explanation
Indices: 704807--704909 Score: 152
Period size: 32 Copynumber: 3.2 Consensus size: 32
704797 CTTCGTAGTG
704807 ATACATTGTATCGATACAAAACTTATGTATCC
1 ATACATTGTATCGATACAAAACTTATGTATCC
* **
704839 ATATATTGTATCGATACAAAACTTATGTATTG
1 ATACATTGTATCGATACAAAACTTATGTATCC
* * *
704871 ATACATTGTATCGATACAACACTTATTTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCC
704903 ATACATT
1 ATACATT
704910 TACTGTTTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (32 bp):
ATACATTGTATCGATACAAAACTTATGTATCC
Found at i:705606 original size:40 final size:42
Alignment explanation
Indices: 705562--705661 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
705552 TGTCCCACTT
* *
705562 TTGAGGACAAAGGAAAAG-AG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAGAAGAAAAGAAA-AGTGTCCTGCTCC
* * * *
705602 TTGAGAACAAAGGAATAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
705644 TTGAGGACAAAGTGAAAA
1 TTGAGGACAAAG-GAAAA
705662 AGAGTACGTC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 16 0.33
41 4 0.08
42 24 0.50
43 4 0.08
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (42 bp):
TTGAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:705805 original size:28 final size:28
Alignment explanation
Indices: 705774--705859 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
705764 TGAGGACTAA
705774 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** * *
705802 AAAG-GCGTCCTACTC-TTTGAGGAC--TG
1 AAAGTGCCACCAACTCGTGTG-GG-CTTTG
705828 AAAGGTGCCACCAACTCGTGTGGGCTTTG
1 AAA-GTGCCACCAACTCGTGTGGGCTTTG
705857 AAA
1 AAA
705860 AGAAAAGGCG
Statistics
Matches: 43, Mismatches: 8, Indels: 13
0.67 0.12 0.20
Matches are distributed among these distances:
26 8 0.19
27 12 0.28
28 15 0.35
29 8 0.19
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:705981 original size:28 final size:28
Alignment explanation
Indices: 705950--706091 Score: 73
Period size: 28 Copynumber: 5.1 Consensus size: 28
705940 TTGAGGACTG
705950 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* ** * * * *
705978 G-AAA-GGCATCCTGCTCTTTGAGGAC-TG
1 GAAAATGCCA-CCAACT-TGTGTGGGCTTT
706005 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* ** * *
706033 -AAAA-GACGTCATACTCT-T-TGAGGATTG
1 GAAAATGCCACCA-ACT-TGTGTG-GGCTTT
*
706060 GAAAATGCCACCAACTTGTGTTGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
706088 GAAA
1 GAAA
706092 GGCGTCCTGC
Statistics
Matches: 77, Mismatches: 25, Indels: 24
0.61 0.20 0.19
Matches are distributed among these distances:
26 9 0.12
27 28 0.36
28 32 0.42
29 8 0.10
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:706170 original size:55 final size:54
Alignment explanation
Indices: 705746--706413 Score: 544
Period size: 55 Copynumber: 12.1 Consensus size: 54
705736 AGAGGAAAAT
* *
705746 AAAGTGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAG-GCATCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTG
* * * *
705802 AAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAG
1 AAAGGCATCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT-----G
*
705862 AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
1 -AAAGGCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG
*
705918 AAAAGAAAAAGCATCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
1 -AAAG-----GCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG
*
705979 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
1 AAAGGCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG
* * * * * *
706034 AAAGACGTCATACTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTTGGCTTTG
1 AAAGGCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG
* *
706089 AAAGGCGTCCTGCTCTTTGAGGAC-AAAAATGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTTG
* * * * * *
706144 AAAGGCATACTGCTCTTTGAGGAC-AAAAAGGCGA--AA-----G-GAG---AG
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTG
