Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1099
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: 110392
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:814 original size:79 final size:79
Alignment explanation
Indices: 675--855 Score: 281
Period size: 79 Copynumber: 2.3 Consensus size: 79
665 TTCTGGAGAT
*
675 AAAAACGAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAAAGTATCCCCGATTGTGAAAAATT
1 AAAATCGAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAAAGTATCCCCGATTGTGAAAAATT
*
740 GGTGTTCTAAAAAT
66 GGTGTTCTAAAAAG
* * * * * **
754 AGAATTGGGGTTGGGGTATCCCTTCGAAAATAATGGGGTTAAAGTATCCCCGATTGTGAAAAATT
1 AAAATCGAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAAAGTATCCCCGATTGTGAAAAATT
819 GGTGTTCTAAAAAG
66 GGTGTTCTAAAAAG
833 AAAATCGAGGTTGGAGTATCCCC
1 AAAATCGAGGTTGGAGTATCCCC
856 GATGGTGAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 88 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
AAAATCGAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAAAGTATCCCCGATTGTGAAAAATT
GGTGTTCTAAAAAG
Found at i:857 original size:51 final size:51
Alignment explanation
Indices: 790--906 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
780 AAAATAATGG
* * * *
790 GGTTAAAGTATCCCCGATTGTGAAAAATTGGTGTTCTAAAAAGAAAATCGA
1 GGTTAGAGTATCCCCGATGGTGAAAAATTAGTGTTCTAAAAAGAAAACCGA
* * ** *
841 GGTTGGAGTATCCCCGATGGTGAAAAATTAGTGTTTTGGAAATAAAACCGA
1 GGTTAGAGTATCCCCGATGGTGAAAAATTAGTGTTCTAAAAAGAAAACCGA
892 GGTTAGAGTATCCCC
1 GGTTAGAGTATCCCC
907 TCGAAAATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (51 bp):
GGTTAGAGTATCCCCGATGGTGAAAAATTAGTGTTCTAAAAAGAAAACCGA
Found at i:921 original size:79 final size:79
Alignment explanation
Indices: 838--1273 Score: 427
Period size: 79 Copynumber: 5.5 Consensus size: 79
828 AAAAGAAAAT
* * * *
838 CGAGGTTGGAGTATCCCCGATGGTGAAAAAT-TAGTGTTTTGGAAATAAAACCGAGGTTAGAGTA
1 CGAGGTTGAAGTATCCCCGATGGTGAAAAATCGA-TGTTTTGGAAATAAAATCGAGGTTGGAGTA
902 TCCCCTC-GAAAATAA
65 TCCCCTCAG-AAATAA
* ** ** *
917 CGAGGTTGGAGTATCATCGATTTTGAAAAATCAATGTTTTGGAAAT-AAATCCTG-GGTTGGAGT
1 CGAGGTTGAAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAAT-C-GAGGTTGGAGT
*
980 ATACCCTCAGAAATAA
64 ATCCCCTCAGAAATAA
* * * * *
996 CGGGGTTGAAGTAT-CTCTATTGGTGAAAAATCGATATTTTGGAAATAAAATCGAGATTGGAGTA
1 CGAGGTTGAAGTATCCCCGA-TGGTGAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGGAGTA
1060 TCCCCTCAGAAATAA
65 TCCCCTCAGAAATAA
* * * * * * *
1075 -TAGGGTTGAAGTATCCCCGATGGTGGAAAATCGATGCTTTGAAAATAAAATAGGGGTTGGGGTA
1 CGA-GGTTGAAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGGAGTA
*
1139 TCTCCTCAGAAATAA
65 TCCCCTCAGAAATAA
* * * * *
1154 CGAAGTTCAAGTATCCCCAATTGTGAAAAATCGATGTTTTAGAAATAAAAATC-AGGGTTGGAGT
1 CGAGGTTGAAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAAT-AAAATCGA-GGTTGGAGT
* * *
1218 ATCCTCTAAAAAATAA
64 ATCCCCTCAGAAATAA
* * **
1234 CGGGGTTGGAGTATCCCCGATGGTGGGAAATCGATGTTTT
1 CGAGGTTGAAGTATCCCCGATGGTGAAAAATCGATGTTTT
1274 TTTAAATAAA
Statistics
Matches: 290, Mismatches: 55, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
78 7 0.02
79 215 0.74
80 68 0.23
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
CGAGGTTGAAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGGAGTAT
CCCCTCAGAAATAA
Found at i:1048 original size:209 final size:209
Alignment explanation
Indices: 668--1064 Score: 455
Period size: 209 Copynumber: 1.9 Consensus size: 209
658 TTTAATATTC
* * *
668 TGGAGATAAAAACGAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAAAGTATCCCCGATTGTG
1 TGGAAATAAAAACGAGGTTAGAGTATCCCCTCGAAAATAACAGGGTTAAAGTATCACCGATTGTG
*** * *
733 AAAAATTGGTGTTCTAAAAATAGAATTGGGGTTGGGGTATCCCTTCGAAAATAATGGGGTTAAAG
66 AAAAATCAATGTTCTAAAAATAGAATTGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTAAAG
* * * *
798 TATCCCCGATTGTGAAAAATTGGTGTTCTAAAAAGAAAATCGAGGTTGGAGTATCCCCGATGGTG
131 TATCCCCGATTGTGAAAAATCGATATTCTAAAAAGAAAATCGAGATTGGAGTATCCCCGATGGTG
863 AAAAATTAGTGTTT
196 AAAAATTAGTGTTT
* ** * *
877 TGGAAATAAAACCGAGGTTAGAGTATCCCCTCGAAAATAAC-GAGGTTGGAGTATCATCGATTTT
1 TGGAAATAAAAACGAGGTTAGAGTATCCCCTCGAAAATAACAG-GGTTAAAGTATCACCGATTGT
* **
941 GAAAAATCAATGTTTTGGAAATA-AATCCT-GGGTTGGAGTATACCC-TC-AGAAATAACGGGGT
65 GAAAAATCAATGTTCTAAAAATAGAAT--TGGGGTTGGAGTAT-CCCTTCGA-AAATAACGGGGT
* * * * ** *
1002 TGAAGTAT-CTCTATTGGTGAAAAATCGATATTTTGGAAATAAAATCGAGATTGGAGTATCCCC
126 TAAAGTATCCCCGATT-GTGAAAAATCGATATTCTAAAAAGAAAATCGAGATTGGAGTATCCCC
1065 TCAGAAATAA
Statistics
Matches: 155, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
208 10 0.06
209 141 0.91
210 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (209 bp):
TGGAAATAAAAACGAGGTTAGAGTATCCCCTCGAAAATAACAGGGTTAAAGTATCACCGATTGTG
AAAAATCAATGTTCTAAAAATAGAATTGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTAAAG
TATCCCCGATTGTGAAAAATCGATATTCTAAAAAGAAAATCGAGATTGGAGTATCCCCGATGGTG
AAAAATTAGTGTTT
Found at i:3713 original size:50 final size:50
Alignment explanation
Indices: 3593--3719 Score: 141
Period size: 50 Copynumber: 2.5 Consensus size: 50
3583 AAAATGGTCA
* * * *
3593 AAAATGCATGAATGTATCGATACATTGAGAAATGTATCGATACATTTGGGT
1 AAAATG-AAGAATGTATCGATACAATGAGAAATGTATCGATACATCTAGGT
** *
3644 AAAACCCAA-ATTGTATCGATACAATGA-AGAATGTATCGATACATCTAGGT
1 AAAA-TGAAGAATGTATCGATACAATGAGA-AATGTATCGATACATCTAGGT
*
3694 AAAATGAAGAATGTGTCGATACAATG
1 AAAATGAAGAATGTATCGATACAATG
3720 TGTAAGCTCA
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
49 3 0.05
50 54 0.87
51 5 0.08
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.28
Consensus pattern (50 bp):
AAAATGAAGAATGTATCGATACAATGAGAAATGTATCGATACATCTAGGT
Found at i:4172 original size:33 final size:32
Alignment explanation
Indices: 4119--4181 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
4109 TGGGACAATG
4119 TATCGATACAATTCTTCATGTATCGATACATTA
1 TATCGATACAATTC-TCATGTATCGATACATTA
*
4152 TATCGATACAATATGC-CATGTATTGATACA
1 TATCGATACAAT-T-CTCATGTATCGATACA
4182 AATAGTGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 25 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (32 bp):
TATCGATACAATTCTCATGTATCGATACATTA
Found at i:4673 original size:32 final size:33
Alignment explanation
Indices: 4628--4690 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
4618 TCAAGATTTG
4628 TCCCCCTTATTGTTA-AAAAAAAAAAATCTTGC
1 TCCCCCTTATTGTTATAAAAAAAAAAATCTTGC
* * * *
4660 TCCCCTTTGTTGTTATATAAAAAAATATCTT
1 TCCCCCTTATTGTTATAAAAAAAAAAATCTT
4691 TTATTTCTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (33 bp):
TCCCCCTTATTGTTATAAAAAAAAAAATCTTGC
Found at i:6102 original size:20 final size:20
Alignment explanation
Indices: 6077--6138 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
6067 ATCGATACAA
6077 TGTATCGATGCAAAGAACAT
1 TGTATCGATGCAAAGAACAT
*
6097 TGTATCGAT-------ACAA
1 TGTATCGATGCAAAGAACAT
6110 TGTATCGATGCAAAGAACAT
1 TGTATCGATGCAAAGAACAT
6130 TGTATCGAT
1 TGTATCGAT
6139 ACATCTGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
13 12 0.36
20 21 0.64
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (20 bp):
TGTATCGATGCAAAGAACAT
Found at i:6103 original size:33 final size:33
Alignment explanation
Indices: 6060--6141 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
6050 ATGTATCAAT
*
6060 ACATTATATCGATACAATGTATCGATGCAAAGA
1 ACATTGTATCGATACAATGTATCGATGCAAAGA
6093 ACATTGTATCGATACAATGTATCGATGCAAAGA
1 ACATTGTATCGATACAATGTATCGATGCAAAGA
6126 ACATTGTATCGATACA
1 ACATTGTATCGATACA
6142 TCTGGGTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (33 bp):
ACATTGTATCGATACAATGTATCGATGCAAAGA
Found at i:8612 original size:44 final size:44
Alignment explanation
Indices: 8549--8637 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
8539 AAAGTTGGCC
8549 TAATCATTGCTCAATTTATAATATAGCAAGCGATGTTAAATGCT
1 TAATCATTGCTCAATTTATAATATAGCAAGCGATGTTAAATGCT
*
8593 TAATCATTGCTCGATTTATAATATAGCAAGCGATGTTAAATGCT
1 TAATCATTGCTCAATTTATAATATAGCAAGCGATGTTAAATGCT
8637 T
1 T
8638 CCACCCAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (44 bp):
TAATCATTGCTCAATTTATAATATAGCAAGCGATGTTAAATGCT
Found at i:12266 original size:19 final size:20
Alignment explanation
Indices: 12229--12266 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12219 TCCCGTTGCT
12229 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
12249 ATGTATCGATAC-ATTCAT
1 ATGTATCGATACAATTCAT
12267 TTGAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:12357 original size:13 final size:13
Alignment explanation
Indices: 12321--12360 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
12311 ACAATTCTTC
12321 ATGTATCGATACA
1 ATGTATCGATACA
* * *
12334 TTATATTGATACA
1 ATGTATCGATACA
12347 ATGTATCGATACA
1 ATGTATCGATACA
12360 A
1 A
12361 ACAGTGGTAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:12415 original size:20 final size:19
Alignment explanation
Indices: 12388--12461 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
12378 ACTGCTAGTT
12388 TCATGTATCAATACAATTG-
1 TCATGTATCAATACAA-TGA
* *
12407 TGTATGTATCGATACAATGA
1 T-CATGTATCAATACAATGA
*
12427 TCATGTATCAATACAAAGCA
1 TCATGTATCAATACAATG-A
* *
12447 TAATGTATCGATACA
1 TCATGTATCAATACA
12462 TCTGGATGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 17 0.38
20 28 0.62
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (19 bp):
TCATGTATCAATACAATGA
Found at i:13677 original size:41 final size:41
Alignment explanation
Indices: 13584--13793 Score: 240
Period size: 41 Copynumber: 5.0 Consensus size: 41
13574 GGAAAAGAAA
* * * * *
13584 GAAATTAAGTGTGTCCTACTTTTTGACGACAAAGAAGAAAAG
1 GAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAG-GGAAAAG
*
13626 GAAATAAAGTGTTTCCTGCTCTTTGAGGACAAAGGGAAAAG
1 GAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGGGAAAAG
* ** * *
13667 AAAATAAAGTGCATCTTGCTCTTTAAGGACAAAGGGAAAAG
1 GAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGGGAAAAG
13708 GAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAAGGGTAAAGAAG
1 GAAATAAAGTGTGTCCTGCTCTTTGAGGAC-AAAGGG--AA-AAG
* * *
13753 GAAATGAAGTGCGTTCTGCTCTTTGAGGACAAAAGGGAAAA
1 GAAATAAAGTGTGTCCTGCTCTTTGAGGAC-AAAGGGAAAA
13794 CAAGGACATG
Statistics
Matches: 145, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
41 67 0.46
42 37 0.26
43 2 0.01
44 2 0.01
45 37 0.26
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (41 bp):
GAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGGGAAAAG
Found at i:13772 original size:45 final size:41
Alignment explanation
Indices: 13605--13833 Score: 212
Period size: 45 Copynumber: 5.3 Consensus size: 41
13595 TGTCCTACTT
* * *
13605 TTTGACGACAAAGAAGAAAAGGAAATAAAGTG-TTTCCTGCTC
1 TTTGAGGACAAAG-GGAAAAGGAAATAAAGTGCGTT-CTGCTC
* *
13647 TTTGAGGACAAAGGGAAAAGAAAATAAAGTGC-ATCTTGCTC
1 TTTGAGGACAAAGGGAAAAGGAAATAAAGTGCGTTC-TGCTC
* * *
13688 TTTAAGGACAAAGGGAAAAGGAAATAAAGTGTGTCCTGCTC
1 TTTGAGGACAAAGGGAAAAGGAAATAAAGTGCGTTCTGCTC
*
13729 TTTGAGGACAAAAGGGTAAAGAAGGAAATGAAGTGCGTTCTGCTC
1 TTTGAGGAC-AAAGGG--AA-AAGGAAATAAAGTGCGTTCTGCTC
* *
13774 TTTGAGGACAAAAGGGAAAACAAGGACATGAAGTGCG-TCATGCTC
1 TTTGAGGAC-AAAGGG--AA-AAGGAAATAAAGTGCGTTC-TGCTC
*
13819 TTTAAGGACTAAAGG
1 TTTGAGGAC-AAAGG
13834 TGCTACTAAC
Statistics
Matches: 161, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
40 1 0.01
41 64 0.40
42 19 0.12
44 4 0.02
45 73 0.45
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.22
Consensus pattern (41 bp):
TTTGAGGACAAAGGGAAAAGGAAATAAAGTGCGTTCTGCTC
Found at i:13827 original size:90 final size:82
Alignment explanation
Indices: 13611--13833 Score: 223
Period size: 82 Copynumber: 2.6 Consensus size: 82
13601 ACTTTTTGAC
* ** *
13611 GACAAAGAAGAAAAGGAAATAAAGTGTTTCCTGCTCTTTGAGGACAAAGGGAAAAGAAAATAAAG
1 GACAAAG-GGAAAAGGAAATAAAGTGCGTCATGCTCTTTGAGGACAAAGGGAAAAGAAAATAAAG
13676 TGCATCTTGCTCTTTAAG
65 TGCATCTTGCTCTTTAAG
* * * *
13694 GACAAAGGGAAAAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAAGGGTAAAGAAGGAAATG
1 GACAAAGGGAAAAGGAAATAAAGTGCGTCATGCTCTTTGAGGAC-AAAGGG--AA-AAGAAAATA
* *
13759 AAGTGCGT-TCTGCTCTTTGAG
62 AAGTGCATCT-TGCTCTTTAAG
* * *
13780 GACAAAAGGGAAAACAAGGACATGAAGTGCGTCATGCTCTTTAAGGACTAAAGG
1 GAC-AAAGGG--AA-AAGGAAATAAAGTGCGTCATGCTCTTTGAGGAC-AAAGG
13834 TGCTACTAAC
Statistics
Matches: 119, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
82 35 0.29
83 13 0.11
85 3 0.03
86 27 0.23
87 6 0.05
89 2 0.02
90 33 0.28
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (82 bp):
GACAAAGGGAAAAGGAAATAAAGTGCGTCATGCTCTTTGAGGACAAAGGGAAAAGAAAATAAAGT
GCATCTTGCTCTTTAAG
Found at i:13915 original size:62 final size:62
Alignment explanation
Indices: 13808--14509 Score: 825
Period size: 62 Copynumber: 11.4 Consensus size: 62
13798 GACATGAAGT
* * * * * *
13808 GCGTCATGCTCTTTAAGGACTAAA-GGTGCTACTAACTCATGTGGGCTTTGAAATGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
* * *
13869 GTGTCCTACTCTTTGAGGACTAAAGGGTGCCATCAACTCGTGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
* * * *
13931 GCGTCCTGCACTTTGAAGACTAAAGGTTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
* * * * *
13993 GCATCATGCTCTTTAAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTG-AAA-AAAAAT
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
* *
14053 GC-TCCTGCTTTTTGAGGACTAAA-GGTGCCACCAACTCTTGTGGGC-TTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
* * * * *
14112 GTGTCCTACTCTTTAAGCACTAAAGGGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGG-TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
* * *
14175 GCATCTTGC-CTTTTGAGGACTAAAGGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAATAA-
1 GCGTCCTGCTC-TTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA-AAG
* * * *
14237 GCATCCTACTCTTTAAGGACTAAAGGGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
* * *
14299 GCATCTTGCT-TTTGGAGGACTAAA-GGTGCCACCAACTCGTGGGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTT-GAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
* * * * * * *
14360 GTGTTCTGCTCTTTGAGGATTAAA-TGTGCCTCCAACTCGTGTAGGC-TTGAAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTG-AAAAGAAAAAG
* * * * *
14421 ACGTCCTGCTCTTTGAAGACTAAAGGGTGCCACCAACTCATATGGGCTTTGAAAAGAGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
* * *
14483 GCGTCCTTCTTTTTAAGGACTAAAGGG
1 GCGTCCTGCTCTTTGAGGACTAAAGGG
14510 CTAAAAAGGG
Statistics
Matches: 543, Mismatches: 82, Indels: 31
0.83 0.12 0.05
Matches are distributed among these distances:
57 3 0.01
58 24 0.04
59 24 0.04
60 27 0.05
61 127 0.23
62 299 0.55
63 39 0.07
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (62 bp):
GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
Found at i:14252 original size:244 final size:246
Alignment explanation
Indices: 13814--14509 Score: 940
Period size: 244 Copynumber: 2.8 Consensus size: 246
13804 AAGTGCGTCA
* * * * *
13814 TGCTCTTTAAGGACTAAAGGTGCTACTAACTCATGTGGGCTTTGAAATGAAAAAGGTGTCCTACT
1 TGCTTTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGTGTCCTACT
*
13879 CTTTGAGGACTAAAGGGTGCCATCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCAC-T
66 CTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGC-CTT
* * *
13943 TTGAAGACTAAAGGTTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCATGCTCTTTA
130 TTGAAGACTAAAGGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAA-GCATCCTACTCTTTA
*
14008 AGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTG-AAA-AAAAATGC-TCC