** * * * * ** * *
706186 AGCGTCCTGCT-CT-TTGAGGACTA--GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAGGCATCCTGCTCTT--TGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT-----G
* * *
706243 AGAAGGCGTCCTGATTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
1 A-AAGGCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG
* * *
706299 AAAGGCGTCCTGCTCTTTAAGGACT-AAAAGGTGCCACCAACTTGTATGGGCTTTG
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTTG
* *
706354 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCATCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG
706409 AAAGG
1 AAAGG
706414 AAAAGGCGTC
Statistics
Matches: 506, Mismatches: 63, Indels: 87
0.77 0.10 0.13
Matches are distributed among these distances:
40 2 0.00
41 7 0.01
42 10 0.02
43 2 0.00
45 2 0.00
46 1 0.00
48 1 0.00
49 2 0.00
51 2 0.00
53 11 0.02
55 308 0.61
56 15 0.03
57 2 0.00
58 8 0.02
59 1 0.00
60 7 0.01
61 121 0.24
62 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (54 bp):
AAAGGCATCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTG
Found at i:706253 original size:61 final size:59
Alignment explanation
Indices: 706177--706443 Score: 329
Period size: 55 Copynumber: 4.6 Consensus size: 59
706167 CAAAAAGGCG
* *
706177 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT
1 AAAGGAAAG-GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
706237 AAAAGGAGAAGGCGTCCTGATTTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT
1 -AAAGGA-AAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
706298 ----GAAAGGCGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTT
1 AAAGGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
706353 ----GAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
706408 GAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAA
1 -AAAGG-AAAGGCGTCCTGCTCTTTGAGGACTGAAA
706444 AGTGAAAGGA
Statistics
Matches: 183, Mismatches: 15, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
54 3 0.02
55 95 0.52
56 2 0.01
60 1 0.01
61 80 0.44
62 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (59 bp):
AAAGGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:706322 original size:155 final size:148
Alignment explanation
Indices: 706046--706329 Score: 374
Period size: 155 Copynumber: 1.9 Consensus size: 148
706036 AGACGTCATA
* * *
706046 CTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTTGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
1 CTCTTTGAGGATAGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGATCTTTGAGG
*
706111 ACAAAAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATACTGCTCTTTGAGGACAAAAAGGC
66 ACAAAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCATACTGCTCTTTAAGGACAAAAAGGC
706176 GAAAGGAGAGAGCGTCCTG
130 GAAAGGAGAGAGCGTCCTG
* *
706195 CTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGATT
1 CTCTTTGAGGA-TAGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGATC
* * *
706259 TTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGAC
59 TTTGAGGAC--AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATACTGCTCTTTAAGGAC
*
706323 TAAAAGG
122 AAAAAGG
706330 TGCCACCAAC
Statistics
Matches: 116, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
149 35 0.30
150 3 0.03
154 2 0.02
155 72 0.62
157 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (148 bp):
CTCTTTGAGGATAGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGATCTTTGAGG
ACAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATACTGCTCTTTAAGGACAAAAAGGCG
AAAGGAGAGAGCGTCCTG
Found at i:706342 original size:210 final size:204
Alignment explanation
Indices: 705986--706377 Score: 599
Period size: 210 Copynumber: 1.9 Consensus size: 204
705976 TTGAAAGGCA
705986 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGACGTCATACTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGACGTCATACTCTT
* * *
706051 TGAGGATTGGAAAATGCCACCAACTTGTGTTGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAA
66 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACAAA
* *