194 AGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCC
*
14058 TGCTTTTTGAGGACTAAAGGTGCCACCAACTCTTGTGGGC-TTGAAAAGAAAAAGGTGTCCTACT
1 TGCTTTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGTGTCCTACT
* * * * *
14122 CTTTAAGCACTAAAGGGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCTTGCCTT
66 CTTTGAGGACTAAAGGG-TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCCTT
*
14187 TTGAGGACTAAAGGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAATAAGCATCCTACTCTTTA
130 TTGAAGACTAAAGGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAA-AAGCATCCTACTCTTTA
* *
14252 AGGACTAAAGGGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCT
194 AGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCC
* * * * *
14305 TGCTTTTGGAGGACTAAAGGTGCCACCAACTCGTGGGGGCTTTGAAAAGAAAAAGGTGTTCTGCT
1 TGCTTTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGTGTCCTACT
* * * * * *
14370 CTTTGAGGATTAAA-TGTGCCTCCAACTCGTGTAGGC-TTGAAAAAGGAAAAGACGTCCTG-CTC
66 CTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTG-AAAAGAAAAAGGCGTCCTGCCT-
* * * * * * *
14432 TTTGAAGACTAAAGGGTGCCACCAACTCATATGGGCTTTGAAAAGAGAAAGGCGTCCTTCTTTTT
129 TTTGAAGACTAAAGGGTGCCACTAACTCGTGTGGGCTTTGAAAAGA-AAAAGCATCCTACTCTTT
14497 AAGGACTAAAGGG
193 AAGGACTAAAGGG
14510 CTAAAAAGGG
Statistics
Matches: 399, Mismatches: 43, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
243 39 0.10
244 169 0.42
245 10 0.03
246 106 0.27
247 42 0.11
248 33 0.08
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (246 bp):
TGCTTTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGTGTCCTACT
CTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCCTTT
TGAAGACTAAAGGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAAGCATCCTACTCTTTAAG
GACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCC
Found at i:14973 original size:13 final size:13
Alignment explanation
Indices: 14955--14981 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14945 ACATGCTGCT
14955 TTGTATCGATACA
1 TTGTATCGATACA
14968 TTGTATCGATACA
1 TTGTATCGATACA
14981 T
1 T
14982 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:14978 original size:33 final size:32
Alignment explanation
Indices: 14936--15000 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
14926 CACACCCAGA
*
14936 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
14969 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
15001 GGACAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:15012 original size:21 final size:19
Alignment explanation
Indices: 14965--15022 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
14955 TTGTATCGAT
*
14965 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
14984 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
15003 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
15023 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:15088 original size:13 final size:13
Alignment explanation
Indices: 15067--15097 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15057 CGATACATAG
*
15067 TACAATGTATCGA
1 TACATTGTATCGA
15080 TACATTGTATCGA
1 TACATTGTATCGA
15093 TACAT
1 TACAT
15098 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:15093 original size:33 final size:32
Alignment explanation
Indices: 15051--15117 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
15041 CTATCACTAT
15051 TTGTATCGATACAT-AGTACAATGTATCGATACA
1 TTGTATCGATACATAAG-A-AATGTATCGATACA
15084 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACAT-AAGAAATGTATCGATACA
15117 T
1 T
15118 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 29 0.91
34 1 0.03
35 2 0.06
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATAAGAAATGTATCGATACA
Found at i:17780 original size:19 final size:18
Alignment explanation
Indices: 17755--17819 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
17745 ATTTCAATGA
17755 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
17773 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
17789 --TGTATCGATGCATAAG
1 TTTGTATCGATACATAAG
17805 TTTTGTATCGATACA
1 -TTTGTATCGATACA
17820 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
17 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:17803 original size:32 final size:32
Alignment explanation
Indices: 17757--17827 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
17747 TTCAATGATT
17757 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
17789 TGTATCGATGCATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
17821 TGTATCG
1 TGTATCG
17828 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:17949 original size:52 final size:52
Alignment explanation
Indices: 17892--18021 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
17882 CCCTGATCTT
* *
17892 TGTATCGATACGTGCAGGTAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
17944 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
17996 TGTATCGATACATGCAGGCGAAATTT
1 TGTATCGATACATGCAGGC-AAATTT
18022 CATATTTCGG
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
52 67 0.92
53 6 0.08
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:18901 original size:20 final size:20
Alignment explanation
Indices: 18864--18902 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18854 ACAACCTTGA
*
18864 TCATGCATTTTTACCATGTT
1 TCATGCATTTATACCATGTT
*
18884 TCATGCATTTATAGCATGT
1 TCATGCATTTATACCATGT
18903 CCAGCACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TCATGCATTTATACCATGTT
Found at i:24917 original size:13 final size:13
Alignment explanation
Indices: 24899--24927 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24889 ACAACATTCC
24899 TTGTATCGATACA
1 TTGTATCGATACA
24912 TTGTATCGATACA
1 TTGTATCGATACA
24925 TTG
1 TTG
24928 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:26385 original size:17 final size:16
Alignment explanation
Indices: 26358--26391 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
26348 TGAGCATTTT
26358 GGATAACTCAATCGAC
1 GGATAACTCAATCGAC
*
26374 GGATAGACTCAATGGAC
1 GGATA-ACTCAATCGAC
26391 G
1 G
26392 CACGACTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (16 bp):
GGATAACTCAATCGAC
Found at i:27312 original size:13 final size:13
Alignment explanation
Indices: 27294--27320 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27284 ACATGCTGCT
27294 TTGTATCGATACA
1 TTGTATCGATACA
27307 TTGTATCGATACA
1 TTGTATCGATACA
27320 T
1 T
27321 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:27317 original size:33 final size:32
Alignment explanation
Indices: 27275--27339 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
27265 CACAACCAGA
*
27275 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
27308 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
27340 GGACAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:27351 original size:21 final size:19
Alignment explanation
Indices: 27304--27358 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
27294 TTGTATCGAT
*
27304 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
27323 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
27342 ACAAATTGTATCGATAC
1 AC--ATTGTATCGATAC
27359 GTGAAACTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 18 0.58
21 13 0.42
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:27430 original size:13 final size:13
Alignment explanation
Indices: 27412--27471 Score: 76
Period size: 13 Copynumber: 5.0 Consensus size: 13
27402 ATGGTACAAA
27412 TGTATCGATACAT
1 TGTATCGATACAT
27425 TGTATCGATACAT
1 TGTATCGATACAT
*
27438 GGTA-C-A-A-A-
1 TGTATCGATACAT
27446 TGTATCGATACAT
1 TGTATCGATACAT