706116 AATGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATACTGCTCTTTGAGGACAAAAAGGCGAAAG
131 AAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCATACTGCTCTTTGAGGACAAAAAGGCGAAAG
706181 GAGAGAGCG
196 GAGAGAGCG
* *
706190 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT-AAA--AG-A--CGTCA
*
706254 TGA-TTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTA
59 T-ACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTA
* * *
706318 AGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
123 AGGACAAAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCATACTGCTCTTTGAGGAC
706378 TGAAAGGTGC
Statistics
Matches: 169, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
204 43 0.25
205 5 0.03
207 2 0.01
208 1 0.01
210 117 0.69
211 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (204 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGACGTCATACTCTT
TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACAAA
AAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCATACTGCTCTTTGAGGACAAAAAGGCGAAAG
GAGAGAGCG
Found at i:706398 original size:265 final size:258
Alignment explanation
Indices: 705931--706413 Score: 718
Period size: 265 Copynumber: 1.8 Consensus size: 258
705921 AGAAAAAGCA
* *
705931 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGATCTT
* *
705996 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGACGTCATACTCTTTGAGGATTGG
66 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGACGTCATACTCTTTAAGGACT-G
* * *
706061 AAAATGCCACCAACTTGTGTTGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAAAATGTGCCAC
130 AAAATGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAAAAGGTGCCAC
706126 CAACTTGTGTGGGCTTTGAAAGGCATACTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCG
195 CAACTTGTGTGGGCTTTGAAAGGCATACTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCG
* *
706190 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCATCC
* * * * *
706254 TGATTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAA
59 TGATCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGACGTCATACTCTTTAA
**
706319 GGACT-AAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAA
124 GGACTGAAAA--TGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAAAA
706383 GGTGCCACCAACTTGTGTGGGCTTTGAAAGG
187 GGTGCCACCAACTTGTGTGGGCTTTGAAAGG
706414 AAAAGGCGTC
Statistics
Matches: 199, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
259 42 0.21
260 2 0.01
263 4 0.02
264 2 0.01
265 149 0.75
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (258 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGATCTT
TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGACGTCATACTCTTTAAGGACTGA
AAATGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAAAAGGTGCCACC
AACTTGTGTGGGCTTTGAAAGGCATACTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCG
Found at i:707428 original size:10 final size:10
Alignment explanation
Indices: 707415--707451 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
707405 CTTTCCTCTC
707415 TTTTCTTTGT-
1 TTTT-TTTGTG
707425 TTTTTTTGTG
1 TTTTTTTGTG
707435 TTTTTTTGTG
1 TTTTTTTGTG
707445 TTTTTTT
1 TTTTTTT
707452 AGAAAAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 5 0.19
10 21 0.81
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.84
Consensus pattern (10 bp):
TTTTTTTGTG
Found at i:717773 original size:4 final size:4
Alignment explanation
Indices: 717764--717788 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
717754 AAAACAAAAC
717764 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
717789 CCTCAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:719924 original size:51 final size:51
Alignment explanation
Indices: 719863--719978 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
719853 AAATAGCAGG
* * * * *
719863 GTTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGGAAAAAAAATTGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAAAAAAATCGGA
* * *