27459 TGTATCGATACAT
1 TGTATCGATACAT
27472 GAAGAAATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 3 0.08
9 2 0.05
10 2 0.05
11 2 0.05
12 2 0.05
13 29 0.73
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:27433 original size:34 final size:34
Alignment explanation
Indices: 27390--27491 Score: 179
Period size: 34 Copynumber: 3.0 Consensus size: 34
27380 CTATCACTAT
27390 TTGTATCGATACATGGTACAAATGTATCGATACA
1 TTGTATCGATACATGGTACAAATGTATCGATACA
27424 TTGTATCGATACATGGTACAAATGTATCGATACA
1 TTGTATCGATACATGGTACAAATGTATCGATACA
* *
27458 TTGTATCGATACAT-GAAGAAATGTATCGATACA
1 TTGTATCGATACATGGTACAAATGTATCGATACA
27491 T
1 T
27492 AGATTGTAAC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
33 18 0.27
34 48 0.73
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (34 bp):
TTGTATCGATACATGGTACAAATGTATCGATACA
Found at i:34440 original size:78 final size:79
Alignment explanation
Indices: 34299--34459 Score: 198
Period size: 78 Copynumber: 2.1 Consensus size: 79
34289 TCTGGAGATA
* * * * *
34299 AAAAATGGGGTTGGAGTATCCCTTTAGAAATAATAAGGTTGAAGCATCCTCGATTGTGGAAAATC
1 AAAAATGGGGTTGGAGTATCCCCTTAGAAATAACAAGGTTGAAGCATCCCCGATTATGAAAAATC
* * *
34364 GGTGTTTTGGAAAT
66 AGTGTTCTAGAAAT
* * * * *
34378 AAAATTGGGGTTGGAGTATCCCCTTGGAAA-AACGAGGTTGGAGTATCCCCGATTATGAAAAATC
1 AAAAATGGGGTTGGAGTATCCCCTTAGAAATAACAAGGTTGAAGCATCCCCGATTATGAAAAATC
34442 AGTGTTCTAGAAAT
66 AGTGTTCTAGAAAT
34456 AAAA
1 AAAA
34460 CCAGCGTTAA
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
78 42 0.61
79 27 0.39
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (79 bp):
AAAAATGGGGTTGGAGTATCCCCTTAGAAATAACAAGGTTGAAGCATCCCCGATTATGAAAAATC
AGTGTTCTAGAAAT
Found at i:34550 original size:51 final size:50
Alignment explanation
Indices: 34413--34577 Score: 179
Period size: 51 Copynumber: 3.2 Consensus size: 50
34403 GGAAAAACGA
** * *
34413 GGTTGGAGTATCCCCGATTATGAAAAATC-AGTGTTCTAGAAATAAAACCAG
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGA-TGTTTTGGAAATAAAA-CAG
* ** *
34464 CGTTAAAGTATCCCCGATGGTGGAAAATCGATGTTTTGGAAATAAAACTAG
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAAC-AG
* * * *
34515 GGTTGGAGTATCCCCTATGGTGAAAAATCGATGTTTTGAAAATATAACCG
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAACAG
34565 GGCTTGGAGTATC
1 GG-TTGGAGTATC
34578 TCTTCGAAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 4 0.04
51 90 0.95
52 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAACAG
Found at i:34651 original size:79 final size:78
Alignment explanation
Indices: 34514--34799 Score: 256
Period size: 79 Copynumber: 3.6 Consensus size: 78
34504 AATAAAACTA
* * * * * * **
34514 GGGTTGGAGTATCCCCTATGGTGAAAAATCGATGTTTTGAAAATATAA-CCGGGCTTGGAGTATC
1 GGGTTAGAGTATCCCCGATGATGGAAAATCGATGTTTTGGAAATAAAATTTGGG-TTGGAGTATC
*
34578 TCTTCGAAAATAATG
65 TCTTC-AAAATAACG
* * *
34593 GGGTTAAAGTATCCTCGATGATGGAAAATCGATGCTTTGGAAATAAAA-TTGAGGTTGGAGTAT-
1 GGGTTAGAGTATCCCCGATGATGGAAAATCGATGTTTTGGAAATAAAATTTG-GGTTGGAGTATC
*
34656 TCCCTCATAAATAACG
65 T-CTTCA-AAATAACG
* * * * * ***
34672 GGGTTGGAGTATCCCCAATTATCGAAAATC-AGTGTTTTAGAAATAAAAATTTGGGTCATAGTAT
1 GGGTTAGAGTATCCCCGATGATGGAAAATCGA-TGTTTTGGAAAT-AAAATTTGGGTTGGAGTAT
* *
34736 CCCTTTAAAAATAACG
64 CTC-TTCAAAATAACG
*
34752 GGGTTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTGGAAATAAAA
1 GGGTTAGAGTATCCCCGATGATGGAAAATCGATGTTTTGGAAATAAAA
34800 ACATCGATGA
Statistics
Matches: 165, Mismatches: 33, Indels: 18
0.76 0.15 0.08
Matches are distributed among these distances:
78 3 0.02
79 97 0.59
80 59 0.36
81 6 0.04
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (78 bp):
GGGTTAGAGTATCCCCGATGATGGAAAATCGATGTTTTGGAAATAAAATTTGGGTTGGAGTATCT
CTTCAAAATAACG
Found at i:35573 original size:13 final size:13
Alignment explanation
Indices: 35555--35613 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 13
35545 TACAGCAAGT
35555 ATGTATCGATACA
1 ATGTATCGATACA
35568 ATGTATCGATACACAAAAA
1 ATGTATCGAT--AC----A
35587 ATTGTATCGATACA
1 A-TGTATCGATACA
35601 ATGTATCGATACA
1 ATGTATCGATACA
35614 CAAAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.56
14 2 0.05
15 2 0.05
18 2 0.05
19 2 0.05
20 9 0.23
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:35594 original size:20 final size:20
Alignment explanation
Indices: 35569--35633 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
35559 ATCGATACAA
35569 TGTATCGATACACAAAAAAT
1 TGTATCGATACACAAAAAAT
35589 TGTATCGAT--AC----AA-
1 TGTATCGATACACAAAAAAT
35602 TGTATCGATACACAAAAAAT
1 TGTATCGATACACAAAAAAT
35622 TGTATCGATACA
1 TGTATCGATACA
35634 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.24
14 2 0.05
15 2 0.05
18 2 0.05
19 2 0.05
20 21 0.55
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (20 bp):
TGTATCGATACACAAAAAAT
Found at i:35598 original size:33 final size:33
Alignment explanation
Indices: 35556--35633 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
35546 ACAGCAAGTA
35556 TGTATCGATACAATGTATCGATACACAAAAAAT
1 TGTATCGATACAATGTATCGATACACAAAAAAT
35589 TGTATCGATACAATGTATCGATACACAAAAAAT
1 TGTATCGATACAATGTATCGATACACAAAAAAT
35622 TGTATCGATACA
1 TGTATCGATACA
35634 TTGGCTTGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACACAAAAAAT
Found at i:39701 original size:15 final size:15
Alignment explanation
Indices: 39681--39711 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
39671 TAAAAATGTC
*
39681 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
39696 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
39711 C
1 C
39712 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:41795 original size:13 final size:13
Alignment explanation
Indices: 41777--41814 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
41767 TCTATTTCTT
41777 TGTATCGATACAA
1 TGTATCGATACAA
*
41790 TGTATCGATACAC
1 TGTATCGATACAA
41803 TGTATCGATACA
1 TGTATCGATACA
41815 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:43650 original size:32 final size:32
Alignment explanation
Indices: 43609--43674 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
43599 CAAATAAATT
* *
43609 TTTGTTATGAATTACTTGATTAAGGGGGAGAA
1 TTTGATATGAATCACTTGATTAAGGGGGAGAA
43641 TTTGATATGAATCACTTGATTAAGGGGGAGAA
1 TTTGATATGAATCACTTGATTAAGGGGGAGAA
43673 TT
1 TT
43675 ATTAATAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (32 bp):
TTTGATATGAATCACTTGATTAAGGGGGAGAA
Found at i:44418 original size:13 final size:13
Alignment explanation
Indices: 44400--44425 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44390 TACAGCAAGT
44400 ATGTATCGATACA
1 ATGTATCGATACA
44413 ATGTATCGATACA
1 ATGTATCGATACA
44426 CAAAAAATTG
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:56875 original size:8 final size:7
Alignment explanation
Indices: 56855--56928 Score: 71
Period size: 7 Copynumber: 10.3 Consensus size: 7
56845 GAAACTCAAG
56855 AAGAAAA
1 AAGAAAA
56862 GAAGAAAA
1 -AAGAAAA
*
56870 AGAGAAGGA
1 A-AGAA-AA
56879 AAGAAAA
1 AAGAAAA
**
56886 AA-AATC
1 AAGAAAA
56892 AA-AAAA
1 AAGAAAA
56898 AAGAAAA
1 AAGAAAA
56905 AAGAAAGA
1 AAGAAA-A
56913 AAGAAAA
1 AAGAAAA
56920 AAGAAAA
1 AAGAAAA
56927 AA
1 AA
56929 AGTGTCTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
6 8 0.14
7 24 0.43
8 22 0.39
9 2 0.04
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.01
Consensus pattern (7 bp):
AAGAAAA
Found at i:56881 original size:19 final size:18
Alignment explanation
Indices: 56853--56921 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
56843 TTGAAACTCA
56853 AGAAGAAAAGAAGAAAAAG
1 AGAAGAAAAGAA-AAAAAG
*
56872 AGAAGGAAAGAAAAAAA-
1 AGAAGAAAAGAAAAAAAG
* *
56889 ATCAA-AAAAAAGAAAAAAG
1 A-GAAGAAAAGA-AAAAAAG
56908 A-AAG-AAAGAAAAAA
1 AGAAGAAAAGAAAAAA
56922 GAAAAAAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
16 5 0.12
17 11 0.27
18 13 0.32
19 12 0.29
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.01
Consensus pattern (18 bp):
AGAAGAAAAGAAAAAAAG
Found at i:56906 original size:11 final size:11
Alignment explanation
Indices: 56852--56929 Score: 59
Period size: 11 Copynumber: 6.9 Consensus size: 11
56842 ATTGAAACTC
* *
56852 AAGAAGAAAAG
1 AAGAAAAAAAA
*
56863 AAGAAAAAGAGA
1 AAGAAAAA-AAA
*
56875 AGGAAAGAAAAA
1 AAGAAA-AAAAA
*
56887 AA-ATCAAAAAA
1 AAGA-AAAAAAA
*
56898 AAGAAAAAAGA
1 AAGAAAAAAAA
*
56909 AAGAAAGAAAA
1 AAGAAAAAAAA
56920 AAGAAAAAAA
1 AAGAAAAAAA
56930 GTGTCTAAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
11 38 0.75
12 11 0.22
13 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:56915 original size:15 final size:15
Alignment explanation
Indices: 56893--56930 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
56883 AAAAAAATCA
56893 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
*
56908 AAAGAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
56923 AAAAAAAG
1 AAAAAAAG
56931 TGTCTAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:56929 original size:8 final size:8
Alignment explanation
Indices: 56855--56930 Score: 57
Period size: 8 Copynumber: 9.4 Consensus size: 8
56845 GAAACTCAAG
*
56855 AAGAAAAG
1 AAGAAAAA
56863 AAGAAAAA
1 AAGAAAAA
* **
56871 GAGAAGGA
1 AAGAAAAA
56879 AAGAAAAA
1 AAGAAAAA
56887 AA-ATCAAAA
1 AAGA--AAAA
*
56896 AAAAGAAAA
1 AAGA-AAAA
*
56905 AAGAAAGA
1 AAGAAAAA
56913 AAG-AAAA
1 AAGAAAAA
56920 AAGAAAAA
1 AAGAAAAA
56928 AAG
1 AAG
56931 TGTCTAAATG
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
7 7 0.13
8 32 0.60
9 13 0.25
10 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (8 bp):
AAGAAAAA
Found at i:58528 original size:34 final size:34
Alignment explanation
Indices: 58490--58610 Score: 122
Period size: 34 Copynumber: 3.6 Consensus size: 34
58480 GGTGGTAACT
*
58490 TTTTCCACCAAAAGCCCACAAGTTAGTGGCATCC
1 TTTTCCTCCAAAAGCCCACAAGTTAGTGGCATCC
* * * *
58524 TTTTCCTTCAAAAACCCACACAAGTCAATGGCA-CC
1 TTTTCC-TCCAAAAGCC-CACAAGTTAGTGGCATCC
***
58559 TTTT--TTTTAAAGCCCACAAGTTAGTGGCATCC
1 TTTTCCTCCAAAAGCCCACAAGTTAGTGGCATCC
*
58591 TTTTCCTTCAAAAGCCCACA
1 TTTTCCTCCAAAAGCCCACA
58611 CAAGTCCGTG
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
31 13 0.19
32 12 0.17
34 18 0.26
35 13 0.19
36 13 0.19
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.28
Consensus pattern (34 bp):
TTTTCCTCCAAAAGCCCACAAGTTAGTGGCATCC
Found at i:58556 original size:36 final size:36
Alignment explanation
Indices: 58506--58623 Score: 129
Period size: 36 Copynumber: 3.4 Consensus size: 36
58496 ACCAAAAGCC
*
58506 CACAAGTTAGTGGCATCCTTTTCCTTCAAAAACCCA
1 CACAAGTCAGTGGCATCCTTTTCCTTCAAAAACCCA
* ** *
58542 CACAAGTCAATGGCA-CCTTTT--TT-TTAAAGCC-
1 CACAAGTCAGTGGCATCCTTTTCCTTCAAAAACCCA
* *
58573 CACAAGTTAGTGGCATCCTTTTCCTTCAAAAGCCCA
1 CACAAGTCAGTGGCATCCTTTTCCTTCAAAAACCCA
*
58609 CACAAGTCCGTGGCA
1 CACAAGTCAGTGGCA
58624 CTCTTTTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
31 13 0.20
32 11 0.17
33 2 0.03
34 2 0.03
35 10 0.16
36 26 0.41
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (36 bp):
CACAAGTCAGTGGCATCCTTTTCCTTCAAAAACCCA
Found at i:58578 original size:31 final size:31
Alignment explanation
Indices: 58500--58643 Score: 101
Period size: 36 Copynumber: 4.3 Consensus size: 31
58490 TTTTCCACCA
* **
58500 AAAGCCCACAAGTTAGTGGCATCCTTTTCCTTCAA
1 AAAGCCCACAAGTCAGTGGCA-CCTTTT--TT-TT
* *
58535 AAACCCACACAAGTCAATGGCACCTTTTTTTT
1 AAAGCC-CACAAGTCAGTGGCACCTTTTTTTT
* **
58567 AAAGCCCACAAGTTAGTGGCATCCTTTTCCTTCA
1 AAAGCCCACAAGTCAGTGGCA-CCTTTT--TTTT
*
58601 AAAGCCCACACAAGTCCGTGGCA-CTCTTTTTTT
1 AAAG-CC-CACAAGTCAGTGGCACCT-TTTTTTT
58634 AAAGCCCACA
1 AAAGCCCACA
58644 CAAGTTGGTG
Statistics
Matches: 88, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
31 17 0.19
32 13 0.15
33 8 0.09
34 8 0.09
35 16 0.18
36 26 0.30
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (31 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTTTTT
Found at i:58668 original size:67 final size:67
Alignment explanation
Indices: 58506--58740 Score: 252
Period size: 67 Copynumber: 3.6 Consensus size: 67
58496 ACCAAAAGCC
* * *
58506 CACAAGTTAGTGGCATCCTTTTCCTTCAAAAACCCACACAAGTCAATGGCACCTTTTTTTTAAAG
1 CACAAGTTAGTGGCAACCTTTT-CTTCAAAAGCCCACACAAGTCAGTGGCACC-TTTTTTTAAAG
58571 -CC-
64 CCCA
* *
58573 CACAAGTTAGTGGCATCCTTTTCCTTCAAAAGCCCACACAAGTCCGTGGCACTCTTTTTTTAAAG
1 CACAAGTTAGTGGCAACCTTTT-CTTCAAAAGCCCACACAAGTCAGTGGCAC-CTTTTTTTAAAG
58638 CCCA
64 CCCA
* * * * * *
58642 CACAAGTTGGTGGCAACCTTTT-TTC-AAAGCCTACAAAAGTCGGTGGCAACC-TTCTTCAAAGC
1 CACAAGTTAGTGGCAACCTTTTCTTCAAAAGCCCACACAAGTCAGTGGC-ACCTTTTTTTAAAGC
58704 CCA
65 CCA
* *
58707 CACAAGTTGGTGGCAACC--CTC-TCAAAAGCCCACA
1 CACAAGTTAGTGGCAACCTTTTCTTCAAAAGCCCACA
58741 TAGTTGTTGG
Statistics
Matches: 150, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
63 3 0.02
64 9 0.06
65 30 0.20
66 20 0.13
67 65 0.43
68 3 0.02
69 20 0.13
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (67 bp):
CACAAGTTAGTGGCAACCTTTTCTTCAAAAGCCCACACAAGTCAGTGGCACCTTTTTTTAAAGCC
CA
Found at i:58719 original size:32 final size:33
Alignment explanation
Indices: 58420--58740 Score: 178
Period size: 33 Copynumber: 9.6 Consensus size: 33
58410 CTAATAGAGA
* * *
58420 AACCTTTC-TCACAAGCCTACATAGGTTGGTGGC
1 AACCTTTCTTCA-AAGCCCACACAAGTTGGTGGC
** * *
58453 AACC-TTCTTCAAAAGCCTGCATAAGTTGGTGGT
1 AACCTTTCTTC-AAAGCCCACACAAGTTGGTGGC
* ** *
58486 AACTTTTTCCACCAAAAG-CC-CACAAGTTAGTGGC
1 AAC-CTTT-CTTC-AAAGCCCACACAAGTTGGTGGC
* * ***
58520 ATCCTTTTCCTTCAAAAACCCACACAAGTCAATGGC
1 AACC-TTT-CTTC-AAAGCCCACACAAGTTGGTGGC
* * *
58556 -ACCTTTTTTTTAAAG-CC-CACAAGTTAGTGGC
1 AACC-TTTCTTCAAAGCCCACACAAGTTGGTGGC
* **
58587 ATCCTTTTCCTTCAAAAGCCCACACAAGTCCGTGGC
1 AACC-TTT-CTTC-AAAGCCCACACAAGTTGGTGGC
* *
58623 -ACTCTTTTTTTAAAGCCCACACAAGTTGGTGGC
1 AAC-CTTTCTTCAAAGCCCACACAAGTTGGTGGC
* * * *
58656 AACCTTTTTTCAAAGCCTACAAAAGTCGGTGGC
1 AACCTTTCTTCAAAGCCCACACAAGTTGGTGGC
58689 AACC-TTCTTCAAAGCCCACACAAGTTGGTGGC
1 AACCTTTCTTCAAAGCCCACACAAGTTGGTGGC
*
58721 AACC-CTC-TCAAAAGCCCACA
1 AACCTTTCTTC-AAAGCCCACA
58741 TAGTTGTTGG
Statistics
Matches: 230, Mismatches: 42, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
31 14 0.06
32 51 0.22
33 82 0.36
34 34 0.15
35 17 0.07
36 32 0.14
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (33 bp):
AACCTTTCTTCAAAGCCCACACAAGTTGGTGGC
Found at i:59054 original size:53 final size:53
Alignment explanation
Indices: 58997--59407 Score: 289
Period size: 53 Copynumber: 7.7 Consensus size: 53
58987 GTAATATCAT
* * *
58997 TGGCCATGAATCAGCATA-TTGGCATTTTTTATCATCTTTAAGTCCAATGTCGC
1 TGGCCTTGAATCAGCACATTTGGCA-TTTTTATCATCTTTAAGTCTAATGTCGC
* * * * * * *
59050 TGGCCTTAAATCAACACATTTGGCATTCTTATCATCTCTAAGTTTGATGGCAG-
1 TGGCCTTGAATCAGCACATTTGGCATTTTTATCATCTTTAAGTCTAATGTC-GC
* * * *
59103 TGGCCTTGAATCAGCACATTTGGCATTCTCT-TCATCTTTATGTCTAATGTTGT
1 TGGCCTTGAATCAGCACATTTGGCATT-TTTATCATCTTTAAGTCTAATGTCGC
* ** * * * * **
59156 TGGCCTTGAATCAGCACA-TTGGTACCTTCATCATCTTTAAGACCAATATCAT
1 TGGCCTTGAATCAGCACATTTGGCATTTTTATCATCTTTAAGTCTAATGTCGC
* * * *
59208 TGG-TTGTGAATTAGCATA-TTGACATTTTTTTATCATCATCTTTAAGTCTAATGTCGC
1 TGGCCT-TGAATCAGCACATTTGGCA---TTTT-T-ATCATCTTTAAGTCTAATGTCGC
* * * * * * *
59265 TAGCCTTGAATTAGCACATTTGGCATTCTTGTCATCTTTAAGTCCAATGGCAC
1 TGGCCTTGAATCAGCACATTTGGCATTTTTATCATCTTTAAGTCTAATGTCGC
* * * * *
59318 TAGCCTTGAATCAGCACATTTGGCATTCTTACCATCTTTGAGTCTAATGTCTC
1 TGGCCTTGAATCAGCACATTTGGCATTTTTATCATCTTTAAGTCTAATGTCGC