719914 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAACATCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAAAAAAATCGGA
719965 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
719979 TCGAAAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.29, C:0.11, G:0.28, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAAAAAAATCGGA
Found at i:720019 original size:31 final size:30
Alignment explanation
Indices: 719951--720019 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 30
719941 TGGTATTTTA
* * *
719951 GAAATAACATCGGGGTTGGAGTATCCCCTC
1 GAAATAATAACGGGATTGGAGTATCCCCTC
719981 G-AA-AATAACGGGATTGGAGTATCCCCGAT-
1 GAAATAATAACGGGATTGGAGTATCCCC--TC
720010 GAAATAATAA
1 GAAATAATAA
720020 GGTTAGAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 20 0.62
29 3 0.09
30 4 0.12
31 5 0.16
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (30 bp):
GAAATAATAACGGGATTGGAGTATCCCCTC
Found at i:720055 original size:107 final size:107
Alignment explanation
Indices: 719918--720120 Score: 275
Period size: 107 Copynumber: 1.9 Consensus size: 107
719908 ATTGGAGTTG
* * * ** *
719918 GAGTATCCCCGATTGTGAAAAATTGGTA-TTTTAGAAATAACATC-GGGGTTGGAGTATCCCCTC
1 GAGTACCCCCGATTATGAAAAAATAATATTTTTAGAAATAA-AGCTGGGGTTGGAGTATCCCCTC
719981 GAAAATAACGGGATTGGAGTATCCCCGATGAAATAATAAGGTTA
65 G-AAATAACGGGATTGGAGTATCCCCGATGAAATAATAAGGTTA
* * *
720025 GAGTACCCCCGATTATGAAAAAATAATATTTTTAGATATAAAGCTGGGGTTGGAGTATCCTCTTG
1 GAGTACCCCCGATTATGAAAAAATAATATTTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCTCG
* *
720090 AAATAATGGGGTTGGAGTATCCCCGATGAAA
66 AAATAACGGGATTGGAGTATCCCCGATGAAA
720121 AATTGATGTT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 54 0.65
108 29 0.35
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (107 bp):
GAGTACCCCCGATTATGAAAAAATAATATTTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCTCG
AAATAACGGGATTGGAGTATCCCCGATGAAATAATAAGGTTA
Found at i:720149 original size:75 final size:77
Alignment explanation
Indices: 720054--720236 Score: 273
Period size: 76 Copynumber: 2.4 Consensus size: 77
720044 AAAATAATAT
* * * *
720054 TTTTAGATATAAAGCTGGGGTTGGAGTATCCTC-TTG-AAATAATGGGGTTGGAGTATCCCCGAT
1 TTTTAGAAATAAAACTGGGGTTGGAGTATCCTCATCGAAAATAACGGGGTTGGAGTATCCCCGAT
720117 GAAAAATTGATG
66 GAAAAATTGATG
*
720129 TTTTAGAAATAAAACCGGGGTTGGAGTATCC-CATCGAAAATAACGGGGTTGGAGTATCCCCGAT
1 TTTTAGAAATAAAACTGGGGTTGGAGTATCCTCATCGAAAATAACGGGGTTGGAGTATCCCCGAT
*
720193 GAAGAATTGATG
66 GAAAAATTGATG
* *
720205 TTTTAAAAATAAAACTGGGGTTGGAATATCCT
1 TTTTAGAAATAAAACTGGGGTTGGAGTATCCT
720237 TGAGATGAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
74 1 0.01
75 30 0.31
76 65 0.68
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (77 bp):
TTTTAGAAATAAAACTGGGGTTGGAGTATCCTCATCGAAAATAACGGGGTTGGAGTATCCCCGAT
GAAAAATTGATG
Found at i:721100 original size:31 final size:31
Alignment explanation
Indices: 721062--721125 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
721052 TACATGATCC
721062 TGGAGTAGTTTAGGATGATGGAACAACCCGT
1 TGGAGTAGTTTAGGATGATGGAACAACCCGT
721093 TGGAGTAGTTTAGGATGATGGAACAACCCGT
1 TGGAGTAGTTTAGGATGATGGAACAACCCGT
721124 TG
1 TG
721126 ACCATGTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (31 bp):
TGGAGTAGTTTAGGATGATGGAACAACCCGT
Found at i:722655 original size:13 final size:13
Alignment explanation
Indices: 722637--722662 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
722627 ACAAAGATCG
722637 ATGTATCGATACA
1 ATGTATCGATACA
722650 ATGTATCGATACA
1 ATGTATCGATACA
722663 CTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:722673 original size:21 final size:21
Alignment explanation
Indices: 722649--722690 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
722639 GTATCGATAC
722649 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
722670 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
722691 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:722748 original size:32 final size:32
Alignment explanation