* * **
59371 TAGCCTTGAA-CTAGTACA-TTGGCACCTTTATCATCTT
1 TGGCCTTGAATC-AGCACATTTGGCATTTTTATCATCTT
59408 CAGATTTAAG
Statistics
Matches: 279, Mismatches: 65, Indels: 29
0.75 0.17 0.08
Matches are distributed among these distances:
51 2 0.01
52 55 0.20
53 171 0.61
54 9 0.03
55 5 0.02
57 31 0.11
58 6 0.02
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.38
Consensus pattern (53 bp):
TGGCCTTGAATCAGCACATTTGGCATTTTTATCATCTTTAAGTCTAATGTCGC
Found at i:59356 original size:215 final size:211
Alignment explanation
Indices: 58924--59407 Score: 580
Period size: 215 Copynumber: 2.3 Consensus size: 211
58914 ACACTTTCTT
* * * * * * * **
58924 CATCTTTAAGTCCAATGTCACTAGCCTTGAATTAGCTCATTGGTACCTTCACCATTTTTAAGAGT
1 CATCTTTGAGTCTAATGTCTCTAGCCTTGAATCAGCACATTGGTACCTTCATCATCTTTAAGACC
* *
58989 AATATCATTGGCCATGAATCAGCATATTGGCATTTTTTATCATCTTTAAGTCCAATGTCGCTGGC
66 AATATCATTGGCCATGAATCAGCATATTGACATTTTTTATCATCTTTAAGTCCAATGTCGCTAGC
*** * *
59054 CTTAAATCAACACATTTGGCATTCTTATCATCTCTAAGTTTGATGGCAGTGGCCTTGAATCAGCA
131 CTTAAATCAACACATTTGGCATTCTTATCATCTCTAAGTCCAATGGCACTAGCCTTGAATCAGCA
*
59119 CATTTGGCATTCTCTT
196 CATTTGGCATTCTCTC
* *
59135 CATCTTT-ATGTCTAATGT-TGTTGGCCTTGAATCAGCACATTGGTACCTTCATCATCTTTAAGA
1 CATCTTTGA-GTCTAATGTCT-CTAGCCTTGAATCAGCACATTGGTACCTTCATCATCTTTAAGA
*** * *
59198 CCAATATCATTGGTTGTGAATTAGCATATTGACATTTTTTTATCATCATCTTTAAGTCTAATGTC
64 CCAATATCATTGGCCATGAATCAGCATATTGACA--TTTTT-T-ATCATCTTTAAGTCCAATGTC
* * * * *
59263 GCTAGCCTTGAATTAGCACATTTGGCATTCTTGTCATCTTTAAGTCCAATGGCACTAGCCTTGAA
125 GCTAGCCTTAAATCAACACATTTGGCATTCTTATCATCTCTAAGTCCAATGGCACTAGCCTTGAA
59328 TCAGCACATTTGGCATTCT-TAC
190 TCAGCACATTTGGCATTCTCT-C
* * *
59350 CATCTTTGAGTCTAATGTCTCTAGCCTTGAA-CTAGTACATTGGCACCTTTATCATCTT
1 CATCTTTGAGTCTAATGTCTCTAGCCTTGAATC-AGCACATTGGTACCTTCATCATCTT
59408 CAGATTTAAG
Statistics
Matches: 230, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
210 1 0.00
211 79 0.34
213 5 0.02
214 3 0.01
215 140 0.61
216 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (211 bp):
CATCTTTGAGTCTAATGTCTCTAGCCTTGAATCAGCACATTGGTACCTTCATCATCTTTAAGACC
AATATCATTGGCCATGAATCAGCATATTGACATTTTTTATCATCTTTAAGTCCAATGTCGCTAGC
CTTAAATCAACACATTTGGCATTCTTATCATCTCTAAGTCCAATGGCACTAGCCTTGAATCAGCA
CATTTGGCATTCTCTC
Found at i:60026 original size:20 final size:21
Alignment explanation
Indices: 59986--60036 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
59976 TTTTACGATT
*
59986 TGTATCGATACAATTAGTGAA
1 TGTATCGATACAATAAGTGAA
60007 TGTATCGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
60027 TGTATCGATA
1 TGTATCGATA
60037 TGTTTCTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:62715 original size:102 final size:98
Alignment explanation
Indices: 62593--62882 Score: 291
Period size: 97 Copynumber: 2.9 Consensus size: 98
62583 TTTTAATTCA
* * * * *
62593 TCAATATTTAAATCTCATTTTTACTTAAATAATCA-CCGTTGGGGATACTCCAACCCCATTTTTT
1 TCAATATTTAAATCTTATTTTTGCTTAAATAATCATCCATCGGGGATACTCCAACCCCA-TTCTT
** * * *
62657 TTGAGGGAATACTCTAATCCCCTTTTTTTAAGAAATTG
65 CCGAGGGAATACTCCAA-CCCC-GTTTTT-A-AAATAG
* * *
62695 TCAATATTTAAATCTTA-TTTTGCCT-AATCTATCATTCATCGGGGATACTCCAACCCCATTCTT
1 TCAATATTTAAATCTTATTTTTGCTTAAAT-AATCATCCATCGGGGATACTCCAACCCCATTCTT
* * *
62758 CCGAGGGGATGCTCCAACCCCGTTTTTAAAGTAG
65 CCGAGGGAATACTCCAACCCCGTTTTTAAAATAG
* * ** *
62792 TCAATATTTAAACCTTATTTTTGCTTAAATAATCAT-AATCGAAGATACTCCAACCCCATGCTTC
1 TCAATATTTAAATCTTATTTTTGCTTAAATAATCATCCATCGGGGATACTCCAACCCCATTCTTC
*
62856 CGAGGGGATACTCCATACCCCGTTTTT
66 CGAGGGAATACTCCA-ACCCCGTTTTT
62883 TGCCTAAAAA
Statistics
Matches: 159, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
97 58 0.36
98 24 0.15
99 8 0.05
100 7 0.04
101 26 0.16
102 36 0.23
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (98 bp):
TCAATATTTAAATCTTATTTTTGCTTAAATAATCATCCATCGGGGATACTCCAACCCCATTCTTC
CGAGGGAATACTCCAACCCCGTTTTTAAAATAG
Found at i:66692 original size:13 final size:13
Alignment explanation
Indices: 66674--66699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66664 ACATTTTGGG
66674 ATGTATCGATACA
1 ATGTATCGATACA
66687 ATGTATCGATACA
1 ATGTATCGATACA
66700 TATTGTGTGT
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:66694 original size:33 final size:32
Alignment explanation
Indices: 66652--66719 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
66642 CGTTACAAGC
*
66652 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
66685 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
66717 CAA
1 CAA
66720 AGAATTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:66807 original size:20 final size:21
Alignment explanation
Indices: 66760--66812 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
66750 GCCAATCACC
*
66760 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTATGCA
*
66781 AGTATCGATACATT-TGAT-CA
1 TGTATCGATACATTCT-ATGCA
66801 TGTATCGATACA
1 TGTATCGATACA
66813 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTATGCA
Found at i:66818 original size:13 final size:13
Alignment explanation
Indices: 66800--66824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66790 ACATTTGATC
66800 ATGTATCGATACA
1 ATGTATCGATACA
66813 ATGTATCGATAC
1 ATGTATCGATAC
66825 TGTGCATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:66861 original size:20 final size:18
Alignment explanation
Indices: 66838--66876 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
66828 GCATTCTGTA
66838 TCGATACATTTGAAGGTGTT
1 TCGATACATTT-AAGG-GTT
66858 TCGATACATTTAAGGGTT
1 TCGATACATTTAAGGGTT
66876 T
1 T
66877 TGACCTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 4 0.21
20 11 0.58
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (18 bp):
TCGATACATTTAAGGGTT
Found at i:70369 original size:37 final size:38
Alignment explanation
Indices: 70328--70404 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
70318 TTTTATTTCT
* *
70328 CCCTTAA-AAA-TAATTTTAACAAATTTGTACATTCTCC
1 CCCTTAATAAAGTAATTGTAAC-AATTTATACATTCTCC
* *
70365 CCCTTAATAAAGTAATTGTAGCAATTTATGCATTCTCC
1 CCCTTAATAAAGTAATTGTAACAATTTATACATTCTCC
70403 CC
1 CC
70405 TTTACGCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 7 0.21
38 19 0.56
39 8 0.24
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.36
Consensus pattern (38 bp):
CCCTTAATAAAGTAATTGTAACAATTTATACATTCTCC
Found at i:70413 original size:16 final size:16
Alignment explanation
Indices: 70389--70424 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
70379 ATTGTAGCAA
*
70389 TTTATGCATTCTCCCC
1 TTTACGCATTCTCCCC
70405 TTTACGCATTCTCCCC
1 TTTACGCATTCTCCCC
70421 TTTA
1 TTTA
70425 TCTCCCCCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.36, G:0.06, T:0.44
Consensus pattern (16 bp):
TTTACGCATTCTCCCC
Found at i:70466 original size:21 final size:21
Alignment explanation
Indices: 70425--70468 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
70415 CTCCCCTTTA
* *
70425 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
70446 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
70467 TC
1 TC
70469 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:72291 original size:13 final size:13
Alignment explanation
Indices: 72273--72310 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
72263 ATAATCCCCC
72273 TGTATCGATACAG
1 TGTATCGATACAG
*
72286 TGTATCGATACAT
1 TGTATCGATACAG
72299 TGTATCGATACA
1 TGTATCGATACA
72311 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:76238 original size:21 final size:21
Alignment explanation
Indices: 76209--76253 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
76199 AAGTTTTTAT
*
76209 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