Indices: 722707--722779 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
722697 AGCTTCGTAG
*
722707 CGATACATTGTATCAATATAAAACTTATGTAT
1 CGATACATTGTATCAATACAAAACTTATGTAT
* * *
722739 CGATACATTGTATCGATACAACACTTATTTAT
1 CGATACATTGTATCAATACAAAACTTATGTAT
722771 CGATACATT
1 CGATACATT
722780 TACTGTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (32 bp):
CGATACATTGTATCAATACAAAACTTATGTAT
Found at i:722752 original size:13 final size:13
Alignment explanation
Indices: 722734--722758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
722724 ATAAAACTTA
722734 TGTATCGATACAT
1 TGTATCGATACAT
722747 TGTATCGATACA
1 TGTATCGATACA
722759 ACACTTATTT
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:731769 original size:19 final size:20
Alignment explanation
Indices: 731745--731796 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
731735 GTTTGAGATA
*
731745 ATGTATTAATAC-ATTCTTC
1 ATGTATCAATACAATTCTTC
*
731764 ATGTATCGATACAATTCTTC
1 ATGTATCAATACAATTCTTC
*
731784 ATGTATCGATACA
1 ATGTATCAATACA
731797 TTGTATCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTATCAATACAATTCTTC
Found at i:731782 original size:20 final size:20
Alignment explanation
Indices: 731753--731796 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
731743 TAATGTATTA
731753 ATAC-ATTCTTCATGTATCG
1 ATACAATTCTTCATGTATCG
731772 ATACAATTCTTCATGTATCG
1 ATACAATTCTTCATGTATCG
731792 ATACA
1 ATACA
731797 TTGTATCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (20 bp):
ATACAATTCTTCATGTATCG
Found at i:731803 original size:13 final size:13
Alignment explanation
Indices: 731785--731809 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
731775 CAATTCTTCA
731785 TGTATCGATACAT
1 TGTATCGATACAT
731798 TGTATCGATACA
1 TGTATCGATACA
731810 ATATGCCATG
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:731807 original size:33 final size:33
Alignment explanation
Indices: 731765--731829 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
731755 ACATTCTTCA
731765 TGTATCGATACAAT-T-CTTCATGTATCGATACAT
1 TGTATCGATACAATATGC--CATGTATCGATACAT
731798 TGTATCGATACAATATGCCATGTATCGATACA
1 TGTATCGATACAATATGCCATGTATCGATACA
731830 AACAGTGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATATGCCATGTATCGATACAT
Found at i:731904 original size:19 final size:18
Alignment explanation
Indices: 731858--731915 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
731848 ACTGCTAGTT
*
731858 TCATGTATTAATACAATTG
1 TCATGTATCAATACAA-TG
*
731877 TGTATGTATCAATACAATG
1 T-CATGTATCAATACAATG
*
731896 ATCATGTATCGATACAATG
1 -TCATGTATCAATACAATG
731915 T
1 T
731916 ATCGATACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.55
20 14 0.42
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (18 bp):
TCATGTATCAATACAATG
Found at i:731917 original size:13 final size:13
Alignment explanation
Indices: 731899--731925 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
731889 TACAATGATC
731899 ATGTATCGATACA
1 ATGTATCGATACA
731912 ATGTATCGATACA
1 ATGTATCGATACA
731925 A
1 A
731926 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:731941 original size:33 final size:32
Alignment explanation
Indices: 731880--731944 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
731870 ACAATTGTGT
* *
731880 ATGTATCAATACAATGATCATGTATCGATACA
1 ATGTATCAATACAAAGATAATGTATCGATACA
*
731912 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCAATACAAAG-ATAATGTATCGATACA
731945 TCTGGATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (32 bp):
ATGTATCAATACAAAGATAATGTATCGATACA
Found at i:732376 original size:12 final size:13
Alignment explanation
Indices: 732357--732393 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
732347 AACAATTTTC
732357 AGATGATAATGAT
1 AGATGATAATGAT
732370 A-ATGATAATGA-
1 AGATGATAATGAT
*
732381 AGATGATTATGAT
1 AGATGATAATGAT
732394 CATTGTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 1 0.05
12 19 0.90
13 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (13 bp):