76229 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
76251 TTT
1 TTT
76254 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:76411 original size:15 final size:16
Alignment explanation
Indices: 76387--76419 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
76377 CAATCTTTTG
76387 TTCAAGA-TTTTCAAT
1 TTCAAGATTTTTCAAT
*
76402 TTCAATATTTTTCAAT
1 TTCAAGATTTTTCAAT
76418 TT
1 TT
76420 ATTATCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (16 bp):
TTCAAGATTTTTCAAT
Found at i:78497 original size:13 final size:13
Alignment explanation
Indices: 78479--78504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78469 CAATTTTTTG
78479 TGTATCGATACAT
1 TGTATCGATACAT
78492 TGTATCGATACAT
1 TGTATCGATACAT
78505 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:78519 original size:32 final size:33
Alignment explanation
Indices: 78459--78522 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
78449 TACAAGCCAA
** *
78459 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
78492 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
78523 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:84985 original size:13 final size:13
Alignment explanation
Indices: 84967--84992 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84957 ACATTTTGGG
84967 ATGTATCGATACA
1 ATGTATCGATACA
84980 ATGTATCGATACA
1 ATGTATCGATACA
84993 TATTGTGTGT
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:84987 original size:33 final size:32
Alignment explanation
Indices: 84945--85012 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
84935 CGTTACAAGC
*
84945 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
84978 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
85010 CAA
1 CAA
85013 AGAATTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:85100 original size:20 final size:21
Alignment explanation
Indices: 85053--85105 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
85043 GCCAATCACC
*
85053 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTATGCA
*
85074 AGTATCGATACATT-TGAT-CA
1 TGTATCGATACATTCT-ATGCA
85094 TGTATCGATACA
1 TGTATCGATACA
85106 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTATGCA
Found at i:85111 original size:13 final size:13
Alignment explanation
Indices: 85093--85117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85083 ACATTTGATC
85093 ATGTATCGATACA
1 ATGTATCGATACA
85106 ATGTATCGATAC
1 ATGTATCGATAC
85118 TGTGCATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:85150 original size:20 final size:19
Alignment explanation
Indices: 85127--85165 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
85117 CTGTGCATTC
85127 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
85147 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
85166 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:89092 original size:53 final size:53
Alignment explanation
Indices: 89030--89137 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
89020 AATTTTGGGC
*
89030 ATCGTAGAGGTGTTGATCCTTCCCCACGTGTAACCGACTCTCGGACCCTATTA
1 ATCGTAGAGGTGATGATCCTTCCCCACGTGTAACCGACTCTCGGACCCTATTA
89083 ATCGTAGAGGTGATGATCCTTCCCCACGTGTAACCGACTCTCGGACCCTATTA
1 ATCGTAGAGGTGATGATCCTTCCCCACGTGTAACCGACTCTCGGACCCTATTA
89136 AT
1 AT
89138 GAACTCTAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (53 bp):
ATCGTAGAGGTGATGATCCTTCCCCACGTGTAACCGACTCTCGGACCCTATTA
Found at i:104304 original size:52 final size:51
Alignment explanation
Indices: 104163--104311 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
104153 CGAAATATGA
104163 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* * *
104215 AAATTTGCCTGCATGTATCGATATATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
104267 AAATTTTCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
104312 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:104318 original size:13 final size:13
Alignment explanation
Indices: 104300--104324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104290 CAAAGATCAG
104300 TGTATCGATACAA
1 TGTATCGATACAA
104313 TGTATCGATACA
1 TGTATCGATACA
104325 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:104402 original size:33 final size:33
Alignment explanation
Indices: 104365--104431 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
104355 AGTAGCTTAA
104365 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
104398 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
104431 A
1 A
104432 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:104405 original size:13 final size:13
Alignment explanation
Indices: 104387--104411 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104377 CAAAAAAATA
104387 TGTATCGATACAT
1 TGTATCGATACAT
104400 TGTATCGATACA
1 TGTATCGATACA
104412 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:105304 original size:52 final size:52
Alignment explanation
Indices: 105172--105383 Score: 208
Period size: 52 Copynumber: 4.2 Consensus size: 52
105162 GAAAAGTGAT
* * * * * * * *
105172 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-G-A
* * *
105226 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
105279 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
105322 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
105374 AAAGGTGCCA
1 AAAGGTGCCA
105384 CCGACTTGTG
Statistics
Matches: 130, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
43 38 0.29
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 42 0.32
53 6 0.05
54 5 0.04
55 35 0.27
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:105340 original size:43 final size:43
Alignment explanation
Indices: 105279--105368 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
105269 TAAAGATGGA
*
105279 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
105322 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
105365 AAAG
1 AAAG
105369 ATGGAAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:105413 original size:30 final size:30
Alignment explanation
Indices: 105372--105850 Score: 392
Period size: 30 Copynumber: 16.1 Consensus size: 30
105362 CTTAAAGATG
* **
105372 GAAAA-GGTGCCACCGACTTGTGGGCTTCG
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
105401 GAAAAGGGTGCCACTGATTTGTGGGC-TTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
105430 G--AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
105458 --AAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
***
105486 GAAAAATATGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
105516 GAAAAGGGTGCCACTAACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
105546 --AAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
***
105574 GAAAAATATGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
* ***
105604 GAAAAGGGTGCCACTAACTTGTGGGCTGAAAAA
1 GAAAAGGGTGCCACTGACTTGTGGGCT---TTT
* * * * **
105637 GAAAAAGAGTGCTA-TAGAGTTGTGAGCTTACAAAA
1 G-AAAAGGGTGCCACT-GACTTGTGGGCTT----TT
* * * * *
105672 GAAAAAGAGTGCCACGGAGTTGTGGACTTTG
1 G-AAAAGGGTGCCACTGACTTGTGGGCTTTT
* * **
105703 GAAAA-GATGCCACCGACTTGTGGGCTTCG
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
105732 GAAAAGGGTGCCACTGATTTGTGGGC-TTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
105761 G--AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
***
105789 GAAAAAAATGCCACTGACTTGTGGGC-TTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*** *
105818 GAAAAAAATGCCACTGACTTGTGGACTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
105848 GAA
1 GAA
105851 GGGTGATGAA
Statistics
Matches: 374, Mismatches: 54, Indels: 43
0.79 0.11 0.09
Matches are distributed among these distances:
27 42 0.11
28 60 0.16
29 60 0.16
30 164 0.44
31 1 0.00
33 2 0.01
34 19 0.05
35 26 0.07
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (30 bp):
GAAAAGGGTGCCACTGACTTGTGGGCTTTT
Found at i:105556 original size:58 final size:59
Alignment explanation
Indices: 105374--105850 Score: 359
Period size: 58 Copynumber: 8.0 Consensus size: 59
105364 TAAAGATGGA
* ** *
105374 AAAGG-TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG
*
105431 -AAGGTTGCCACTGACTTGTGGGCTTTT--AAAGGTTGCCACTGACTTGTGGGCTTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG
** *
105487 AAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTT-
1 AAAGGT-TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG
***
105546 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG
* * *** * * * *
105605 AAAAGGGTGCCACTAACTTGTGGGCTGAAAAAGAAAAAGAGTGCTA-TAGAGTTGTGAGCTTACA
1 -AAAGGTTGCCACTGACTTGTGGGCT---TTTG-AAAAGGGTGCCACT-GACTTGTGGGCTT---
**
105669 AAAG
57 -TTG
* * * * * * **
105673 AAAAAGAG-TGCCACGGAGTTGTGGACTTTGGAAAA-GATGCCACCGACTTGTGGGCTTCGG
1 --AAAG-GTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG
* * *
105733 AAAAGGGTGCCACTGATTTGTGGGC-TTTG--AAGGTTGCCACTGACTTGTGGGCTTTTG
1 -AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG
*** *** *
105790 AAAAAAATGCCACTGACTTGTGGGC-TTTGAAAAAAATGCCACTGACTTGTGGACTTTTG
1 -AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG
105849 AA
1 AA
105851 GGGTGATGAA
Statistics
Matches: 337, Mismatches: 59, Indels: 47
0.76 0.13 0.11
Matches are distributed among these distances:
55 22 0.07
56 10 0.03
57 68 0.20
58 76 0.23
59 48 0.14
60 50 0.15
63 2 0.01
64 34 0.10
65 4 0.01
66 1 0.00
68 1 0.00
69 20 0.06
70 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (59 bp):
AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG
Found at i:105562 original size:88 final size:88
Alignment explanation
Indices: 105374--105630 Score: 405
Period size: 88 Copynumber: 3.0 Consensus size: 88
105364 TAAAGATGGA
* ** *** *
105374 AAAGG-TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTTG--AAGG
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGG
* *
105435 TTGCCACTGACTTGTGGGCTTTT
66 GTGCCACTAACTTGTGGGCTTTT
105458 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGG
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGG
105523 GTGCCACTAACTTGTGGGCTTTT
66 GTGCCACTAACTTGTGGGCTTTT
105546 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGG
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGG
105611 GTGCCACTAACTTGTGGGCT
66 GTGCCACTAACTTGTGGGCT
105631 GAAAAAGAAA
Statistics
Matches: 160, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
84 5 0.03
85 41 0.26
86 4 0.03
88 110 0.69
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (88 bp):
AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGG
GTGCCACTAACTTGTGGGCTTTT
Found at i:105773 original size:27 final size:27
Alignment explanation
Indices: 105681--105852 Score: 119
Period size: 29 Copynumber: 6.0 Consensus size: 27
105671 AGAAAAAGAG
* * * *
105681 TGCCACGGAGTTGTGGACTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTT-G-AAGGA
* * *
105710 TGCCACCGACTTGTGGGCTTCGGAAAAGGG
1 TGCCACTGACTTGTGGGCTT-TG--AAGGA
* *
105740 TGCCACTGATTTGTGGGCTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAGGA
**
105767 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
1 TGCCACTGACTTGTGGGC-TTTG--AAGGA
**
105797 TGCCACTGACTTGTGGGCTTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTG--AAGGA
*
105826 TGCCACTGACTTGTGGACTTTTGAAGG
1 TGCCACTGACTTGTGGGC-TTTGAAGG
105853 GTGATGAATG
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
27 21 0.17
28 6 0.05
29 47 0.39
30 46 0.38
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (27 bp):
TGCCACTGACTTGTGGGCTTTGAAGGA
Found at i:107293 original size:1 final size:1
Alignment explanation
Indices: 107289--107414 Score: 99
Period size: 1 Copynumber: 126.0 Consensus size: 1
107279 CCGGACCCCC
* * * * * * * * *
107289 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTGTTTTTTTTTGTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** ** * * *
107354 TTTTGTTTTTTCATTTTTTTTCGTTTTTTTTTTTGTTTTGTTTTTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
107415 GGAGGACGCC
Statistics
Matches: 93, Mismatches: 32, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 93 1.00
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:107371 original size:42 final size:41
Alignment explanation
Indices: 107291--107415 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 41
107281 GGACCCCCTT
* *
107291 TTTTGTTTTTGTTTG-TTTTTTTATTGTTTTTGTTTTTTTTTG
1 TTTT-TTTTTGTTTGTTTTTTTTTTTGTTTTT-TATTTTTTTG
107333 TTTTTTTTTGTTTGTTTTTTTTTTTGTTTTTTCATTTTTTT-
1 TTTTTTTTTGTTTGTTTTTTTTTTTGTTTTTT-ATTTTTTTG
*
107374 TCGTTTTTTTT-TTTGTTTTGTTTTTTT-TTTTTTGTTTTTTTG
1 T--TTTTTTTTGTTTGTTTT-TTTTTTTGTTTTTTATTTTTTTG
107416 GAGGACGCCG
Statistics
Matches: 74, Mismatches: 3, Indels: 12
0.83 0.03 0.13
Matches are distributed among these distances:
41 19 0.26
42 40 0.54
43 15 0.20
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.86
Consensus pattern (41 bp):
TTTTTTTTTGTTTGTTTTTTTTTTTGTTTTTTATTTTTTTG
Found at i:107393 original size:61 final size:57
Alignment explanation
Indices: 107289--107414 Score: 171
Period size: 61 Copynumber: 2.1 Consensus size: 57
107279 CCGGACCCCC
107289 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTGTTTTTTTTTGTTTG
1 TTTTTT-TTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTGTTTTTTTTTGTTTG
* * * *
107347 TTTTTTTTTTTGTTTTTTCATTTTTTTTCGTTTTTTTTTTTGTTTTGTTTTTTTTTTTTTG
1 TTTTTTTTTTTGTTTGTT--TTTTTATT-GTTTTTGTTTTT-TTTTGTTTTTTTTTGTTTG
107408 TTTTTTT
1 TTTTTTT
107415 GGAGGACGCC
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
57 11 0.18
58 6 0.10
59 7 0.12
60 11 0.18
61 25 0.42
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.87
Consensus pattern (57 bp):
TTTTTTTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTGTTTTTTTTTGTTTG
Found at i:107413 original size:10 final size:10
Alignment explanation
Indices: 107289--107414 Score: 116
Period size: 10 Copynumber: 12.4 Consensus size: 10
107279 CCGGACCCCC
107289 TTTTTTGTTT
1 TTTTTTGTTT
*
107299 TTGTTTGTTT
1 TTTTTTGTTT
107309 TTTTATTGTTT
1 TTTT-TTGTTT
107320 TTGTTTT-TTT
1 TT-TTTTGTTT
107330 TTGTTTT-TTT
1 TT-TTTTGTTT
*
107340 TTGTTTGTTT
1 TTTTTTGTTT
107350 TTTTTT-TTGT
1 TTTTTTGTT-T
**
107360 TTTTTCATTT
1 TTTTTTGTTT
*
107370 TTTTTCGTTT
1 TTTTTTGTTT
107380 TTTTTT-TTGT
1 TTTTTTGTT-T
*
107390 TTTGTTTTTTT
1 TTT-TTTGTTT
107401 TTTTTTGTTT
1 TTTTTTGTTT
107411 TTTT
1 TTTT
107415 GGAGGACGCC
Statistics
Matches: 100, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
9 7 0.07
10 70 0.70
11 19 0.19
12 4 0.04
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.87
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:107413 original size:30 final size:31
Alignment explanation
Indices: 107289--107414 Score: 166
Period size: 30 Copynumber: 4.1 Consensus size: 31
107279 CCGGACCCCC
*
107289 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTT
1 TTTTTTG-TTTTGTTT-TTTTTTTTTTGTTTTT
* *
107322 GTTTTT-TTTTGTTTTTTTTTGTTTGTTTTT
1 TTTTTTGTTTTGTTTTTTTTTTTTTGTTTTT
** *
107352 TTTTTTGTTTT-TTCATTTTTTTTCGTTTTT
1 TTTTTTGTTTTGTTTTTTTTTTTTTGTTTTT
107382 TTTTTTGTTTTGTTTTTTTTTTTTTGTTTTT
1 TTTTTTGTTTTGTTTTTTTTTTTTTGTTTTT
107413 TT
1 TT
107415 GGAGGACGCC
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
30 45 0.56
31 30 0.38
33 5 0.06
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.87
Consensus pattern (31 bp):
TTTTTTGTTTTGTTTTTTTTTTTTTGTTTTT
Done.