AGATGATAATGAT
Found at i:733833 original size:16 final size:17
Alignment explanation
Indices: 733809--733854 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
733799 TTTAAATTAA
733809 TTTGAGTAAGGTAATAT
1 TTTGAGTAAGGTAATAT
* **
733826 TTT-TGTAAATTAATAT
1 TTTGAGTAAGGTAATAT
733842 TTTGAGTAAGGTA
1 TTTGAGTAAGGTA
733855 TGAAACTCAG
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.46
Consensus pattern (17 bp):
TTTGAGTAAGGTAATAT
Found at i:733835 original size:30 final size:32
Alignment explanation
Indices: 733794--733854 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
733784 TTATCTTTAT
733794 TATTTTTTAAATT-A-A-TTTGAGTAAGGTAA
1 TATTTTTTAAATTAATATTTTGAGTAAGGTAA
733823 TATTTTTGTAAATTAATATTTTGAGTAAGGTA
1 TATTTTT-TAAATTAATATTTTGAGTAAGGTA
733855 TGAAACTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 7 0.25
30 6 0.21
31 1 0.04
32 1 0.04
33 13 0.46
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (32 bp):
TATTTTTTAAATTAATATTTTGAGTAAGGTAA
Found at i:734005 original size:22 final size:19
Alignment explanation
Indices: 733964--734006 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 19
733954 TTTTTGCAAG
733964 ATTAAAATTTTTAAAATTC
1 ATTAAAATTTTTAAAATTC
733983 ATTAAATATTTTTATTAAATTC
1 ATTAAA-ATTTTTA--AAATTC
734005 AT
1 AT
734007 GTTAAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
22 8 0.38
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTAAAATTTTTAAAATTC
Found at i:734195 original size:5 final size:5
Alignment explanation
Indices: 734185--734223 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
734175 TTTAATTTCA
734185 ATTTT ATTTT AATTTT GGATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT -ATTTT --ATTTT ATTTT ATTTT ATTTT A
734224 AACTAATTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 21 0.68
6 5 0.16
7 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:741269 original size:191 final size:190
Alignment explanation
Indices: 740943--741423 Score: 675
Period size: 191 Copynumber: 2.5 Consensus size: 190
740933 TTTTTGGTCA
* * **
740943 TTTTCCTTCCACCAGTTTGCAAAAAAAGCTACTAGCAGCAATGGTGTTGTGCAGCAGACAACAGA
1 TTTTCCTTCCACCAGTTTGCAAAAAAAGCTACTGGCAGTAATGGTGTTGTGCAGCAGACAGTAGA
* * * *
741008 AGGTTGGTTAGGTTAATTT-CATGCTTATTAGCCCTGAAGTGTGATGATGAAGGGAAGGTAATGA
66 AGGTTGGTTGGGTGAATTTGCATGCTTATCAGCCCTGAAGTGTGATGATGAAGAGAAGGTAATGA
* * * *
741072 TGAAAATGTGACAATATAGTCTTTGATTTGGACTTTAAATTTGATTCCAGTCTAATTAGA-T
131 TGAAAATGTGACAATATACTCTTTGATTTGGACCTTAAATTTGATTCAAGTCT-ATCA-ACT
** * * *
741133 TTTTCCTTCCACCAGTTTGCAGGAAAAGTTGCTGGCAGTAATGGTGTTGTGCAGCAAACAGTAGA
1 TTTTCCTTCCACCAGTTTGCAAAAAAAGCTACTGGCAGTAATGGTGTTGTGCAGCAGACAGTAGA
* *
741198 AGATTGGTTGGGTGAATTTGCATGCTTATCAGCCTTCG-AGTGTGATGATGAAGAGAAGGTAATG
66 AGGTTGGTTGGGTGAATTTGCATGCTTATCAGCCCT-GAAGTGTGATGATGAAGAGAAGGTAATG
* *
741262 GTGAAAATGTGACAATATACTCTTTGATTTGGACCTTACATTTGATTCAAGTCTATCAACT
130 ATGAAAATGTGACAATATACTCTTTGATTTGGACCTTAAATTTGATTCAAGTCTATCAACT
* * * *
741323 TTATCCTT-TACCAGTTTGCAAAAAAAGCTATTGGCAGTAATGGTGTTGTGCCGCAGACAGTAGA
1 TTTTCCTTCCACCAGTTTGCAAAAAAAGCTACTGGCAGTAATGGTGTTGTGCAGCAGACAGTAGA
741387 AGGTTGGTTGGGTGAA-TTGCATGCTTATCAGCCCTGA
66 AGGTTGGTTGGGTGAATTTGCATGCTTATCAGCCCTGA
741424 CATGAATTGT
Statistics
Matches: 255, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
187 1 0.00
188 18 0.07
189 64 0.25
190 83 0.33
191 88 0.35
192 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (190 bp):
TTTTCCTTCCACCAGTTTGCAAAAAAAGCTACTGGCAGTAATGGTGTTGTGCAGCAGACAGTAGA
AGGTTGGTTGGGTGAATTTGCATGCTTATCAGCCCTGAAGTGTGATGATGAAGAGAAGGTAATGA
TGAAAATGTGACAATATACTCTTTGATTTGGACCTTAAATTTGATTCAAGTCTATCAACT
Found at i:742096 original size:9 final size:9
Alignment explanation
Indices: 742082--742116 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
742072 TTTTTGATAT
742082 AAAATAAAA
1 AAAATAAAA
742091 AAAATAAAA
1 AAAATAAAA
742100 AAAATTAAAA
1 AAAA-TAAAA
*
742110 ATAATAA
1 AAAATAA
742117 TATTCAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAATAAAA
Found at i:742184 original size:25 final size:25
Alignment explanation
Indices: 742125--742186 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
742115 AATATTCAAT
* *
742125 ATAATAATAAAAATCAAGAAATTAAA
1 ATAATAAAAAAAATCAACAAA-TAAA
*
742151 A-AATTAAAAAAATCAATCAAA-AAA
1 ATAATAAAAAAAATCAA-CAAATAAA
742175 ATAATAAAAAAA
1 ATAATAAAAAAA
742187 GCATGAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
24 4 0.13
25 22 0.73
26 4 0.13
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (25 bp):
ATAATAAAAAAAATCAACAAATAAA
Found at i:742490 original size:42 final size:42
Alignment explanation
Indices: 742432--742572 Score: 183
Period size: 42 Copynumber: 3.1 Consensus size: 42
742422 AAAAAAAAAG
742432 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATA
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATA
*
742474 AAAAAGCATGAATAATAAAATGTAACATGATGGAATGAAATAATAAAAAA
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATG--A-AAT-----A
742524 GAAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATA
1 -AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATA
742567 ATAAAA
1 A-AAAA
742573 AAGAAAAAGC
Statistics
Matches: 87, Mismatches: 2, Indels: 19
0.81 0.02 0.18
Matches are distributed among these distances:
42 37 0.43
43 5 0.06
44 1 0.01
45 3 0.03
48 3 0.03
49 1 0.01
50 1 0.01
51 36 0.41
ACGTcount: A:0.58, C:0.04, G:0.17, T:0.21
Consensus pattern (42 bp):
AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATA
Found at i:742520 original size:28 final size:28
Alignment explanation
Indices: 742484--742572 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 28
742474 AAAAAGCATG
742484 AATAATAAAATGTAACATGATGGAATGA
1 AATAATAAAATGTAACATGATGGAATGA
* * *
742512 AATAATAAAAAAG-AA-A--A-AGCATG-
1 AATAAT-AAAATGTAACATGATGGAATGA
*
742535 AATAATAAAATGTAGCATGATGGAATGA
1 AATAATAAAATGTAACATGATGGAATGA
742563 AATAATAAAA
1 AATAATAAAA
742573 AAGAAAAAGC
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
22 5 0.11
23 7 0.15
24 5 0.11
25 1 0.02
26 1 0.02
27 5 0.11
28 18 0.38
29 5 0.11
ACGTcount: A:0.60, C:0.03, G:0.16, T:0.21
Consensus pattern (28 bp):
AATAATAAAATGTAACATGATGGAATGA
Found at i:742538 original size:144 final size:144
Alignment explanation
Indices: 742181--742618 Score: 708
Period size: 144 Copynumber: 3.0 Consensus size: 144
742171 AAAAATAATA
742181 AAAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAGAAAAAGCATGAAT
1 AAAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAGAAAAAGCATGAAT
*
742246 AATAAAATGTACCATGATGGAAT---A-AAAAAAAAA-AAAAAGCATGAATAATAAAATGTAGCA
66 AATAAAATGTAGCATGATGGAATGAAATAAAAAAAAAGAAAAAGCATGAATAATAAAATGTAGCA
742306 TGATGGAATGAAATAAT
131 TGATGGAATG--A-AAT
742323 GAAAAAGAAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAGAAAAAGC
1 -----A-AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAGAAAAAGC
742388 ATGAATAATAAAATGTAGCATGATGGAATGAAATAAAAAAAAAGAAAAAGCATGAATAATAAAAT
60 ATGAATAATAAAATGTAGCATGATGGAATGAAATAAAAAAAAAGAAAAAGCATGAATAATAAAAT
742453 GTAGCATGATGGAATGAAAT
125 GTAGCATGATGGAATGAAAT
*
742473 AAAAAAGCATGAATAATAAAATGTAACATGATGGAATGAAATAATAAAAAAGAAAAAGCATGAAT
1 AAAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAGAAAAAGCATGAAT
* * *
742538 AATAAAATGTAGCATGATGGAATGAAATAATAAAAAAGAAAAAGCATGAATAATAAAAGGGAGCA
66 AATAAAATGTAGCATGATGGAATGAAATAAAAAAAAAGAAAAAGCATGAATAATAAAATGTAGCA
742603 TGATGGAAT-AAAT
131 TGATGGAATGAAAT
742616 AAA
1 AAA
742619 GAAAAAAAGA
Statistics
Matches: 280, Mismatches: 5, Indels: 16
0.93 0.02 0.05
Matches are distributed among these distances:
143 7 0.03
144 134 0.48
145 1 0.00
147 1 0.00
148 86 0.31
150 3 0.01
151 2 0.01
152 9 0.03
153 37 0.13
ACGTcount: A:0.59, C:0.04, G:0.18, T:0.19
Consensus pattern (144 bp):
AAAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAGAAAAAGCATGAAT
AATAAAATGTAGCATGATGGAATGAAATAAAAAAAAAGAAAAAGCATGAATAATAAAATGTAGCA
TGATGGAATGAAAT
Done.